Citrus Sinensis ID: 016147

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390----
MHALLLLFIIRSVYLFLQAVTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWYLVLAPHDPMQSSLLNSTLEDKNLSEIPNFRLLLKQLVTMEVIQWTSLWNTYKDEFENETNMLGGSLGAKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMNLEKLLDLVEKSCHQIHKETMVHKTALKV
cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHccccccccHHcHHHHHHHHHHHHHHccccHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHcccHHHHHHHHHHHHHcccEEEEEcccccEEEEcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccc
ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHcccEEEEHHHHHHHHHHHHHHHHcccHHHHHHHHHHccEHccccHcHHHHHHHHHHHHHHHHHcccHHHHHHHHHcccHHHHcccccccHHHHHHcccEEcccccccccHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccHHccHHHHHHHHHHHEHHHHHccccHHHHHHHHHHHHcccHHHcHHHHHHHHHHcHHHHHccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHcccHHHHHHHHHHHHHccEEEEEEcccccEEEEcccccHHHHHHHHHHHHHHHHHHHHHHccHHcHHHHHHHHHccc
MHALLLLFIIRSVYLFLQAVTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSrkisprvfdadpskekkkpkegdnvveeapadipSLLELKRIYYELMIRYYSHNNDYLEICRCYKAiyeipyikedpaqwmPVLRKICWYLvlaphdpmqssllnstledknlseipNFRLLLKQLVTMEVIQWTSLWNTYKDEFenetnmlggslgaKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAkidrpqgivCFQVAKDSNDILNSWAMNLEKLLDLVEKSCHQIHKETMVHKTALKV
MHALLLLFIIRSVYLFLQAVTAMVQQAMQYIDQTPDLDTRIELIKtlnsvsagkiyvEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQilsrkisprvfdadpskekkkpkegdnvveeapadipsllELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWYLVLAPHDPMQSSLLNSTLEDKNLSEIPNFRLLLKQLVTMEVIQWTSLWNTYKDEFENETNMLGGSLGAKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMNLEKLLDLVEKSCHQIhketmvhktalkv
MHALLLLFIIRSVYLFLqavtamvqqamqYIDQTPDLDTRIELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWYLVLAPHDPMQSSLLNSTLEDKNLSEIPNFRLLLKQLVTMEVIQWTSLWNTYKDEFENETNMLGGSLGAKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMNLEKLLDLVEKSCHQIHKETMVHKTALKV
**ALLLLFIIRSVYLFLQAVTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKI*****************************IPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWYLVLAPHD*************KNLSEIPNFRLLLKQLVTMEVIQWTSLWNTYKDEFENETNMLGGSLGAKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMNLEKLLDLVEKSCHQIHKE**********
*HALLLLFIIRSVYLFLQAVTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKE********NVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWYLVLAPHDP*********LEDKNLSEIPNFRLLLKQLVTMEVIQWTSLWNTYKDEFENETNMLGGSLGAKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMNLEKLLDLVEKSCHQIHKETMVHKTAL**
MHALLLLFIIRSVYLFLQAVTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFD****************VEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWYLVLAPHDPMQSSLLNSTLEDKNLSEIPNFRLLLKQLVTMEVIQWTSLWNTYKDEFENETNMLGGSLGAKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMNLEKLLDLVEKSCHQIHKETMVHKTALKV
*HALLLLFIIRSVYLFLQAVTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKP**GDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWYLVLAPHDPMQSSLLNSTLEDKNLSEIPNFRLLLKQLVTMEVIQWTSLWNTYKDEFENETNMLGGSLGAKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMNLEKLLDLVEKSCHQIHKETMVHKTAL**
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
SSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
SSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MHALLLLFIIRSVYLFLQAVTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWYLVLAPHDPMQSSLLNSTLEDKNLSEIPNFRLLLKQLVTMEVIQWTSLWNTYKDEFENETNMLGGSLGAKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMNLEKLLDLVEKSCHQIHKETMVHKTALKV
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 ?
Query394 2.2.26 [Sep-21-2011]
Q54UJ0447 26S proteasome non-ATPase yes no 0.875 0.771 0.431 1e-87
O00232456 26S proteasome non-ATPase yes no 0.883 0.763 0.436 1e-85
Q5RBI3456 26S proteasome non-ATPase yes no 0.883 0.763 0.436 1e-85
Q2KJ25456 26S proteasome non-ATPase yes no 0.883 0.763 0.433 4e-85
Q9D8W5456 26S proteasome non-ATPase yes no 0.883 0.763 0.428 1e-84
Q12250445 26S proteasome regulatory yes no 0.880 0.779 0.387 2e-65
Q9UTM3443 26S proteasome regulatory yes no 0.883 0.785 0.368 2e-63
Q9V345407 COP9 signalosome complex no no 0.743 0.719 0.238 3e-08
Q9N359412 COP9 signalosome complex no no 0.388 0.371 0.285 4e-07
Q54B82393 COP9 signalosome complex no no 0.200 0.201 0.365 2e-05
>sp|Q54UJ0|PSD12_DICDI 26S proteasome non-ATPase regulatory subunit 12 OS=Dictyostelium discoideum GN=psmD12 PE=2 SV=1 Back     alignment and function desciption
 Score =  323 bits (829), Expect = 1e-87,   Method: Compositional matrix adjust.
 Identities = 160/371 (43%), Positives = 243/371 (65%), Gaps = 26/371 (7%)

Query: 19  AVTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGLI 78
           A+ A+VQ++M Y+DQ  D+  ++ELI TL ++S GKI+VE ERARL K L+KIKE++G I
Sbjct: 101 AIKAIVQESMVYVDQITDMKQKLELIDTLRTISDGKIFVENERARLTKTLSKIKEDEGDI 160

Query: 79  AEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPS 138
           A AA ++Q++ VET+G M K EKI F ++Q+R+C++ +D++RAQ++  K++ +    D +
Sbjct: 161 ASAAKILQDLQVETYGTMEKREKITFFIDQMRICMNNKDFIRAQLIGNKVNRKTLAEDEN 220

Query: 139 KEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYI 198
           +                       +LK  Y++ MIRY+SH+ +Y+EI RCY +IY+ P +
Sbjct: 221 Q-----------------------DLKIDYFKQMIRYFSHSANYIEIARCYLSIYDTPSV 257

Query: 199 KEDPAQWMPVLRKICWYLVLAPHDPMQSSLLNSTLEDKNLSEIPNFRLLLKQLVTMEVIQ 258
           ++D  Q +  L+ IC Y++L+     QS LLN   E K L++I N++ LL Q  T+E+I+
Sbjct: 258 EKDTPQLLQTLKYICIYVILSASSNEQSDLLNRVYEFKPLTDIQNYKDLLNQFKTLELIR 317

Query: 259 WTSLWNTYKDEFENETNMLGGSLGAKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLC 318
           W++ +   K E +++T          A EDLR+R+IEHNI V+S YY +I+  RLAELL 
Sbjct: 318 WSTFFELNKPELDSQTVF---KTEPNAWEDLRKRVIEHNIRVISTYYQKISTARLAELLD 374

Query: 319 LSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMNLEKLLDLVEKSC 378
           LS+ E+EK +SD+V +K + AKIDRP GI  F    D N +LN+WA N+  LLDLVEK+ 
Sbjct: 375 LSLDESEKFVSDLVSNKTIFAKIDRPAGIATFTTTNDPNKVLNAWANNITSLLDLVEKTN 434

Query: 379 HQIHKETMVHK 389
           H + +E M+HK
Sbjct: 435 HLVQREFMLHK 445
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|O00232|PSD12_HUMAN 26S proteasome non-ATPase regulatory subunit 12 OS=Homo sapiens GN=PSMD12 PE=1 SV=3 Back     alignment and function description
>sp|Q5RBI3|PSD12_PONAB 26S proteasome non-ATPase regulatory subunit 12 OS=Pongo abelii GN=PSMD12 PE=2 SV=3 Back     alignment and function description
>sp|Q2KJ25|PSD12_BOVIN 26S proteasome non-ATPase regulatory subunit 12 OS=Bos taurus GN=PSMD12 PE=2 SV=3 Back     alignment and function description
>sp|Q9D8W5|PSD12_MOUSE 26S proteasome non-ATPase regulatory subunit 12 OS=Mus musculus GN=Psmd12 PE=1 SV=4 Back     alignment and function description
>sp|Q12250|RPN5_YEAST 26S proteasome regulatory subunit RPN5 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RPN5 PE=1 SV=3 Back     alignment and function description
>sp|Q9UTM3|RPN5_SCHPO 26S proteasome regulatory subunit rpn5 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rpn5a PE=1 SV=1 Back     alignment and function description
>sp|Q9V345|CSN4_DROME COP9 signalosome complex subunit 4 OS=Drosophila melanogaster GN=CSN4 PE=1 SV=1 Back     alignment and function description
>sp|Q9N359|CSN4_CAEEL COP9 signalosome complex subunit 4 OS=Caenorhabditis elegans GN=csn-4 PE=1 SV=1 Back     alignment and function description
>sp|Q54B82|CSN4_DICDI COP9 signalosome complex subunit 4 OS=Dictyostelium discoideum GN=csn4 PE=2 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query394
118487751442 unknown [Populus trichocarpa] 0.956 0.852 0.941 0.0
224093940442 predicted protein [Populus trichocarpa] 0.956 0.852 0.941 0.0
224081300442 predicted protein [Populus trichocarpa] 0.956 0.852 0.923 0.0
356512782441 PREDICTED: 26S proteasome non-ATPase reg 0.954 0.852 0.917 0.0
356525563441 PREDICTED: 26S proteasome non-ATPase reg 0.954 0.852 0.915 0.0
192912954440 26S proteasome subunit RPN5b [Elaeis gui 0.954 0.854 0.933 0.0
356509020443 PREDICTED: 26S proteasome non-ATPase reg 0.954 0.848 0.896 0.0
225438483442 PREDICTED: 26S proteasome non-ATPase reg 0.956 0.852 0.923 0.0
296082542460 unnamed protein product [Vitis vinifera] 0.956 0.819 0.923 0.0
356516317443 PREDICTED: 26S proteasome non-ATPase reg 0.954 0.848 0.888 0.0
>gi|118487751|gb|ABK95699.1| unknown [Populus trichocarpa] Back     alignment and taxonomy information
 Score =  731 bits (1886), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 355/377 (94%), Positives = 366/377 (97%)

Query: 18  QAVTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGL 77
           QAVTAMVQQAMQYID+T DLDTRIELIKTLNSVSAGKIYVEIERARLI+KLAKIKEEQGL
Sbjct: 66  QAVTAMVQQAMQYIDETLDLDTRIELIKTLNSVSAGKIYVEIERARLIRKLAKIKEEQGL 125

Query: 78  IAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADP 137
           IAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDAD 
Sbjct: 126 IAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADA 185

Query: 138 SKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPY 197
           SKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSH+NDYLEICRCYKAIYEIP 
Sbjct: 186 SKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHDNDYLEICRCYKAIYEIPP 245

Query: 198 IKEDPAQWMPVLRKICWYLVLAPHDPMQSSLLNSTLEDKNLSEIPNFRLLLKQLVTMEVI 257
           +KE+PAQW+PVLRKICWYLVLAPHDPMQSSLLNSTLEDKNLSEI NF+LLLKQLVTMEVI
Sbjct: 246 VKENPAQWIPVLRKICWYLVLAPHDPMQSSLLNSTLEDKNLSEISNFKLLLKQLVTMEVI 305

Query: 258 QWTSLWNTYKDEFENETNMLGGSLGAKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELL 317
           QWTSLWN + DEFENE N+LGGSLG KAAEDL+QRIIEHNILVVSKYYSRIT+KRLAELL
Sbjct: 306 QWTSLWNAFMDEFENEKNLLGGSLGDKAAEDLKQRIIEHNILVVSKYYSRITVKRLAELL 365

Query: 318 CLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMNLEKLLDLVEKS 377
           CLSIQEAEKHLSDMVVSKALVAKIDRP GIV FQVAKDSNDILNSWAMNLEKLLDLVEKS
Sbjct: 366 CLSIQEAEKHLSDMVVSKALVAKIDRPMGIVSFQVAKDSNDILNSWAMNLEKLLDLVEKS 425

Query: 378 CHQIHKETMVHKTALKV 394
           CHQIHKETMVHK ALKV
Sbjct: 426 CHQIHKETMVHKAALKV 442

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224093940|ref|XP_002310051.1| predicted protein [Populus trichocarpa] gi|222852954|gb|EEE90501.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224081300|ref|XP_002306365.1| predicted protein [Populus trichocarpa] gi|222855814|gb|EEE93361.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356512782|ref|XP_003525095.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 12-like [Glycine max] Back     alignment and taxonomy information
>gi|356525563|ref|XP_003531394.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 12-like [Glycine max] Back     alignment and taxonomy information
>gi|192912954|gb|ACF06585.1| 26S proteasome subunit RPN5b [Elaeis guineensis] Back     alignment and taxonomy information
>gi|356509020|ref|XP_003523250.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 12-like [Glycine max] Back     alignment and taxonomy information
>gi|225438483|ref|XP_002278249.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 12-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|296082542|emb|CBI21547.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|356516317|ref|XP_003526842.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 12-like [Glycine max] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query394
TAIR|locus:2176100442 RPN5B "AT5G64760" [Arabidopsis 0.923 0.823 0.848 2.9e-167
TAIR|locus:2178138462 EMB2107 "AT5G09900" [Arabidops 0.677 0.577 0.865 2.1e-123
DICTYBASE|DDB_G0281051447 psmD12 "26S proteasome non-ATP 0.568 0.501 0.458 9.5e-80
ZFIN|ZDB-GENE-030131-617456 psmd12 "proteasome (prosome, m 0.852 0.736 0.453 3.9e-76
UNIPROTKB|F1NPQ0456 LOC100859465 "Uncharacterized 0.852 0.736 0.439 2.1e-75
UNIPROTKB|O00232456 PSMD12 "26S proteasome non-ATP 0.852 0.736 0.439 5.7e-75
UNIPROTKB|Q5RBI3456 PSMD12 "26S proteasome non-ATP 0.852 0.736 0.439 5.7e-75
UNIPROTKB|F1RSM2456 PSMD12 "Uncharacterized protei 0.852 0.736 0.439 9.3e-75
UNIPROTKB|Q2KJ25456 PSMD12 "26S proteasome non-ATP 0.852 0.736 0.439 1.2e-74
RGD|1359305456 Psmd12 "proteasome (prosome, m 0.852 0.736 0.431 4e-74
TAIR|locus:2176100 RPN5B "AT5G64760" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1627 (577.8 bits), Expect = 2.9e-167, P = 2.9e-167
 Identities = 309/364 (84%), Positives = 343/364 (94%)

Query:    30 YIDQTPDLDTRIELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVA 89
             YIDQT D++TRIELIKTLN+V+AGKIYVEIERARL K LAKIKEEQGLIAEAADLMQEVA
Sbjct:    78 YIDQTLDIETRIELIKTLNNVAAGKIYVEIERARLTKMLAKIKEEQGLIAEAADLMQEVA 137

Query:    90 VETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDN 149
             VETFGAMAKTEKIAFILEQVRLCLD++D+VRAQILSRKI+PRVFDAD +KEKKKPKEG+N
Sbjct:   138 VETFGAMAKTEKIAFILEQVRLCLDQKDFVRAQILSRKINPRVFDADTTKEKKKPKEGEN 197

Query:   150 VVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVL 209
             +VEEAPADIP+LL LKRIYYELMIRYYSHNN+Y+EICR YKAIY+IP +KE+P QW+PVL
Sbjct:   198 MVEEAPADIPTLLVLKRIYYELMIRYYSHNNEYIEICRSYKAIYDIPSVKENPEQWIPVL 257

Query:   210 RKICWYLVLAPHDPMQSSLLNSTLEDKNLSEIPNFRLLLKQLVTMEVIQWTSLWNTYKDE 269
             RKICW+L LAPHDPMQSSLLN+TLEDK LSEIP+F++LLKQ+VTMEVIQWTSLWN YKDE
Sbjct:   258 RKICWFLALAPHDPMQSSLLNATLEDKKLSEIPDFKMLLKQIVTMEVIQWTSLWNKYKDE 317

Query:   270 FENETNMLGGSLGAKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLS 329
             FENE NM+GGSLG KA EDL+ RIIEHNILVVSKYYSRIT KRLAELLCL+ +EAEKHLS
Sbjct:   318 FENEKNMIGGSLGDKAGEDLKLRIIEHNILVVSKYYSRITFKRLAELLCLTTEEAEKHLS 377

Query:   330 DMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMNLEKLLDLVEKSCHQIHKETMVHK 389
             +MVVSKAL+AKIDRP GI+CFQ+ KDSN+ILNSWA NLEKLLDLVEKSCHQIHKETMVHK
Sbjct:   378 EMVVSKALIAKIDRPSGIICFQIVKDSNEILNSWATNLEKLLDLVEKSCHQIHKETMVHK 437

Query:   390 TALK 393
              AL+
Sbjct:   438 VALR 441
GO:0003674 "molecular_function" evidence=ND
GO:0005634 "nucleus" evidence=ISM;IDA;TAS
GO:0008541 "proteasome regulatory particle, lid subcomplex" evidence=ISS
GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=TAS
GO:0030163 "protein catabolic process" evidence=TAS
GO:0005737 "cytoplasm" evidence=IDA
GO:0007275 "multicellular organismal development" evidence=IMP
GO:0000502 "proteasome complex" evidence=IDA
GO:0006635 "fatty acid beta-oxidation" evidence=RCA
GO:0009407 "toxin catabolic process" evidence=RCA
GO:0042023 "DNA endoreduplication" evidence=RCA
GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=RCA
GO:0043248 "proteasome assembly" evidence=RCA
GO:0051510 "regulation of unidimensional cell growth" evidence=RCA
GO:0051788 "response to misfolded protein" evidence=RCA
GO:0080129 "proteasome core complex assembly" evidence=RCA
TAIR|locus:2178138 EMB2107 "AT5G09900" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0281051 psmD12 "26S proteasome non-ATPase regulatory subunit 12" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-030131-617 psmd12 "proteasome (prosome, macropain) 26S subunit, non-ATPase, 12" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|F1NPQ0 LOC100859465 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|O00232 PSMD12 "26S proteasome non-ATPase regulatory subunit 12" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|Q5RBI3 PSMD12 "26S proteasome non-ATPase regulatory subunit 12" [Pongo abelii (taxid:9601)] Back     alignment and assigned GO terms
UNIPROTKB|F1RSM2 PSMD12 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|Q2KJ25 PSMD12 "26S proteasome non-ATPase regulatory subunit 12" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
RGD|1359305 Psmd12 "proteasome (prosome, macropain) 26S subunit, non-ATPase, 12" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
estExt_fgenesh4_pg.C_LG_VII0646
SubName- Full=Putative uncharacterized protein; (442 aa)
(Populus trichocarpa)
Predicted Functional Partners:
estExt_fgenesh4_pg.C_LG_VIII0552
hypothetical protein (311 aa)
   •••• 0.698
estExt_fgenesh4_pm.C_LG_X0754
SubName- Full=Putative uncharacterized protein; (311 aa)
   •••• 0.691
estExt_fgenesh4_pg.C_LG_II1158
hypothetical protein (310 aa)
   •••• 0.687
eugene3.00150698
hypothetical protein (386 aa)
   •••• 0.685
estExt_fgenesh4_pm.C_400098
SubName- Full=Putative uncharacterized protein; (312 aa)
   •••• 0.685
eugene3.00120862
hypothetical protein (386 aa)
   •••• 0.677
estExt_fgenesh4_pg.C_290270
hypothetical protein (386 aa)
   •••• 0.659
grail3.0018005001
hypothetical protein (387 aa)
   •••• 0.636
estExt_fgenesh4_pg.C_LG_I0773
SubName- Full=Putative uncharacterized protein; (267 aa)
   •••• 0.550
estExt_fgenesh4_pm.C_LG_VII0034
hypothetical protein (890 aa)
   •••• 0.548

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 ?
Query394
COG5071439 COG5071, RPN5, 26S proteasome regulatory complex c 2e-85
pfam01399100 pfam01399, PCI, PCI domain 3e-17
smart0075388 smart00753, PAM, PCI/PINT associated module 3e-12
smart0008888 smart00088, PINT, motif in proteasome subunits, In 3e-12
>gnl|CDD|227403 COG5071, RPN5, 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information 
 Score =  266 bits (680), Expect = 2e-85
 Identities = 140/371 (37%), Positives = 214/371 (57%), Gaps = 23/371 (6%)

Query: 18  QAVTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGL 77
           Q++T+M+Q  M+Y+    DL T+I LI+TL +V+ GKI+VE+ERARL + L++IKEEQG 
Sbjct: 87  QSITSMIQHVMEYLKGIDDLKTKINLIETLRTVTEGKIFVEVERARLTQLLSQIKEEQGD 146

Query: 78  IAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADP 137
           I  A D++    VET+G+   +EK+AFILEQVRL L R DY  A   ++KI+ + F+   
Sbjct: 147 IKSAQDILCNEPVETYGSFDLSEKVAFILEQVRLFLLRSDYYMASTYTKKINKKFFEK-- 204

Query: 138 SKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPY 197
                                  +  LK  YYEL +R   H+  YL++C+ Y+A+Y+   
Sbjct: 205 ---------------------EDVQSLKLKYYELKVRIGLHDRAYLDVCKYYRAVYDTAV 243

Query: 198 IKEDPAQWMPVLRKICWYLVLAPHDPMQSSLLNSTLEDKNLSEIPNFRLLLKQLVTMEVI 257
           ++EDPA+W  VL  +  + +L P+D  Q+ LL+    D  L+ +P  + L+K  +  E++
Sbjct: 244 VQEDPAKWKEVLSNVVCFALLTPYDNEQADLLHKINADHKLNSLPLLQQLVKCFIVNELM 303

Query: 258 QWTSLWNTYKDEFENETNMLGGSLGAKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELL 317
           +W  +   Y     +         G K   DLR+R+IEHNI V++ YYSRI   RL  LL
Sbjct: 304 RWPKVAEIYGSALRSNVFAFNDEKGEKRWSDLRKRVIEHNIRVIANYYSRIHCSRLGVLL 363

Query: 318 CLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMNLEKLLDLVEKS 377
            +S  E E+ +SD+V      AKI+RP  I+ F+ +++  + LN W  N+ +LL  +EK 
Sbjct: 364 DMSPSETEQFISDLVNKGHFYAKINRPAQIISFEKSQNVQEQLNEWGSNVTELLGKLEKV 423

Query: 378 CHQIHKETMVH 388
            H I KE M++
Sbjct: 424 RHLIIKEEMMN 434

Length = 439
>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 394
KOG1498439 consensus 26S proteasome regulatory complex, subun 100.0
COG5071439 RPN5 26S proteasome regulatory complex component [ 100.0
KOG1497399 consensus COP9 signalosome, subunit CSN4 [Posttran 100.0
KOG0687393 consensus 26S proteasome regulatory complex, subun 99.97
KOG1464440 consensus COP9 signalosome, subunit CSN2 [Posttran 99.92
COG5187412 RPN7 26S proteasome regulatory complex component, 99.91
KOG1463411 consensus 26S proteasome regulatory complex, subun 99.85
COG5159421 RPN6 26S proteasome regulatory complex component [ 99.71
PF01399105 PCI: PCI domain; InterPro: IPR000717 A homology do 99.65
KOG0686466 consensus COP9 signalosome, subunit CSN1 [Posttran 99.57
smart0075388 PAM PCI/PINT associated module. 99.49
smart0008888 PINT motif in proteasome subunits, Int-6, Nip-1 an 99.49
KOG2908380 consensus 26S proteasome regulatory complex, subun 99.36
PF10602177 RPN7: 26S proteasome subunit RPN7; InterPro: IPR01 99.27
KOG2581493 consensus 26S proteasome regulatory complex, subun 99.09
KOG2582422 consensus COP9 signalosome, subunit CSN3 [Posttran 98.66
KOG2758432 consensus Translation initiation factor 3, subunit 97.96
KOG1076843 consensus Translation initiation factor 3, subunit 97.71
KOG2753378 consensus Uncharacterized conserved protein, conta 97.57
PF10255404 Paf67: RNA polymerase I-associated factor PAF67; I 96.65
KOG2072 988 consensus Translation initiation factor 3, subunit 96.62
PF10075143 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro 95.7
PF09976145 TPR_21: Tetratricopeptide repeat; InterPro: IPR018 95.59
COG2956389 Predicted N-acetylglucosaminyl transferase [Carboh 94.84
PF0901269 FeoC: FeoC like transcriptional regulator; InterPr 93.66
KOG2688394 consensus Transcription-associated recombination p 93.22
COG3107 604 LppC Putative lipoprotein [General function predic 92.76
KOG2076 895 consensus RNA polymerase III transcription factor 92.43
COG5600413 Transcription-associated recombination protein [DN 92.06
PF14938282 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1 91.95
PF08784102 RPA_C: Replication protein A C terminal; InterPro: 91.95
PF14938282 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1 90.5
PF04348 536 LppC: LppC putative lipoprotein; InterPro: IPR0074 90.38
PF09295395 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter 89.65
PF1342478 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15 89.58
TIGR02795119 tol_pal_ybgF tol-pal system protein YbgF. Members 88.88
PF09976145 TPR_21: Tetratricopeptide repeat; InterPro: IPR018 88.74
PF09756188 DDRGK: DDRGK domain; InterPro: IPR019153 This is a 87.97
PF1343265 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL 87.17
PF04733290 Coatomer_E: Coatomer epsilon subunit; InterPro: IP 86.47
cd00189100 TPR Tetratricopeptide repeat domain; typically con 85.15
KOG1586288 consensus Protein required for fusion of vesicles 83.75
PRK11788389 tetratricopeptide repeat protein; Provisional 83.44
PRK11788389 tetratricopeptide repeat protein; Provisional 82.75
PF1289584 Apc3: Anaphase-promoting complex, cyclosome, subun 82.44
PF1455968 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN 82.35
cd0009078 HTH_ARSR Arsenical Resistance Operon Repressor and 81.52
PF1280262 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP 80.48
>KOG1498 consensus 26S proteasome regulatory complex, subunit RPN5/PSMD12 [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information 
Probab=100.00  E-value=2e-103  Score=759.89  Aligned_cols=365  Identities=57%  Similarity=0.879  Sum_probs=353.7

Q ss_pred             HHHHHHhhhchhHHHHHHHHHHHHHhccCCCChHHHHHHHHHhhhhcCCcchHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Q 016147            5 LLLFIIRSVYLFLQAVTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADL   84 (394)
Q Consensus         5 ~~~~l~k~r~q~k~ai~~~v~~~~~~~~~~~d~~~k~~~i~~L~~vt~gki~~E~era~l~~~La~i~e~~gd~~eAa~i   84 (394)
                      .+.+|||||||+|+||++|||+||+|+|++||.++|+++|+|||+||+||||||+||||+|..||+++|++||+.+||++
T Consensus        74 ~i~~Lskkrgqlk~ai~~Mvq~~~~y~~~~~d~~~k~~li~tLr~VtegkIyvEvERarlTk~L~~ike~~Gdi~~Aa~i  153 (439)
T KOG1498|consen   74 QIRLLSKKRGQLKQAIQSMVQQAMTYIDGTPDLETKIKLIETLRTVTEGKIYVEVERARLTKMLAKIKEEQGDIAEAADI  153 (439)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHhccCCCCchhHHHHHHHHHHhhcCceEEeehHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            36789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhhhhcccCcHHHHHHHHHHHHHHHhccCChHHHHHHHHhhCccccCCCCccccCCCCCCCcccccCCCCccchHHH
Q 016147           85 MQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLEL  164 (394)
Q Consensus        85 L~~i~vEt~~~m~~~eK~e~~Leq~rL~L~~~D~~~a~~~~~Ki~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~  164 (394)
                      |+++||||||+|+.+||++|+||||||||.++||++|+++++||+.++|+.+                       +.+++
T Consensus       154 l~el~VETygsm~~~ekV~fiLEQmrKOG~~~D~vra~i~skKI~~K~F~~~-----------------------~~~~l  210 (439)
T KOG1498|consen  154 LCELQVETYGSMEKSEKVAFILEQMRLCLLRLDYVRAQIISKKINKKFFEKP-----------------------DVQEL  210 (439)
T ss_pred             HHhcchhhhhhhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhHHhcCCc-----------------------cHHHH
Confidence            9999999999999999999999999999999999999999999999999753                       56899


Q ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHhccCCCCCChhcHHHHHHHHHHHHHhCCCChhchHhhhhhhcccCcCCChhH
Q 016147          165 KRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWYLVLAPHDPMQSSLLNSTLEDKNLSEIPNF  244 (394)
Q Consensus       165 klk~~~~~~~~~~~~~~flea~k~y~ei~~t~~i~~d~~~~~~~L~~av~~~ILap~~~~rs~ll~~l~~d~~l~~ip~~  244 (394)
                      |++||++|++++.|++.||++|++|+++|+||.+++||++|..+|.++|+|++|||++|+|+++++++..|+.++++|.|
T Consensus       211 KlkyY~lmI~l~lh~~~Yl~v~~~Yraiy~t~~vk~d~~kw~~vL~~iv~f~~LAp~dneQsdll~~is~dKkL~e~p~~  290 (439)
T KOG1498|consen  211 KLKYYELMIRLGLHDRAYLNVCRSYRAIYDTGNVKEDPEKWIEVLRSIVSFCVLAPHDNEQSDLLARISNDKKLSELPDY  290 (439)
T ss_pred             HHHHHHHHHHhcccccchhhHHHHHHHHhcccccccChhhhhhhhhhheeEEeecCCCcHHHHHHHHHhcccccccCccH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcchhcccchhhHHHHHHhhhhhhhhcCCchhhhhHHHHHHHHHHHHHHHHHhhcCcccHHHHHHHhCCCHHHH
Q 016147          245 RLLLKQLVTMEVIQWTSLWNTYKDEFENETNMLGGSLGAKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEA  324 (394)
Q Consensus       245 ~~L~k~f~~~eli~~~~~~~~~~~~l~~~~~~~~d~~~~~~~~~L~~~viEHNI~visk~Y~~Isl~rLa~lL~ls~~e~  324 (394)
                      ..++++|++.+|++|+.+.+.|++.+.....+..+..|++||++|+.||+|||||++++||+|||+.|||+++|+|++++
T Consensus       291 k~lLklfv~~EL~rw~s~~~~yg~~l~~~~~~~~~~~gek~~~dL~~RIiEHNiRiiA~yYSrIt~~rl~eLLdl~~ee~  370 (439)
T KOG1498|consen  291 KELLKLFVTMELIRWVSLVESYGDELRTNDFFDGGEEGEKRWSDLKLRIIEHNIRIIAKYYSRITLKRLAELLDLPVEEM  370 (439)
T ss_pred             HHHHHHHHhcceeeehhHhhhhHHHHhhcccccccchhhhHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHhCCCHHHH
Confidence            99999999999999998889999999876434455679999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhHhcCcEEEEeccCCCEEEEecCCChHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHhhhhcc
Q 016147          325 EKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMNLEKLLDLVEKSCHQIHKETMVHKTAL  392 (394)
Q Consensus       325 E~~ls~MI~~g~l~akIDq~~giV~F~~~k~~~~~L~~W~~~I~~l~~~V~k~~~lI~ke~~~~~~~~  392 (394)
                      |++||+||+.|+++||||||+|||.|..++++++.||+|+.|+.+|+++++|+||||+||+|||+++.
T Consensus       371 E~~LS~lv~t~ti~aKidrpsgII~F~k~K~~~~~LneW~~nve~L~~ll~K~~HLI~KEemmhsi~~  438 (439)
T KOG1498|consen  371 EKFLSDLVVTGTIYAKIDRPSGIINFQKVKDSNEILNEWASNVEKLLGLLEKVSHLIHKEEMMHSIQK  438 (439)
T ss_pred             HHHHHHHHhccceEEEecCCCceEEEEecccHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999999999999999999864

>COG5071 RPN5 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones] 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
>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms] 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
>KOG1463 consensus 26S proteasome regulatory complex, subunit RPN6/PSMD11 [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
>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
>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms] 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
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones] 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
>KOG2581 consensus 26S proteasome regulatory complex, subunit RPN3/PSMD3 [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
>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
>KOG2753 consensus Uncharacterized conserved protein, contains PCI domain [General function prediction only] 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
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis] 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
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function Back     alignment and domain information
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism] 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
>KOG2688 consensus Transcription-associated recombination protein - Thp1p [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>COG3107 LppC Putative lipoprotein [General function prediction only] Back     alignment and domain information
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription] Back     alignment and domain information
>COG5600 Transcription-associated recombination protein [DNA replication, recombination, and repair] Back     alignment and domain information
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A 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
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A Back     alignment and domain information
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown Back     alignment and domain information
>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi Back     alignment and domain information
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H Back     alignment and domain information
>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF Back     alignment and domain information
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function 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
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B Back     alignment and domain information
>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment Back     alignment and domain information
>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C Back     alignment and domain information
>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PRK11788 tetratricopeptide repeat protein; Provisional Back     alignment and domain information
>PRK11788 tetratricopeptide repeat protein; Provisional Back     alignment and domain information
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A Back     alignment and domain information
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A Back     alignment and domain information
>cd00090 HTH_ARSR Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors 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

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query394
4b4t_P445 Near-Atomic Resolution Structural Model Of The Yeas 2e-64
1ufm_A84 Solution Structure Of The Pci Domain Length = 84 3e-05
>pdb|4B4T|P Chain P, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 445 Back     alignment and structure 
Iteration: 1

 Score =  242 bits (618), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 140/353 (39%), Positives = 216/353 (61%), Gaps = 23/353 (6%)
Query: 36  DLDTRIELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGA 95
           DL+TRI +I+T+  V+  KI+VE+ERAR+ K L +IK+E+G I EAAD++ E+ VET+G+
Sbjct: 111 DLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGS 170
Query: 96  MAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAP 155
           M  +EKI FILEQ+ L + + DY +A +LSRKI  + F        K PK          
Sbjct: 171 MEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTF--------KNPKYES------- 215
Query: 156 ADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWY 215
                   LK  YY L+++   H  +YLE+ +  + IY+   IK D A+W PVL  I ++
Sbjct: 216 --------LKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIVYF 267
Query: 216 LVLAPHDPMQSSLLNSTLEDKNLSEIPNFRLLLKQLVTMEVIQWTSLWNTYKDEFENETN 275
           LVL+P+  +Q+ L++    D NL ++ +   L+K   T E+++W  +  TY+     +  
Sbjct: 268 LVLSPYGNLQNDLIHKIQNDNNLKKLESQESLVKLFTTNELMRWPIVQKTYEPVLNEDDL 327
Query: 276 MLGGSLGAKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSK 335
             GG       EDL++R+IEHN+ V+S+YYSRITL RL ELL L+  + E ++SD+V   
Sbjct: 328 AFGGEANKHHWEDLQKRVIEHNLRVISEYYSRITLLRLNELLDLTESQTETYISDLVNQG 387
Query: 336 ALVAKIDRPQGIVCFQVAKDSNDILNSWAMNLEKLLDLVEKSCHQIHKETMVH 388
            + AK++RP  IV F+  K+S+ +LN W+ N+++LL+ +E   H I KE ++H
Sbjct: 388 IIYAKVNRPAKIVNFEKPKNSSQLLNEWSHNVDELLEHIETIGHLITKEEIMH 440
>pdb|1UFM|A Chain A, Solution Structure Of The Pci Domain Length = 84 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query394
1ufm_A84 COP9 complex subunit 4; helix-turn-helix, structur 9e-30
3txn_A394 26S proteasome regulatory complex subunit P42B; PC 2e-21
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-09
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 5e-05
>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
 Score =  109 bits (273), Expect = 9e-30
 Identities = 28/81 (34%), Positives = 42/81 (51%)

Query: 278 GGSLGAKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKAL 337
           G S  +  +  L + +IEHN+L  SK Y+ IT + L  LL +   +AEK  S M+    +
Sbjct: 1   GSSGSSGGSSILDRAVIEHNLLSASKLYNNITFEELGALLEIPAAKAEKIASQMITEGRM 60

Query: 338 VAKIDRPQGIVCFQVAKDSND 358
              ID+  GIV F+  + S  
Sbjct: 61  NGFIDQIDGIVHFETREASGP 81
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query394
4b4t_P445 26S proteasome regulatory subunit RPN5; hydrolase, 100.0
4b4t_R429 RPN7, 26S proteasome regulatory subunit RPN7; hydr 100.0
4b4t_Q434 26S proteasome regulatory subunit RPN6; hydrolase, 100.0
3txn_A394 26S proteasome regulatory complex subunit P42B; PC 100.0
4b4t_O393 26S proteasome regulatory subunit RPN9; hydrolase, 99.86
1ufm_A84 COP9 complex subunit 4; helix-turn-helix, structur 99.85
4b4t_S523 RPN3, 26S proteasome regulatory subunit RPN3; hydr 99.74
3t5x_A203 PCI domain-containing protein 2; PCI, mRNA nuclear 99.12
3t5v_B455 Nuclear mRNA export protein THP1; PCI, mRNA nuclea 98.71
3chm_A169 COP9 signalosome complex subunit 7; heat/ARM repea 97.7
4b0z_A229 RPN12, 26S proteasome regulatory subunit RPN12; pr 97.56
3ro3_A164 PINS homolog, G-protein-signaling modulator 2; asy 96.63
3ro3_A164 PINS homolog, G-protein-signaling modulator 2; asy 95.91
3sf4_A406 G-protein-signaling modulator 2; tetratricopeptide 95.77
3ro2_A338 PINS homolog, G-protein-signaling modulator 2; TPR 95.4
3ro2_A338 PINS homolog, G-protein-signaling modulator 2; TPR 95.37
3ulq_A383 Response regulator aspartate phosphatase F; tetrat 95.2
1elr_A131 TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp 95.19
3gw4_A203 Uncharacterized protein; structural genomics, PSI- 94.98
4a1s_A411 PINS, partner of inscuteable; cell cycle, LGN, mit 94.95
3sf4_A406 G-protein-signaling modulator 2; tetratricopeptide 94.85
4ga2_A150 E3 SUMO-protein ligase ranbp2; TPR motif, nuclear 94.72
1qqe_A292 Vesicular transport protein SEC17; helix-turn-heli 94.64
4a1s_A411 PINS, partner of inscuteable; cell cycle, LGN, mit 94.59
3gw4_A203 Uncharacterized protein; structural genomics, PSI- 94.13
2ifu_A307 Gamma-SNAP; membrane fusion, snare complex disasse 93.76
4gcn_A127 Protein STI-1; structural genomics, PSI-biology, m 93.72
3q15_A378 PSP28, response regulator aspartate phosphatase H; 93.68
1elw_A118 TPR1-domain of HOP; HOP, TPR-domain, peptide-compl 93.53
2qfc_A293 PLCR protein; TPR, HTH, transcription regulation; 93.38
4b4t_Q434 26S proteasome regulatory subunit RPN6; hydrolase, 93.3
3vtx_A184 MAMA; tetratricopeptide repeats (TPR) containing p 93.16
3nf1_A311 KLC 1, kinesin light chain 1; TPR, structural geno 93.13
3uq3_A258 Heat shock protein STI1; HSP90, peptide binding, c 93.12
3mkr_A291 Coatomer subunit epsilon; tetratricopeptide repeat 92.97
3edt_B283 KLC 2, kinesin light chain 2; superhelical, struct 92.97
4ga2_A150 E3 SUMO-protein ligase ranbp2; TPR motif, nuclear 92.91
1a17_A166 Serine/threonine protein phosphatase 5; hydrolase, 92.81
3ulq_A383 Response regulator aspartate phosphatase F; tetrat 92.78
3u3w_A293 Transcriptional activator PLCR protein; ternary co 92.44
2lni_A133 Stress-induced-phosphoprotein 1; structural genomi 92.19
3sz7_A164 HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G 92.1
3mv2_B310 Coatomer subunit epsilon; vesicular membrane coat 91.98
2dba_A148 Smooth muscle cell associated protein-1, isoform 2 91.87
3upv_A126 Heat shock protein STI1; TPR-fold, adaptor protein 91.65
3nf1_A311 KLC 1, kinesin light chain 1; TPR, structural geno 91.48
4gco_A126 Protein STI-1; structural genomics, PSI-biology, m 91.36
3edt_B283 KLC 2, kinesin light chain 2; superhelical, struct 91.07
3uq3_A258 Heat shock protein STI1; HSP90, peptide binding, c 91.05
2y4t_A450 DNAJ homolog subfamily C member 3; chaperone, endo 91.0
3q49_B137 STIP1 homology and U box-containing protein 1; E3 90.92
3u4t_A272 TPR repeat-containing protein; structural genomics 90.74
2ifu_A307 Gamma-SNAP; membrane fusion, snare complex disasse 90.7
1na0_A125 Designed protein CTPR3; de novo protein; HET: IPT; 90.36
4i17_A228 Hypothetical protein; TPR repeats protein, structu 90.14
2fbn_A198 70 kDa peptidylprolyl isomerase, putative; sulfur 90.0
2e2e_A177 Formate-dependent nitrite reductase complex NRFG; 89.84
2ho1_A252 Type 4 fimbrial biogenesis protein PILF; type IV p 89.77
3u3w_A293 Transcriptional activator PLCR protein; ternary co 89.58
2vyi_A131 SGTA protein; chaperone, TPR repeat, phosphoprotei 89.32
2xev_A129 YBGF; tetratricopeptide, alpha-helical, metal bind 89.28
3rkv_A162 Putative peptidylprolyl isomerase; structural geno 89.24
3as5_A186 MAMA; tetratricopeptide repeats (TPR) containing p 89.18
2q7f_A243 YRRB protein; TPR, protein binding; 2.49A {Bacillu 88.98
3q15_A378 PSP28, response regulator aspartate phosphatase H; 88.92
2vq2_A225 PILW, putative fimbrial biogenesis and twitching m 88.92
2kck_A112 TPR repeat; tetratricopeptide repeat, structural g 88.69
3ieg_A359 DNAJ homolog subfamily C member 3; TPR motif, chap 88.58
2qfc_A293 PLCR protein; TPR, HTH, transcription regulation; 88.48
3mkr_A291 Coatomer subunit epsilon; tetratricopeptide repeat 88.37
2xcb_A142 PCRH, regulatory protein PCRH; protein transport, 88.34
2fo7_A136 Synthetic consensus TPR protein; tetratricopeptide 88.34
2vgx_A148 Chaperone SYCD; alternative dimer assembly, tetrat 88.27
2fo7_A136 Synthetic consensus TPR protein; tetratricopeptide 88.2
1sfx_A109 Conserved hypothetical protein AF2008; structural 87.97
1wi9_A72 Protein C20ORF116 homolog; helix-turn-helix motif, 87.76
3ieg_A359 DNAJ homolog subfamily C member 3; TPR motif, chap 87.67
1a17_A166 Serine/threonine protein phosphatase 5; hydrolase, 87.55
3as5_A186 MAMA; tetratricopeptide repeats (TPR) containing p 87.15
1ihg_A370 Cyclophilin 40; ppiase immunophilin tetratricopept 86.94
1p5q_A336 FKBP52, FK506-binding protein 4; isomerase; 2.80A 86.6
2xpi_A597 Anaphase-promoting complex subunit CUT9; cell cycl 86.33
3hym_B330 Cell division cycle protein 16 homolog; APC, anaph 86.1
4gyw_A 723 UDP-N-acetylglucosamine--peptide N- acetylglucosam 86.06
2y4t_A450 DNAJ homolog subfamily C member 3; chaperone, endo 85.54
1rz4_A226 Eukaryotic translation initiation factor 3 subuni; 85.48
1ub9_A100 Hypothetical protein PH1061; helix-turn-helix moti 85.23
3cv0_A327 Peroxisome targeting signal 1 receptor PEX5; TPR m 85.19
4eqf_A365 PEX5-related protein; accessory protein, tetratric 84.52
4b4t_T274 26S proteasome regulatory subunit RPN12; hydrolase 84.43
2c2l_A281 CHIP, carboxy terminus of HSP70-interacting protei 84.31
3hym_B330 Cell division cycle protein 16 homolog; APC, anaph 84.15
2gw1_A514 Mitochondrial precursor proteins import receptor; 84.11
3fp2_A537 TPR repeat-containing protein YHR117W; TOM71, mito 83.86
1xnf_A275 Lipoprotein NLPI; TPR, tetratricopeptide, structur 83.84
2gw1_A 514 Mitochondrial precursor proteins import receptor; 83.11
1hxi_A121 PEX5, peroxisome targeting signal 1 receptor PEX5; 83.1
1fch_A368 Peroxisomal targeting signal 1 receptor; protein-p 83.0
4eqf_A365 PEX5-related protein; accessory protein, tetratric 82.99
1p5q_A336 FKBP52, FK506-binding protein 4; isomerase; 2.80A 82.93
1hh8_A213 P67PHOX, NCF-2, neutrophil cytosol factor 2; cell 82.91
3gyz_A151 Chaperone protein IPGC; asymmetric homodimer, tetr 82.91
1kt0_A457 FKBP51, 51 kDa FK506-binding protein; FKBP-like pp 82.43
2ho1_A252 Type 4 fimbrial biogenesis protein PILF; type IV p 82.24
1xn7_A78 Hypothetical protein YHGG; alpha+beta, GFT structu 81.91
1qgp_A77 Protein (double stranded RNA adenosine deaminase); 81.57
2q7f_A243 YRRB protein; TPR, protein binding; 2.49A {Bacillu 81.52
3vtx_A184 MAMA; tetratricopeptide repeats (TPR) containing p 81.1
3ma5_A100 Tetratricopeptide repeat domain protein; NESG, str 80.85
1na3_A91 Designed protein CTPR2; de novo protein; HET: IPT; 80.79
1qqe_A292 Vesicular transport protein SEC17; helix-turn-heli 80.49
>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae} Back     alignment and structure
Probab=100.00  E-value=1.6e-85  Score=672.94  Aligned_cols=366  Identities=39%  Similarity=0.658  Sum_probs=307.6

Q ss_pred             HHHHHHhhhchhHHHHHHHHHHHHHhccCCC--ChHHHHHHHHHhhhhcCCcchHHHHHHHHHHHHHHHHHHhcCHHHHH
Q 016147            5 LLLFIIRSVYLFLQAVTAMVQQAMQYIDQTP--DLDTRIELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAA   82 (394)
Q Consensus         5 ~~~~l~k~r~q~k~ai~~~v~~~~~~~~~~~--d~~~k~~~i~~L~~vt~gki~~E~era~l~~~La~i~e~~gd~~eAa   82 (394)
                      ++.+|||||||+|+||++||+.+|.|++++|  |.++|+.++++|+.+|+|+||||+||||++..||++|+++|++.+|+
T Consensus        78 ~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~  157 (445)
T 4b4t_P           78 QLTLLSKKHGQLKLSIQYMIQKVMEYLKSSKSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAA  157 (445)
T ss_dssp             HHHHHHTTTTTSHHHHHHHHHHHHHHHHHHCTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHH
Confidence            4788999999999999999999999999888  46789999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhhhhcccCcHHHHHHHHHHHHHHHhccCChHHHHHHHHhhCccccCCCCccccCCCCCCCcccccCCCCccchH
Q 016147           83 DLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLL  162 (394)
Q Consensus        83 ~iL~~i~vEt~~~m~~~eK~e~~Leq~rL~L~~~D~~~a~~~~~Ki~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (394)
                      ++|+++++||+|+|++.+|++++|+|||||++.+||++|+++++||+.+++...                       ..+
T Consensus       158 ~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~-----------------------~~~  214 (445)
T 4b4t_P          158 DILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNP-----------------------KYE  214 (445)
T ss_dssp             HHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSS-----------------------CCH
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccC-----------------------CcH
Confidence            999999999999999999999999999999999999999999999998877543                       347


Q ss_pred             HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhccCCCCCChhcHHHHHHHHHHHHHhCCCChhchHhhhhhhcccCcCCCh
Q 016147          163 ELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWYLVLAPHDPMQSSLLNSTLEDKNLSEIP  242 (394)
Q Consensus       163 d~klk~~~~~~~~~~~~~~flea~k~y~ei~~t~~i~~d~~~~~~~L~~av~~~ILap~~~~rs~ll~~l~~d~~l~~ip  242 (394)
                      ++|++||.++++++.|+++|++||++|++++++|.+.+|+..+..+|+++|+|+||+|++|+|++++++++.|++++++|
T Consensus       215 ~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~iLa~~~~~~~~ll~~~~~~~~~~~l~  294 (445)
T 4b4t_P          215 SLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIVYFLVLSPYGNLQNDLIHKIQNDNNLKKLE  294 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHSSCSSTTHHHHHSHHHHSSCHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHhhcccccccH
Confidence            89999999999999999999999999999999999988888899999999999999999999999999999999999999


Q ss_pred             hHHHHHHHhcchhcccchhhHHHHHHhhhhhhhhcCCchhhhhHHHHHHHHHHHHHHHHHhhcCcccHHHHHHHhCCCHH
Q 016147          243 NFRLLLKQLVTMEVIQWTSLWNTYKDEFENETNMLGGSLGAKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQ  322 (394)
Q Consensus       243 ~~~~L~k~f~~~eli~~~~~~~~~~~~l~~~~~~~~d~~~~~~~~~L~~~viEHNI~visk~Y~~Isl~rLa~lL~ls~~  322 (394)
                      .|+.|+++|.+++|++|+.+...|+..+..+..++.+..+..||+.|+++|+|||++++++||++|+|++||++||+|++
T Consensus       295 ~~~~L~k~f~~~~L~~~~~~~~~~~~~L~~~~~~~~~~~~~~~~~~L~~~v~ehnl~~i~k~Ys~I~l~~la~lL~l~~~  374 (445)
T 4b4t_P          295 SQESLVKLFTTNELMRWPIVQKTYEPVLNEDDLAFGGEANKHHWEDLQKRVIEHNLRVISEYYSRITLLRLNELLDLTES  374 (445)
T ss_dssp             HHHHHHHHHHHCCSSSHHHHHHHTCSSTTTCCSSCCCSCSSHHHHHHHHHHHHHHHHHHHHHEEEEEHHHHHHHHTSCHH
T ss_pred             HHHHHHHHHHhchHhhhHHHHHHHHHHhcccchhhhcchhhHHHHHHHHHHHHHHHHHHHHHhceeeHHHHHHHhCcCHH
Confidence            99999999999999999998888888887665555666678899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhHhcCcEEEEeccCCCEEEEecCCChHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHhhhhccc
Q 016147          323 EAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMNLEKLLDLVEKSCHQIHKETMVHKTALK  393 (394)
Q Consensus       323 e~E~~ls~MI~~g~l~akIDq~~giV~F~~~k~~~~~L~~W~~~I~~l~~~V~k~~~lI~ke~~~~~~~~~  393 (394)
                      ++|..+++||.+|+|+|+||||+|||+|+++++++++|++|+.+|++||+.|++++|+|+||+|||++++|
T Consensus       375 evE~~ls~mI~~g~i~akIDq~~giV~F~~~~~~~~~l~~W~~~i~~l~~~v~k~~~lI~kE~m~~~~~~k  445 (445)
T 4b4t_P          375 QTETYISDLVNQGIIYAKVNRPAKIVNFEKPKNSSQLLNEWSHNVDELLEHIETIGHLITKEEIMHGLQAK  445 (445)
T ss_dssp             HHHHHHHHHHHHTSSCCEEETTTTEEEC-------------------------------------------
T ss_pred             HHHHHHHHHHHCCCEEEEEcCCCCEEEECCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999875
>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
>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_O 26S proteasome regulatory subunit RPN9; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {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
>4b4t_S RPN3, 26S proteasome regulatory subunit RPN3; 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
>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
>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus} 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
>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
>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
>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
>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis} Back     alignment and structure
>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A 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
>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster} 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
>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A* Back     alignment and structure
>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1 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
>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
>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio} Back     alignment and structure
>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans} Back     alignment and structure
>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis} Back     alignment and structure
>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1 Back     alignment and structure
>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646} 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
>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A 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
>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae} Back     alignment and structure
>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} 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
>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A* Back     alignment and structure
>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A Back     alignment and structure
>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis} 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
>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens} Back     alignment and structure
>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus} Back     alignment and structure
>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B Back     alignment and structure
>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae} 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
>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans} 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
>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae} Back     alignment and structure
>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A Back     alignment and structure
>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B* Back     alignment and structure
>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii} Back     alignment and structure
>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio} Back     alignment and structure
>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A Back     alignment and structure
>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis} Back     alignment and structure
>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1 Back     alignment and structure
>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli} Back     alignment and structure
>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A 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
>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1 Back     alignment and structure
>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris} Back     alignment and structure
>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans} Back     alignment and structure
>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A Back     alignment and structure
>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1 Back     alignment and structure
>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis} Back     alignment and structure
>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis} Back     alignment and structure
>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis} Back     alignment and structure
>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus} Back     alignment and structure
>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646} Back     alignment and structure
>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Back     alignment and structure
>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A Back     alignment and structure
>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A Back     alignment and structure
>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A* Back     alignment and structure
>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A 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
>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
>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus} Back     alignment and structure
>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A Back     alignment and structure
>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A Back     alignment and structure
>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A Back     alignment and structure
>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A Back     alignment and structure
>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Back     alignment and structure
>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens} Back     alignment and structure
>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A* Back     alignment and structure
>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A 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
>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
>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A Back     alignment and structure
>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus} 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
>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2 Back     alignment and structure
>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens} Back     alignment and structure
>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae} Back     alignment and structure
>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A Back     alignment and structure
>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1 Back     alignment and structure
>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae} Back     alignment and structure
>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1 Back     alignment and structure
>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A Back     alignment and structure
>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus} Back     alignment and structure
>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A Back     alignment and structure
>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B* Back     alignment and structure
>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A Back     alignment and structure
>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A Back     alignment and structure
>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A 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
>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
>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1 Back     alignment and structure
>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A Back     alignment and structure
>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A Back     alignment and structure
>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A Back     alignment and structure
>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1 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 394
d1ufma_84 a.4.5.47 (A:) COP9 signalosome complex subunit 4, 7e-24
>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 = 92.1 bits (229), Expect = 7e-24
 Identities = 29/80 (36%), Positives = 42/80 (52%), Gaps = 1/80 (1%)

Query: 279 GSLGAKAAED-LRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKAL 337
           GS G+      L + +IEHN+L  SK Y+ IT + L  LL +   +AEK  S M+    +
Sbjct: 1   GSSGSSGGSSILDRAVIEHNLLSASKLYNNITFEELGALLEIPAAKAEKIASQMITEGRM 60

Query: 338 VAKIDRPQGIVCFQVAKDSN 357
              ID+  GIV F+  + S 
Sbjct: 61  NGFIDQIDGIVHFETREASG 80

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query394
d1ufma_84 COP9 signalosome complex subunit 4, GSN4 {Mouse (M 99.81
d1qqea_290 Vesicular transport protein sec17 {Baker's yeast ( 92.98
d1qqea_290 Vesicular transport protein sec17 {Baker's yeast ( 90.94
d1sfxa_109 Hypothetical protein AF2008 {Archaeoglobus fulgidu 90.67
d1a17a_159 Protein phosphatase 5 {Human (Homo sapiens) [TaxId 90.39
d1wi9a_72 Hypothetical protein C20orf116 homolog {Mouse (Mus 89.4
d1dpua_69 C-terminal domain of RPA32 {Human (Homo sapiens) [ 89.24
d1hz4a_366 Transcription factor MalT domain III {Escherichia 88.6
d2cfxa163 Transcriptional regulator LrpC {Bacillus subtilis 88.11
d1ub9a_100 Hypothetical protein PH1061 {Archaeon Pyrococcus h 87.95
d1hxia_112 Peroxin pex5 (peroxisomal targeting signal 1 (PTS1 87.33
d1hz4a_366 Transcription factor MalT domain III {Escherichia 86.99
d1z05a171 Transcriptional regulator VC2007 N-terminal domain 86.8
d1w3ba_388 O-GlcNAc transferase p110 subunit, OGT {Human (Hom 86.02
d2c2la1201 STIP1 homology and U box-containing protein 1, STU 85.67
d1z6ra170 Mlc protein N-terminal domain {Escherichia coli [T 84.97
d1xnfa_259 Lipoprotein NlpI {Escherichia coli [TaxId: 562]} 84.6
d2cg4a163 Regulatory protein AsnC {Escherichia coli [TaxId: 83.85
d1p5qa1170 FKBP52 (FKBP4), C-terminal domain {Human (Homo sap 83.21
d1elra_128 Hop {Human (Homo sapiens) [TaxId: 9606]} 82.18
d1w3ba_388 O-GlcNAc transferase p110 subunit, OGT {Human (Hom 81.94
d1p5qa1170 FKBP52 (FKBP4), C-terminal domain {Human (Homo sap 80.79
d1fcha_323 Peroxin pex5 (peroxisomal targeting signal 1 (PTS1 80.69
d2cyya160 Putative transcriptional regulator PH1519 {Archaeo 80.07
>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=99.81  E-value=3.8e-21  Score=150.17  Aligned_cols=71  Identities=35%  Similarity=0.513  Sum_probs=67.9

Q ss_pred             hHHHHHHHHHHHHHHHHHhhcCcccHHHHHHHhCCCHHHHHHHHHHhHhcCcEEEEeccCCCEEEEecCCC
Q 016147          285 AAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKD  355 (394)
Q Consensus       285 ~~~~L~~~viEHNI~visk~Y~~Isl~rLa~lL~ls~~e~E~~ls~MI~~g~l~akIDq~~giV~F~~~k~  355 (394)
                      .++.|+++|+||||+.+++||++|+|++||++|+++++++|..+++||.+|+|+|+|||++|+|+|+.++.
T Consensus         8 ~~t~L~~~i~Ehni~~is~~Y~~Isl~~la~~l~l~~~evE~~l~~mI~~~~i~akIDq~~g~V~F~~~e~   78 (84)
T d1ufma_           8 GSSILDRAVIEHNLLSASKLYNNITFEELGALLEIPAAKAEKIASQMITEGRMNGFIDQIDGIVHFETREA   78 (84)
T ss_dssp             SSCCCCHHHHHHHHHHHHHSCSEEEHHHHHHHTTSCHHHHHHHHHHHHHTTSSCEEEETTTTEEEECCSSC
T ss_pred             hhHHHHHHHHHHHHHHHHHhhceeeHHHHHHHHCCCHHHHHHHHHHHHhcCeEEEEEeCCCCEEEECCCCc
Confidence            45779999999999999999999999999999999999999999999999999999999999999998764
>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} 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
>d1sfxa_ a.4.5.50 (A:) Hypothetical protein AF2008 {Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]} 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
>d1dpua_ a.4.5.16 (A:) C-terminal domain of RPA32 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]} 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
>d1ub9a_ a.4.5.28 (A:) Hypothetical protein PH1061 {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Back     information, alignment and structure
>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]} Back     information, alignment and structure
>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]} 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
>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]} 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
>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]} 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
>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]} 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