Citrus Sinensis ID: 031345

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-
Protein Sequence
MILGLNLLRLLVQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQKAKDSAPCKEIPSLQLINQTLSYARELERIV
Secondary Structure (PSIPRED)
cHHHHHHHHHHHcccHHHHHHHHHHccHHHHcccccccHHHHHHHHHHccHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHccccHHHHHHHHHHHccccEEcccEEEEcccccccccccccHHHHHHHHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHccHHHHHHHHHHccHHHcccccccccHHHHHHHHHccHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHccccHHHHHHHHHHccccEEEcccEEEEcccccccccccccHHHHHHHHHHHHHHHHHHc
Coil and Loop (DISEMBL)
MILGLNLLRLLVQNRIAEFHTELELLsstalenpciKHAVELEQSFMEGAYNRVLSakqnvpnetyGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKeehpewemkdgFVFFqkakdsapckeipslqlINQTLSYARELERIV
Flexible Loop (DISEMBL)
MILGLNLLRLLVQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQKAKDSAPckeipslqlinqtlsyareleriv
Low Complexity Region (SEG)
MIlglnllrllVQNRIAEFHtelellsstaleNPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQKAKDSAPCKEIPSLQLINQTLSYARELERIV
Disordered region (IsUnstruct)
*ILGLNLLRLLVQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQKAKDSAPCKEIPSLQLINQTLSY********
Disordered Region (DISOPRED)
MILGLNLLRLLVQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQ**************QLINQTLSYARELERIV
Disordered Region (DISEMBL)
MILGLNLLRLLVQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQKAKDSAPCKEIPSLQLINQTLSYARELERIV
Disordered Region (DISPRO)
MILGLNLLRLLVQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQKAKDSAPCKEIPSLQLINQTLSYARELERIV
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MILGLNLLRLLVQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQKAKDSAPCKEIPSLQLINQTLSYARELERIV
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	161	2.2.26 [Sep-21-2011]
Q9FHY0	233	26S proteasome non-ATPase	yes	no	1.0	0.690	0.813	4e-75
Q9SGW3	267	26S proteasome non-ATPase	no	no	0.931	0.561	0.853	3e-73
P02889	263	Probable 26S proteasome n	yes	no	0.968	0.593	0.437	1e-35
Q9CX56	353	26S proteasome non-ATPase	yes	no	0.888	0.405	0.451	2e-29
Q5RE15	289	26S proteasome non-ATPase	yes	no	0.913	0.508	0.437	2e-29
Q3SYT7	287	26S proteasome non-ATPase	yes	no	0.900	0.505	0.444	3e-29
P48556	350	26S proteasome non-ATPase	yes	no	0.913	0.42	0.437	4e-29
P50524	270	26S proteasome regulatory	yes	no	0.987	0.588	0.344	4e-22
Q23449	250	26S proteasome non-ATPase	yes	no	0.975	0.628	0.365	5e-22
P32496	274	26S proteasome regulatory	yes	no	0.875	0.514	0.264	1e-08

>sp|Q9FHY0|RP12B_ARATH 26S proteasome non-ATPase regulatory subunit RPN12B OS=Arabidopsis thaliana GN=RPN12B PE=2 SV=2

 Score =  280 bits (715), Expect = 4e-75,   Method: Compositional matrix adjust.
 Identities = 131/161 (81%), Positives = 146/161 (90%)

Query: 1   MILGLNLLRLLVQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQN 60
           +I+GLNLLRLLVQNRIAEFHTEL LLSS  LENPCIKHAVELEQSFMEGAYNRVLSA+Q 
Sbjct: 73  LIMGLNLLRLLVQNRIAEFHTELGLLSSATLENPCIKHAVELEQSFMEGAYNRVLSARQT 132

Query: 61  VPNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEW 120
            P+ETY YFMDLLAKT+RDEIAGCSEKAYD+LSI +  +MLLF+SDQ+LL YV EEHPEW
Sbjct: 133 APDETYVYFMDLLAKTIRDEIAGCSEKAYDHLSISEGCKMLLFSSDQQLLTYVNEEHPEW 192

Query: 121 EMKDGFVFFQKAKDSAPCKEIPSLQLINQTLSYARELERIV 161
           E+KDG V FQK +++APCKEIPSLQLINQTLSY RELERI+
Sbjct: 193 EVKDGLVVFQKTRETAPCKEIPSLQLINQTLSYTRELERIL 233

Acts as a regulatory subunit of the 26S proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9SGW3|RP12A_ARATH 26S proteasome non-ATPase regulatory subunit RPN12A OS=Arabidopsis thaliana GN=RPN12A PE=1 SV=1

 Score =  273 bits (699), Expect = 3e-73,   Method: Compositional matrix adjust.
 Identities = 128/150 (85%), Positives = 139/150 (92%)

Query: 12  VQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMD 71
           VQNRIAEFHTELELLSS  LE+PCIKHAVELEQSFMEGAYNRVLSA+Q  P+ TY YFMD
Sbjct: 118 VQNRIAEFHTELELLSSATLEDPCIKHAVELEQSFMEGAYNRVLSARQTAPDATYVYFMD 177

Query: 72  LLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQK 131
           LLAKT+RDEIAGCSEKAYDY+SI DA QMLLF+SDQELL YV +EHPEWE+K+GFV FQK
Sbjct: 178 LLAKTIRDEIAGCSEKAYDYVSISDARQMLLFSSDQELLTYVTDEHPEWEVKEGFVVFQK 237

Query: 132 AKDSAPCKEIPSLQLINQTLSYARELERIV 161
           AK++APCKEIPSLQLINQTLSYARELERIV
Sbjct: 238 AKETAPCKEIPSLQLINQTLSYARELERIV 267

Acts as a regulatory subunit of the 26S proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins. May help to control the degradation of one or more factors that repress cytokinin signaling.

Arabidopsis thaliana (taxid: 3702)

>sp|P02889|PSMD8_DICDI Probable 26S proteasome non-ATPase regulatory subunit 8 OS=Dictyostelium discoideum GN=psmD8-1 PE=3 SV=2

 Score =  148 bits (374), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 70/160 (43%), Positives = 114/160 (71%), Gaps = 4/160 (2%)

Query: 2   ILGLNLLRLLVQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQNV 61
           I+GLNL+RLL +++ +EFH+E+EL+    L+N  IK  + +E+S  EG+YN+++ ++  V
Sbjct: 108 IIGLNLMRLLAKHKTSEFHSEIELIEFNNLDNSFIKFPLLVEKSITEGSYNKIIQSRSGV 167

Query: 62  PNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWE 121
           P+E Y  F+D+LA +++++IA CSEK++  LS+KDA ++LLF  + +  +Y+KE +  W+
Sbjct: 168 PSEYYQVFLDILADSIKEDIANCSEKSFKTLSLKDAEKVLLFNDNNQFQQYIKERN--WK 225

Query: 122 MKDGFVFFQKAKDSAPCKEIPSLQLINQTLSYARELERIV 161
           ++   + F    +     EIPSLQLI+QTL YA+ELERIV
Sbjct: 226 VQGDVIQF--GNNDNQTVEIPSLQLIHQTLHYAKELERIV 263

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|Q9CX56|PSMD8_MOUSE 26S proteasome non-ATPase regulatory subunit 8 OS=Mus musculus GN=Psmd8 PE=1 SV=2

 Score =  128 bits (321), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 70/155 (45%), Positives = 101/155 (65%), Gaps = 12/155 (7%)

Query: 13  QNRIAEFHTELELLSSTALE-NPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMD 71
           QNR+AEFHTELE L +  ++ N  IKH V LEQ  MEG+YN+V  AK N+P E+Y +F+D
Sbjct: 205 QNRVAEFHTELERLPAKDIQTNVYIKHPVSLEQYLMEGSYNKVFLAKGNIPAESYTFFID 264

Query: 72  LLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEM-KDGFVFF- 129
           +L  T+RDEIAGC EKAY+ +   +A ++L F++ +++ +Y K+    W +  + +  F 
Sbjct: 265 ILLDTIRDEIAGCIEKAYEKILFAEATRILFFSTPKKMTDYAKKRG--WVLGPNNYYSFA 322

Query: 130 ---QKAKDSAPCKEIPSLQLINQTLSYARELERIV 161
              QK +DS     IPS +L  Q + YAR+LE IV
Sbjct: 323 SQQQKPEDST----IPSTELAKQVIEYARQLEMIV 353

Acts as a regulatory subunit of the 26S proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins. Necessary for activation of the CDC28 kinase.

Mus musculus (taxid: 10090)

>sp|Q5RE15|PSMD8_PONAB 26S proteasome non-ATPase regulatory subunit 8 (Fragment) OS=Pongo abelii GN=PSMD8 PE=2 SV=2

 Score =  127 bits (320), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 66/151 (43%), Positives = 96/151 (63%), Gaps = 4/151 (2%)

Query: 13  QNRIAEFHTELELLSSTALE-NPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMD 71
           QNR+AEFHTELE L +  ++ N  IKH V LEQ  MEG+YN+V  AK N+P E+Y +F+D
Sbjct: 141 QNRVAEFHTELERLPAKDIQTNVYIKHPVSLEQYLMEGSYNKVFLAKGNIPAESYAFFID 200

Query: 72  LLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEM-KDGFVFFQ 130
           +L  T+RDEIAGC EKAY+ +   +A ++L F + +++ +Y K+    W +  + +  F 
Sbjct: 201 ILLDTIRDEIAGCIEKAYEKILFTEATRILFFNTPKKMTDYAKKRG--WVLGPNNYYSFA 258

Query: 131 KAKDSAPCKEIPSLQLINQTLSYARELERIV 161
             +       IPS +L  Q + YAR+LE IV
Sbjct: 259 SQQQKPEDTTIPSTELAKQVIEYARQLEMIV 289

Acts as a regulatory subunit of the 26S proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins. Necessary for activation of the CDC28 kinase.

Pongo abelii (taxid: 9601)

>sp|Q3SYT7|PSMD8_BOVIN 26S proteasome non-ATPase regulatory subunit 8 OS=Bos taurus GN=PSMD8 PE=2 SV=3

 Score =  127 bits (319), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 68/153 (44%), Positives = 99/153 (64%), Gaps = 8/153 (5%)

Query: 13  QNRIAEFHTELELLSSTALE-NPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMD 71
           QNR+AEFHTELE L +  ++ N  IKH V LEQ  MEG+YN+V  AK N+P E+Y +F+D
Sbjct: 139 QNRVAEFHTELERLPAKDIQTNVYIKHPVSLEQYLMEGSYNKVFLAKGNIPAESYTFFID 198

Query: 72  LLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFF-- 129
           +L  T+RDEIAGC EKAY+ +   +A ++L F + +++ +Y K+      + + + F   
Sbjct: 199 ILLDTIRDEIAGCIEKAYEKILFTEATRILFFNTPKKMTDYAKKRGWVLGINNYYSFASQ 258

Query: 130 -QKAKDSAPCKEIPSLQLINQTLSYARELERIV 161
            QK +D+     IPS +L  Q + YAR+LE IV
Sbjct: 259 QQKPEDTT----IPSTELAKQVIEYARQLEMIV 287

Acts as a regulatory subunit of the 26S proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins. Necessary for activation of the CDC28 kinase.

Bos taurus (taxid: 9913)

>sp|P48556|PSMD8_HUMAN 26S proteasome non-ATPase regulatory subunit 8 OS=Homo sapiens GN=PSMD8 PE=1 SV=2

 Score =  127 bits (318), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 66/151 (43%), Positives = 96/151 (63%), Gaps = 4/151 (2%)

Query: 13  QNRIAEFHTELELLSSTALE-NPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMD 71
           QNR+AEFHTELE L +  ++ N  IKH V LEQ  MEG+YN+V  AK N+P E+Y +F+D
Sbjct: 202 QNRVAEFHTELERLPAKDIQTNVYIKHPVSLEQYLMEGSYNKVFLAKGNIPAESYTFFID 261

Query: 72  LLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEM-KDGFVFFQ 130
           +L  T+RDEIAGC EKAY+ +   +A ++L F + +++ +Y K+    W +  + +  F 
Sbjct: 262 ILLDTIRDEIAGCIEKAYEKILFTEATRILFFNTPKKMTDYAKKRG--WVLGPNNYYSFA 319

Query: 131 KAKDSAPCKEIPSLQLINQTLSYARELERIV 161
             +       IPS +L  Q + YAR+LE IV
Sbjct: 320 SQQQKPEDTTIPSTELAKQVIEYARQLEMIV 350

Acts as a regulatory subunit of the 26S proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins. Necessary for activation of the CDC28 kinase.

Homo sapiens (taxid: 9606)

>sp|P50524|RPN12_SCHPO 26S proteasome regulatory subunit rpn12 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rpn12 PE=1 SV=1

 Score =  103 bits (258), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 62/180 (34%), Positives = 99/180 (55%), Gaps = 21/180 (11%)

Query: 1   MILGLNLLRLLVQNRIAEFHTELELLSSTAL--ENPCIKHAVELEQSFMEGAYNRVLSAK 58
           ++ GLNLL LL +NRIAEFHT LE +   +L   +P ++  + LEQ+ MEGA+++V S  
Sbjct: 93  LVTGLNLLYLLSENRIAEFHTALESVPDKSLFERDPYVEWVISLEQNVMEGAFDKVASMI 152

Query: 59  QNVPNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHP 118
           ++     + YFM ++   VR+EIA C+EK Y  + + +A  +L   + +E  E + EE  
Sbjct: 153 RSCNFPEFSYFMKIVMSMVRNEIATCAEKVYSEIPLSNATSLLYLENTKE-TEKLAEERG 211

Query: 119 EWEMKDGFVFFQKAKDS-----------------APCKEIPSLQLINQTLSYARELERIV 161
            W+++DG ++F K  ++                  P     ++  I Q LSY  ELE+IV
Sbjct: 212 -WDIRDGVIYFPKEANALETEDGMLIDEEDELELPPTASKHTISSIRQLLSYTSELEQIV 270

Acts as a regulatory subunit of the 26S proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q23449|PSMD8_CAEEL 26S proteasome non-ATPase regulatory subunit 8 OS=Caenorhabditis elegans GN=rpn-12 PE=1 SV=1

 Score =  103 bits (257), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 60/164 (36%), Positives = 101/164 (61%), Gaps = 7/164 (4%)

Query: 1   MILGLNLLRLLVQNRIAEFHTELELLSST-ALENPCIKHAVELEQSFMEGAYNRVLSAKQ 59
           ++ GL+L+ LL  NR+++FH  LE +       N  I   V +EQS MEGAYN+V+  ++
Sbjct: 91  LMTGLHLMFLLAANRLSDFHMLLEQIPQKEQTSNAYISTPVRIEQSLMEGAYNKVVLTEK 150

Query: 60  NVPNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPE 119
           N+P+  Y  F+ ++  T+R EIA   EK++  L+ KDA  MLLF +D+++ ++ +E   +
Sbjct: 151 NIPSPFYTIFIRIMLDTIRREIATSIEKSFKVLTAKDATVMLLFDNDEQMKKFGQER--K 208

Query: 120 WEMKDG--FVFFQKAKDSAPCKEIPSLQLINQTLSYARELERIV 161
           W + DG  +VF  +     P   + ++++  QTL YA++LE+IV
Sbjct: 209 WHL-DGERYVFEIEVAQEKPVN-LDTVRVATQTLFYAKQLEQIV 250

Acts as a regulatory subunit of the 26S proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins.

Caenorhabditis elegans (taxid: 6239)

>sp|P32496|RPN12_YEAST 26S proteasome regulatory subunit RPN12 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RPN12 PE=1 SV=3

 Score = 58.9 bits (141), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 42/159 (26%), Positives = 81/159 (50%), Gaps = 18/159 (11%)

Query: 17  AEFHTELELLSS---TALENPCIKHAVELEQSFMEGAYNRVL----SAKQNVPNETYGYF 69
            +FH+EL+ L        ++  + + ++L++  MEG+Y +      S  QN+    +  F
Sbjct: 120 TKFHSELQYLDKHIKNLEDDSLLSYPIKLDRWLMEGSYQKAWDLLQSGSQNI--SEFDSF 177

Query: 70  MDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFF 129
            D+L   +RDEIA  +E +YD+L + +   +L F +++E  ++  E +  W + +  V+F
Sbjct: 178 TDILKSAIRDEIAKNTELSYDFLPLSNIKALLFFNNEKETEKFALERN--WPIVNSKVYF 235

Query: 130 -----QKA--KDSAPCKEIPSLQLINQTLSYARELERIV 161
                +KA  +D    +E     +I + + YA  +E IV
Sbjct: 236 NNQSKEKADYEDEMMHEEDQKTNIIEKAMDYAISIENIV 274

Acts as a regulatory subunit of the 26S proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins. Necessary for activation of the CDC28 kinase.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	161
357437525	267	26S proteasome non-ATPase regulatory sub	0.931	0.561	0.913	3e-76
359807666	267	uncharacterized protein LOC100785835 [Gl	0.931	0.561	0.913	2e-75
388511026	267	unknown [Medicago truncatula]	0.931	0.561	0.906	3e-75
356524925	267	PREDICTED: 26S proteasome non-ATPase reg	0.931	0.561	0.906	1e-74
449517868	267	PREDICTED: 26S proteasome non-ATPase reg	0.931	0.561	0.893	6e-74
449462515	267	PREDICTED: 26S proteasome non-ATPase reg	0.931	0.561	0.893	8e-74
224072240	267	predicted protein [Populus trichocarpa]	1.0	0.602	0.906	1e-73
186528431	233	26S proteasome non-ATPase regulatory sub	1.0	0.690	0.813	2e-73
225426245	267	PREDICTED: 26S proteasome non-ATPase reg	0.931	0.561	0.886	2e-73
9757949	159	unnamed protein product [Arabidopsis tha	0.987	1.0	0.817	8e-73

>gi|357437525|ref|XP_003589038.1| 26S proteasome non-ATPase regulatory subunit [Medicago truncatula] gi|217074312|gb|ACJ85516.1| unknown [Medicago truncatula] gi|355478086|gb|AES59289.1| 26S proteasome non-ATPase regulatory subunit [Medicago truncatula]

 Score =  288 bits (738), Expect = 3e-76,   Method: Compositional matrix adjust.
 Identities = 137/150 (91%), Positives = 144/150 (96%)

Query: 12  VQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMD 71
           VQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSA+Q VP+ETY YFMD
Sbjct: 118 VQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSARQTVPHETYVYFMD 177

Query: 72  LLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQK 131
           LLAKT+RDEIAGCSEKAYDYLSI DA QMLLFT DQELLEY+KEEHPEWE+K+G V+FQK
Sbjct: 178 LLAKTIRDEIAGCSEKAYDYLSINDAKQMLLFTKDQELLEYIKEEHPEWEIKNGSVYFQK 237

Query: 132 AKDSAPCKEIPSLQLINQTLSYARELERIV 161
           AKDSAPCKEIPSLQLINQTLSYARELERIV
Sbjct: 238 AKDSAPCKEIPSLQLINQTLSYARELERIV 267

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359807666|ref|NP_001241171.1| uncharacterized protein LOC100785835 [Glycine max] gi|255634606|gb|ACU17665.1| unknown [Glycine max]

 Score =  286 bits (733), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 137/150 (91%), Positives = 145/150 (96%)

Query: 12  VQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMD 71
           VQNRIAEFHTELELLSS ALENPCIKHAVELEQSFMEGAYNRVLSA+Q VP++TY YFMD
Sbjct: 118 VQNRIAEFHTELELLSSAALENPCIKHAVELEQSFMEGAYNRVLSARQTVPHDTYVYFMD 177

Query: 72  LLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQK 131
           LLAKTVRDEIAGCSEKAYDYLSIKDA QMLLF+SDQELLEY+KEEHPEWE+K+G VFFQK
Sbjct: 178 LLAKTVRDEIAGCSEKAYDYLSIKDAKQMLLFSSDQELLEYIKEEHPEWEIKNGSVFFQK 237

Query: 132 AKDSAPCKEIPSLQLINQTLSYARELERIV 161
           AK+SAPCKEIPSLQLINQTLSYARELERIV
Sbjct: 238 AKESAPCKEIPSLQLINQTLSYARELERIV 267

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388511026|gb|AFK43579.1| unknown [Medicago truncatula]

 Score =  285 bits (730), Expect = 3e-75,   Method: Compositional matrix adjust.
 Identities = 136/150 (90%), Positives = 143/150 (95%)

Query: 12  VQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMD 71
           VQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSA+Q VP+ETY YFMD
Sbjct: 118 VQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSARQTVPHETYVYFMD 177

Query: 72  LLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQK 131
           LLAKT+RDEIA CSEKAYDYLSI DA QMLLFT DQELLEY+KEEHPEWE+K+G V+FQK
Sbjct: 178 LLAKTIRDEIARCSEKAYDYLSINDAKQMLLFTKDQELLEYIKEEHPEWEIKNGSVYFQK 237

Query: 132 AKDSAPCKEIPSLQLINQTLSYARELERIV 161
           AKDSAPCKEIPSLQLINQTLSYARELERIV
Sbjct: 238 AKDSAPCKEIPSLQLINQTLSYARELERIV 267

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356524925|ref|XP_003531078.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit RPN12A-like [Glycine max]

 Score =  283 bits (725), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 136/150 (90%), Positives = 144/150 (96%)

Query: 12  VQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMD 71
           VQNRIAEFHTELELLSS ALENPCIKHAVELEQSFMEGAYNRVLSA+Q VP++TY YFMD
Sbjct: 118 VQNRIAEFHTELELLSSAALENPCIKHAVELEQSFMEGAYNRVLSARQTVPHDTYVYFMD 177

Query: 72  LLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQK 131
           LLAKTVRDEIAGCSEKAYDYLSIKDA QMLLF+SDQELLEY+KEEHPEWE+K+  VFFQK
Sbjct: 178 LLAKTVRDEIAGCSEKAYDYLSIKDAKQMLLFSSDQELLEYIKEEHPEWEIKNDSVFFQK 237

Query: 132 AKDSAPCKEIPSLQLINQTLSYARELERIV 161
           AK+SAPCKEIPSLQLINQTLSYARELERIV
Sbjct: 238 AKESAPCKEIPSLQLINQTLSYARELERIV 267

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449517868|ref|XP_004165966.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit RPN12A-like [Cucumis sativus]

 Score =  281 bits (719), Expect = 6e-74,   Method: Compositional matrix adjust.
 Identities = 134/150 (89%), Positives = 143/150 (95%)

Query: 12  VQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMD 71
           VQNRIAEFHTELELLS +ALENPCIKHAVELEQSFMEGAYNRVLSA+Q VP+ETYGYFMD
Sbjct: 118 VQNRIAEFHTELELLSPSALENPCIKHAVELEQSFMEGAYNRVLSARQTVPHETYGYFMD 177

Query: 72  LLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQK 131
           LLAKTVRDEIAGCSEKAYDYLSI DA QMLLF+SDQELL+YVKEEHPEWE+ +G V+FQK
Sbjct: 178 LLAKTVRDEIAGCSEKAYDYLSINDACQMLLFSSDQELLDYVKEEHPEWEVTNGNVYFQK 237

Query: 132 AKDSAPCKEIPSLQLINQTLSYARELERIV 161
           AK+S PCKEIPSLQLINQTLSYARELERIV
Sbjct: 238 AKESGPCKEIPSLQLINQTLSYARELERIV 267

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449462515|ref|XP_004148986.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit RPN12A-like [Cucumis sativus]

 Score =  281 bits (718), Expect = 8e-74,   Method: Compositional matrix adjust.
 Identities = 134/150 (89%), Positives = 143/150 (95%)

Query: 12  VQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMD 71
           VQNRIAEFHTELELLS +ALENPCIKHAVELEQSFMEGAYNRVLSA+Q VP+ETYGYFMD
Sbjct: 118 VQNRIAEFHTELELLSPSALENPCIKHAVELEQSFMEGAYNRVLSARQTVPHETYGYFMD 177

Query: 72  LLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQK 131
           LLAKTVRDEIAGCSEKAYDYLSI DA QMLLF+SDQELL+YVKEEHPEWE+ +G V+FQK
Sbjct: 178 LLAKTVRDEIAGCSEKAYDYLSINDACQMLLFSSDQELLDYVKEEHPEWEVTNGNVYFQK 237

Query: 132 AKDSAPCKEIPSLQLINQTLSYARELERIV 161
           AK+S PCKEIPSLQLINQTLSYARELERIV
Sbjct: 238 AKESGPCKEIPSLQLINQTLSYARELERIV 267

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224072240|ref|XP_002303668.1| predicted protein [Populus trichocarpa] gi|118488523|gb|ABK96074.1| unknown [Populus trichocarpa] gi|222841100|gb|EEE78647.1| predicted protein [Populus trichocarpa]

 Score =  280 bits (716), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 146/161 (90%), Positives = 152/161 (94%)

Query: 1   MILGLNLLRLLVQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQN 60
           MILGLNLLRLLVQNRIAEFHTELELLS TALENPCIKHAVELEQSFMEGAYNRVLSAKQN
Sbjct: 107 MILGLNLLRLLVQNRIAEFHTELELLSPTALENPCIKHAVELEQSFMEGAYNRVLSAKQN 166

Query: 61  VPNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEW 120
           VP +TY YFMDLLAKTVRDEIAGCSEKAYDYLSI DA QMLLF S+ ELLEY+KEEHPEW
Sbjct: 167 VPYKTYDYFMDLLAKTVRDEIAGCSEKAYDYLSISDARQMLLFPSENELLEYIKEEHPEW 226

Query: 121 EMKDGFVFFQKAKDSAPCKEIPSLQLINQTLSYARELERIV 161
           E+K+G V FQKAK+SAPCKEIPSLQLINQTLSYARELERIV
Sbjct: 227 EIKNGSVVFQKAKESAPCKEIPSLQLINQTLSYARELERIV 267

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|186528431|ref|NP_199019.2| 26S proteasome non-ATPase regulatory subunit RPN12B [Arabidopsis thaliana] gi|302595914|sp|Q9FHY0.2|RP12B_ARATH RecName: Full=26S proteasome non-ATPase regulatory subunit RPN12B; AltName: Full=26S proteasome regulatory subunit RPN12B; AltName: Full=Regulatory particle non-ATPase 12b gi|332007375|gb|AED94758.1| 26S proteasome non-ATPase regulatory subunit RPN12B [Arabidopsis thaliana]

 Score =  280 bits (715), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 131/161 (81%), Positives = 146/161 (90%)

Query: 1   MILGLNLLRLLVQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQN 60
           +I+GLNLLRLLVQNRIAEFHTEL LLSS  LENPCIKHAVELEQSFMEGAYNRVLSA+Q 
Sbjct: 73  LIMGLNLLRLLVQNRIAEFHTELGLLSSATLENPCIKHAVELEQSFMEGAYNRVLSARQT 132

Query: 61  VPNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEW 120
            P+ETY YFMDLLAKT+RDEIAGCSEKAYD+LSI +  +MLLF+SDQ+LL YV EEHPEW
Sbjct: 133 APDETYVYFMDLLAKTIRDEIAGCSEKAYDHLSISEGCKMLLFSSDQQLLTYVNEEHPEW 192

Query: 121 EMKDGFVFFQKAKDSAPCKEIPSLQLINQTLSYARELERIV 161
           E+KDG V FQK +++APCKEIPSLQLINQTLSY RELERI+
Sbjct: 193 EVKDGLVVFQKTRETAPCKEIPSLQLINQTLSYTRELERIL 233

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225426245|ref|XP_002264255.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit RPN12A [Vitis vinifera] gi|297742385|emb|CBI34534.3| unnamed protein product [Vitis vinifera]

 Score =  279 bits (714), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 133/150 (88%), Positives = 142/150 (94%)

Query: 12  VQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMD 71
           VQNRIAEFHTELELLS+TALEN CIKHAVELEQSFMEGAYNRVLSA+Q VP+ETY YFMD
Sbjct: 118 VQNRIAEFHTELELLSATALENACIKHAVELEQSFMEGAYNRVLSARQTVPHETYVYFMD 177

Query: 72  LLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQK 131
           LLAKTVRDEIAGCSEKAYDYLSI DA  MLLF+SDQEL EY+KEEHPEWE+K+G VFFQ+
Sbjct: 178 LLAKTVRDEIAGCSEKAYDYLSINDARHMLLFSSDQELFEYIKEEHPEWEIKNGHVFFQR 237

Query: 132 AKDSAPCKEIPSLQLINQTLSYARELERIV 161
           AK+SAPCKEIPSLQLINQTLSYARELERIV
Sbjct: 238 AKESAPCKEIPSLQLINQTLSYARELERIV 267

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|9757949|dbj|BAB08437.1| unnamed protein product [Arabidopsis thaliana] gi|32455181|gb|AAP83301.1| 26S proteasome subunit RPN12b [Arabidopsis thaliana]

 Score =  277 bits (709), Expect = 8e-73,   Method: Compositional matrix adjust.
 Identities = 130/159 (81%), Positives = 144/159 (90%)

Query: 3   LGLNLLRLLVQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQNVP 62
           +GLNLLRLLVQNRIAEFHTEL LLSS  LENPCIKHAVELEQSFMEGAYNRVLSA+Q  P
Sbjct: 1   MGLNLLRLLVQNRIAEFHTELGLLSSATLENPCIKHAVELEQSFMEGAYNRVLSARQTAP 60

Query: 63  NETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEM 122
           +ETY YFMDLLAKT+RDEIAGCSEKAYD+LSI +  +MLLF+SDQ+LL YV EEHPEWE+
Sbjct: 61  DETYVYFMDLLAKTIRDEIAGCSEKAYDHLSISEGCKMLLFSSDQQLLTYVNEEHPEWEV 120

Query: 123 KDGFVFFQKAKDSAPCKEIPSLQLINQTLSYARELERIV 161
           KDG V FQK +++APCKEIPSLQLINQTLSY RELERI+
Sbjct: 121 KDGLVVFQKTRETAPCKEIPSLQLINQTLSYTRELERIL 159

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	161
TAIR|locus:2019504	267	RPN12a "regulatory particle no	0.931	0.561	0.786	3.9e-60
TAIR|locus:2165750	233	RPN12b "regulatory particle no	0.931	0.643	0.753	4e-58
ZFIN|ZDB-GENE-040625-136	267	psmd8 "proteasome (prosome, ma	0.913	0.550	0.410	7.3e-27
DICTYBASE|DDB_G0273979	263	psmD8-2 "26S proteasome regula	0.900	0.551	0.395	6.6e-26
DICTYBASE|DDB_G0272564	263	psmD8-1 "26S proteasome regula	0.900	0.551	0.395	6.6e-26
UNIPROTKB|Q5RE15	289	PSMD8 "26S proteasome non-ATPa	0.913	0.508	0.403	8.4e-26
MGI|MGI:1888669	353	Psmd8 "proteasome (prosome, ma	0.913	0.416	0.403	8.4e-26
RGD|1309842	285	Psmd8 "proteasome (prosome, ma	0.913	0.515	0.403	1.1e-25
UNIPROTKB|F1LMQ3	353	Psmd8 "Protein Psmd8" [Rattus	0.913	0.416	0.403	1.1e-25
UNIPROTKB|P48556	350	PSMD8 "26S proteasome non-ATPa	0.913	0.42	0.403	1.4e-25

TAIR|locus:2019504 RPN12a "regulatory particle non-ATPase 12A" [Arabidopsis thaliana (taxid:3702)]

 Score = 616 (221.9 bits), Expect = 3.9e-60, P = 3.9e-60
 Identities = 118/150 (78%), Positives = 129/150 (86%)

Query:    12 VQNRIAEFHXXXXXXXXXXXXNPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMD 71
             VQNRIAEFH            +PCIKHAVELEQSFMEGAYNRVLSA+Q  P+ TY YFMD
Sbjct:   118 VQNRIAEFHTELELLSSATLEDPCIKHAVELEQSFMEGAYNRVLSARQTAPDATYVYFMD 177

Query:    72 LLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQK 131
             LLAKT+RDEIAGCSEKAYDY+SI DA QMLLF+SDQELL YV +EHPEWE+K+GFV FQK
Sbjct:   178 LLAKTIRDEIAGCSEKAYDYVSISDARQMLLFSSDQELLTYVTDEHPEWEVKEGFVVFQK 237

Query:   132 AKDSAPCKEIPSLQLINQTLSYARELERIV 161
             AK++APCKEIPSLQLINQTLSYARELERIV
Sbjct:   238 AKETAPCKEIPSLQLINQTLSYARELERIV 267

GO:0005634 "nucleus" evidence=ISM;TAS

GO:0005838 "proteasome regulatory particle" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0008233 "peptidase activity" evidence=ISS

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:0000502 "proteasome complex" evidence=IDA

GO:0009647 "skotomorphogenesis" evidence=IMP

GO:0009733 "response to auxin stimulus" evidence=IMP

GO:0009735 "response to cytokinin stimulus" evidence=IEP;RCA;IMP

GO:0009908 "flower development" evidence=IMP

GO:0031540 "regulation of anthocyanin biosynthetic process" evidence=IMP

GO:0048366 "leaf development" evidence=IMP

GO:0048528 "post-embryonic root development" evidence=IMP

GO:0048825 "cotyledon development" evidence=IMP

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0009408 "response to heat" evidence=IMP

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=RCA;IMP

GO:0043248 "proteasome assembly" evidence=RCA;IMP

GO:0051788 "response to misfolded protein" evidence=RCA;IMP

GO:0005829 "cytosol" evidence=IDA

GO:0006635 "fatty acid beta-oxidation" evidence=RCA

GO:0009407 "toxin catabolic process" evidence=RCA

GO:0042023 "DNA endoreduplication" evidence=RCA

GO:0048767 "root hair elongation" evidence=RCA

GO:0051510 "regulation of unidimensional cell growth" evidence=RCA

GO:0051604 "protein maturation" evidence=RCA

GO:0080129 "proteasome core complex assembly" evidence=RCA

TAIR|locus:2165750 RPN12b "regulatory particle non-ATPase 12B" [Arabidopsis thaliana (taxid:3702)]

 Score = 597 (215.2 bits), Expect = 4.0e-58, P = 4.0e-58
 Identities = 113/150 (75%), Positives = 126/150 (84%)

Query:    12 VQNRIAEFHXXXXXXXXXXXXNPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMD 71
             VQNRIAEFH            NPCIKHAVELEQSFMEGAYNRVLSA+Q  P+ETY YFMD
Sbjct:    84 VQNRIAEFHTELGLLSSATLENPCIKHAVELEQSFMEGAYNRVLSARQTAPDETYVYFMD 143

Query:    72 LLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQK 131
             LLAKT+RDEIAGCSEKAYD+LSI +  +MLLF+SDQ+LL YV EEHPEWE+KDG V FQK
Sbjct:   144 LLAKTIRDEIAGCSEKAYDHLSISEGCKMLLFSSDQQLLTYVNEEHPEWEVKDGLVVFQK 203

Query:   132 AKDSAPCKEIPSLQLINQTLSYARELERIV 161
              +++APCKEIPSLQLINQTLSY RELERI+
Sbjct:   204 TRETAPCKEIPSLQLINQTLSYTRELERIL 233

GO:0005838 "proteasome regulatory particle" evidence=IEA;ISS

GO:0006508 "proteolysis" evidence=IEA;ISS

GO:0008233 "peptidase activity" evidence=ISS

ZFIN|ZDB-GENE-040625-136 psmd8 "proteasome (prosome, macropain) 26S subunit, non-ATPase, 8" [Danio rerio (taxid:7955)]

 Score = 302 (111.4 bits), Expect = 7.3e-27, P = 7.3e-27
 Identities = 62/151 (41%), Positives = 89/151 (58%)

Query:    13 QNRIAEFHXXXXXXXXXXX-XNPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMD 71
             QNR++EFH             N  I+H V LEQ  MEG+YN+V  AK N+P E+Y +F+D
Sbjct:   119 QNRVSEFHTELERLSAKDIQTNVYIRHPVSLEQYLMEGSYNKVFLAKGNIPAESYTFFID 178

Query:    72 LLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEW-EMKDGFVFFQ 130
              L  T+RDEIAGC EKAY+ +   +A ++L F+S +++ +Y K+ +  W +  DG+  F 
Sbjct:   179 TLLDTIRDEIAGCIEKAYEQIQFNEATRVLFFSSPKKMTDYAKKRN--WTQSPDGYYSFS 236

Query:   131 KAKDSAPCKEIPSLQLINQTLSYARELERIV 161
                       IPS +L  Q + YAR+LE IV
Sbjct:   237 TQHQKTEEVTIPSTELAKQVIEYARQLEMIV 267

GO:0005838 "proteasome regulatory particle" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0003674 "molecular_function" evidence=ND

DICTYBASE|DDB_G0273979 psmD8-2 "26S proteasome regulatory subunit S14" [Dictyostelium discoideum (taxid:44689)]

 Score = 293 (108.2 bits), Expect = 6.6e-26, P = 6.6e-26
 Identities = 59/149 (39%), Positives = 97/149 (65%)

Query:    13 QNRIAEFHXXXXXXXXXXXXNPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMDL 72
             +++ +EFH            N  IK  + +E+S  EG+YN+++ ++  VP+E Y  F+D+
Sbjct:   119 KHKTSEFHSEIELIEFNNLDNSFIKFPLLVEKSITEGSYNKIIQSRSGVPSEYYQVFLDI 178

Query:    73 LAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQKA 132
             LA +++++IA CSEK++  LS+KDA ++LLF  + +  +Y+KE +  W+++   + F   
Sbjct:   179 LADSIKEDIANCSEKSFKTLSLKDAEKVLLFNDNNQFQQYIKERN--WKVQGDVIQFGN- 235

Query:   133 KDSAPCKEIPSLQLINQTLSYARELERIV 161
              D+    EIPSLQLI+QTL YA+ELERIV
Sbjct:   236 NDNQTV-EIPSLQLIHQTLHYAKELERIV 263

GO:0006508 "proteolysis" evidence=IEA

GO:0005838 "proteasome regulatory particle" evidence=IEA

GO:0004175 "endopeptidase activity" evidence=ISS

GO:0007275 "multicellular organismal development" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

DICTYBASE|DDB_G0272564 psmD8-1 "26S proteasome regulatory subunit S14" [Dictyostelium discoideum (taxid:44689)]

 Score = 293 (108.2 bits), Expect = 6.6e-26, P = 6.6e-26
 Identities = 59/149 (39%), Positives = 97/149 (65%)

Query:    13 QNRIAEFHXXXXXXXXXXXXNPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMDL 72
             +++ +EFH            N  IK  + +E+S  EG+YN+++ ++  VP+E Y  F+D+
Sbjct:   119 KHKTSEFHSEIELIEFNNLDNSFIKFPLLVEKSITEGSYNKIIQSRSGVPSEYYQVFLDI 178

Query:    73 LAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQKA 132
             LA +++++IA CSEK++  LS+KDA ++LLF  + +  +Y+KE +  W+++   + F   
Sbjct:   179 LADSIKEDIANCSEKSFKTLSLKDAEKVLLFNDNNQFQQYIKERN--WKVQGDVIQFGN- 235

Query:   133 KDSAPCKEIPSLQLINQTLSYARELERIV 161
              D+    EIPSLQLI+QTL YA+ELERIV
Sbjct:   236 NDNQTV-EIPSLQLIHQTLHYAKELERIV 263

GO:0006508 "proteolysis" evidence=IEA

GO:0005838 "proteasome regulatory particle" evidence=IEA

GO:0004175 "endopeptidase activity" evidence=ISS

GO:0007275 "multicellular organismal development" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

UNIPROTKB|Q5RE15 PSMD8 "26S proteasome non-ATPase regulatory subunit 8" [Pongo abelii (taxid:9601)]

 Score = 292 (107.8 bits), Expect = 8.4e-26, P = 8.4e-26
 Identities = 61/151 (40%), Positives = 88/151 (58%)

Query:    13 QNRIAEFHXXXXXX-XXXXXXNPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMD 71
             QNR+AEFH             N  IKH V LEQ  MEG+YN+V  AK N+P E+Y +F+D
Sbjct:   141 QNRVAEFHTELERLPAKDIQTNVYIKHPVSLEQYLMEGSYNKVFLAKGNIPAESYAFFID 200

Query:    72 LLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEM-KDGFVFFQ 130
             +L  T+RDEIAGC EKAY+ +   +A ++L F + +++ +Y K+    W +  + +  F 
Sbjct:   201 ILLDTIRDEIAGCIEKAYEKILFTEATRILFFNTPKKMTDYAKKRG--WVLGPNNYYSFA 258

Query:   131 KAKDSAPCKEIPSLQLINQTLSYARELERIV 161
               +       IPS +L  Q + YAR+LE IV
Sbjct:   259 SQQQKPEDTTIPSTELAKQVIEYARQLEMIV 289

GO:0022624 "proteasome accessory complex" evidence=ISS

MGI|MGI:1888669 Psmd8 "proteasome (prosome, macropain) 26S subunit, non-ATPase, 8" [Mus musculus (taxid:10090)]

 Score = 292 (107.8 bits), Expect = 8.4e-26, P = 8.4e-26
 Identities = 61/151 (40%), Positives = 89/151 (58%)

Query:    13 QNRIAEFHXXXXXX-XXXXXXNPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMD 71
             QNR+AEFH             N  IKH V LEQ  MEG+YN+V  AK N+P E+Y +F+D
Sbjct:   205 QNRVAEFHTELERLPAKDIQTNVYIKHPVSLEQYLMEGSYNKVFLAKGNIPAESYTFFID 264

Query:    72 LLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEM-KDGFVFFQ 130
             +L  T+RDEIAGC EKAY+ +   +A ++L F++ +++ +Y K+    W +  + +  F 
Sbjct:   265 ILLDTIRDEIAGCIEKAYEKILFAEATRILFFSTPKKMTDYAKKRG--WVLGPNNYYSFA 322

Query:   131 KAKDSAPCKEIPSLQLINQTLSYARELERIV 161
               +       IPS +L  Q + YAR+LE IV
Sbjct:   323 SQQQKPEDSTIPSTELAKQVIEYARQLEMIV 353

GO:0000502 "proteasome complex" evidence=IEA

GO:0003674 "molecular_function" evidence=ND

GO:0005838 "proteasome regulatory particle" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0022624 "proteasome accessory complex" evidence=IDA

RGD|1309842 Psmd8 "proteasome (prosome, macropain) 26S subunit, non-ATPase, 8" [Rattus norvegicus (taxid:10116)]

 Score = 291 (107.5 bits), Expect = 1.1e-25, P = 1.1e-25
 Identities = 61/151 (40%), Positives = 89/151 (58%)

Query:    13 QNRIAEFHXXXXXX-XXXXXXNPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMD 71
             QNR+AEFH             N  IKH V LEQ  MEG+YN+V  AK N+P E+Y +F+D
Sbjct:   137 QNRVAEFHTELERLPAKDIQTNVYIKHPVSLEQYLMEGSYNKVFLAKGNIPAESYTFFID 196

Query:    72 LLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEM-KDGFVFFQ 130
             +L  T+RDEIAGC EKAY+ +   +A ++L F++ +++ +Y K+    W +  + +  F 
Sbjct:   197 ILLDTIRDEIAGCIEKAYEKILFAEATRILFFSTPKKMTDYAKKRG--WLLGPNNYYSFA 254

Query:   131 KAKDSAPCKEIPSLQLINQTLSYARELERIV 161
               +       IPS +L  Q + YAR+LE IV
Sbjct:   255 SQQQKPEDSTIPSTELARQVIEYARQLEMIV 285

GO:0005634 "nucleus" evidence=ISO

GO:0005737 "cytoplasm" evidence=ISO

GO:0022624 "proteasome accessory complex" evidence=ISO

GO:0005730 "nucleolus" evidence=ISO

UNIPROTKB|F1LMQ3 Psmd8 "Protein Psmd8" [Rattus norvegicus (taxid:10116)]

 Score = 291 (107.5 bits), Expect = 1.1e-25, P = 1.1e-25
 Identities = 61/151 (40%), Positives = 89/151 (58%)

Query:    13 QNRIAEFHXXXXXX-XXXXXXNPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMD 71
             QNR+AEFH             N  IKH V LEQ  MEG+YN+V  AK N+P E+Y +F+D
Sbjct:   205 QNRVAEFHTELERLPAKDIQTNVYIKHPVSLEQYLMEGSYNKVFLAKGNIPAESYTFFID 264

Query:    72 LLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEM-KDGFVFFQ 130
             +L  T+RDEIAGC EKAY+ +   +A ++L F++ +++ +Y K+    W +  + +  F 
Sbjct:   265 ILLDTIRDEIAGCIEKAYEKILFAEATRILFFSTPKKMTDYAKKRG--WLLGPNNYYSFA 322

Query:   131 KAKDSAPCKEIPSLQLINQTLSYARELERIV 161
               +       IPS +L  Q + YAR+LE IV
Sbjct:   323 SQQQKPEDSTIPSTELARQVIEYARQLEMIV 353

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005838 "proteasome regulatory particle" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

UNIPROTKB|P48556 PSMD8 "26S proteasome non-ATPase regulatory subunit 8" [Homo sapiens (taxid:9606)]

 Score = 290 (107.1 bits), Expect = 1.4e-25, P = 1.4e-25
 Identities = 61/151 (40%), Positives = 88/151 (58%)

Query:    13 QNRIAEFHXXXXXX-XXXXXXNPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMD 71
             QNR+AEFH             N  IKH V LEQ  MEG+YN+V  AK N+P E+Y +F+D
Sbjct:   202 QNRVAEFHTELERLPAKDIQTNVYIKHPVSLEQYLMEGSYNKVFLAKGNIPAESYTFFID 261

Query:    72 LLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEM-KDGFVFFQ 130
             +L  T+RDEIAGC EKAY+ +   +A ++L F + +++ +Y K+    W +  + +  F 
Sbjct:   262 ILLDTIRDEIAGCIEKAYEKILFTEATRILFFNTPKKMTDYAKKRG--WVLGPNNYYSFA 319

Query:   131 KAKDSAPCKEIPSLQLINQTLSYARELERIV 161
               +       IPS +L  Q + YAR+LE IV
Sbjct:   320 SQQQKPEDTTIPSTELAKQVIEYARQLEMIV 350

GO:0005838 "proteasome regulatory particle" evidence=IEA

GO:0022624 "proteasome accessory complex" evidence=ISS

GO:0000502 "proteasome complex" evidence=TAS

GO:0000075 "cell cycle checkpoint" evidence=TAS

GO:0000082 "G1/S transition of mitotic cell cycle" evidence=TAS

GO:0000084 "S phase of mitotic cell cycle" evidence=TAS

GO:0000209 "protein polyubiquitination" evidence=TAS

GO:0000216 "M/G1 transition of mitotic cell cycle" evidence=TAS

GO:0000278 "mitotic cell cycle" evidence=TAS

GO:0002474 "antigen processing and presentation of peptide antigen via MHC class I" evidence=TAS

GO:0002479 "antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

GO:0006521 "regulation of cellular amino acid metabolic process" evidence=TAS

GO:0006915 "apoptotic process" evidence=TAS

GO:0006977 "DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0016070 "RNA metabolic process" evidence=TAS

GO:0016071 "mRNA metabolic process" evidence=TAS

GO:0031145 "anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process" evidence=TAS

GO:0034641 "cellular nitrogen compound metabolic process" evidence=TAS

GO:0042590 "antigen processing and presentation of exogenous peptide antigen via MHC class I" evidence=TAS

GO:0042981 "regulation of apoptotic process" evidence=TAS

GO:0044281 "small molecule metabolic process" evidence=TAS

GO:0051436 "negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle" evidence=TAS

GO:0051437 "positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle" evidence=TAS

GO:0051439 "regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle" evidence=TAS

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

---

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)
Q9FHY0	RP12B_ARATH	No assigned EC number	0.8136	1.0	0.6909	yes	no

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:
	RPN12b	RPN12b (Regulatory Particle Non-ATPase 12b); peptidase; Regulatory Particle Non-ATPase 12b (RPN12b); FUNCTIONS IN- peptidase activity; INVOLVED IN- proteolysis; LOCATED IN- proteasome regulatory particle; CONTAINS InterPro DOMAIN/s- 26S proteasome non-ATPase regulatory subunit Rpn12 (InterPro-IPR006746), SAC3/GANP/Nin1/mts3/eIF-3 p25 (InterPro-IPR005062); BEST Arabidopsis thaliana protein match is- RPN12a (Regulatory Particle non-ATPase 12a); peptidase (TAIR-AT1G64520.1); Has 343 Blast hits to 343 proteins in 142 species- Archae - 0; Bacteria - 0; Metazoa - 160; Fungi - 83; Plants - 39 [...] (233 aa)
		(Arabidopsis thaliana)
Predicted Functional Partners:
	RPT1A	RPT1A (REGULATORY PARTICLE TRIPLE-A 1A); ATPase; 26S proteasome AAA-ATPase subunit RPT1a (RPT1a [...] (426 aa)					•	•	•		0.977
	ATS9	ATS9 (ARABIDOPSIS NON-ATPASE SUBUNIT 9); specifically interacts with FUS6/COP11 via the C-termi [...] (419 aa)				•	•	•	•		0.975
	RPN10	RPN10 (REGULATORY PARTICLE NON-ATPASE 10); peptide receptor; Regulatory particle non-ATPase sub [...] (386 aa)				•	•	•	•		0.969
	AT5G23540	26S proteasome regulatory subunit, putative; 26S proteasome regulatory subunit, putative; INVOL [...] (308 aa)				•	•	•	•		0.964
	AT4G24820	26S proteasome regulatory subunit, putative (RPN7); 26S proteasome regulatory subunit, putative [...] (387 aa)				•	•	•	•		0.950
	PAG1	PAG1; endopeptidase/ peptidase/ threonine-type endopeptidase; Encodes 20S proteasome subunit PA [...] (249 aa)						•	•		0.947
	PBG1	PBG1; peptidase/ threonine-type endopeptidase; 20S proteasome beta subunit PBG1 (PBG1) mRNA, co [...] (246 aa)				•		•	•		0.936
	PBF1	PBF1; peptidase/ threonine-type endopeptidase; Encodes 20S proteasome beta subunit PBF1 (PBF1). [...] (223 aa)				•		•			0.923
	TPP2	TPP2 (TRIPEPTIDYL PEPTIDASE II); tripeptidyl-peptidase; Tripeptidyl Peptidase II. Ser protease [...] (1380 aa)						•	•		0.906
	APC10	anaphase-promoting complex, subunit 10 family / APC10 family; anaphase-promoting complex, subun [...] (192 aa)						•			0.905

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	161
pfam10075	144	pfam10075, PCI_Csn8, COP9 signalosome, subunit CSN	4e-27
pfam03399	155	pfam03399, SAC3_GANP, SAC3/GANP/Nin1/mts3/eIF-3 p2	7e-25

>gnl|CDD|220553 pfam10075, PCI_Csn8, COP9 signalosome, subunit CSN8

 Score = 98.9 bits (247), Expect = 4e-27
 Identities = 43/116 (37%), Positives = 63/116 (54%), Gaps = 2/116 (1%)

Query: 2   ILGLNLLRLLVQNRIAEFHTELELLSSTALE-NPCIKHAVELEQSFMEGAYNRVLSA-KQ 59
           + GL LL+LL QN IA+F   L+ +     E NP I+  + L Q   E  Y +     + 
Sbjct: 6   LYGLILLKLLTQNDIADFRLLLKRIPQAIKESNPEIQQLLTLGQLLWENDYAKFWQTLRS 65

Query: 60  NVPNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKE 115
           N  +E Y  F+  L  T+RDEIA    KAY  +SI D  ++L  +SD+EL ++ K+
Sbjct: 66  NDWSEDYTPFIAGLEDTIRDEIAALVGKAYSSISIDDLAELLGLSSDEELEKFAKK 121

This PCI_Csn8 domain is conserved from plants to humans. It is a signature protein motif found in components of CSN (COP9 signalosome). It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development. Length = 144

>gnl|CDD|217534 pfam03399, SAC3_GANP, SAC3/GANP/Nin1/mts3/eIF-3 p25 family

 Score = 93.1 bits (232), Expect = 7e-25
 Identities = 34/100 (34%), Positives = 50/100 (50%), Gaps = 1/100 (1%)

Query: 2   ILGLNLLRLLVQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQNV 61
            +   LL LL  N I++FHTELELL      +P I+ A+ELEQ+ MEG Y+R     +  
Sbjct: 56  FIAYYLLYLLSNNPISDFHTELELLPDEIRNDPYIQFALELEQALMEGNYHRFFRLLKKA 115

Query: 62  PNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQML 101
           P   Y   ++     +R E      KAY  + +    ++L
Sbjct: 116 PYL-YACLLERFLDRIRKEALKAISKAYRSIPLSYLAELL 154

This large family includes diverse proteins involved in large complexes. The alignment contains one highly conserved negatively charged residue and one highly conserved positively charged residue that are probably important for the function of these proteins. The family includes the yeast nuclear export factor Sac3, and mammalian GANP/MCM3-associated proteins, which facilitate the nuclear localisation of MCM3, a protein that associates with chromatin in the G1 phase of the cell-cycle. The 26S protease (or 26S proteasome) is responsible for degrading ubiquitin conjugates. It consists of 19S regulatory complexes associated with the ends of 20S proteasomes. The 19S regulatory complex is composed of about 20 different polypeptides and confers ATP-dependence and substrate specificity to the 26S enzyme. The conserved region occurs at the C-terminal of the Nin1-like regulatory subunit. This family includes several eukaryotic translation initiation factor 3 subunit 11 (eIF-3 p25) proteins. Eukaryotic initiation factor 3 (eIF3) is a multisubunit complex that is required for binding of mRNA to 40 S ribosomal subunits, stabilisation of ternary complex binding to 40 S subunits, and dissociation of 40 and 60 S subunits. Length = 155

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	161
KOG3151	260	consensus 26S proteasome regulatory complex, subun	100.0
PF10075	143	PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro	100.0
PF03399	204	SAC3_GANP: SAC3/GANP/Nin1/mts3/eIF-3 p25 family; I	99.71
KOG4414	197	consensus COP9 signalosome, subunit CSN8 [Posttran	99.69
KOG1861	540	consensus Leucine permease transcriptional regulat	99.0
PF01399	105	PCI: PCI domain; InterPro: IPR000717 A homology do	97.45
KOG3252	217	consensus Uncharacterized conserved protein [Funct	97.24
smart00088	88	PINT motif in proteasome subunits, Int-6, Nip-1 an	95.66
smart00753	88	PAM PCI/PINT associated module.	95.66
KOG2582	422	consensus COP9 signalosome, subunit CSN3 [Posttran	88.81
COG5079	646	SAC3 Nuclear protein export factor [Intracellular	84.01
KOG1860	927	consensus Nuclear protein export factor [Intracell	81.58

>KOG3151 consensus 26S proteasome regulatory complex, subunit RPN12/PSMD8 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=2.8e-57  Score=367.63  Aligned_cols=159  Identities=62%  Similarity=0.943  Sum_probs=148.2

Q ss_pred             CchHHHHHHHHhcCChhHHHHHHHhcchhhh-cCccchhhHHHHHHHhhcChHHHHHhhhcCCCCcHHHHHHHHHHHHHH
Q 031345            1 MILGLNLLRLLVQNRIAEFHTELELLSSTAL-ENPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMDLLAKTVRD   79 (161)
Q Consensus         1 ~i~gL~LL~LLsqN~iaeFh~~lE~ip~~~~-~~~~I~~~v~LEq~LmeG~Y~kv~~a~~~~Ps~~~~~fm~~L~~tiR~   79 (161)
                      +++|||||+||||||+++||++||++|..++ .||||++||+||||+|||+|||||.+++++|+++|.+|||+|++|||+
T Consensus       101 ~l~GLnLL~LLsqNRiaeFHteLe~lp~~~l~~~~~I~~~v~LEq~~MEGaYnKv~~a~~s~p~~~y~~FmdIl~~tiRd  180 (260)
T KOG3151|consen  101 KLLGLNLLYLLSQNRIAEFHTELELLPKKILQHNPYISHPVSLEQSLMEGAYNKVLSAKQSIPSEEYTYFMDILLDTIRD  180 (260)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHhccHHHhhccchhhhHHHHHHHHHhhHHHHHHHHHhcCCcHHHHHHHHHHHHHHHH
Confidence            4799999999999999999999999999998 789999999999999999999999999999999999999999999999


Q ss_pred             HHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHhhcCCCCeeeCCeEEEeCCCCCCCCCCCChHHHHHHHHhHHHHhhh
Q 031345           80 EIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQKAKDSAPCKEIPSLQLINQTLSYARELER  159 (161)
Q Consensus        80 eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~~~~i~f~~~~~~~~~~~~~~~~li~~~l~Ya~elE~  159 (161)
                      |||.|+||||+.||+++|++||+|++++++..|+  .+|+|.++.+.+++....+.+...++|+.++++++|+||+|||+
T Consensus       181 EIA~c~EKsYd~l~~s~a~~~L~f~~~~e~~~~~--~~r~W~l~~~~~~~~~~~~~~p~~~~ps~~la~qtlsYar~LE~  258 (260)
T KOG3151|consen  181 EIAGCIEKSYDKLSASDATQMLLFNNDKELKKFA--TERQWPLDEKGVFSFASKETAPYEEIPSTELAEQTLSYARELEM  258 (260)
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHhcCChHHHHHHH--HhcCCcccccccccchhhccCchhccCcHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999997  47899999666666654444444579999999999999999999


Q ss_pred             cC
Q 031345          160 IV  161 (161)
Q Consensus       160 IV  161 (161)
                      ||
T Consensus       259 Iv  260 (260)
T KOG3151|consen  259 IV  260 (260)
T ss_pred             cC
Confidence            98

>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

Probab=100.00  E-value=3.4e-33  Score=212.26  Aligned_cols=127  Identities=29%  Similarity=0.462  Sum_probs=102.7

Q ss_pred             chHHHHHHHHhcCChhHHHHHHHhcchhhh-cCccchhhHHHHHHHhhcChHHHHHhhh-cCCCCcHHHHHHHHHHHHHH
Q 031345            2 ILGLNLLRLLVQNRIAEFHTELELLSSTAL-ENPCIKHAVELEQSFMEGAYNRVLSAKQ-NVPNETYGYFMDLLAKTVRD   79 (161)
Q Consensus         2 i~gL~LL~LLsqN~iaeFh~~lE~ip~~~~-~~~~I~~~v~LEq~LmeG~Y~kv~~a~~-~~Ps~~~~~fm~~L~~tiR~   79 (161)
                      ++|++|+.+|.+|++++||++|+|||.+++ .||+|+.+|.|+|+||+|+|+++|...+ +.|++.|.+||..|.++||+
T Consensus         6 ~~~~~Ll~~L~~~~~~df~~~~~rip~~~~~~~~~i~~i~~l~~~L~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~iR~   85 (143)
T PF10075_consen    6 IYALILLKYLMQNDLSDFRLLWKRIPEELKQSDPEIKAIWSLGQALWEGDYSKFWQALRSNPWSPDYKPFVPGFEDTIRE   85 (143)
T ss_dssp             HHHHHHHHHHHTTTSTHHHHHHHTS-HHHHTS-TTHHHHHHHHHHHHTT-HHHHHHHS-TT----HHHHTSTTHHHHHHH
T ss_pred             HHHHHHHHHHHcCCchHHHHHHHcCCHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHhccchHHHHHHHHHHHHHHHH
Confidence            579999999999999999999999999999 5799999999999999999999999554 56899999999999999999


Q ss_pred             HHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHhhcCCCCeeeCCeEEEeC
Q 031345           80 EIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQK  131 (161)
Q Consensus        80 eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~~~~i~f~~  131 (161)
                      +|+.|+++||++|++++++++||++ ++++.+|++  ++||+++++.++|+.
T Consensus        86 ~i~~~i~~aY~sIs~~~la~~Lg~~-~~el~~~~~--~~gW~~d~~~~~~~~  134 (143)
T PF10075_consen   86 RIAHLISKAYSSISLSDLAEMLGLS-EEELEKFIK--SRGWTVDGDGVLFPP  134 (143)
T ss_dssp             HHHHHHHHH-SEE-HHHHHHHTTS--HHHHHHHHH--HHT-EE-----EE--
T ss_pred             HHHHHHHHHHhHcCHHHHHHHhCCC-HHHHHHHHH--HcCCEECCCccEEec
Confidence            9999999999999999999999999 999999985  569999965555553

In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.

>PF03399 SAC3_GANP: SAC3/GANP/Nin1/mts3/eIF-3 p25 family; InterPro: IPR005062 This large family includes diverse proteins involved in large complexes [, , ]

Probab=99.71  E-value=2.3e-17  Score=130.37  Aligned_cols=102  Identities=32%  Similarity=0.487  Sum_probs=86.2

Q ss_pred             chHHHHHHHHhcCChhHHHHHHHhcchhhhcCccchhhHHHHHHHhhcChHHHHHhh-hcCCCCcHHHHHHHHHHHHHHH
Q 031345            2 ILGLNLLRLLVQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAK-QNVPNETYGYFMDLLAKTVRDE   80 (161)
Q Consensus         2 i~gL~LL~LLsqN~iaeFh~~lE~ip~~~~~~~~I~~~v~LEq~LmeG~Y~kv~~a~-~~~Ps~~~~~fm~~L~~tiR~e   80 (161)
                      ++|++||++|++|+.++||..++.+|.+..+||+|+++++|.+++++|||.++|+.. +.-++..+..+|+.++++||..
T Consensus       101 f~~y~lL~~l~~~~~~~~~~~l~~l~~~~~~~~~i~~al~l~~a~~~gny~~ff~l~~~~~~~~l~~~l~~~~~~~iR~~  180 (204)
T PF03399_consen  101 FIAYYLLYLLCQNNIPDFHMELELLPSEILSSPYIQFALELCRALMEGNYVRFFRLYRSKSAPYLFACLMERFFNRIRLR  180 (204)
T ss_dssp             HHHHHHHHTT-T---THHHHHHTTS-HHHHTSHHHHHHHHHHHHH--TTHHHHHHHHT-TTS-HHHHHHHGGGHHHHHHH
T ss_pred             HHHHHHHHHHHcccchHHHHHHHHCchhhhcCHHHHHHHHHHHHHHcCCHHHHHHHHhccCCChHHHHHHHHHHHHHHHH
Confidence            579999999999999999999999999988999999999999999999999999977 2334568999999999999999


Q ss_pred             HHHhHHHhcCc-ccHHHHHHhhCC
Q 031345           81 IAGCSEKAYDY-LSIKDAGQMLLF  103 (161)
Q Consensus        81 iA~~ie~AY~s-l~l~~a~~lL~~  103 (161)
                      ++.|+++||.+ +|++.++++|+|
T Consensus       181 al~~i~~ay~~~i~l~~l~~~L~F  204 (204)
T PF03399_consen  181 ALQSISKAYRSSIPLSFLAELLGF  204 (204)
T ss_dssp             HHHHHHHHS-T-EEHHHHHHHTT-
T ss_pred             HHHHHHHHcCCCCCHHHHHHHcCC
Confidence            99999999999 999999999987

The alignment contains one highly conserved negatively charged residue and one highly conserved positively charged residue that are probably important for the function of these proteins. The family includes the yeast nuclear export factor Sac3 [], and mammalian GANP/MCM3-associated proteins, which facilitate the nuclear localisation of MCM3, a protein that associates with chromatin in the G1 phase of the cell-cycle. The 26S protease (or 26S proteasome) is responsible for degrading ubiquitin conjugates. It consists of 19S regulatory complexes associated with the ends of 20S proteasomes. The 19S regulatory complex is composed of about 20 different polypeptides and confers ATP-dependence and substrate specificity to the 26S enzyme. The conserved region occurs at the C-terminal of the Nin1-like regulatory subunit [, , ]. This family includes several eukaryotic translation initiation factor 3 subunit 11 (eIF-3 p25) proteins. Eukaryotic initiation factor 3 (eIF3) is a multisubunit complex that is required for binding of mRNA to 40 S ribosomal subunits, stabilisation of ternary complex binding to 40 S subunits, and dissociation of 40 and 60 S subunits [].; PDB: 3T5V_D.

>KOG4414 consensus COP9 signalosome, subunit CSN8 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=99.69  E-value=7.8e-17  Score=124.18  Aligned_cols=127  Identities=11%  Similarity=0.156  Sum_probs=115.2

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHhcchhhh-cCccchhhHHHHHHHhhcChHHHHHhhhcCC-CCcHHHHHHHHHHHHHHH
Q 031345            3 LGLNLLRLLVQNRIAEFHTELELLSSTAL-ENPCIKHAVELEQSFMEGAYNRVLSAKQNVP-NETYGYFMDLLAKTVRDE   80 (161)
Q Consensus         3 ~gL~LL~LLsqN~iaeFh~~lE~ip~~~~-~~~~I~~~v~LEq~LmeG~Y~kv~~a~~~~P-s~~~~~fm~~L~~tiR~e   80 (161)
                      .|..|+-.+--||-.+++++|+|||+.++ .+|++.-+|.++|.||..+|..||.+.+... |++....|..+.|..|.+
T Consensus        42 Ya~~L~~Yf~~dD~dnARfLWKRIP~AIKe~k~El~aaWgiGQkiWq~Df~GiYeaI~~~dWSeeak~imaAf~D~~~kR  121 (197)
T KOG4414|consen   42 YAIHLAGYFLHDDCDNARFLWKRIPPAIKEAKPELGAAWGIGQKIWQHDFAGIYEAINAHDWSEEAKDIMAAFRDATRKR  121 (197)
T ss_pred             HHHHHHHHHHhccchhHHHHHHhCCHHHhhcCchhhhhhhhhHHHHhcccchHHHHHhhhcchHHHHHHHHHHHHHHHHH
Confidence            46777777778999999999999999999 9999999999999999999999999987655 899999999999999999


Q ss_pred             HHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHhhcCCCCeee-CCeEE-EeCC
Q 031345           81 IAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMK-DGFVF-FQKA  132 (161)
Q Consensus        81 iA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~-~~~i~-f~~~  132 (161)
                      ....+..||+||..+|++..||+. +++...++-  +.||+.| ..++. .+++
T Consensus       122 ~FaLl~qAYssI~~~D~A~FlGl~-~ddAtk~il--EnGWqaDaasqMasl~kk  172 (197)
T KOG4414|consen  122 AFALLLQAYSSIIADDFAAFLGLP-EDDATKGIL--ENGWQADAASQMASLKKK  172 (197)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCCC-HHHHHHHHH--HcccchhhHHHHhhccch
Confidence            999999999999999999999999 889999974  6899999 55665 5543

>KOG1861 consensus Leucine permease transcriptional regulator [Transcription]

Probab=99.00  E-value=3.8e-09  Score=93.84  Aligned_cols=126  Identities=20%  Similarity=0.339  Sum_probs=113.1

Q ss_pred             chHHHHHH-HHhcCChhHHHHHHHhcchhhhcCccchhhHHHHHHHhhcChHHHHHhhhcCCCCcHHHHHHHHHHHHHHH
Q 031345            2 ILGLNLLR-LLVQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMDLLAKTVRDE   80 (161)
Q Consensus         2 i~gL~LL~-LLsqN~iaeFh~~lE~ip~~~~~~~~I~~~v~LEq~LmeG~Y~kv~~a~~~~Ps~~~~~fm~~L~~tiR~e   80 (161)
                      +++..+|| ++..|.. +.-++|-.|..+++.|+.|.|+++|..+..-|||.|+|......|. .-.++||.+++.-|..
T Consensus       389 F~AYriLY~i~tkN~~-di~sll~~lt~E~ked~~V~hAL~vR~A~~~GNY~kFFrLY~~AP~-M~~yLmdlF~erER~~  466 (540)
T KOG1861|consen  389 FTAYRILYYIFTKNYP-DILSLLRDLTEEDKEDEAVAHALEVRSAVTLGNYHKFFRLYLTAPN-MSGYLMDLFLERERKK  466 (540)
T ss_pred             HHHHHHHHHHHhcCch-HHHHHHHhccHhhccCHHHHHHHHHHHHHHhccHHHHHHHHhhccc-chhHHHHHHHHHHHHH
Confidence            46788888 5666666 9999999999999999999999999999999999999999999885 6688999999999999


Q ss_pred             HHHhHHHhcC-cccHHHHHHhhCCCCHHHHHHHHhhcCCCCeee-CCeEEEeC
Q 031345           81 IAGCSEKAYD-YLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMK-DGFVFFQK  131 (161)
Q Consensus        81 iA~~ie~AY~-sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~-~~~i~f~~  131 (161)
                      ...-|.|||. +|+++..++-|-|++-+++..|-  .+.+|+-+ .|..+.++
T Consensus       467 Al~ii~KsyrP~i~~~fi~~~laf~~~e~c~~~l--~~~~~~~~~~g~~~~~~  517 (540)
T KOG1861|consen  467 ALTIICKSYRPTITVDFIASELAFDSMEDCVNFL--NEQNLTYDSLGPQILDK  517 (540)
T ss_pred             HHHHHHHHcCCCccHHHHhhhhhhchHHHHHHHH--hccCccccccCCccccc
Confidence            9999999999 99999999999999999999996  57899988 56555544

>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

Probab=97.45  E-value=0.0032  Score=43.82  Aligned_cols=72  Identities=15%  Similarity=0.245  Sum_probs=51.6

Q ss_pred             HHHHHhhcChHHHHHhhhcC-----CCCcHHHHHHHHHHHHHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHh
Q 031345           42 LEQSFMEGAYNRVLSAKQNV-----PNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVK  114 (161)
Q Consensus        42 LEq~LmeG~Y~kv~~a~~~~-----Ps~~~~~fm~~L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~  114 (161)
                      |-+.+-.|+|..........     ..+.....++.|...+|......+.+.|+++++++.+++++++ .++++.++.
T Consensus         6 l~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~~~~l~~~i~~~~l~~l~~~y~~i~~~~ia~~l~~~-~~~vE~~l~   82 (105)
T PF01399_consen    6 LLRAFRSGDLQEFEEFLEKHSESLFKDPFLAEYVEQLKEKIRRRNLRQLSKPYSSISISEIAKALQLS-EEEVESILI   82 (105)
T ss_dssp             HHHHHHCT-HHHHHHHHHHTCHHHHHCTTHHHHHHHHHHHHHHHHHHHHHHC-SEEEHHHHHHHHTCC-HHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHhccc-hHHHHHHHH
Confidence            33444444444444433322     1345556888999999999999999999999999999999999 788888873

This domain has also been called the PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15) []. Apparently, all of the characterised proteins containing PCI domains are parts of larger multi-protein complexes. Proteins with PCI domains include budding yeast proteasome regulatory components Rpn3(Sun2), Rpn5, Rpn6, Rpn7and Rpn9 []; mammalian proteasome regulatory components p55, p58 and p44.5, and translation initiation factor 3 complex subunits p110 and INT6 [, ]; Arabidopsis COP9 and FUS6/COP11 []; mammalian G-protein pathway suppressor GPS1, and several uncharacterised ORFs from plant, nematodes and mammals. The complete homology domain comprises approx. 200 residues, the highest conservation is found in the C-terminal half. Several of the proteins mentioned above have no detectable homology to the N-terminal half of the domain.; GO: 0005515 protein binding; PDB: 3TXM_A 3TXN_A 1UFM_A 3CHM_A 3T5X_A 3T5V_B.

>KOG3252 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.24  E-value=0.0046  Score=49.74  Aligned_cols=122  Identities=13%  Similarity=0.164  Sum_probs=95.1

Q ss_pred             HHHHHhcCChhHHHHHHHhcchhhhcCccchhhHHHHHHHhhcChHHHHHhhhcCCCCcHHHHHHHHHHHHHHHHHHhHH
Q 031345            7 LLRLLVQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMDLLAKTVRDEIAGCSE   86 (161)
Q Consensus         7 LL~LLsqN~iaeFh~~lE~ip~~~~~~~~I~~~v~LEq~LmeG~Y~kv~~a~~~~Ps~~~~~fm~~L~~tiR~eiA~~ie   86 (161)
                      ||.-|..=--.+|-...=.||...+.+..++.++.|..+|--|+|...|......|. .+.. |.=+-|.||.=+-.-+.
T Consensus        69 LlKaL~~lP~tDF~l~kcli~~~~~~ee~~r~ii~L~~~LEt~~Fq~FW~~~~~N~~-mle~-itGFedsvr~yachvv~  146 (217)
T KOG3252|consen   69 LLKALTNLPHTDFTLAKCLIDERVQMEEPFRSIIDLGDYLETCRFQQFWQEADENRD-MLEG-ITGFEDSVRKYACHVVG  146 (217)
T ss_pred             HHHHHhcCCCcchhHHHHhcCHHHhcccchhHHHhHHHHHhhchHHHHhhhhccchH-HhcC-CCcHHHHHHHHHHHhee
Confidence            344444445567777777888888888999999999999999999999986543321 1111 11247889998888999


Q ss_pred             HhcCcccHHHHHHhhCCCCHHHHHHHHhhcCCCCeee-CCeEEEeCC
Q 031345           87 KAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMK-DGFVFFQKA  132 (161)
Q Consensus        87 ~AY~sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~-~~~i~f~~~  132 (161)
                      -.|.+|+-.-.+.|||-.+.+++...++  +-||..+ .|.++.+..
T Consensus       147 iTyQkI~k~lLaellG~~sDs~le~~~~--~~GW~a~e~G~ifv~~q  191 (217)
T KOG3252|consen  147 ITYQKIDKWLLAELLGGLSDSQLEVWMT--KYGWIADESGQIFVASQ  191 (217)
T ss_pred             chHhhchHHHHHHhhCcccHHHHHHHHH--HccceecCCceEEEecc
Confidence            9999999999999999999999999974  6799999 776666654

>smart00088 PINT motif in proteasome subunits, Int-6, Nip-1 and TRIP-15

Probab=95.66  E-value=0.063  Score=36.70  Aligned_cols=63  Identities=17%  Similarity=0.281  Sum_probs=49.8

Q ss_pred             HHHHHHHHHHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHh----hcCCCCeee--CCeEEEeCC
Q 031345           69 FMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVK----EEHPEWEMK--DGFVFFQKA  132 (161)
Q Consensus        69 fm~~L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~----~~~rgW~~~--~~~i~f~~~  132 (161)
                      ..+.|...+|........+.|++|++++.++.++++ .++++.++.    ...-...+|  +|.++|...
T Consensus         2 ~~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~-~~~vE~~i~~~i~~~~l~~~ID~~~~~v~~~~~   70 (88)
T smart00088        2 LVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLS-VPEVEKLVSKAIRDGEISAKIDQVNGIVEFEEV   70 (88)
T ss_pred             hHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcC-HHHHHHHHHHHHHCCCeEEEEcCcCCEEEECCC
Confidence            356788999999999999999999999999999998 567777763    223367888  667777653

Also called the PCI (Proteasome, COP9, Initiation factor 3) domain. Unknown function.

>smart00753 PAM PCI/PINT associated module

Probab=95.66  E-value=0.063  Score=36.70  Aligned_cols=63  Identities=17%  Similarity=0.281  Sum_probs=49.8

Q ss_pred             HHHHHHHHHHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHh----hcCCCCeee--CCeEEEeCC
Q 031345           69 FMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVK----EEHPEWEMK--DGFVFFQKA  132 (161)
Q Consensus        69 fm~~L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~----~~~rgW~~~--~~~i~f~~~  132 (161)
                      ..+.|...+|........+.|++|++++.++.++++ .++++.++.    ...-...+|  +|.++|...
T Consensus         2 ~~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~-~~~vE~~i~~~i~~~~l~~~ID~~~~~v~~~~~   70 (88)
T smart00753        2 LVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLS-VPEVEKLVSKAIRDGEISAKIDQVNGIVEFEEV   70 (88)
T ss_pred             hHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcC-HHHHHHHHHHHHHCCCeEEEEcCcCCEEEECCC
Confidence            356788999999999999999999999999999998 567777763    223367888  667777653

>KOG2582 consensus COP9 signalosome, subunit CSN3 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=88.81  E-value=3.3  Score=36.79  Aligned_cols=72  Identities=18%  Similarity=0.287  Sum_probs=49.4

Q ss_pred             HHHHHHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHhh---cCCCCeeeCCeEEEeCCCCCCCCCCCChHHHHHH
Q 031345           73 LAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKE---EHPEWEMKDGFVFFQKAKDSAPCKEIPSLQLINQ  149 (161)
Q Consensus        73 L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~~---~~rgW~~~~~~i~f~~~~~~~~~~~~~~~~li~~  149 (161)
                      .+...--+-.....|.|.||+++|.|++..+.+.+|+.+++-+   ..+..+.-||.|+|-..+.     ..+|.++++|
T Consensus       299 av~sl~k~nI~rltktF~sLsL~dIA~~vQLa~~qevek~Ilqmie~~~i~a~iNG~v~f~~n~e-----~~~SpeM~~n  373 (422)
T KOG2582|consen  299 AVSSLYKKNIQRLTKTFLSLSLSDIASRVQLASAQEVEKYILQMIEDGEIFASINGMVFFTDNPE-----KYNSPEMHEN  373 (422)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcchHHHHHHHHHHhccCceEEEecceEEEecCcc-----cCCCHHHHhh
Confidence            3333334444456789999999999999999999999998832   3455555588888876432     2345555554

>COG5079 SAC3 Nuclear protein export factor [Intracellular trafficking and secretion / Cell division and chromosome partitioning]

Probab=84.01  E-value=3.6  Score=38.13  Aligned_cols=94  Identities=17%  Similarity=0.177  Sum_probs=66.2

Q ss_pred             hcchhhhcCccchhhHHHHHHHhhcChHHH---------------HHhhhcCCCCcHHHHHHHHHHH----HHHHHHH--
Q 031345           25 LLSSTALENPCIKHAVELEQSFMEGAYNRV---------------LSAKQNVPNETYGYFMDLLAKT----VRDEIAG--   83 (161)
Q Consensus        25 ~ip~~~~~~~~I~~~v~LEq~LmeG~Y~kv---------------~~a~~~~Ps~~~~~fm~~L~~t----iR~eiA~--   83 (161)
                      ++|..+..++-++-...+-|-...|+|.-.               |+.   +.|+...+||..|++.    ||.-...  
T Consensus       261 ~wp~~if~d~~vq~alkl~~laq~nn~r~~~~rnteac~nlytrFfkl---~qSpsv~~lmg~lle~h~~sir~~aLkAm  337 (646)
T COG5079         261 GWPGGIFCDLPVQIALKLMQLAQSNNFRLLGRRNTEACFNLYTRFFKL---IQSPSVQYLMGCLLEKHNISIRGGALKAM  337 (646)
T ss_pred             cCCccccccchHHHHHHHHHHhhccCeeeccccchhhhhHHHHHHHHH---HhCccHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            344445566777777777776666665433               333   2356788888888775    4555444  


Q ss_pred             --hHHHhcCcccHHHHHHhhCCCCHHHHHHHHhhcCCCCeee
Q 031345           84 --CSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMK  123 (161)
Q Consensus        84 --~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~  123 (161)
                        |+++|-..+|.-+...+|.|++.++..+|++  --|-++.
T Consensus       338 ~k~~~sahk~ipf~~l~~il~f~~~~e~~efck--yy~lei~  377 (646)
T COG5079         338 EKEIESAHKNIPFVDLSGILDFEEKGEGEEFCK--YYGLEIR  377 (646)
T ss_pred             HHHHHHhhcCCCeehhhhhccccccchhHHHhh--hcceeee
Confidence              6666667899999999999999999999985  4577775

>KOG1860 consensus Nuclear protein export factor [Intracellular trafficking, secretion, and vesicular transport; Cell cycle control, cell division, chromosome partitioning]

Probab=81.58  E-value=5.8  Score=38.82  Aligned_cols=104  Identities=16%  Similarity=0.269  Sum_probs=83.4

Q ss_pred             HHHHHhcchhhhcCccchhhHHHHHHHhhcChHHHHH-----------------hhhcCC-CC-cHHHHHHHHHHHHHHH
Q 031345           20 HTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLS-----------------AKQNVP-NE-TYGYFMDLLAKTVRDE   80 (161)
Q Consensus        20 h~~lE~ip~~~~~~~~I~~~v~LEq~LmeG~Y~kv~~-----------------a~~~~P-s~-~~~~fm~~L~~tiR~e   80 (161)
                      -.....+|+++..++.++....+-++.-.|+|-..+.                 .....| .+ .-..++..+...||.-
T Consensus       292 ~~~iq~~~~evr~~~~Vk~al~~~~a~~~nn~~~~~r~~~~~t~a~~~l~~~~~~l~q~p~~~~L~~~v~~~~f~~ir~~  371 (927)
T KOG1860|consen  292 VRDIQAWPDEVRQDSEVKLALCLRRAFQSNNFRRFFRLSSLRTEALQNLYTRFFKLMQSPALPYLMGCVLELFFPDIRWA  371 (927)
T ss_pred             HHHHHhcCcccccchhHHHHHHHHHHhccCCeeeeeeccchhHHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHH
Confidence            3456778888889999999999999999999988852                 122334 22 3456777788889988


Q ss_pred             HHHhHHHhcC----cccHHHHHHhhCCCCHHHHHHHHhhcCCCCeeeCC
Q 031345           81 IAGCSEKAYD----YLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDG  125 (161)
Q Consensus        81 iA~~ie~AY~----sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~~~  125 (161)
                      .-.-++.+|.    .+|+.+...+|.|+++++...++  ..+|=+++.+
T Consensus       372 al~~~~~~~~~~~~~vp~~~l~~~l~f~~~e~~~~~~--~~y~Leis~~  418 (927)
T KOG1860|consen  372 ALRAMSHAYNSKHVPVPLGKLDRILLFDGEEELKVVC--NYYGLEISVD  418 (927)
T ss_pred             HHHHHHHHHhccCCCcchhHHHHHHhcCChhhhHhhh--hheeeEeecc
Confidence            8888888886    68999999999999999999997  4788888733

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	161
4b0z_A	229	Crystal Structure Of S. Pombe Rpn12 Length = 229		3e-14
4b4t_T	274	Near-Atomic Resolution Structural Model Of The Yeas		3e-08

>pdb|4B0Z|A Chain A, Crystal Structure Of S. Pombe Rpn12 Length = 229

Iteration: 1
 Score = 73.9 bits (180), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 40/121 (33%), Positives = 68/121 (56%), Gaps = 4/121 (3%)
Query: 13  QNRIAEFHXXXXXX--XXXXXXNPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFM 70
           +NRIAEFH              +P ++  + LEQ+ MEGA+++V S  ++     + YFM
Sbjct: 110 ENRIAEFHTALESVPDKSLFERDPYVEWVISLEQNVMEGAFDKVASMIRSCNFPEFSYFM 169
Query: 71  DLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQ 130
            ++   VR+EIA C+EK Y  + + +A  +L   + +E  E + EE   W+++DG ++F 
Sbjct: 170 KIVMSMVRNEIATCAEKVYSEIPLSNATSLLYLENTKE-TEKLAEERG-WDIRDGVIYFP 227
Query: 131 K 131
           K
Sbjct: 228 K 228

>pdb|4B4T|T Chain T, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 274

Iteration: 1
 Score = 54.3 bits (129), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 37/140 (26%), Positives = 72/140 (51%), Gaps = 15/140 (10%)
Query: 33  NPCIKHAVELEQSFMEGAYNRVL----SAKQNVPNETYGYFMDLLAKTVRDEIAGCSEKA 88
           +  + + ++L++  MEG+Y +      S  QN+    +  F D+L   +RDEIA  +E +
Sbjct: 139 DSLLSYPIKLDRWLMEGSYQKAWDLLQSGSQNIS--EFDSFTDILKSAIRDEIAKNTELS 196
Query: 89  YDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFF-----QKA--KDSAPCKEI 141
           YD+L + +   +L F +++E  ++  E +  W + +  V+F     +KA  +D    +E 
Sbjct: 197 YDFLPLSNIKALLFFNNEKETEKFALERN--WPIVNSKVYFNNQSKEKADYEDEMMHEED 254
Query: 142 PSLQLINQTLSYARELERIV 161
               +I + + YA  +E IV
Sbjct: 255 QKTNIIEKAMDYAISIENIV 274

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	161
4b4t_T	274	26S proteasome regulatory subunit RPN12; hydrolase	100.0
4b0z_A	229	RPN12, 26S proteasome regulatory subunit RPN12; pr	100.0
1rz4_A	226	Eukaryotic translation initiation factor 3 subuni;	99.95
3t5v_A	316	Nuclear mRNA export protein SAC3; PCI, mRNA nuclea	99.57
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	96.62
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	95.86
1ufm_A	84	COP9 complex subunit 4; helix-turn-helix, structur	94.37
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	93.51
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	91.07
4b4t_O	393	26S proteasome regulatory subunit RPN9; hydrolase,	89.51
3t5x_A	203	PCI domain-containing protein 2; PCI, mRNA nuclear	84.24
4b4t_S	523	RPN3, 26S proteasome regulatory subunit RPN3; hydr	83.06

>4b4t_T 26S proteasome regulatory subunit RPN12; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=2.2e-49  Score=329.74  Aligned_cols=158  Identities=27%  Similarity=0.533  Sum_probs=118.4

Q ss_pred             chHHHHHHHHhcCChhHHHHHHHhcchh---hhcCccchhhHHHHHHHhhcChHHHHHhhhc--CCCCcHHHHHHHHHHH
Q 031345            2 ILGLNLLRLLVQNRIAEFHTELELLSST---ALENPCIKHAVELEQSFMEGAYNRVLSAKQN--VPNETYGYFMDLLAKT   76 (161)
Q Consensus         2 i~gL~LL~LLsqN~iaeFh~~lE~ip~~---~~~~~~I~~~v~LEq~LmeG~Y~kv~~a~~~--~Ps~~~~~fm~~L~~t   76 (161)
                      ++|+||||||+|||+++||++||+||..   +++||+|+||++||+++|+|||+|+|+..++  .|+++|++||+.|++|
T Consensus       105 ~~~~~LLylL~~n~~~efh~~Le~L~~~~~~~~~d~~Ik~al~le~al~eGnY~kff~l~~~~~~p~~~~~~f~d~l~~~  184 (274)
T 4b4t_T          105 LISLYLLNLLSQNNTTKFHSELQYLDKHIKNLEDDSLLSYPIKLDRWLMEGSYQKAWDLLQSGSQNISEFDSFTDILKSA  184 (274)
T ss_dssp             HHHHHHHHHHHHHCSTHHHHHHHSSSCSSSTTTCCHHHHHHHHHHHHHHHTCSHHHHHHHHTCTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhcchhhHhHhcChHHHHHHHHHHHHHcCCHHHHHHHHhcCCCCcHHHHHHHHHHHHH
Confidence            6899999999999999999999999964   4589999999999999999999999986554  4678899999999999


Q ss_pred             HHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHhhcCCCCeeeCCeEEEeCCCCCC-------CCCCCChHHHHHH
Q 031345           77 VRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQKAKDSA-------PCKEIPSLQLINQ  149 (161)
Q Consensus        77 iR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~~~~i~f~~~~~~~-------~~~~~~~~~li~~  149 (161)
                      +|.+||+||+|||.+||+++++++|+|+|++|+.+|++  +|||+++||++||+..+...       ...++|+.++|+|
T Consensus       185 iR~~a~~~i~kaY~~i~l~~~~~~L~F~s~~e~~~F~~--~~gW~~~~~~v~F~~~~~~~~~~~~~~~~~~ips~~li~~  262 (274)
T 4b4t_T          185 IRDEIAKNTELSYDFLPLSNIKALLFFNNEKETEKFAL--ERNWPIVNSKVYFNNQSKEKADYEDEMMHEEDQKTNIIEK  262 (274)
T ss_dssp             HHHHHHHHHHHHCSSCCHHHHHHHHTCCSHHHHHHHHH--HTTCCCCSSCCCC---------------------------
T ss_pred             HHHHHHHHHHHHHhhcCHHHHHHHhCCCCHHHHHHHHH--HcCCEEeCCEeEECCccccccccccccccccCcHHHHHHH
Confidence            99999999999999999999999999999999999984  68999999999998753221       2356899999999


Q ss_pred             HHhHHHHhhhcC
Q 031345          150 TLSYARELERIV  161 (161)
Q Consensus       150 ~l~Ya~elE~IV  161 (161)
                      +|+||+|||+||
T Consensus       263 ~l~YA~elE~IV  274 (274)
T 4b4t_T          263 AMDYAISIENIV  274 (274)
T ss_dssp             ------------
T ss_pred             HHHHHHHhhhcC
Confidence            999999999998

>4b0z_A RPN12, 26S proteasome regulatory subunit RPN12; protein binding, proteasome ubitquitin; HET: SGM GOL; 1.58A {Schizosaccharomyces pombe}

Probab=100.00  E-value=6.4e-39  Score=260.14  Aligned_cols=128  Identities=37%  Similarity=0.708  Sum_probs=122.6

Q ss_pred             chHHHHHHHHhcCChhHHHHHHHhcchhh--hcCccchhhHHHHHHHhhcChHHHHHhhhcCCCCcHHHHHHHHHHHHHH
Q 031345            2 ILGLNLLRLLVQNRIAEFHTELELLSSTA--LENPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMDLLAKTVRD   79 (161)
Q Consensus         2 i~gL~LL~LLsqN~iaeFh~~lE~ip~~~--~~~~~I~~~v~LEq~LmeG~Y~kv~~a~~~~Ps~~~~~fm~~L~~tiR~   79 (161)
                      ++|+|||++|+||++++||+++|++|.+.  ++||+|++|++|+|++|+|||+++|+..++.|++.|.+||+.|++++|.
T Consensus        99 ~~~~~LL~lL~~~~~~ef~~~le~l~~~~~~~~~~~I~~al~l~~al~~GnY~kff~l~~~~p~~~~~~~~~~l~~~vR~  178 (229)
T 4b0z_A           99 VTGLNLLYLLSENRIAEFHTALESVPDKSLFERDPYVEWVISLEQNVMEGAFDKVASMIRSCNFPEFSYFMKIVMSMVRN  178 (229)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHCSCTTHHHHCHHHHHHHHHHHHHHTTCHHHHHHHHHTCCCGGGHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCchHHHHHHHhcChHHHhhcCHHHHHHHHHHHHHHcCCHHHHHHHHhcCccchHHHHHHHHHHHHHH
Confidence            68999999999999999999999999764  4999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHhhcCCCCeeeCCeEEEeC
Q 031345           80 EIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQK  131 (161)
Q Consensus        80 eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~~~~i~f~~  131 (161)
                      ++++||++||++||+++++++|+|+|++|+.+|++  ++||+++||.|||++
T Consensus       179 ~~l~~i~kaY~~i~l~~~~~~L~f~s~~e~~~f~~--~~gw~i~dg~i~F~~  228 (229)
T 4b0z_A          179 EIATCAEKVYSEIPLSNATSLLYLENTKETEKLAE--ERGWDIRDGVIYFPK  228 (229)
T ss_dssp             HHHHHHHHHCSEEEHHHHHHHTTCSSHHHHHHHHH--HHTCEEETTEEECC-
T ss_pred             HHHHHHHHHcCCCCHHHHHHHhCCCCHHHHHHHHH--HcCCEEeCCEEecCC
Confidence            99999999999999999999999999999999984  689999999999986

>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

Probab=99.95  E-value=3.6e-28  Score=197.25  Aligned_cols=127  Identities=16%  Similarity=0.137  Sum_probs=112.1

Q ss_pred             chHHHHHHHHhcCChhHHHHHHHhcchhhhcCccchhhHHHHHHHhhcChHHHHHhhhcCCCCcHHHHHHHHHHHHHHHH
Q 031345            2 ILGLNLLRLLVQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMDLLAKTVRDEI   81 (161)
Q Consensus         2 i~gL~LL~LLsqN~iaeFh~~lE~ip~~~~~~~~I~~~v~LEq~LmeG~Y~kv~~a~~~~Ps~~~~~fm~~L~~tiR~ei   81 (161)
                      ++|++||.+|+++..++||+.++.||+.+++||+|++||.|+++||+|+|+++|++.+..  +++..++.-|.++||.+|
T Consensus        65 ii~~iLlk~L~~~p~~DF~~~l~LIp~~~~~~~~I~~i~~L~~~L~~~~y~~fW~~l~~~--~~l~~~i~gf~dsIR~~I  142 (226)
T 1rz4_A           65 VTAQILLKALTNLPHTDFTLCKCMIDQAHQEERPIRQILYLGDLLETCHFQAFWQALDEN--MDLLEGITGFEDSVRKFI  142 (226)
T ss_dssp             HHHHHHHHHHHTTTSTHHHHHHHTSCHHHHTSTTHHHHHHHHHHHHTTCHHHHHHHSCTT--CHHHHTSTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhCChhhhcCHHHHHHHHHHHHHHcCCHHHHHHHHhcC--hhHHHHHhHHHHHHHHHH
Confidence            689999999999999999999999999888999999999999999999999999997653  344444445999999999


Q ss_pred             HHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHhhcCCCCeee-CCeEEEeCC
Q 031345           82 AGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMK-DGFVFFQKA  132 (161)
Q Consensus        82 A~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~-~~~i~f~~~  132 (161)
                      |.|+++||++||+++++++||+.|++++.+|++  ++||+++ +|.|+|+..
T Consensus       143 ~~~i~~aY~sI~~~~la~lLg~~s~~el~~fi~--~~GW~vd~~g~I~~~n~  192 (226)
T 1rz4_A          143 CHVVGITYQHIDRWLLAEMLGDLSDSQLKVWMS--KYGWSADESGQIFICSQ  192 (226)
T ss_dssp             HHHHHHHCSEECHHHHHHHTTSCCHHHHHHHHH--HHTCEECC--CEECCCH
T ss_pred             HHHHHHHHhhCCHHHHHHHHcCCCHHHHHHHHH--HCCCEECCCccEEeCCC
Confidence            999999999999999999998778999999985  4799997 778877654

>3t5v_A Nuclear mRNA export protein SAC3; PCI, mRNA nuclear export, mRNA, nuclear, transcription; 2.90A {Saccharomyces cerevisiae}

Probab=99.57  E-value=8.8e-15  Score=123.64  Aligned_cols=120  Identities=16%  Similarity=0.289  Sum_probs=105.7

Q ss_pred             chHHHHHHHHhcCChhHHHHHHHhcchhhhcCccchhhHHHHHHHh---------------hcChHHHHHhhhcCCCCcH
Q 031345            2 ILGLNLLRLLVQNRIAEFHTELELLSSTALENPCIKHAVELEQSFM---------------EGAYNRVLSAKQNVPNETY   66 (161)
Q Consensus         2 i~gL~LL~LLsqN~iaeFh~~lE~ip~~~~~~~~I~~~v~LEq~Lm---------------eG~Y~kv~~a~~~~Ps~~~   66 (161)
                      +.|++||+.|.+   .+++..+..+|.++++||.|++++.+.+++.               .|||.++|+...+ |+..|
T Consensus       118 F~aY~lL~~l~~---~~~~~~l~~Lp~~i~~~p~Vq~AL~l~~a~~~~~~~e~~~~~~~~~~gNY~rFFrL~~~-~~~py  193 (316)
T 3t5v_A          118 FRAYALLSKIRD---PQYDENIQRLPKHIFQDKLVQMALCFRRVISNSAYTERGFVKTENCLNFYARFFQLMQS-PSLPL  193 (316)
T ss_dssp             HHHHHHHHSTTC---THHHHHHTTSCHHHHTSHHHHHHHHHHHHHCCTTCCCTTCCCCSSCCCCHHHHHHHHTC-TTSCH
T ss_pred             HHHHHHHHHhcc---chHHHHHHhCCHHHhcCHHHHHHHHHHHHHHhcccccccccccccccchHHHHHHHHhc-cCCCh
Confidence            468899998875   4788999999999999999999999999985               3899999999877 43345


Q ss_pred             --HHHHHHHHHHHHHHHHHhHHHhcC----cccHHHHHHhhCCCCHHHHHHHHhhcCCCCeeeC-CeE
Q 031345           67 --GYFMDLLAKTVRDEIAGCSEKAYD----YLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKD-GFV  127 (161)
Q Consensus        67 --~~fm~~L~~tiR~eiA~~ie~AY~----sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~~-~~i  127 (161)
                        +.+|+...+++|..+..|+.+||.    ++|++.++++|+|+|++|+.+|++  ..||++.+ +.+
T Consensus       194 L~aclle~~~~~vR~~AL~~i~kay~~k~~~~pl~~L~~~L~Fds~ee~~~F~~--~~gl~~~~~~~~  259 (316)
T 3t5v_A          194 LMGFFLQMHLTDIRFYALRALSHTLNKKHKPIPFIYLENMLLFNNRQEIIEFCN--YYSIEIINGDAA  259 (316)
T ss_dssp             HHHHHHGGGHHHHHHHHHHHHHHHSCTTCCCEEHHHHHHHTTCSSHHHHHHHHH--HTTCCEETTTEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcCHHHHHHHhCCCCHHHHHHHHH--HCCCeEeCCCCc
Confidence              899999999999999999999994    899999999999999999999994  68999985 444

>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

Probab=96.62  E-value=0.037  Score=47.61  Aligned_cols=123  Identities=6%  Similarity=0.055  Sum_probs=85.0

Q ss_pred             HHHHhcCChhHHHHHHHhcchhh-hcCccchhhHHHHHHHhhcChHHHHHhhhc----CC-CCcHHHHHHHHHHHHHHHH
Q 031345            8 LRLLVQNRIAEFHTELELLSSTA-LENPCIKHAVELEQSFMEGAYNRVLSAKQN----VP-NETYGYFMDLLAKTVRDEI   81 (161)
Q Consensus         8 L~LLsqN~iaeFh~~lE~ip~~~-~~~~~I~~~v~LEq~LmeG~Y~kv~~a~~~----~P-s~~~~~fm~~L~~tiR~ei   81 (161)
                      |.-|..++..|+...+- =|... ..+|.+.....|-+..-.|++.........    +. .+......+.|...||...
T Consensus       228 L~aLl~~~r~el~~~l~-~~~~~~~~~pei~~l~~L~~a~~~~dl~~f~~iL~~~~~~l~~D~~l~~h~~~L~~~Ir~~~  306 (394)
T 3txn_A          228 LCKIMLGQSDDVNQLVS-GKLAITYSGRDIDAMKSVAEASHKRSLADFQAALKEYKKELAEDVIVQAHLGTLYDTMLEQN  306 (394)
T ss_dssp             HHHHHTTCGGGHHHHHH-SHHHHTTCSHHHHHHHHHHHHHHTTCHHHHHHHHHHSTTTTTTSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHhc-cccccccCCccHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHH
Confidence            33444566667764321 11011 178999999999999999999766554332    22 2334555788999999999


Q ss_pred             HHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHh----hcCCCCeee--CCeEEEeCC
Q 031345           82 AGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVK----EEHPEWEMK--DGFVFFQKA  132 (161)
Q Consensus        82 A~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~----~~~rgW~~~--~~~i~f~~~  132 (161)
                      ..-+-+.|++|++++.|+.++++ +++++..+.    ...-.=.+|  +|.++|..+
T Consensus       307 L~~i~~pYsrIsl~~iA~~l~ls-~~evE~~L~~lI~dg~I~a~IDq~~giv~~~~~  362 (394)
T 3txn_A          307 LCRIIEPYSRVQVAHVAESIQLP-MPQVEKKLSQMILDKKFSGILDQGEGVLIVFEE  362 (394)
T ss_dssp             HHHHHTTCSEEEHHHHHHHHTCC-HHHHHHHHHHHHHTTSSCEEEETTTTEEEECCC
T ss_pred             HHHHhHhhceeeHHHHHHHHCcC-HHHHHHHHHHHHHCCCeeEEEcCCCCEEEECCC
Confidence            99999999999999999999995 888877762    111223788  677777654

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.86  E-value=0.026  Score=48.31  Aligned_cols=100  Identities=15%  Similarity=0.212  Sum_probs=74.3

Q ss_pred             cCccchhhHHHHHHHhhcChHHHHHhh----hcC--CCCcHHHHHHHHHHHHHHHHHHhHHHhcCcccHHHHHHhhCCCC
Q 031345           32 ENPCIKHAVELEQSFMEGAYNRVLSAK----QNV--PNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTS  105 (161)
Q Consensus        32 ~~~~I~~~v~LEq~LmeG~Y~kv~~a~----~~~--Ps~~~~~fm~~L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~  105 (161)
                      ..|.+.....+-..+..++|...+...    ...  ..+....-.+.|...||......+-+.|++++++..|+.|+++ 
T Consensus       282 ~~p~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~d~~l~~h~~~l~~~ir~~~l~q~~~~Ys~I~l~~mA~~l~~s-  360 (429)
T 4b4t_R          282 TTAALQSISSLTISLYASDYASYFPYLLETYANVLIPCKYLNRHADFFVREMRRKVYAQLLESYKTLSLKSMASAFGVS-  360 (429)
T ss_dssp             SHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHSTTTTTCTTSTTTHHHHHHHHHHHHHHHHHHTCSEEEHHHHHHHHTSC-
T ss_pred             CChhHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhccCHHHHHHHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcC-
Confidence            567788888888899999999987642    111  1344555677799999999999999999999999999999998 


Q ss_pred             HHHHHHH----HhhcCCCCeee--CCeEEEeCC
Q 031345          106 DQELLEY----VKEEHPEWEMK--DGFVFFQKA  132 (161)
Q Consensus       106 ~~e~~~f----~~~~~rgW~~~--~~~i~f~~~  132 (161)
                      ++++.++    +....-.=.+|  +|.|++..+
T Consensus       361 ~~~~E~~L~~lI~~g~l~akID~~~giv~~~~~  393 (429)
T 4b4t_R          361 VAFLDNDLGKFIPNKQLNCVIDRVNGIVETNRP  393 (429)
T ss_dssp             HHHHHHHHHHHHHHTSSCEEEETTTTEEEECC-
T ss_pred             HHHHHHHHHHHHHcCCeEEEEcCCCCEEEECCC
Confidence            6666554    43333355777  666666553

>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

Probab=94.37  E-value=0.16  Score=34.36  Aligned_cols=58  Identities=19%  Similarity=0.318  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHhh---cCC-CCeee--CCeEEEeC
Q 031345           73 LAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKE---EHP-EWEMK--DGFVFFQK  131 (161)
Q Consensus        73 L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~~---~~r-gW~~~--~~~i~f~~  131 (161)
                      |.+.+.++-...+.+-|++|+++..|++|+++ ++++.+++..   ..+ .=.+|  +|.|.|..
T Consensus        12 L~~~v~E~nl~~is~~Y~~Isl~~La~ll~ls-~~~vE~~ls~mI~~~~l~akIDq~~g~V~f~~   75 (84)
T 1ufm_A           12 LDRAVIEHNLLSASKLYNNITFEELGALLEIP-AAKAEKIASQMITEGRMNGFIDQIDGIVHFET   75 (84)
T ss_dssp             CCHHHHHHHHHHHHHSCSEEEHHHHHHHTTSC-HHHHHHHHHHHHHTTSSCEEEETTTTEEEECC
T ss_pred             HHHHHHHHHHHHHHHhcCeeeHHHHHHHHCcC-HHHHHHHHHHHHhCCcEEEEEeCCCCEEEeCC
Confidence            34455555555677899999999999999998 8888777631   122 33566  66777755

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.51  E-value=0.41  Score=41.15  Aligned_cols=124  Identities=12%  Similarity=0.105  Sum_probs=77.8

Q ss_pred             HHHHHhcCChhHHHHHHHhcchhhhcCccchhhHHHHHHHhhcCh---HHHHHhhhcC--CCC------cHHHHHHHHHH
Q 031345            7 LLRLLVQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAY---NRVLSAKQNV--PNE------TYGYFMDLLAK   75 (161)
Q Consensus         7 LL~LLsqN~iaeFh~~lE~ip~~~~~~~~I~~~v~LEq~LmeG~Y---~kv~~a~~~~--Ps~------~~~~fm~~L~~   75 (161)
                      +++++-.+...++...+.++-.+ ...+.|...-.|.+....++.   ..+.......  +.+      .-......|..
T Consensus       265 v~~~iLa~~~~~~~~ll~~~~~~-~~~~~l~~~~~L~k~f~~~~L~~~~~~~~~~~~~L~~~~~~~~~~~~~~~~~~L~~  343 (445)
T 4b4t_P          265 VYFLVLSPYGNLQNDLIHKIQND-NNLKKLESQESLVKLFTTNELMRWPIVQKTYEPVLNEDDLAFGGEANKHHWEDLQK  343 (445)
T ss_dssp             HHHHHHSSCSSTTHHHHHSHHHH-SSCHHHHHHHHHHHHHHHCCSSSHHHHHHHTCSSTTTCCSSCCCSCSSHHHHHHHH
T ss_pred             HHHHHhCCCCchHHHHHHHHhhc-ccccccHHHHHHHHHHHhchHhhhHHHHHHHHHHhcccchhhhcchhhHHHHHHHH
Confidence            34444444445566666655332 233455555667777777654   4444432210  111      11445677999


Q ss_pred             HHHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHhh----cCCCCeee--CCeEEEeCC
Q 031345           76 TVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKE----EHPEWEMK--DGFVFFQKA  132 (161)
Q Consensus        76 tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~~----~~rgW~~~--~~~i~f~~~  132 (161)
                      .+++.-...+.+.|++|+++..+.+|+++ ++++..++..    ..-.=.+|  +|.|+|..+
T Consensus       344 ~v~ehnl~~i~k~Ys~I~l~~la~lL~l~-~~evE~~ls~mI~~g~i~akIDq~~giV~F~~~  405 (445)
T 4b4t_P          344 RVIEHNLRVISEYYSRITLLRLNELLDLT-ESQTETYISDLVNQGIIYAKVNRPAKIVNFEKP  405 (445)
T ss_dssp             HHHHHHHHHHHHHEEEEEHHHHHHHHTSC-HHHHHHHHHHHHHHTSSCCEEETTTTEEEC---
T ss_pred             HHHHHHHHHHHHHhceeeHHHHHHHhCcC-HHHHHHHHHHHHHCCCEEEEEcCCCCEEEECCC
Confidence            99999999999999999999999999997 8999988731    11122677  677777654

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.07  E-value=2.3  Score=34.04  Aligned_cols=100  Identities=8%  Similarity=0.126  Sum_probs=67.6

Q ss_pred             cCccchhhHHHHHHHhhcChHHHHHhhhc-----CCCCcHHHHHHHHHHHHHHHHHHhHHHhcCcccHHHHHHhhCCCCH
Q 031345           32 ENPCIKHAVELEQSFMEGAYNRVLSAKQN-----VPNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSD  106 (161)
Q Consensus        32 ~~~~I~~~v~LEq~LmeG~Y~kv~~a~~~-----~Ps~~~~~fm~~L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~~  106 (161)
                      .++.+...-.+.+....+++...-.....     ...+.....++.+...+|...-.-+.+.|++++++..+.+|+++ +
T Consensus       292 ~~~~~~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~l~~~~~~y~~i~l~~la~~l~~~-~  370 (434)
T 4b4t_Q          292 QSRGIDAMKAVAEAYNNRSLLDFNTALKQYEKELMGDELTRSHFNALYDTLLESNLCKIIEPFECVEISHISKIIGLD-T  370 (434)
T ss_dssp             CCHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHTCSHHHHHHHHHHHHHHHHHHHHHHHSSCSCEEHHHHHHHHTCC-H
T ss_pred             cchhhhHHHHHHHHHHhhhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHhCcC-H
Confidence            55666666677777777776555443221     11333456678889999999999999999999999999999997 7


Q ss_pred             HHHHHHHh----hcCCCCeee--CCeEEEeCC
Q 031345          107 QELLEYVK----EEHPEWEMK--DGFVFFQKA  132 (161)
Q Consensus       107 ~e~~~f~~----~~~rgW~~~--~~~i~f~~~  132 (161)
                      +++..++.    ...-.=.+|  +|.+.+...
T Consensus       371 ~~~E~~l~~lI~~~~i~a~id~~~g~v~~~~~  402 (434)
T 4b4t_Q          371 QQVEGKLSQMILDKIFYGVLDQGNGWLYVYET  402 (434)
T ss_dssp             HHHHHHHHHHHHHTSSCCEEETTTTEEECC--
T ss_pred             HHHHHHHHHHHhCCCcceecccccCeEeeCCC
Confidence            77776552    111222455  566666543

>4b4t_O 26S proteasome regulatory subunit RPN9; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=89.51  E-value=1.5  Score=37.07  Aligned_cols=119  Identities=12%  Similarity=0.115  Sum_probs=76.4

Q ss_pred             HHhcCChhHHHHHHHhcchhhh-cCccchhhHHHHHHHhhcChHHHHHhhh-cCC-CCcHHHHHHHHHHHHHHHHHHhH-
Q 031345           10 LLVQNRIAEFHTELELLSSTAL-ENPCIKHAVELEQSFMEGAYNRVLSAKQ-NVP-NETYGYFMDLLAKTVRDEIAGCS-   85 (161)
Q Consensus        10 LLsqN~iaeFh~~lE~ip~~~~-~~~~I~~~v~LEq~LmeG~Y~kv~~a~~-~~P-s~~~~~fm~~L~~tiR~eiA~~i-   85 (161)
                      -|...++-.|-.+|..-..... ++|......+|=+..-.|+|...-...+ +.+ .|........+...+|--....+ 
T Consensus       221 all~~~i~~f~eLL~~p~i~~L~~~~~~~~l~~Ll~~f~~g~~~~f~~~~~~~~~~~~~l~~~~~~l~~kirll~l~~l~  300 (393)
T 4b4t_O          221 ALLGDKIYNFGELLHHPIMETIVNDSNYDWLFQLLNALTVGDFDKFDSLIKVQISKIPILAQHESFLRQKICLMTLIETV  300 (393)
T ss_dssp             HHHCCSSCSTHHHHHSCCTTSSCSSSSTTHHHHHHHHHHHTCHHHHHHHCCHHHHHSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHcCCCCCChHHHhCChHHHHhhcCCchHHHHHHHHHHhcCCHHHHHHHHHHhhhhCcchhhhHHHHHHHHHHHHHHHHh
Confidence            3445556666655554333334 6788888899999999999988865322 111 23445555556666665443322 


Q ss_pred             -HHhcCcccHHHHHHhhCCCCHHHHHHHHh-----hcCCCCeee--CCeEEEe
Q 031345           86 -EKAYDYLSIKDAGQMLLFTSDQELLEYVK-----EEHPEWEMK--DGFVFFQ  130 (161)
Q Consensus        86 -e~AY~sl~l~~a~~lL~~~~~~e~~~f~~-----~~~rgW~~~--~~~i~f~  130 (161)
                       .+.|++||.++.++.|+++ ++|++.++-     +.=+| .+|  +|.|++.
T Consensus       301 ~~~~~~~i~f~~ia~~l~i~-~~evE~lli~aI~~glI~G-kIDQv~~~v~v~  351 (393)
T 4b4t_O          301 FVKNIRMLSFEDISKATHLP-KDNVEHLVMRAISLGLLKG-SIDQVNELVTIS  351 (393)
T ss_dssp             CSSSCCCEEHHHHHHHHTCC-HHHHHHHHHHHHHHSCSSS-CEETTTTEECC-
T ss_pred             ccCCCCcCcHHHHHHHhCcC-HHHHHHHHHHHHHcCCEEE-EEcCCCCEEEEE
Confidence             2457899999999999997 899988873     11225 455  6666554

>3t5x_A PCI domain-containing protein 2; PCI, mRNA nuclear export, transcription; 2.12A {Homo sapiens}

Probab=84.24  E-value=1.1  Score=34.73  Aligned_cols=70  Identities=16%  Similarity=0.098  Sum_probs=51.6

Q ss_pred             HHHHHHHhhcChHHHHHhhhcCCCCcHHHHHHH----HHHHHHHHHHHhHHH------hcCcccHHHHHHhhCCC-----
Q 031345           40 VELEQSFMEGAYNRVLSAKQNVPNETYGYFMDL----LAKTVRDEIAGCSEK------AYDYLSIKDAGQMLLFT-----  104 (161)
Q Consensus        40 v~LEq~LmeG~Y~kv~~a~~~~Ps~~~~~fm~~----L~~tiR~eiA~~ie~------AY~sl~l~~a~~lL~~~-----  104 (161)
                      ..|=+++-.||..+.-++.++..    ..|++.    +++.+|.-+-...-|      .|+.||+++.+.-|.++     
T Consensus        84 ~~L~~Avr~Gdl~~f~~~l~~~~----~~f~~~~~~lll~rlr~~v~r~l~rkv~~~~~~~rI~l~~i~~~l~~~~~~~~  159 (203)
T 3t5x_A           84 AEVTRAVSEGNLLLLHEALAKHE----AFFIRCGIFLILEKLKIITYRNLFKKVYLLLKTHQLSLDAFLVALKFMQVEDV  159 (203)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHTH----HHHHHHTCHHHHHTHHHHHHHHHHHHHHHHHCCSEEEHHHHHHHHHHTTCTTC
T ss_pred             HHHHHHHHhCCHHHHHHHHHHhH----HHHHHCChHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcCCCCC
Confidence            47889999999988877665522    345443    677888766655444      69999999999988764     


Q ss_pred             CHHHHHHHH
Q 031345          105 SDQELLEYV  113 (161)
Q Consensus       105 ~~~e~~~f~  113 (161)
                      +++|++..+
T Consensus       160 ~~~evE~il  168 (203)
T 3t5x_A          160 DIDEVQCIL  168 (203)
T ss_dssp             CHHHHHHHH
T ss_pred             CHHHHHHHH
Confidence            688887776

>4b4t_S RPN3, 26S proteasome regulatory subunit RPN3; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=83.06  E-value=0.53  Score=41.99  Aligned_cols=75  Identities=19%  Similarity=0.174  Sum_probs=53.3

Q ss_pred             hHHHHHHHhhcChHHHHHhhhcCC-----CCcHHHHHHHHHHHHHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHH
Q 031345           39 AVELEQSFMEGAYNRVLSAKQNVP-----NETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYV  113 (161)
Q Consensus        39 ~v~LEq~LmeG~Y~kv~~a~~~~P-----s~~~~~fm~~L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~  113 (161)
                      =..|.++.-.|+-.++-......-     ...|. .+..|...+...-...+.++|++||+.+.+..|+++|++++..++
T Consensus       345 Y~~Lv~Avr~GdL~~F~~~L~~h~~~F~~Dgty~-LI~rLr~~vir~~irkis~~YsrIsL~dIa~kL~L~s~eeaE~iV  423 (523)
T 4b4t_S          345 YYHLTKAVKLGDLKKFTSTITKYKQLLLKDDTYQ-LCVRLRSNVIKTGIRIISLTYKKISLRDICLKLNLDSEQTVEYMV  423 (523)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHTHHHHHHTTCTH-HHHHHHHHHHHHHHHHSCCCSSEECHHHHHHHHHHHHSSCHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHhcceeccCChhH-HHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHhCCCCHHHHHHHH
Confidence            346778888888777655433211     12232 455666677777778899999999999999999998777777666


Q ss_pred             h
Q 031345          114 K  114 (161)
Q Consensus       114 ~  114 (161)
                      .
T Consensus       424 A  424 (523)
T 4b4t_S          424 S  424 (523)
T ss_dssp             H
T ss_pred             H
Confidence            3

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	161
d1rz4a1	85	Eukaryotic translation initiation factor 3 subunit	98.29
d1ufma_	84	COP9 signalosome complex subunit 4, GSN4 {Mouse (M	96.4

>d1rz4a1 a.4.5.53 (A:132-216) Eukaryotic translation initiation factor 3 subunit 12, eIF3k, C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Eukaryotic translation initiation factor 3 subunit 12, eIF3k, C-terminal domain
domain: Eukaryotic translation initiation factor 3 subunit 12, eIF3k, C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.29  E-value=1.7e-06  Score=58.42  Aligned_cols=59  Identities=19%  Similarity=0.201  Sum_probs=50.6

Q ss_pred             HHHHHHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHhhcCCCCeeeCCeEEEeCCC
Q 031345           73 LAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQKAK  133 (161)
Q Consensus        73 L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~~~~i~f~~~~  133 (161)
                      +-+.||.-|+.-+.-+|.+|+..-++.+||+.+..++..|++  .-||++++|..+|+..+
T Consensus         3 FedsIR~~i~~vv~iTyq~I~~~~L~e~LG~~~d~~L~~~i~--~~gW~~~~~g~v~v~nq   61 (85)
T d1rz4a1           3 FEDSVRKFICHVVGITYQHIDRWLLAEMLGDLSDSQLKVWMS--KYGWSADESGQIFICSQ   61 (85)
T ss_dssp             HHHHHHHHHHHHHHHHCSEECHHHHHHHTTSCCHHHHHHHHH--HHTCEECC--CEECCCH
T ss_pred             HHHHHHHHHHhheeeeeeEEcHHHHHHHhCCCCHHHHHHHHH--HcCCEEcCCCEEEecCh
Confidence            358999999999999999999999999999999999999985  46999996666677653

>d1ufma_ a.4.5.47 (A:) COP9 signalosome complex subunit 4, GSN4 {Mouse (Mus musculus) [TaxId: 10090]}

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=96.40  E-value=0.0056  Score=40.17  Aligned_cols=60  Identities=18%  Similarity=0.299  Sum_probs=45.6

Q ss_pred             HHHHHHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHh----hcCCCCeee--CCeEEEeCCC
Q 031345           73 LAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVK----EEHPEWEMK--DGFVFFQKAK  133 (161)
Q Consensus        73 L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~----~~~rgW~~~--~~~i~f~~~~  133 (161)
                      |.+.|++.-...+.+.|++|+++..+++|+++ ++++..++.    ...-.=.+|  +|.|+|..++
T Consensus        12 L~~~i~Ehni~~is~~Y~~Isl~~la~~l~l~-~~evE~~l~~mI~~~~i~akIDq~~g~V~F~~~e   77 (84)
T d1ufma_          12 LDRAVIEHNLLSASKLYNNITFEELGALLEIP-AAKAEKIASQMITEGRMNGFIDQIDGIVHFETRE   77 (84)
T ss_dssp             CCHHHHHHHHHHHHHSCSEEEHHHHHHHTTSC-HHHHHHHHHHHHHTTSSCEEEETTTTEEEECCSS
T ss_pred             HHHHHHHHHHHHHHHhhceeeHHHHHHHHCCC-HHHHHHHHHHHHhcCeEEEEEeCCCCEEEECCCC
Confidence            44566666677888999999999999999997 888877763    223355667  7888887764