Citrus Sinensis ID: 043780

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------
MAALQYLESLRNDHPELGEWYNALADLYQKKLWHQLTLKLEQFVAHAVFQAGDALIQLYHNFITDFETKINLLKLAHFAVIVSRQYPEKQAAISYLEGVIEKLRATNEQRKEEPILYIKMQIAMFKLEQGDRKECKKLLEDGKSTLDSMTDIDPSVYANYYWVSSQYHKFHQEFAEFYKCALLYLAYTSVESLSDSFKLDLAFDLSLSALLGDNIYNFGELLAHPIINSLTGTKVEWLYYILQAFNSGDLVRYQELCRVHNAALRAQPALVENEKKLLEKINILCLMEIIFSRPSEDRTIPLSIIAERTKLSIEDVEHLLMKSLSVHLIEGIIDQVEGTVHVSWVQPRVLGIPQIKSLRDRLDSWLGKVHTALLSIEAETPDLVAS
ccHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHcHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHcccccccccccccccHHHccccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHccccHHHHHHHHHHHHHcccEEEEEcccccEEEEEEcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccc
cHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHccccHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHcccHccccHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHcccccccEEcHHHHHHHccccHHHHHHHHHHHHHHcccEEEEcccccEEEEEEEcccEccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHcc
MAALQYLESLRNDHPELGEWYNALADLYQKKLWHQLTLKLEQFVAHAVFQAGDALIQLYHNFITDFETKINLLKLAHFAVIVSRQYPEKQAAISYLEGVIEKLRAtneqrkeepiLYIKMQIAMFKLEQGDRKECKKLLEDGkstldsmtdidpsvyanyywvsSQYHKFHQEFAEFYKCALLYLAYTSveslsdsfkldLAFDLSLSAllgdniynfgellahpiinsltgTKVEWLYYILQAFNSGDLVRYQELCRVHNAALRAQPALVENEKKLLEKINILCLMEIIfsrpsedrtiplsIIAERTKLSIEDVEHLLMKSLSVHLIEGIIDqvegtvhvswvqprvlgipqIKSLRDRLDSWLGKVHTALLSIeaetpdlvas
MAALQYLESLRNDHPELGEWYNALADLYQKKLWHQLTLKLEQFVAHAVFQAGDALIQLYHNFITDFETKINLLKLAHFAVIVSRQYPEKQAAISYLEGVIEKLratneqrkeepiLYIKMQIAMFKLEQGDRKECKKLLEDgkstldsmtdidPSVYANYYWVSSQYHKFHQEFAEFYKCALLYLAYTSVESLSDSFKLDLAFDLSLSALLGDNIYNFGELLAHPIINSLTGTKVEWLYYILQAFNSGDLVRYQELCRVHNAALRAQPALVENEKKLLEKINILCLMEIIfsrpsedrtipLSIIAERTKLSIEDVEHLLMKSLSVHLIEGIIDQVEGTVHVSWVQPRVLGIPQIKSLRDRLDSWLGKVHTAllsieaetpdlvas
MAALQYLESLRNDHPELGEWYNALADLYQKKLWHQLTLKLEQFVAHAVFQAGDALIQLYHNFITDFETKINLLKLAHFAVIVSRQYPEKQAAISYLEGVIEKLRATNEQRKEEPILYIKMQIAMFKLEQGDRKECKKLLEDGKSTLDSMTDIDPSVYANYYWVSSQYHKFHQEFAEFYKCALLYLAYTSVEslsdsfkldlafdlslsallGDNIYNFGELLAHPIINSLTGTKVEWLYYILQAFNSGDLVRYQELCRVHNAALRAQPALVENEKKLLEKINILCLMEIIFSRPSEDRTIPLSIIAERTKLSIEDVEHLLMKSLSVHLIEGIIDQVEGTVHVSWVQPRVLGIPQIKSLRDRLDSWLGKVHTALLSIEAETPDLVAS
**************PELGEWYNALADLYQKKLWHQLTLKLEQFVAHAVFQAGDALIQLYHNFITDFETKINLLKLAHFAVIVSRQYPEKQAAISYLEGVIEKLRATNE**KEEPILYIKMQIAMFKLEQG****C*************MTDIDPSVYANYYWVSSQYHKFHQEFAEFYKCALLYLAYTSVESLSDSFKLDLAFDLSLSALLGDNIYNFGELLAHPIINSLTGTKVEWLYYILQAFNSGDLVRYQELCRVHNAALRAQPALVENEKKLLEKINILCLMEIIFSRPSEDRTIPLSIIAERTKLSIEDVEHLLMKSLSVHLIEGIIDQVEGTVHVSWVQPRVLGIPQIKSLRDRLDSWLGKVHTALLSIE*********
*AALQYLES******EL*EWYNALADLYQKKLWHQLTLKLEQFVAHAVFQAGDALIQLYHNFITDFETKINLLKLAHFAVIVSRQYPEKQAAISYLEGVIEKLRATNEQRKEEPILYIKMQIAMFKLEQGDRKECKKLLEDGKSTLDSMTDIDPSVYANYYWVSSQYHKFHQEFAEFYKCALLYLAYTSVESLSDSFKLDLAFDLSLSALLGDNIYNFGELLAHPIINSLTGTKVEWLYYILQAFNSGDLVRYQELCRVHNAALRAQPALVENEKKLLEKINILCLMEIIFSRPSEDRTIPLSIIAERTKLSIEDVEHLLMKSLSVHLIEGIIDQVEGTVHVSWVQPRVLGIPQIKSLRDRLDSWLGKVHTALLSIEAETPDL*A*
MAALQYLESLRNDHPELGEWYNALADLYQKKLWHQLTLKLEQFVAHAVFQAGDALIQLYHNFITDFETKINLLKLAHFAVIVSRQYPEKQAAISYLEGVIEKLRATNEQRKEEPILYIKMQIAMFKLEQGDRKECKKLLEDGKSTLDSMTDIDPSVYANYYWVSSQYHKFHQEFAEFYKCALLYLAYTSVESLSDSFKLDLAFDLSLSALLGDNIYNFGELLAHPIINSLTGTKVEWLYYILQAFNSGDLVRYQELCRVHNAALRAQPALVENEKKLLEKINILCLMEIIFSRPSEDRTIPLSIIAERTKLSIEDVEHLLMKSLSVHLIEGIIDQVEGTVHVSWVQPRVLGIPQIKSLRDRLDSWLGKVHTALLSIEAETPDLVAS
MAALQYLESLRNDHPELGEWYNALADLYQKKLWHQLTLKLEQFVAHAVFQAGDALIQLYHNFITDFETKINLLKLAHFAVIVSRQYPEKQAAISYLEGVIEKLRATNEQRKEEPILYIKMQIAMFKLEQGDRKECKKLLEDGKSTLDSMTDIDPSVYANYYWVSSQYHKFHQEFAEFYKCALLYLAYTSVESLSDSFKLDLAFDLSLSALLGDNIYNFGELLAHPIINSLTGTKVEWLYYILQAFNSGDLVRYQELCRVHNAALRAQPALVENEKKLLEKINILCLMEIIFSRPSEDRTIPLSIIAERTKLSIEDVEHLLMKSLSVHLIEGIIDQVEGTVHVSWVQPRVLGIPQIKSLRDRLDSWLGKVHTALLSIEAETPDLV**
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MAALQYLESLRNDHPELGEWYNALADLYQKKLWHQLTLKLEQFVAHAVFQAGDALIQLYHNFITDFETKINLLKLAHFAVIVSRQYPEKQAAISYLEGVIEKLRATNEQRKEEPILYIKMQIAMFKLEQGDRKECKKLLEDGKSTLDSMTDIDPSVYANYYWVSSQYHKFHQEFAEFYKCALLYLAYTSVESLSDSFKLDLAFDLSLSALLGDNIYNFGELLAHPIINSLTGTKVEWLYYILQAFNSGDLVRYQELCRVHNAALRAQPALVENEKKLLEKINILCLMEIIFSRPSEDRTIPLSIIAERTKLSIEDVEHLLMKSLSVHLIEGIIDQVEGTVHVSWVQPRVLGIPQIKSLRDRLDSWLGKVHTALLSIEAETPDLVAS
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 ?
Query386 2.2.26 [Sep-21-2011]
Q54NQ0385 26S proteasome non-ATPase yes no 0.974 0.976 0.392 4e-76
B0BN93376 26S proteasome non-ATPase yes no 0.958 0.984 0.392 3e-70
Q9UNM6376 26S proteasome non-ATPase yes no 0.958 0.984 0.389 8e-70
Q5E964376 26S proteasome non-ATPase yes no 0.958 0.984 0.392 3e-69
Q9WVJ2376 26S proteasome non-ATPase yes no 0.958 0.984 0.386 7e-69
P84169376 26S proteasome non-ATPase yes no 0.958 0.984 0.386 3e-68
Q04062393 26S proteasome regulatory yes no 0.924 0.908 0.328 2e-49
Q9US13381 Probable 26S proteasome r yes no 0.873 0.884 0.340 5e-48
A1CD85471 Eukaryotic translation in N/A no 0.458 0.375 0.277 2e-08
Q4WG69468 Eukaryotic translation in no no 0.443 0.365 0.264 6e-08
>sp|Q54NQ0|PSD13_DICDI 26S proteasome non-ATPase regulatory subunit 13 OS=Dictyostelium discoideum GN=psmD13 PE=2 SV=1 Back     alignment and function desciption
 Score =  285 bits (729), Expect = 4e-76,   Method: Compositional matrix adjust.
 Identities = 151/385 (39%), Positives = 236/385 (61%), Gaps = 9/385 (2%)

Query: 4   LQYLESLRNDHPELGEWYNALADLYQKKLWHQLTLKLEQFVAHAVFQAGDALIQLYHNFI 63
           L+YLE L+   P+L +  N + D Y+ KLWHQLT ++E  +          L   Y NFI
Sbjct: 7   LEYLEHLKKIVPDLSDQINNIKDTYENKLWHQLTKQIEMIIISPQLLEKKELFNFYTNFI 66

Query: 64  TDFETKINLLKLAHFAVIVSRQYPEKQAAISYLEGVIEKLRATNEQRKEEPILYIKMQIA 123
            DFE K+  L L    + V+RQ+   ++   ++E + +K++    + K   IL +   IA
Sbjct: 67  RDFENKLRPLSLVEICIAVARQFDTDESR-KFIETISQKVK----KDKSAYILTLSY-IA 120

Query: 124 MFKLEQG---DRKECKKLLEDGKSTLDSMTDIDPSVYANYYWVSSQYHKFHQEFAEFYKC 180
              L  G     ++CKK LE  K  L  +T +D  VY+++Y VS+ YH    + +EFYK 
Sbjct: 121 NMNLRSGVAEQLQDCKKTLELAKEELQGVTGLDTIVYSSFYRVSTDYHMAKSQASEFYKN 180

Query: 181 ALLYLAYTSVESLSDSFKLDLAFDLSLSALLGDNIYNFGELLAHPIINSLTGTKVEWLYY 240
           AL+YL+Y  +E++S   +  LA++L ++AL+G+N+Y FG+L+A+PI+ +L G++  WL  
Sbjct: 181 ALMYLSYCKLETISQEEQASLAYNLCIAALVGENVYGFGDLIANPILKALEGSQHNWLIA 240

Query: 241 ILQAFNSGDLVRYQELCRVHNAALRAQPALVENEKKLLEKINILCLMEIIFSRPSEDRTI 300
            L+AFN GD+ +++ L   H   +  Q A+  N +KL +KI+IL L+E+ F  PS+ R+I
Sbjct: 241 FLKAFNIGDIQQFEGLMSQHRDIISTQTAITNNMQKLRQKISILSLLELAFRTPSDKRSI 300

Query: 301 PLSIIAERTKLSIEDVEHLLMKSLSVHLIEGIIDQVEGTVHVSWVQPRVLGIPQIKSLRD 360
             S IA+ TKL + ++EHLLMKSLS++LI+G IDQ    +H++WV PR+L + QI S+ +
Sbjct: 301 SFSKIAQATKLPLGEIEHLLMKSLSLNLIKGSIDQTVEIIHITWVTPRILDLNQINSMNN 360

Query: 361 RLDSWLGKVHTALLSIEAETPDLVA 385
           R+  W  K  T+L  +E +T DLVA
Sbjct: 361 RIAEWTEKAKTSLRLVEDDTVDLVA 385
Acts as a regulatory subunit of the 26S proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins.
Dictyostelium discoideum (taxid: 44689)
>sp|B0BN93|PSD13_RAT 26S proteasome non-ATPase regulatory subunit 13 OS=Rattus norvegicus GN=Psmd13 PE=1 SV=1 Back     alignment and function description
>sp|Q9UNM6|PSD13_HUMAN 26S proteasome non-ATPase regulatory subunit 13 OS=Homo sapiens GN=PSMD13 PE=1 SV=2 Back     alignment and function description
>sp|Q5E964|PSD13_BOVIN 26S proteasome non-ATPase regulatory subunit 13 OS=Bos taurus GN=PSMD13 PE=2 SV=1 Back     alignment and function description
>sp|Q9WVJ2|PSD13_MOUSE 26S proteasome non-ATPase regulatory subunit 13 OS=Mus musculus GN=Psmd13 PE=1 SV=1 Back     alignment and function description
>sp|P84169|PSD13_CHICK 26S proteasome non-ATPase regulatory subunit 13 OS=Gallus gallus GN=PSMD13 PE=1 SV=1 Back     alignment and function description
>sp|Q04062|RPN9_YEAST 26S proteasome regulatory subunit RPN9 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RPN9 PE=1 SV=1 Back     alignment and function description
>sp|Q9US13|RPN9_SCHPO Probable 26S proteasome regulatory subunit rpn9 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rpn9 PE=3 SV=1 Back     alignment and function description
>sp|A1CD85|EIF3M_ASPCL Eukaryotic translation initiation factor 3 subunit M OS=Aspergillus clavatus (strain ATCC 1007 / CBS 513.65 / DSM 816 / NCTC 3887 / NRRL 1) GN=ACLA_005680 PE=3 SV=1 Back     alignment and function description
>sp|Q4WG69|EIF3M_ASPFU Eukaryotic translation initiation factor 3 subunit M OS=Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) GN=AFUA_7G03980 PE=3 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query386
224139042386 predicted protein [Populus trichocarpa] 1.0 1.0 0.919 0.0
358248718386 uncharacterized protein LOC100804455 [Gl 1.0 1.0 0.917 0.0
224074373386 predicted protein [Populus trichocarpa] 1.0 1.0 0.906 0.0
449456745386 PREDICTED: 26S proteasome non-ATPase reg 1.0 1.0 0.904 0.0
225427065386 PREDICTED: 26S proteasome non-ATPase reg 1.0 1.0 0.906 0.0
357484829386 26S proteasome non-ATPase regulatory sub 1.0 1.0 0.898 0.0
359806274386 uncharacterized protein LOC100793480 [Gl 1.0 1.0 0.901 0.0
255555921400 26S proteasome subunit, putative [Ricinu 0.997 0.962 0.882 0.0
359474526400 PREDICTED: 26S proteasome non-ATPase reg 1.0 0.965 0.875 0.0
297800160386 hypothetical protein ARALYDRAFT_914767 [ 1.0 1.0 0.857 0.0
>gi|224139042|ref|XP_002326753.1| predicted protein [Populus trichocarpa] gi|222834075|gb|EEE72552.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
 Score =  727 bits (1876), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 355/386 (91%), Positives = 370/386 (95%)

Query: 1   MAALQYLESLRNDHPELGEWYNALADLYQKKLWHQLTLKLEQFVAHAVFQAGDALIQLYH 60
           MAALQYLE+LRN HPEL EWYN+LADLYQKKLWHQLTLKLEQFVA AVFQAGDALIQLYH
Sbjct: 1   MAALQYLETLRNAHPELDEWYNSLADLYQKKLWHQLTLKLEQFVALAVFQAGDALIQLYH 60

Query: 61  NFITDFETKINLLKLAHFAVIVSRQYPEKQAAISYLEGVIEKLRATNEQRKEEPILYIKM 120
           NFITDFETKINLLKLAHFAVIVSRQY EK AAISYLEGVIEKLRAT EQR EEP+LYIKM
Sbjct: 61  NFITDFETKINLLKLAHFAVIVSRQYTEKDAAISYLEGVIEKLRATREQRIEEPVLYIKM 120

Query: 121 QIAMFKLEQGDRKECKKLLEDGKSTLDSMTDIDPSVYANYYWVSSQYHKFHQEFAEFYKC 180
           QIA+FKLEQGD+KECK+LLEDGKSTLDSMTDIDPSVYA+YYWVSSQY+K  QEF+EFYK 
Sbjct: 121 QIAIFKLEQGDQKECKRLLEDGKSTLDSMTDIDPSVYASYYWVSSQYYKHRQEFSEFYKS 180

Query: 181 ALLYLAYTSVESLSDSFKLDLAFDLSLSALLGDNIYNFGELLAHPIINSLTGTKVEWLYY 240
           ALLYLAYTSVESLSDSFKLDLAFDLSLSALLGDNIYNFGELLAHPII SL GT+VEWLYY
Sbjct: 181 ALLYLAYTSVESLSDSFKLDLAFDLSLSALLGDNIYNFGELLAHPIIKSLLGTQVEWLYY 240

Query: 241 ILQAFNSGDLVRYQELCRVHNAALRAQPALVENEKKLLEKINILCLMEIIFSRPSEDRTI 300
           ILQAFNSGDLVRYQELCRVHNA L+AQPALV+NE KLLEKINILCLMEIIFSRPSEDRTI
Sbjct: 241 ILQAFNSGDLVRYQELCRVHNAPLKAQPALVQNEPKLLEKINILCLMEIIFSRPSEDRTI 300

Query: 301 PLSIIAERTKLSIEDVEHLLMKSLSVHLIEGIIDQVEGTVHVSWVQPRVLGIPQIKSLRD 360
           PL +IAERTKLSIEDVEHLLMKSLSVHLIEGIIDQVEGTVHVSWVQPRVLGIPQIKSLRD
Sbjct: 301 PLKVIAERTKLSIEDVEHLLMKSLSVHLIEGIIDQVEGTVHVSWVQPRVLGIPQIKSLRD 360

Query: 361 RLDSWLGKVHTALLSIEAETPDLVAS 386
           RLD+WL KVHTALLS+EAETPDLVAS
Sbjct: 361 RLDNWLDKVHTALLSVEAETPDLVAS 386

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|358248718|ref|NP_001240184.1| uncharacterized protein LOC100804455 [Glycine max] gi|255645209|gb|ACU23102.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|224074373|ref|XP_002304360.1| predicted protein [Populus trichocarpa] gi|222841792|gb|EEE79339.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|449456745|ref|XP_004146109.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 13-like [Cucumis sativus] gi|449509507|ref|XP_004163608.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 13-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|225427065|ref|XP_002275168.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 13-like isoform 1 [Vitis vinifera] Back     alignment and taxonomy information
>gi|357484829|ref|XP_003612702.1| 26S proteasome non-ATPase regulatory subunit [Medicago truncatula] gi|355514037|gb|AES95660.1| 26S proteasome non-ATPase regulatory subunit [Medicago truncatula] Back     alignment and taxonomy information
>gi|359806274|ref|NP_001240961.1| uncharacterized protein LOC100793480 [Glycine max] gi|255642108|gb|ACU21320.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|255555921|ref|XP_002518996.1| 26S proteasome subunit, putative [Ricinus communis] gi|223541983|gb|EEF43529.1| 26S proteasome subunit, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|359474526|ref|XP_003631488.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 13-like isoform 2 [Vitis vinifera] Back     alignment and taxonomy information
>gi|297800160|ref|XP_002867964.1| hypothetical protein ARALYDRAFT_914767 [Arabidopsis lyrata subsp. lyrata] gi|297313800|gb|EFH44223.1| hypothetical protein ARALYDRAFT_914767 [Arabidopsis lyrata subsp. lyrata] 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 ?
Query386
TAIR|locus:2171998386 AT5G45620 "AT5G45620" [Arabido 1.0 1.0 0.810 1.8e-167
TAIR|locus:504955552386 AT4G19006 "AT4G19006" [Arabido 1.0 1.0 0.805 3.7e-167
DICTYBASE|DDB_G0285105385 psmD13 "26S proteasome non-ATP 0.974 0.976 0.376 1.7e-68
ZFIN|ZDB-GENE-040426-1004413 psmd13 "proteasome (prosome, m 0.930 0.869 0.398 1.7e-68
RGD|1305236376 Psmd13 "proteasome (prosome, m 0.955 0.981 0.372 4.1e-65
UNIPROTKB|Q5E964376 PSMD13 "26S proteasome non-ATP 0.955 0.981 0.372 5.2e-65
UNIPROTKB|Q9UNM6376 PSMD13 "26S proteasome non-ATP 0.955 0.981 0.369 6.7e-65
UNIPROTKB|E2R5N5376 PSMD13 "Uncharacterized protei 0.955 0.981 0.366 1.1e-64
UNIPROTKB|F1RGC9376 PSMD13 "Uncharacterized protei 0.955 0.981 0.366 2.3e-64
MGI|MGI:1345192376 Psmd13 "proteasome (prosome, m 0.955 0.981 0.366 7.6e-64
TAIR|locus:2171998 AT5G45620 "AT5G45620" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1629 (578.5 bits), Expect = 1.8e-167, P = 1.8e-167
 Identities = 313/386 (81%), Positives = 343/386 (88%)

Query:     1 MAALQYLESLRNDHPELGEWYNALADLYQKKLWHQLTLKLEQFVAHAVFQAGDALIQLYH 60
             MAALQYLESL+N HPELGEWYN+LADLYQKKLWHQLTLKLEQF+A AVFQAGDALIQ YH
Sbjct:     1 MAALQYLESLKNTHPELGEWYNSLADLYQKKLWHQLTLKLEQFIALAVFQAGDALIQFYH 60

Query:    61 NFITDFETKINLLKLAHFAVIVSRQYPEKQAAISYLEGVIEKLRATNEQRKEEPILYIKM 120
             NFITDFETKINLLKLAHFAV+VSRQY EK+AA+SYLE VIEKLRAT E R  EPI+YI+ 
Sbjct:    61 NFITDFETKINLLKLAHFAVVVSRQYSEKEAAVSYLESVIEKLRATKEPRITEPIIYIET 120

Query:   121 QIAMFKLEQGDRKECKKLLEDGKSTLDSMTDIDPSVYANYYWVSSQYHKFHQEFAEFYKC 180
             Q A+FKLEQGD+KECKK+L+DGKS+LDSMTDIDPSVYAN+YWVSSQYHK  QEF++FYK 
Sbjct:   121 QKALFKLEQGDQKECKKILDDGKSSLDSMTDIDPSVYANFYWVSSQYHKCRQEFSDFYKS 180

Query:   181 ALLYLAYTSVEXXXXXXXXXXXXXXXXXXXXGDNIYNFGELLAHPIINSLTGTKVEWLYY 240
             ALLYLAYTSVE                    G+NIYNFGELLAHPI+ SL GT VEWLY+
Sbjct:   181 ALLYLAYTSVEDLSESFKLDLAFDLSLSALLGENIYNFGELLAHPILKSLLGTNVEWLYH 240

Query:   241 ILQAFNSGDLVRYQELCRVHNAALRAQPALVENEKKLLEKINILCLMEIIFSRPSEDRTI 300
             ILQAFN GDLV+YQELCRVHNA+L AQPALVENEKKLLEKINILCL+EIIFSRP+EDRTI
Sbjct:   241 ILQAFNHGDLVQYQELCRVHNASLIAQPALVENEKKLLEKINILCLIEIIFSRPAEDRTI 300

Query:   301 PLSIIAERTKLSIEDVEHLLMKSLSVHLIEGIIDQVEGTVHVSWVQPRVLGIPQIKSLRD 360
             PLSIIAERTKLSIEDVEHLLMKSLSVHLIEGIIDQV GT++VSW QPRVLGIPQIK+LRD
Sbjct:   301 PLSIIAERTKLSIEDVEHLLMKSLSVHLIEGIIDQVNGTIYVSWAQPRVLGIPQIKALRD 360

Query:   361 RLDSWLGKVHTALLSIEAETPDLVAS 386
             +LDSW+ KVHT LLS+EAETPDLVA+
Sbjct:   361 QLDSWVDKVHTTLLSVEAETPDLVAA 386
GO:0003674 "molecular_function" evidence=ND
GO:0005737 "cytoplasm" evidence=ISM
GO:0008541 "proteasome regulatory particle, lid subcomplex" evidence=ISS
GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=RCA;TAS
GO:0000502 "proteasome complex" evidence=IDA
GO:0005829 "cytosol" evidence=IDA
GO:0006094 "gluconeogenesis" evidence=RCA
GO:0006096 "glycolysis" evidence=RCA
GO:0007010 "cytoskeleton organization" evidence=RCA
GO:0009651 "response to salt stress" evidence=RCA
GO:0009853 "photorespiration" evidence=RCA
GO:0010498 "proteasomal protein catabolic process" evidence=RCA
GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=RCA
GO:0043248 "proteasome assembly" evidence=RCA
GO:0046686 "response to cadmium ion" evidence=RCA
GO:0051604 "protein maturation" evidence=RCA
GO:0051788 "response to misfolded protein" evidence=RCA
GO:0080129 "proteasome core complex assembly" evidence=RCA
TAIR|locus:504955552 AT4G19006 "AT4G19006" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0285105 psmD13 "26S proteasome non-ATPase regulatory subunit 13" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-040426-1004 psmd13 "proteasome (prosome, macropain) 26S subunit, non-ATPase, 13" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
RGD|1305236 Psmd13 "proteasome (prosome, macropain) 26S subunit, non-ATPase, 13" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|Q5E964 PSMD13 "26S proteasome non-ATPase regulatory subunit 13" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|Q9UNM6 PSMD13 "26S proteasome non-ATPase regulatory subunit 13" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|E2R5N5 PSMD13 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|F1RGC9 PSMD13 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
MGI|MGI:1345192 Psmd13 "proteasome (prosome, macropain) 26S subunit, non-ATPase, 13" [Mus musculus (taxid:10090)] 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) ?
P84169PSD13_CHICKNo assigned EC number0.38680.95850.9840yesno
Q9WVJ2PSD13_MOUSENo assigned EC number0.38680.95850.9840yesno
Q9US13RPN9_SCHPONo assigned EC number0.34080.87300.8845yesno
Q54NQ0PSD13_DICDINo assigned EC number0.39220.97400.9766yesno
Q04062RPN9_YEASTNo assigned EC number0.32880.92480.9083yesno
B0BN93PSD13_RATNo assigned EC number0.39210.95850.9840yesno
Q9UNM6PSD13_HUMANNo assigned EC number0.38940.95850.9840yesno
Q5E964PSD13_BOVINNo assigned EC number0.39210.95850.9840yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
estExt_fgenesh4_pg.C_290270
hypothetical protein (386 aa)
(Populus trichocarpa)
Predicted Functional Partners:
estExt_fgenesh4_pg.C_LG_VII0646
SubName- Full=Putative uncharacterized protein; (442 aa)
   •••• 0.659
estExt_fgenesh4_pg.C_LG_II1158
hypothetical protein (310 aa)
   •••• 0.654
estExt_fgenesh4_pm.C_400098
SubName- Full=Putative uncharacterized protein; (312 aa)
   •••• 0.651
eugene3.00150698
hypothetical protein (386 aa)
   •••• 0.651
eugene3.00050260
hypothetical protein (442 aa)
   •••• 0.649
eugene3.00120862
hypothetical protein (386 aa)
   •••• 0.645
estExt_fgenesh4_pg.C_LG_VIII0552
hypothetical protein (311 aa)
   •••• 0.644
estExt_fgenesh4_pm.C_LG_X0754
SubName- Full=Putative uncharacterized protein; (311 aa)
   •••• 0.637
estExt_fgenesh4_pg.C_LG_I0773
SubName- Full=Putative uncharacterized protein; (267 aa)
   •••• 0.578
estExt_Genewise1_v1.C_LG_III1640
SubName- Full=Putative uncharacterized protein; (267 aa)
   •••• 0.574

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 ?
Query386
pfam01399100 pfam01399, PCI, PCI domain 9e-10
smart0075388 smart00753, PAM, PCI/PINT associated module 2e-09
smart0008888 smart00088, PINT, motif in proteasome subunits, In 2e-09
>gnl|CDD|216479 pfam01399, PCI, PCI domain Back     alignment and domain information 
 Score = 54.9 bits (133), Expect = 9e-10
 Identities = 34/105 (32%), Positives = 50/105 (47%), Gaps = 5/105 (4%)

Query: 238 LYYILQAFNSGDLVRYQELCRVHNAALRAQPALVENEKKLLEKINILCLMEIIFSRPSED 297
              +L+AF SGDL  ++E+   +   L     L E  + L  KI  L L  +        
Sbjct: 1   YRDLLRAFYSGDLSDFEEILADNEDELL-DDGLAELLEDLRRKIRELNLRRLAKPY---- 55

Query: 298 RTIPLSIIAERTKLSIEDVEHLLMKSLSVHLIEGIIDQVEGTVHV 342
            +I LS +A+   LS+++VE +L K +    I G IDQV G V  
Sbjct: 56  SSISLSDLAKLLGLSVDEVEKILSKLIRDGRIRGKIDQVNGIVVF 100

This domain has also been called the PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15). Length = 100
>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 386
KOG2908380 consensus 26S proteasome regulatory complex, subun 100.0
KOG2753378 consensus Uncharacterized conserved protein, conta 100.0
KOG3250258 consensus COP9 signalosome, subunit CSN7 [Posttran 99.93
PF01399105 PCI: PCI domain; InterPro: IPR000717 A homology do 99.69
smart0075388 PAM PCI/PINT associated module. 99.54
smart0008888 PINT motif in proteasome subunits, Int-6, Nip-1 an 99.54
KOG2581493 consensus 26S proteasome regulatory complex, subun 99.26
KOG1464440 consensus COP9 signalosome, subunit CSN2 [Posttran 99.26
KOG1497399 consensus COP9 signalosome, subunit CSN4 [Posttran 98.52
KOG0687393 consensus 26S proteasome regulatory complex, subun 98.3
KOG1463411 consensus 26S proteasome regulatory complex, subun 98.18
KOG1498439 consensus 26S proteasome regulatory complex, subun 98.11
COG5600413 Transcription-associated recombination protein [DN 98.06
KOG0686466 consensus COP9 signalosome, subunit CSN1 [Posttran 97.97
KOG2688394 consensus Transcription-associated recombination p 97.92
COG5187412 RPN7 26S proteasome regulatory complex component, 97.55
COG5159421 RPN6 26S proteasome regulatory complex component [ 97.43
KOG2582422 consensus COP9 signalosome, subunit CSN3 [Posttran 97.28
KOG2072 988 consensus Translation initiation factor 3, subunit 96.28
COG5071439 RPN5 26S proteasome regulatory complex component [ 95.81
KOG2758432 consensus Translation initiation factor 3, subunit 95.61
KOG1076843 consensus Translation initiation factor 3, subunit 95.12
PF14938282 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1 94.12
PF10075143 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro 91.86
COG3355126 Predicted transcriptional regulator [Transcription 88.78
PF0901269 FeoC: FeoC like transcriptional regulator; InterPr 88.09
PF09756188 DDRGK: DDRGK domain; InterPro: IPR019153 This is a 87.69
TIGR02010135 IscR iron-sulfur cluster assembly transcription fa 82.46
PF0208283 Rrf2: Transcriptional regulator; InterPro: IPR0009 82.07
PRK11179153 DNA-binding transcriptional regulator AsnC; Provis 81.06
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information 
Probab=100.00  E-value=6.8e-101  Score=732.92  Aligned_cols=378  Identities=50%  Similarity=0.797  Sum_probs=366.0

Q ss_pred             CcHHHHHH-HHHhcCCchHHHHHHHHHHHHhhhHHHHHHHHHHHHhchhhcCchhHHHHHHHHHHHHHhhcChHHHHHHH
Q 043780            1 MAALQYLE-SLRNDHPELGEWYNALADLYQKKLWHQLTLKLEQFVAHAVFQAGDALIQLYHNFITDFETKINLLKLAHFA   79 (386)
Q Consensus         1 ~~~~~~L~-~~~~~~p~~~~~~~~~~~l~~~KLWhqLt~~l~~~~~~~~~~~~~~~~~ly~~fi~~f~~kin~l~l~~i~   79 (386)
                      |++.+||+ +..+++|++++.|++++++|++|||||||.++.+|+++|.|++++.++++|.|||++|++||||+++|+|+
T Consensus         2 ~~~~~~L~~~~~~a~~~l~~ew~~leeLy~eKLW~QLt~~l~~fvd~~~f~~~~~~l~lY~NFvsefe~kINplslvei~   81 (380)
T KOG2908|consen    2 MNAPDYLQTQLKSANPSLAAEWDRLEELYEEKLWHQLTLALVDFVDDPPFQAGDLLLQLYLNFVSEFETKINPLSLVEIL   81 (380)
T ss_pred             CcHHHHHHHHHhhcCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhhccChHHHHHHH
Confidence            68999998 55666789999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCChHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHHHhcccCChHHHHHHHHhccccccccCCCCHHHHHH
Q 043780           80 VIVSRQYPEKQAAISYLEGVIEKLRATNEQRKEEPILYIKMQIAMFKLEQGDRKECKKLLEDGKSTLDSMTDIDPSVYAN  159 (386)
Q Consensus        80 ~~v~~~~~d~~~al~fl~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~l~~~~l~~~~~~l~~~~~~l~~~~~v~~~v~a~  159 (386)
                      +.++++++|+++|++||+++.++++.   .+.++|++|+.+.+++++|..||++++++.|++++..+|+..+|++.||+.
T Consensus        82 l~~~~~~~D~~~al~~Le~i~~~~~~---~~e~~av~~~~t~~~r~~L~i~DLk~~kk~ldd~~~~ld~~~~v~~~Vh~~  158 (380)
T KOG2908|consen   82 LVVSEQISDKDEALEFLEKIIEKLKE---YKEPDAVIYILTEIARLKLEINDLKEIKKLLDDLKSMLDSLDGVTSNVHSS  158 (380)
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHh---hccchhHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcccCCChhhhhh
Confidence            99999999999999999999999963   344479999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhcHHHHHHHHHHHhccCCCCCCChhHHHHHHHHHHHHHhcCCCcccccccccChhhhcccCCCcHHHH
Q 043780          160 YYWVSSQYHKFHQEFAEFYKCALLYLAYTSVESLSDSFKLDLAFDLSLSALLGDNIYNFGELLAHPIINSLTGTKVEWLY  239 (386)
Q Consensus       160 ~y~~~s~~~k~~~~~~~~y~~~l~yL~~~~~~~~~~~e~~~~a~~l~i~AL~~~~iy~FgeLl~~p~v~~L~~~~~~~l~  239 (386)
                      ||++++.||+..|+|++||+++|+||+|.+.+++|.++++++|++++++||+|++|||||||+.||++.+|+||++.|++
T Consensus       159 fY~lssqYyk~~~d~a~yYr~~L~YL~~~d~~~l~~se~~~lA~~L~~aALLGe~iyNfGELL~HPilesL~gT~~eWL~  238 (380)
T KOG2908|consen  159 FYSLSSQYYKKIGDFASYYRHALLYLGCSDIDDLSESEKQDLAFDLSLAALLGENIYNFGELLAHPILESLKGTNREWLK  238 (380)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHhccccccccCHHHHHHHHHHHHHHHHhccccccHHHHHhhHHHHHhcCCcHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhhhhhhcCchhhhhHHHHHHHHHHHHHHHHHhhCCCCCCccChHHHHHHcCCChhHHHHH
Q 043780          240 YILQAFNSGDLVRYQELCRVHNAALRAQPALVENEKKLLEKINILCLMEIIFSRPSEDRTIPLSIIAERTKLSIEDVEHL  319 (386)
Q Consensus       240 ~LL~~f~~G~l~~f~~~~~~~~~~~~~~~~L~~~~~~l~~KirlLaL~~L~~~r~~~~r~isf~~Ia~~l~i~~~eVE~l  319 (386)
                      ++|.+||.||+..|++.+    ..|.+.|+|.+++.+|++|||+||||++||.||++.|++||++||++|+||.++||++
T Consensus       239 dll~Afn~Gdl~~f~~l~----~~~~~~p~L~~~e~~L~qKI~LmaLiEi~F~rpa~~R~lsf~~Ia~~tkip~~eVE~L  314 (380)
T KOG2908|consen  239 DLLIAFNSGDLKRFESLK----GVWGKQPDLASNEDFLLQKIRLLALIEITFSRPANERTLSFKEIAEATKIPNKEVELL  314 (380)
T ss_pred             HHHHHhccCCHHHHHHHH----HHhccCchHHHHHHHHHHHHHHHHHHHHHhcCcchhccccHHHHHHHhCCCHHHHHHH
Confidence            999999999999999996    4567799999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhccceEEeecCCCCEEEEEeeccccCChhhHHHHHHHHHHHHHHHHHHHHHHHhhcccccc
Q 043780          320 LMKSLSVHLIEGIIDQVEGTVHVSWVQPRVLGIPQIKSLRDRLDSWLGKVHTALLSIEAETPDLVA  385 (386)
Q Consensus       320 vikAi~~gLI~G~IDqv~~~v~vt~v~~R~l~~~q~~~L~~~L~~W~~~v~~~~~~l~~~~~~~~~  385 (386)
                      ||||+|.|||+|+||||+|+|+++|||||+++++||..|++|++.|+++|+++...|++.+.++++
T Consensus       315 VMKAlslgLikG~Idqv~~~v~~swvqPRvl~~~qI~~Mk~rl~~W~~~v~~me~~ve~~~~~i~~  380 (380)
T KOG2908|consen  315 VMKALSLGLIKGSIDQVEGVVYMSWVQPRVLDRSQIVKMKDRLDEWNKDVKSMEGLVEHRGHEILT  380 (380)
T ss_pred             HHHHHhccceeeeecccccEEEEecccccccCHHHHHhHHHHHHHHHHHHHHHHHHHHHhcccccC
Confidence            999999999999999999999999999999999999999999999999999999999999999974

>KOG2753 consensus Uncharacterized conserved protein, contains PCI domain [General function prediction only] Back     alignment and domain information
>KOG3250 consensus COP9 signalosome, subunit CSN7 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms] 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
>smart00753 PAM PCI/PINT associated module Back     alignment and domain information
>smart00088 PINT motif in proteasome subunits, Int-6, Nip-1 and TRIP-15 Back     alignment and domain information
>KOG2581 consensus 26S proteasome regulatory complex, subunit RPN3/PSMD3 [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms] Back     alignment and domain information
>KOG1497 consensus COP9 signalosome, subunit CSN4 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms] Back     alignment and domain information
>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>KOG1463 consensus 26S proteasome regulatory complex, subunit RPN6/PSMD11 [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>KOG1498 consensus 26S proteasome regulatory complex, subunit RPN5/PSMD12 [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>COG5600 Transcription-associated recombination protein [DNA replication, recombination, and repair] Back     alignment and domain information
>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms] Back     alignment and domain information
>KOG2688 consensus Transcription-associated recombination protein - Thp1p [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>KOG2582 consensus COP9 signalosome, subunit CSN3 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms] Back     alignment and domain information
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>COG5071 RPN5 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>KOG2758 consensus Translation initiation factor 3, subunit e (eIF-3e) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG1076 consensus Translation initiation factor 3, subunit c (eIF-3c) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A 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
>COG3355 Predicted transcriptional regulator [Transcription] 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
>PF09756 DDRGK: DDRGK domain; InterPro: IPR019153 This is a family of proteins of approximately 300 residues Back     alignment and domain information
>TIGR02010 IscR iron-sulfur cluster assembly transcription factor IscR Back     alignment and domain information
>PF02082 Rrf2: Transcriptional regulator; InterPro: IPR000944 The following uncharacterised bacterial proteins have been shown to be evolutionary related, Desulfovibrio vulgaris protein Rrf2; Escherichia coli hypothetical proteins yfhP and yjeB; Bacillus subtilis hypothetical proteins yhdE, yrzC and ywgB; Mycobacterium tuberculosis hypothetical protein Rv1287; and Synechocystis sp Back     alignment and domain information
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional 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 ?
Query386
4b4t_O393 Near-Atomic Resolution Structural Model Of The Yeas 5e-44
>pdb|4B4T|O Chain O, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 393 Back     alignment and structure 
Iteration: 1

 Score =  174 bits (442), Expect = 5e-44,   Method: Compositional matrix adjust.
 Identities = 115/377 (30%), Positives = 191/377 (50%), Gaps = 23/377 (6%)
Query: 15  PELGEWYNALADLYQKKLWHQLTLKLEQFVAHAVFQAGDALIQLYHNFITDFETKINLLK 74
           P L   +      Y++KLW QL+  L +F   A  ++    ++LY NF++ F  KIN L 
Sbjct: 20  PSLHPLFEQFEKFYEEKLWFQLSESLTKFFDDA--KSTPLRLRLYDNFVSKFYDKINQLS 77
Query: 75  LAHFAVIVSRQYPEKQAAISYLEGV--------IEKLRATNEQRKEEPILYIKMQIAMFK 126
           +  + +   +   +   ++ YL+ +         +K R    +   + IL I  +IA   
Sbjct: 78  VVKYLLASLKDSKDFDESLKYLDDLKAQFQELDSKKQRNNGSKDHGDGILLIDSEIARTY 137
Query: 127 LEQGDRKECKKLLEDGKSTLDSMTDIDPSVYANYYWVSSQYHKFHQEFAEFYKCALLYLA 186
           L + D  + + LL+D + TLD    I   +  ++Y  +SQY KF  +F  FY  +LLYL+
Sbjct: 138 LLKNDLVKARDLLDDLEKTLDKKDSIPLRITNSFYSTNSQYFKFKNDFNSFYYTSLLYLS 197
Query: 187 Y----TSVEXXXXXXXXXXXXXXXXXXXXGDNIYNFGELLAHPIINSLTG-TKVEWLYYI 241
                TS+                     GD IYNFGELL HPI+ ++   +  +WL+ +
Sbjct: 198 TLEPSTSI---TLAERQQLAYDLSISALLGDKIYNFGELLHHPIMETIVNDSNYDWLFQL 254
Query: 242 LQAFNSGDLVRYQELCRVHNAALRAQPALVENEKKLLEKINILCLMEIIFSRPSEDRTIP 301
           L A   GD  ++  L +V  + +   P L ++E  L +KI ++ L+E +F +    R + 
Sbjct: 255 LNALTVGDFDKFDSLIKVQISKI---PILAQHESFLRQKICLMTLIETVFVKNI--RMLS 309
Query: 302 LSIIAERTKLSIEDVEHLLMKSLSVHLIEGIIDQVEGTVHVSWVQPRVLGIPQIKSLRDR 361
              I++ T L  ++VEHL+M+++S+ L++G IDQV   V +SWVQPR++   QI  ++DR
Sbjct: 310 FEDISKATHLPKDNVEHLVMRAISLGLLKGSIDQVNELVTISWVQPRIISGDQITKMKDR 369
Query: 362 LDSWLGKVHTALLSIEA 378
           L  W  +V      +EA
Sbjct: 370 LVEWNDQVEKLGKKMEA 386
  Database: pdbaa

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query386
3chm_A169 COP9 signalosome complex subunit 7; heat/ARM repea 2e-34
3txn_A394 26S proteasome regulatory complex subunit P42B; PC 2e-21
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-11
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 4e-05
3t5x_A203 PCI domain-containing protein 2; PCI, mRNA nuclear 1e-05
>3chm_A COP9 signalosome complex subunit 7; heat/ARM repeats, winged helix motif, developmental protein, phosphoprotein; 1.50A {Arabidopsis thaliana} Length = 169 Back     alignment and structure
 Score =  124 bits (312), Expect = 2e-34
 Identities = 31/167 (18%), Positives = 68/167 (40%), Gaps = 16/167 (9%)

Query: 193 LSDSFKLDLAFDLSLSALLGDNIYNFGELLAHPIINSLTGTKVEWLYYILQAFNSGDLVR 252
            + + K +    L + A    +++ F E+LA P +  L GT       +L+ F  G    
Sbjct: 17  RASTCKSEALGPLIIEATSHPSLFAFSEILALPNVAQLEGTTDSVYLDLLRLFAHGTWGD 76

Query: 253 YQELCRVHNAALRAQPALVENEKKLLEKINILCLMEIIFSRPSEDRTIPLSIIAERTKL- 311
           Y+             P L  ++   L+++ +L L E        ++ +P   +     + 
Sbjct: 77  YKCNATRL-------PHLSPDQILKLKQLTVLTLAE-------SNKVLPYDTLMVELDVS 122

Query: 312 SIEDVEHLL-MKSLSVHLIEGIIDQVEGTVHVSWVQPRVLGIPQIKS 357
           ++ ++E  L  + +   ++ G +DQ++    V +   R L   Q+ +
Sbjct: 123 NVRELEDFLINECMYAGIVRGKLDQLKRCFEVPFAAGRDLRPGQLGN 169
>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
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>3t5x_A PCI domain-containing protein 2; PCI, mRNA nuclear export, transcription; 2.12A {Homo sapiens} Length = 203 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query386
4b4t_O393 26S proteasome regulatory subunit RPN9; hydrolase, 100.0
3chm_A169 COP9 signalosome complex subunit 7; heat/ARM repea 100.0
3txn_A394 26S proteasome regulatory complex subunit P42B; PC 99.9
4b4t_P445 26S proteasome regulatory subunit RPN5; hydrolase, 99.71
4b4t_R429 RPN7, 26S proteasome regulatory subunit RPN7; hydr 99.61
4b4t_Q434 26S proteasome regulatory subunit RPN6; hydrolase, 99.6
3t5x_A203 PCI domain-containing protein 2; PCI, mRNA nuclear 99.37
4b4t_S523 RPN3, 26S proteasome regulatory subunit RPN3; hydr 99.36
3t5v_B455 Nuclear mRNA export protein THP1; PCI, mRNA nuclea 99.31
1ufm_A84 COP9 complex subunit 4; helix-turn-helix, structur 98.02
4b0z_A229 RPN12, 26S proteasome regulatory subunit RPN12; pr 97.0
3ro3_A164 PINS homolog, G-protein-signaling modulator 2; asy 92.48
3u3w_A293 Transcriptional activator PLCR protein; ternary co 90.85
1wi9_A72 Protein C20ORF116 homolog; helix-turn-helix motif, 90.53
2hzt_A107 Putative HTH-type transcriptional regulator YTCD; 90.21
2qfc_A293 PLCR protein; TPR, HTH, transcription regulation; 88.7
3ro3_A164 PINS homolog, G-protein-signaling modulator 2; asy 87.55
3ro2_A338 PINS homolog, G-protein-signaling modulator 2; TPR 87.43
1lj9_A144 Transcriptional regulator SLYA; HTH DNA binding pr 86.2
3sf4_A406 G-protein-signaling modulator 2; tetratricopeptide 85.3
1z7u_A112 Hypothetical protein EF0647; winged-helix-turn-hel 84.93
3gw4_A203 Uncharacterized protein; structural genomics, PSI- 84.49
1sfx_A109 Conserved hypothetical protein AF2008; structural 84.22
3bpv_A138 Transcriptional regulator; MARR, DNA binding, tran 83.74
1ub9_A100 Hypothetical protein PH1061; helix-turn-helix moti 83.73
3r0a_A123 Putative transcriptional regulator; structural gen 83.53
3ro2_A338 PINS homolog, G-protein-signaling modulator 2; TPR 83.22
2kko_A108 Possible transcriptional regulatory protein (possi 83.03
1ku9_A152 Hypothetical protein MJ223; putative transcription 82.7
3edt_B283 KLC 2, kinesin light chain 2; superhelical, struct 82.55
2oqg_A114 Possible transcriptional regulator, ARSR family P; 82.28
2d1h_A109 ST1889, 109AA long hypothetical transcriptional re 82.13
2gxg_A146 146AA long hypothetical transcriptional regulator; 81.89
2a61_A145 Transcriptional regulator TM0710; APC4350, MCSG, m 81.47
3f6o_A118 Probable transcriptional regulator, ARSR family pr 81.43
3nf1_A311 KLC 1, kinesin light chain 1; TPR, structural geno 80.85
2fsw_A107 PG_0823 protein; alpha-beta structure, helix-turn- 80.61
4a1s_A411 PINS, partner of inscuteable; cell cycle, LGN, mit 80.15
>4b4t_O 26S proteasome regulatory subunit RPN9; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae} Back     alignment and structure
Probab=100.00  E-value=1.1e-79  Score=619.48  Aligned_cols=377  Identities=33%  Similarity=0.590  Sum_probs=311.1

Q ss_pred             cHHHHHHHHHhcC-CchHHHHHHHHHHHHhhhHHHHHHHHHHHHhchhhcCchhHHHHHHHHHHHHHhhcChHHHHHHHH
Q 043780            2 AALQYLESLRNDH-PELGEWYNALADLYQKKLWHQLTLKLEQFVAHAVFQAGDALIQLYHNFITDFETKINLLKLAHFAV   80 (386)
Q Consensus         2 ~~~~~L~~~~~~~-p~~~~~~~~~~~l~~~KLWhqLt~~l~~~~~~~~~~~~~~~~~ly~~fi~~f~~kin~l~l~~i~~   80 (386)
                      |+..||++++.+. |++++.|++|+++|++|||||||.+|.+|+.+|  .+++.+++||++||++|++|||||++|+|++
T Consensus         6 ~i~~~l~~~~~~~~~~l~~~~~~le~~~~~kLWhqlt~~L~~~~~~~--~~~~~~~~ly~~fi~~f~~kin~L~lv~~~~   83 (393)
T 4b4t_O            6 EIDTILSTLRMEADPSLHPLFEQFEKFYEEKLWFQLSESLTKFFDDA--KSTPLRLRLYDNFVSKFYDKINQLSVVKYLL   83 (393)
T ss_dssp             HHHHHHHHHHCSSCSSCCSSHHHHHHHHCCSSCCSCCCTTHHHHCCC--SSCCCCHHHHHHHHHHHHHHSCSHHHHHTTH
T ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCh--hcchHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            6789999999876 699999999999999999999999999999999  5678899999999999999999999999999


Q ss_pred             HHHhcCCChHHHHHHHHHHHHHhhhccc--------cCCCchHHHHHHHHHHHhcccCChHHHHHHHHhccccccccCCC
Q 043780           81 IVSRQYPEKQAAISYLEGVIEKLRATNE--------QRKEEPILYIKMQIAMFKLEQGDRKECKKLLEDGKSTLDSMTDI  152 (386)
Q Consensus        81 ~v~~~~~d~~~al~fl~~~~~~~~~~~~--------~~~~~a~~~~~~~~~~~~l~~~~l~~~~~~l~~~~~~l~~~~~v  152 (386)
                      .++++++|++++++||+++..++...+.        ..+.+|.+++.+.+++.++..||+++|++.|++++..+++..++
T Consensus        84 ~~~~~~~d~~~al~~L~~~~~~~~~~~~~~~~~~~~~~~~ea~l~i~~~i~~~yl~~~d~~~a~~~l~~~~~~l~~~~~~  163 (393)
T 4b4t_O           84 ASLKDSKDFDESLKYLDDLKAQFQELDSKKQRNNGSKDHGDGILLIDSEIARTYLLKNDLVKARDLLDDLEKTLDKKDSI  163 (393)
T ss_dssp             HHHHHTTCHHHHHHHHHHHTTTSHHHHSSCCCCCCSSSSCCSHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHSCCS
T ss_pred             HHHhhcCCHHHHHHHHHHHHHHHhhhhhhhhcccchhhhhhhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhhhccCCc
Confidence            9999999999999999999888754322        23458999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHHHhhcHHHHHHHHHHHhccCCC-CCCChhHHHHHHHHHHHHHhcCCCcccccccccChhhhccc
Q 043780          153 DPSVYANYYWVSSQYHKFHQEFAEFYKCALLYLAYTSV-ESLSDSFKLDLAFDLSLSALLGDNIYNFGELLAHPIINSLT  231 (386)
Q Consensus       153 ~~~v~a~~y~~~s~~~k~~~~~~~~y~~~l~yL~~~~~-~~~~~~e~~~~a~~l~i~AL~~~~iy~FgeLl~~p~v~~L~  231 (386)
                      ++.+|+.||.+++.||+.+++|+.+|++++.|++|++. ++++.+++..+|+.++++||.+|++|+||+|+.+|++++|+
T Consensus       164 ~~~v~~~~y~~~~~~~~~~~~~a~~y~~~l~~l~~~~~~~~~~~~~~~~~a~~l~~~all~~~i~~f~eLL~~p~i~~L~  243 (393)
T 4b4t_O          164 PLRITNSFYSTNSQYFKFKNDFNSFYYTSLLYLSTLEPSTSITLAERQQLAYDLSISALLGDKIYNFGELLHHPIMETIV  243 (393)
T ss_dssp             SSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSSCSHHHHHHHHHHHHHHHHHCCSSCSTHHHHHSCCTTSSC
T ss_pred             cHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhccccccCCHHHHHHHHHHHHHHHHcCCCCCChHHHhCChHHHHhh
Confidence            99999999999999999999999999999999998864 56788999999999999999999999999999999999995


Q ss_pred             -CCCcHHHHHHHHHHhcCCHHHHHHHHHHhhhhhhcCchhhhhHHHHHHHHHHHHHHHHHhhCCCCCCccChHHHHHHcC
Q 043780          232 -GTKVEWLYYILQAFNSGDLVRYQELCRVHNAALRAQPALVENEKKLLEKINILCLMEIIFSRPSEDRTIPLSIIAERTK  310 (386)
Q Consensus       232 -~~~~~~l~~LL~~f~~G~l~~f~~~~~~~~~~~~~~~~L~~~~~~l~~KirlLaL~~L~~~r~~~~r~isf~~Ia~~l~  310 (386)
                       ++++.|+++||.+|+.||+.+|.++.+.|.   +..|.|..+...+++|||+++|++|||.+|  .|.|||++|+++|+
T Consensus       244 ~~~~~~~l~~Ll~~f~~g~~~~f~~~~~~~~---~~~~~l~~~~~~l~~kirll~l~~l~~~~~--~~~i~f~~ia~~l~  318 (393)
T 4b4t_O          244 NDSNYDWLFQLLNALTVGDFDKFDSLIKVQI---SKIPILAQHESFLRQKICLMTLIETVFVKN--IRMLSFEDISKATH  318 (393)
T ss_dssp             SSSSTTHHHHHHHHHHHTCHHHHHHHCCHHH---HHSHHHHHHHHHHHHHHHHHHHHHHHCSSS--CCCEEHHHHHHHHT
T ss_pred             cCCchHHHHHHHHHHhcCCHHHHHHHHHHhh---hhCcchhhhHHHHHHHHHHHHHHHHhccCC--CCcCcHHHHHHHhC
Confidence             578999999999999999999999875544   456888888999999999999999999775  68999999999999


Q ss_pred             CChhHHHHHHHHHhhccceEEeecCCCCEEEEEeeccccCChhhHHHHHHHHHHHHHHHHHHHHHHHhhcccccc
Q 043780          311 LSIEDVEHLLMKSLSVHLIEGIIDQVEGTVHVSWVQPRVLGIPQIKSLRDRLDSWLGKVHTALLSIEAETPDLVA  385 (386)
Q Consensus       311 i~~~eVE~lvikAi~~gLI~G~IDqv~~~v~vt~v~~R~l~~~q~~~L~~~L~~W~~~v~~~~~~l~~~~~~~~~  385 (386)
                      ||++|||.|||+||+.|+|+|+|||++|+|+|+|++||+|+++||+.|+++|..|+++|+++.+.|++++++|||
T Consensus       319 i~~~evE~lli~aI~~glI~GkIDQv~~~v~v~~~~pR~~~~~q~~~l~~~L~~W~~~v~~l~~~ve~~~~~i~v  393 (393)
T 4b4t_O          319 LPKDNVEHLVMRAISLGLLKGSIDQVNELVTISWVQPRIISGDQITKMKDRLVEWNDQVEKLGKKMEARGQSIWV  393 (393)
T ss_dssp             CCHHHHHHHHHHHHHHSCSSSCEETTTTEECC-------------------------------------------
T ss_pred             cCHHHHHHHHHHHHHcCCEEEEEcCCCCEEEEEeccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcC
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999986
>3chm_A COP9 signalosome complex subunit 7; heat/ARM repeats, winged helix motif, developmental protein, phosphoprotein; 1.50A {Arabidopsis thaliana} Back     alignment and structure
>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_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae} Back     alignment and structure
>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae} 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
>3t5x_A PCI domain-containing protein 2; PCI, mRNA nuclear export, transcription; 2.12A {Homo sapiens} 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
>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
>4b0z_A RPN12, 26S proteasome regulatory subunit RPN12; protein binding, proteasome ubitquitin; HET: SGM GOL; 1.58A {Schizosaccharomyces pombe} Back     alignment and structure
>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus} Back     alignment and structure
>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A 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
>2hzt_A Putative HTH-type transcriptional regulator YTCD; DNA-binding protein, HTH-type transcription regulators, structural genomics, PSI-2; HET: CSU MSE; 2.00A {Bacillus subtilis} SCOP: a.4.5.69 Back     alignment and structure
>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646} Back     alignment and structure
>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus} Back     alignment and structure
>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus} Back     alignment and structure
>1lj9_A Transcriptional regulator SLYA; HTH DNA binding protein, structural genomics, PSI, protein structure initiative; 1.60A {Enterococcus faecalis} SCOP: a.4.5.28 Back     alignment and structure
>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens} Back     alignment and structure
>1z7u_A Hypothetical protein EF0647; winged-helix-turn-helix, MARR, structural genomics, PSI, Pro structure initiative; 2.20A {Enterococcus faecalis} SCOP: a.4.5.69 Back     alignment and structure
>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1} 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
>3bpv_A Transcriptional regulator; MARR, DNA binding, transcription factor, winged helix motif, DNA-binding; 1.40A {Methanobacterium thermoautotrophicum} PDB: 3bpx_A* 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
>3r0a_A Putative transcriptional regulator; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; 2.31A {Methanosarcina mazei} Back     alignment and structure
>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus} Back     alignment and structure
>2kko_A Possible transcriptional regulatory protein (possibly ARSR-family); NESG, DNA-binding, transcription regulation, WHTH, homodimer; NMR {Mycobacterium bovis} PDB: 3gw2_A Back     alignment and structure
>1ku9_A Hypothetical protein MJ223; putative transcription factor, homodimeric winged-helix fold, structural genomics, PSI; 2.80A {Methanocaldococcus jannaschii} SCOP: a.4.5.36 Back     alignment and structure
>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_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
>2d1h_A ST1889, 109AA long hypothetical transcriptional regulator; helix-turn-helix, intermolecular and intramolecular S-S bond structural genomics; 2.05A {Sulfolobus tokodaii} SCOP: a.4.5.50 Back     alignment and structure
>2gxg_A 146AA long hypothetical transcriptional regulator; winged helix; 1.45A {Sulfolobus tokodaii} PDB: 2eb7_A 2yr2_A 3gez_A 3gf2_A* 3gfi_A 3gfm_A 3gfj_A 3gfl_A Back     alignment and structure
>2a61_A Transcriptional regulator TM0710; APC4350, MCSG, midwest center for structural genomics, PSI, protein structure initiative, MARR; 1.80A {Thermotoga maritima} SCOP: a.4.5.28 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
>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens} Back     alignment and structure
>2fsw_A PG_0823 protein; alpha-beta structure, helix-turn-helix, winged-helix-turn-HE structural genomics, PSI, protein structure initiative; HET: MSE; 2.16A {Porphyromonas gingivalis} SCOP: a.4.5.69 Back     alignment and structure
>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster} 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 386
d1ufma_84 a.4.5.47 (A:) COP9 signalosome complex subunit 4, 1e-04
>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 = 38.2 bits (89), Expect = 1e-04
 Identities = 9/44 (20%), Positives = 19/44 (43%)

Query: 298 RTIPLSIIAERTKLSIEDVEHLLMKSLSVHLIEGIIDQVEGTVH 341
             I    +    ++     E +  + ++   + G IDQ++G VH
Sbjct: 29  NNITFEELGALLEIPAAKAEKIASQMITEGRMNGFIDQIDGIVH 72

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query386
d1ufma_84 COP9 signalosome complex subunit 4, GSN4 {Mouse (M 98.32
d2cfxa163 Transcriptional regulator LrpC {Bacillus subtilis 92.47
d2cg4a163 Regulatory protein AsnC {Escherichia coli [TaxId: 91.78
d1i1ga160 LprA {Archaeon Pyrococcus furiosus [TaxId: 2261]} 90.81
d2cyya160 Putative transcriptional regulator PH1519 {Archaeo 90.64
d1qqea_290 Vesicular transport protein sec17 {Baker's yeast ( 89.71
d1wi9a_72 Hypothetical protein C20orf116 homolog {Mouse (Mus 89.16
d1ub9a_100 Hypothetical protein PH1061 {Archaeon Pyrococcus h 87.19
d1sfxa_109 Hypothetical protein AF2008 {Archaeoglobus fulgidu 87.12
d1ku9a_151 DNA-binding protein Mj223 {Archaeon Methanococcus 82.34
d1mkma175 Transcriptional regulator IclR, N-terminal domain 81.23
>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=98.32  E-value=4.6e-07  Score=69.40  Aligned_cols=50  Identities=18%  Similarity=0.328  Sum_probs=46.9

Q ss_pred             CCccChHHHHHHcCCChhHHHHHHHHHhhccceEEeecCCCCEEEEEeec
Q 043780          297 DRTIPLSIIAERTKLSIEDVEHLLMKSLSVHLIEGIIDQVEGTVHVSWVQ  346 (386)
Q Consensus       297 ~r~isf~~Ia~~l~i~~~eVE~lvikAi~~gLI~G~IDqv~~~v~vt~v~  346 (386)
                      ...|+++.+|+.+++|.++||.+|.+.|..|-|.|+|||++++|+++.-.
T Consensus        28 Y~~Isl~~la~~l~l~~~evE~~l~~mI~~~~i~akIDq~~g~V~F~~~e   77 (84)
T d1ufma_          28 YNNITFEELGALLEIPAAKAEKIASQMITEGRMNGFIDQIDGIVHFETRE   77 (84)
T ss_dssp             CSEEEHHHHHHHTTSCHHHHHHHHHHHHHTTSSCEEEETTTTEEEECCSS
T ss_pred             hceeeHHHHHHHHCCCHHHHHHHHHHHHhcCeEEEEEeCCCCEEEECCCC
Confidence            67899999999999999999999999999999999999999999987543
>d2cfxa1 a.4.5.32 (A:1-63) Transcriptional regulator LrpC {Bacillus subtilis [TaxId: 1423]} 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
>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
>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1wi9a_ a.4.5.47 (A:) Hypothetical protein C20orf116 homolog {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1ub9a_ a.4.5.28 (A:) Hypothetical protein PH1061 {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Back     information, alignment and structure
>d1sfxa_ a.4.5.50 (A:) Hypothetical protein AF2008 {Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d1ku9a_ a.4.5.36 (A:) DNA-binding protein Mj223 {Archaeon Methanococcus jannaschii [TaxId: 2190]} Back     information, alignment and structure
>d1mkma1 a.4.5.33 (A:1-75) Transcriptional regulator IclR, N-terminal domain {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure