Citrus Sinensis ID: 036425

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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-------170-------180-------190-------200-------210-------220-------230-------240-------250--
Protein Sequence
MVISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHNYVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVEHLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDVFNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHEKTEDAKPTAVPTASSS
Secondary Structure (PSIPRED)
cEEEEEccccccccccEEEcHHHHHHHHHHHHHccccccEEEEEEcccccccccHHHHHHHHHHccccEEEEEEcccccccccEEEEEEEEEcccccccccccEEEEEccccccccHHHHHHHHHHcccccccccccHHcHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccccHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccEEEccccccccccEEEEcHHHHHHHHHHHHHcccccEEEEEEcccccccHcHHHHHHHHHHHccccEEEEEEcccccccccEEEEEEEEEEccccccccEEEEEEEcEEEEcccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccc
Coil and Loop (DISEMBL)
mvisvpfeeddkdpgiwfldhnyHESMYSMFKRINAKEHVVGwystgpklrendlDIHQLFhnyvpnpvlviidvqpkelgiptkayydveevkenatQKSQKVFVHVPSEIAAHEVEEIGVEHLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLvideklplNHEILYHLQDVFNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNkilnkehektedakptavptasss
Flexible Loop (DISEMBL)
mvisvpfeeddkdpgiWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHNYVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVEHLLRDVKDTtistlanevtgkltalkgldaRLREIRGYLDLVIDEKLPLNHEILYHLQDVFNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNkilnkehektedakptavptasss
Low Complexity Region (SEG)
MVISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHNYVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVEHLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDVFNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHnlinnkilnkEHEKTEDAKPTAVPTASSS
Disordered region (IsUnstruct)
**************GIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHNYVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVEHLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDVFNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKIL*********************
Disordered Region (DISOPRED)
MVISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHNYVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE******************TGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDVFNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLIN*************************
Disordered Region (DISEMBL)
********EDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHNYVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVEHLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDVFNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEH*****************
Disordered Region (DISPRO)
MVISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHNYVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVEHLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDVFNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHEK***************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHNYVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVEHLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDVFNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHEKTEDAKPTAVPTASSS
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	252	2.2.26 [Sep-21-2011]
O24412	308	Probable 26S proteasome n	yes	no	0.980	0.801	0.898	1e-129
Q54WI8	325	26S proteasome non-ATPase	yes	no	0.984	0.763	0.570	3e-81
Q3ZBD0	322	26S proteasome non-ATPase	yes	no	0.936	0.732	0.611	4e-79
Q8WZY4	352	26S proteasome regulatory	N/A	no	0.948	0.678	0.561	9e-79
P51665	324	26S proteasome non-ATPase	yes	no	0.916	0.712	0.607	8e-77
P26516	321	26S proteasome non-ATPase	yes	no	0.916	0.719	0.607	1e-76
P26270	338	26S proteasome non-ATPase	yes	no	0.936	0.698	0.578	2e-76
O74440	324	26S proteasome regulatory	yes	no	0.948	0.737	0.513	1e-68
Q6FMD8	329	26S proteasome regulatory	yes	no	0.916	0.702	0.492	3e-65
Q08723	338	26S proteasome regulatory	yes	no	0.988	0.736	0.483	7e-63

>sp|O24412|PSD7_ARATH Probable 26S proteasome non-ATPase regulatory subunit 7 OS=Arabidopsis thaliana GN=RPN8 PE=2 SV=1

 Score =  459 bits (1182), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 222/247 (89%), Positives = 232/247 (93%)

Query: 4   SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHN 63
           +VPFEEDDKDP IWFLDHNYHESM+ MFKRINAKEHVVGWYSTGPKLRENDLD+H LF+ 
Sbjct: 62  AVPFEEDDKDPSIWFLDHNYHESMFHMFKRINAKEHVVGWYSTGPKLRENDLDVHALFNG 121

Query: 64  YVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 123
           YVPNPVLVIIDVQPKELGIPTKAYY VEEVKENATQKSQKVFVHV +EIAAHEVEEIGVE
Sbjct: 122 YVPNPVLVIIDVQPKELGIPTKAYYAVEEVKENATQKSQKVFVHVSTEIAAHEVEEIGVE 181

Query: 124 HLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDV 183
           HLLRDVKDTTISTLA EVT KLTALKGLDARLREIR YLDLVI+ KLPLNHEILYHLQDV
Sbjct: 182 HLLRDVKDTTISTLATEVTAKLTALKGLDARLREIRSYLDLVIEGKLPLNHEILYHLQDV 241

Query: 184 FNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHEKTEDAKP 243
           FNLLPNLNV EL+KAFSVKTNDMMLVIYLSSLIRSVIALHNLINNK+LNKEHEK ED+KP
Sbjct: 242 FNLLPNLNVNELVKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKLLNKEHEKAEDSKP 301

Query: 244 TAVPTAS 250
            A+P  S
Sbjct: 302 VAIPATS 308

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|Q54WI8|PSD7_DICDI 26S proteasome non-ATPase regulatory subunit 7 OS=Dictyostelium discoideum GN=psmD7 PE=3 SV=1

 Score =  301 bits (771), Expect = 3e-81,   Method: Compositional matrix adjust.
 Identities = 142/249 (57%), Positives = 190/249 (76%), Gaps = 1/249 (0%)

Query: 4   SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHN 63
            +PFEED+ +P IWFLDHN+HE+M++MFK+INA+E+VVGWYSTGPK+R  D DI++LF  
Sbjct: 53  GLPFEEDEANPNIWFLDHNFHENMFAMFKKINARENVVGWYSTGPKIRPADQDINELFRR 112

Query: 64  YVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 123
           Y PNPV+VIIDV PKELGIPTK+Y  VEE+ ++ ++ + + F H+PS I A E EEI +E
Sbjct: 113 YTPNPVMVIIDVAPKELGIPTKSYVTVEEINKDTSESTMR-FQHIPSSIDAVEAEEICIE 171

Query: 124 HLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDV 183
           HLLRDVKD++IS+L  ++T K  +LK L   L+E++ YL LV D  LP NH+I+ ++QD+
Sbjct: 172 HLLRDVKDSSISSLTTQITDKKISLKHLLTNLQEMQHYLKLVCDGTLPPNHQIIGYIQDI 231

Query: 184 FNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHEKTEDAKP 243
            NL PNLN  E+ K+F+V+ ND M VIYLSS+IRS+IALHNLI NK  N+E EK  D   
Sbjct: 232 INLSPNLNANEISKSFAVQNNDTMSVIYLSSMIRSIIALHNLIINKTANREAEKKADIIN 291

Query: 244 TAVPTASSS 252
           +  PT ++S
Sbjct: 292 STPPTTATS 300

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|Q3ZBD0|PSD7_BOVIN 26S proteasome non-ATPase regulatory subunit 7 OS=Bos taurus GN=PSMD7 PE=2 SV=1

 Score =  294 bits (753), Expect = 4e-79,   Method: Compositional matrix adjust.
 Identities = 145/237 (61%), Positives = 191/237 (80%), Gaps = 1/237 (0%)

Query: 3   ISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFH 62
            +VPF+EDDKD  +WFLDH+Y E+MY MFK++NA+E +VGWY TGPKL +ND+ I++L  
Sbjct: 54  FAVPFDEDDKDDSVWFLDHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELMK 113

Query: 63  NYVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGV 122
            Y PN VLVIIDV+PK+LG+PT+AY  VEEV ++ T  S K F HV SEI A E EE+GV
Sbjct: 114 RYCPNSVLVIIDVKPKDLGLPTEAYISVEEVHDDGTPTS-KTFEHVTSEIGAEEAEEVGV 172

Query: 123 EHLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQD 182
           EHLLRD+KDTT+ TL+  +T ++  LKGL+++L +IRGYL+ V   KLP+NH+I+Y LQD
Sbjct: 173 EHLLRDIKDTTVGTLSQRITNQVHGLKGLNSKLLDIRGYLEKVATGKLPINHQIIYQLQD 232

Query: 183 VFNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHEKTE 239
           VFNLLP++++ E +KAF +KTND M+V+YL+SLIRSV+ALHNLINNKI N++ EK E
Sbjct: 233 VFNLLPDVSLQEFVKAFYLKTNDQMVVVYLASLIRSVVALHNLINNKIANRDAEKKE 289

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

Bos taurus (taxid: 9913)

>sp|Q8WZY4|RPN8_NEUCR 26S proteasome regulatory subunit rpn-8 OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) GN=rpn-8 PE=3 SV=1

 Score =  293 bits (749), Expect = 9e-79,   Method: Compositional matrix adjust.
 Identities = 142/253 (56%), Positives = 188/253 (74%), Gaps = 14/253 (5%)

Query: 3   ISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFH 62
            +VPFEEDDKDP +WFLDHNY ESM  MFK++NA+E ++GWY +GPKLR +DLDI++LF 
Sbjct: 62  FAVPFEEDDKDPSVWFLDHNYVESMNDMFKKVNAREKLIGWYHSGPKLRASDLDINELFK 121

Query: 63  NYVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGV 122
            Y PNP+LVI+DVQPKE G+PT AY+ V+E+K++ T  S K FVH PS I A E EEIGV
Sbjct: 122 RYTPNPLLVIVDVQPKETGVPTDAYFAVDEIKDDGTTTS-KTFVHTPSIIEAEEAEEIGV 180

Query: 123 EHLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQD 182
           EHLLRD++D  + TL+  +T ++ +L+GL  RLR+I+ YL  V+D +LP+NH IL +LQD
Sbjct: 181 EHLLRDIRDVAVGTLSTRITNQMRSLQGLHHRLRDIQAYLQKVLDGQLPVNHAILGNLQD 240

Query: 183 VFNLLPNLNV-------------AELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNK 229
           VFNLLPNL+              +EL  A S+KTND ++ IYLSSLIR++ A H+LI NK
Sbjct: 241 VFNLLPNLSTPKSGPGATGTNADSELNHAMSIKTNDQLMAIYLSSLIRAITAFHDLIENK 300

Query: 230 ILNKEHEKTEDAK 242
           I N++ ++  DAK
Sbjct: 301 IQNRQQQEENDAK 313

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

Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) (taxid: 367110)

>sp|P51665|PSD7_HUMAN 26S proteasome non-ATPase regulatory subunit 7 OS=Homo sapiens GN=PSMD7 PE=1 SV=2

 Score =  286 bits (733), Expect = 8e-77,   Method: Compositional matrix adjust.
 Identities = 141/232 (60%), Positives = 187/232 (80%), Gaps = 1/232 (0%)

Query: 3   ISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFH 62
            +VPF+EDDKD  +WFLDH+Y E+MY MFK++NA+E +VGWY TGPKL +ND+ I++L  
Sbjct: 54  FAVPFDEDDKDDSVWFLDHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELMK 113

Query: 63  NYVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGV 122
            Y PN VLVIIDV+PK+LG+PT+AY  VEEV ++ T  S K F HV SEI A E EE+GV
Sbjct: 114 RYCPNSVLVIIDVKPKDLGLPTEAYISVEEVHDDGTPTS-KTFEHVTSEIGAEEAEEVGV 172

Query: 123 EHLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQD 182
           EHLLRD+KDTT+ TL+  +T ++  LKGL+++L +IR YL+ V   KLP+NH+I+Y LQD
Sbjct: 173 EHLLRDIKDTTVGTLSQRITNQVHGLKGLNSKLLDIRSYLEKVATGKLPINHQIIYQLQD 232

Query: 183 VFNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKE 234
           VFNLLP++++ E +KAF +KTND M+V+YL+SLIRSV+ALHNLINNKI N++
Sbjct: 233 VFNLLPDVSLQEFVKAFYLKTNDQMVVVYLASLIRSVVALHNLINNKIANRD 284

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

Homo sapiens (taxid: 9606)

>sp|P26516|PSD7_MOUSE 26S proteasome non-ATPase regulatory subunit 7 OS=Mus musculus GN=Psmd7 PE=1 SV=2

 Score =  286 bits (732), Expect = 1e-76,   Method: Compositional matrix adjust.
 Identities = 141/232 (60%), Positives = 186/232 (80%), Gaps = 1/232 (0%)

Query: 3   ISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFH 62
            +VPF+EDDKD  +WFLDH+Y E+MY MFK++NA+E +VGWY TGPKL +ND+ I++L  
Sbjct: 54  FAVPFDEDDKDDSVWFLDHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELMK 113

Query: 63  NYVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGV 122
            Y PN VLVIIDV+PK+LG+PT+AY  VEEV ++ T  S K F HV SEI A E EE+GV
Sbjct: 114 RYCPNSVLVIIDVKPKDLGLPTEAYISVEEVHDDGTPTS-KTFEHVTSEIGAEEAEEVGV 172

Query: 123 EHLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQD 182
           EHLLRD+KDTT+ TL+  +T ++  LKGL+++L +IR YL+ V   KLP+NH+I+Y LQD
Sbjct: 173 EHLLRDIKDTTVGTLSQRITNQVHGLKGLNSKLLDIRSYLEKVASGKLPINHQIIYQLQD 232

Query: 183 VFNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKE 234
           VFNLLP+ ++ E +KAF +KTND M+V+YL+SLIRSV+ALHNLINNKI N++
Sbjct: 233 VFNLLPDASLQEFVKAFYLKTNDQMVVVYLASLIRSVVALHNLINNKIANRD 284

Acts as a regulatory subunit of the 26S proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins. Plays an essential role during mouse embryonic development.

Mus musculus (taxid: 10090)

>sp|P26270|PSD7_DROME 26S proteasome non-ATPase regulatory subunit 7 OS=Drosophila melanogaster GN=Mov34 PE=1 SV=6

 Score =  285 bits (729), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 137/237 (57%), Positives = 186/237 (78%), Gaps = 1/237 (0%)

Query: 3   ISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFH 62
            +VPF+EDDKD  +WFLDH+Y E+MY MFK++NA+E VVGWY TGPKL +ND+ I++L  
Sbjct: 57  FAVPFDEDDKDKSVWFLDHDYLENMYGMFKKVNARERVVGWYHTGPKLHQNDIAINELVR 116

Query: 63  NYVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGV 122
            Y PN VLVIID +PK+LG+PT+AY  VEEV ++ +  S K F HVPSEI A E EE+GV
Sbjct: 117 RYCPNSVLVIIDAKPKDLGLPTEAYISVEEVHDDGSPTS-KTFEHVPSEIGAEEAEEVGV 175

Query: 123 EHLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQD 182
           EHLLRD+KDTT+ +L+ ++T +L  LKGL+A+LR+I+ YL  V D K+P+NH+I+Y LQD
Sbjct: 176 EHLLRDIKDTTVGSLSQKITNQLMGLKGLNAQLRDIKQYLQRVGDSKMPINHQIVYQLQD 235

Query: 183 VFNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHEKTE 239
           +FNLLP++   +      VKTND MLV+YL+S++RS+IALHNLINNK+ N++ E+ +
Sbjct: 236 IFNLLPDITNDQFTGTMYVKTNDQMLVVYLASMVRSIIALHNLINNKLANRDAEEGK 292

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

Drosophila melanogaster (taxid: 7227)

>sp|O74440|RPN8_SCHPO 26S proteasome regulatory subunit rpn8 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rpn8 PE=3 SV=1

 Score =  259 bits (662), Expect = 1e-68,   Method: Compositional matrix adjust.
 Identities = 129/251 (51%), Positives = 183/251 (72%), Gaps = 12/251 (4%)

Query: 4   SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHN 63
           ++PFEED+K+  +WFLDHN+ ESM  MFK+INA E +VGWY TGP+LR +DL+I+ L   
Sbjct: 62  AIPFEEDEKNASVWFLDHNFMESMNEMFKKINANEKLVGWYHTGPQLRPSDLEINNLLKK 121

Query: 64  YVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 123
           Y+PNPVLVIIDV+PK +G+PT AY+ ++E++++ + KS + FVH+PS I A E EEIGVE
Sbjct: 122 YIPNPVLVIIDVKPKSVGLPTNAYFAIDEIEDDGS-KSSRTFVHLPSSIEAEEAEEIGVE 180

Query: 124 HLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDV 183
           HLLRD +D ++ TLA  VT +  +L+GL  RL EI  YL  V+D +LP+NH IL  LQ V
Sbjct: 181 HLLRDTRDASVGTLATRVTQQAQSLQGLGQRLTEIADYLRKVVDGQLPINHAILAELQSV 240

Query: 184 FNLLPNLNVAELI----------KAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNK 233
           FNLLPN+    ++          +AF+V +ND ++ IY+SS++R+VIALH+L+++   +K
Sbjct: 241 FNLLPNIFSGPVVSEQALESEAQRAFNVNSNDQLMSIYISSIVRAVIALHDLLDSLAASK 300

Query: 234 EHEKTEDAKPT 244
             E+ +D KPT
Sbjct: 301 AMEQ-QDIKPT 310

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|Q6FMD8|RPN8_CANGA 26S proteasome regulatory subunit RPN8 OS=Candida glabrata (strain ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) GN=RPN8 PE=3 SV=1

 Score =  248 bits (633), Expect = 3e-65,   Method: Compositional matrix adjust.
 Identities = 123/250 (49%), Positives = 175/250 (70%), Gaps = 19/250 (7%)

Query: 3   ISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFH 62
            ++PFEED+K+  +WFLDHNY ESM  M K+INAKE ++GWY +GPKLR +DL I++LF 
Sbjct: 52  FALPFEEDEKNSDVWFLDHNYIESMNEMCKKINAKEKLIGWYHSGPKLRASDLKINELFK 111

Query: 63  NYVP-NPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIG 121
            Y   NP+L+I+DV+ +++G+PT AY  VE+VK++ T  ++K F+H+P  + A E EEIG
Sbjct: 112 KYTQGNPLLLIVDVKQQDVGLPTDAYMAVEQVKDDGTS-TEKTFLHLPCTVEAEEAEEIG 170

Query: 122 VEHLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQ 181
           VEHLLRDV+D     L+  +T +L +LKGL  +L +I  YL+ VI+ +LP+NH IL  LQ
Sbjct: 171 VEHLLRDVRDQAAGGLSIRLTNQLKSLKGLQKKLNDIVIYLNKVINNELPVNHTILGKLQ 230

Query: 182 DVFNLLPNLNVAE-----------------LIKAFSVKTNDMMLVIYLSSLIRSVIALHN 224
           DVFNLLPNL   E                 L +A +VKTND ++VIY+++L+R++IA  +
Sbjct: 231 DVFNLLPNLGYNEETDVSATSNDMVTASNNLQRALTVKTNDELMVIYITNLVRAIIAFDD 290

Query: 225 LINNKILNKE 234
           LI NK+ NK+
Sbjct: 291 LIENKMQNKK 300

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

Candida glabrata (strain ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) (taxid: 284593)

>sp|Q08723|RPN8_YEAST 26S proteasome regulatory subunit RPN8 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RPN8 PE=1 SV=3

 Score =  240 bits (613), Expect = 7e-63,   Method: Compositional matrix adjust.
 Identities = 130/269 (48%), Positives = 184/269 (68%), Gaps = 20/269 (7%)

Query: 3   ISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFH 62
            ++PFEED+K+  +WFLDHNY E+M  M K+INAKE ++GWY +GPKLR +DL I++LF 
Sbjct: 52  FALPFEEDEKNSDVWFLDHNYIENMNEMCKKINAKEKLIGWYHSGPKLRASDLKINELFK 111

Query: 63  NYVPN-PVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIG 121
            Y  N P+L+I+DV+ + +G+PT AY  +E+VK++ T  ++K F+H+P  I A E EEIG
Sbjct: 112 KYTQNNPLLLIVDVKQQGVGLPTDAYVAIEQVKDDGTS-TEKTFLHLPCTIEAEEAEEIG 170

Query: 122 VEHLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQ 181
           VEHLLRDV+D     L+  +T +L +LKGL ++L+++  YLD VI+++LP+NH IL  LQ
Sbjct: 171 VEHLLRDVRDQAAGGLSIRLTNQLKSLKGLQSKLKDVVEYLDKVINKELPINHTILGKLQ 230

Query: 182 DVFNLLPNLNVAE-----------------LIKAFSVKTNDMMLVIYLSSLIRSVIALHN 224
           DVFNLLPNL   +                 L KA +VKTND ++VIY+S+L+RS+IA  +
Sbjct: 231 DVFNLLPNLGTPDDDEIDVENHDRINISNNLQKALTVKTNDELMVIYISNLVRSIIAFDD 290

Query: 225 LINNKILNKE-HEKTEDAKPTAVPTASSS 252
           LI NKI NK+  E+    K + V   S S
Sbjct: 291 LIENKIQNKKIQEQRVKDKQSKVSDDSES 319

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

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	252
125550096	310	hypothetical protein OsI_17784 [Oryza sa	0.988	0.803	0.919	1e-131
449439916	310	PREDICTED: probable 26S proteasome non-A	0.988	0.803	0.915	1e-131
225426330	310	PREDICTED: probable 26S proteasome non-A	0.988	0.803	0.915	1e-131
17297979	310	26S proteasome regulatory particle non-A	0.988	0.803	0.919	1e-131
226509048	310	uncharacterized protein LOC100274928 [Ze	0.988	0.803	0.915	1e-130
357166548	310	PREDICTED: probable 26S proteasome non-A	0.988	0.803	0.907	1e-130
192913046	310	26S proteasome regulatory particle non-A	0.988	0.803	0.903	1e-130
226532518	314	uncharacterized protein LOC100276453 [Ze	0.988	0.792	0.903	1e-129
326505562	310	predicted protein [Hordeum vulgare subsp	0.988	0.803	0.903	1e-129
357461159	309	26S proteasome regulatory particle non-A	0.984	0.802	0.895	1e-128

>gi|125550096|gb|EAY95918.1| hypothetical protein OsI_17784 [Oryza sativa Indica Group] gi|125591947|gb|EAZ32297.1| hypothetical protein OsJ_16505 [Oryza sativa Japonica Group]

 Score =  473 bits (1216), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 229/249 (91%), Positives = 239/249 (95%)

Query: 4   SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHN 63
           +VPFEEDDKDP IWFLDHNYHESM+SMFKRINAKEHVVGWYSTGPKLRENDLDIH LF+N
Sbjct: 62  AVPFEEDDKDPRIWFLDHNYHESMFSMFKRINAKEHVVGWYSTGPKLRENDLDIHALFNN 121

Query: 64  YVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 123
           YVPNPVLVIIDVQPKELGIPTKAYY VEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE
Sbjct: 122 YVPNPVLVIIDVQPKELGIPTKAYYAVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 181

Query: 124 HLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDV 183
           HLLRDVKDTTISTLA EVT KL ALKGLDARLREIRGYLDLVI+ KLPLNHEILYHLQDV
Sbjct: 182 HLLRDVKDTTISTLATEVTSKLAALKGLDARLREIRGYLDLVIEGKLPLNHEILYHLQDV 241

Query: 184 FNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHEKTEDAKP 243
           FNLLPNLNV ELIKAF+VKTNDMMLVIYLSSLIRSVIALHNLINNK+LNKEHEK ED+KP
Sbjct: 242 FNLLPNLNVNELIKAFAVKTNDMMLVIYLSSLIRSVIALHNLINNKMLNKEHEKAEDSKP 301

Query: 244 TAVPTASSS 252
           TA+P+A+ S
Sbjct: 302 TAIPSAAGS 310

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449439916|ref|XP_004137731.1| PREDICTED: probable 26S proteasome non-ATPase regulatory subunit 7-like [Cucumis sativus] gi|449483466|ref|XP_004156600.1| PREDICTED: probable 26S proteasome non-ATPase regulatory subunit 7-like [Cucumis sativus]

 Score =  473 bits (1216), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 228/249 (91%), Positives = 240/249 (96%)

Query: 4   SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHN 63
           +VPFEED+KDP IWFLDHNYHESM+SMFKRINAKEH+VGWYSTGPKLRENDLDIHQLFH+
Sbjct: 62  AVPFEEDEKDPSIWFLDHNYHESMFSMFKRINAKEHIVGWYSTGPKLRENDLDIHQLFHD 121

Query: 64  YVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 123
           Y+ NPVLVIIDVQPKELGIPTKAYYDVEEVKENAT KSQK+FVHVPS IAAHEVEEIGVE
Sbjct: 122 YLSNPVLVIIDVQPKELGIPTKAYYDVEEVKENATHKSQKIFVHVPSVIAAHEVEEIGVE 181

Query: 124 HLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDV 183
           HLLRDVKDTTISTLANEVTGKLTALKGLDARL EIRGYLDLVID+KLPLNHEILYHLQDV
Sbjct: 182 HLLRDVKDTTISTLANEVTGKLTALKGLDARLSEIRGYLDLVIDKKLPLNHEILYHLQDV 241

Query: 184 FNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHEKTEDAKP 243
           FNLLPNLNVAELIK+F+VKTNDMMLVIYLSSLIRSVIALHNLINNK+LNKEHEK EDAKP
Sbjct: 242 FNLLPNLNVAELIKSFAVKTNDMMLVIYLSSLIRSVIALHNLINNKMLNKEHEKAEDAKP 301

Query: 244 TAVPTASSS 252
             VPTAS +
Sbjct: 302 AIVPTASGN 310

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225426330|ref|XP_002269668.1| PREDICTED: probable 26S proteasome non-ATPase regulatory subunit 7 [Vitis vinifera] gi|297742338|emb|CBI34487.3| unnamed protein product [Vitis vinifera]

 Score =  473 bits (1216), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 228/249 (91%), Positives = 237/249 (95%)

Query: 4   SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHN 63
           +VPFEEDDKDP I FLDHNYHESM+SMFKRINAKEHVVGWYSTGPKLRENDLDIH+LFH 
Sbjct: 62  AVPFEEDDKDPSICFLDHNYHESMFSMFKRINAKEHVVGWYSTGPKLRENDLDIHRLFHE 121

Query: 64  YVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 123
           YVPNPVLVIIDVQPKELGIPTKAYY VEEVKENATQKSQKVFVH+PSEIAAHEVEEIGVE
Sbjct: 122 YVPNPVLVIIDVQPKELGIPTKAYYAVEEVKENATQKSQKVFVHIPSEIAAHEVEEIGVE 181

Query: 124 HLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDV 183
           HLLRDVKDTTISTLA EVTGKL ALKGLDARLREIRGYLD+V+DEKLPLNHEILYHLQDV
Sbjct: 182 HLLRDVKDTTISTLATEVTGKLAALKGLDARLREIRGYLDVVVDEKLPLNHEILYHLQDV 241

Query: 184 FNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHEKTEDAKP 243
           FNLLPNLNVAELIKAF+VKTNDMMLVIYLSSL RSVIALHNLINNK+LNKEHEK EDAKP
Sbjct: 242 FNLLPNLNVAELIKAFAVKTNDMMLVIYLSSLTRSVIALHNLINNKMLNKEHEKAEDAKP 301

Query: 244 TAVPTASSS 252
            AVP  + S
Sbjct: 302 AAVPAIAGS 310

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|17297979|dbj|BAB78487.1| 26S proteasome regulatory particle non-ATPase subunit8 [Oryza sativa Japonica Group]

 Score =  472 bits (1214), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 229/249 (91%), Positives = 239/249 (95%)

Query: 4   SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHN 63
           +VPFEEDDKDP IWFLDHNYHESM+SMFKRINAKEHVVGWYSTGPKLRENDLDIH LF+N
Sbjct: 62  AVPFEEDDKDPRIWFLDHNYHESMFSMFKRINAKEHVVGWYSTGPKLRENDLDIHALFNN 121

Query: 64  YVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 123
           YVPNPVLVIIDVQPKELGIPTKAYY VEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE
Sbjct: 122 YVPNPVLVIIDVQPKELGIPTKAYYAVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 181

Query: 124 HLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDV 183
           HLLRDVKDTTISTLA EVT KL ALKGLDARLREIRGYLDLVI+ KLPLNHEILYHLQDV
Sbjct: 182 HLLRDVKDTTISTLATEVTSKLAALKGLDARLREIRGYLDLVIEGKLPLNHEILYHLQDV 241

Query: 184 FNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHEKTEDAKP 243
           FNLLPNLNV ELIKAF+VKTNDMMLVIYLSSLIRSVIALHNLINNK+LNKEHEK ED+KP
Sbjct: 242 FNLLPNLNVNELIKAFAVKTNDMMLVIYLSSLIRSVIALHNLINNKMLNKEHEKAEDSKP 301

Query: 244 TAVPTASSS 252
           TA+P+A+ S
Sbjct: 302 TAIPSAAGS 310

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|226509048|ref|NP_001142646.1| uncharacterized protein LOC100274928 [Zea mays] gi|242074672|ref|XP_002447272.1| hypothetical protein SORBIDRAFT_06g031700 [Sorghum bicolor] gi|194701744|gb|ACF84956.1| unknown [Zea mays] gi|195607808|gb|ACG25734.1| hypothetical protein [Zea mays] gi|195624790|gb|ACG34225.1| hypothetical protein [Zea mays] gi|241938455|gb|EES11600.1| hypothetical protein SORBIDRAFT_06g031700 [Sorghum bicolor] gi|414584968|tpg|DAA35539.1| TPA: hypothetical protein ZEAMMB73_768086 [Zea mays]

 Score =  471 bits (1212), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 228/249 (91%), Positives = 238/249 (95%)

Query: 4   SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHN 63
           +VPFEEDDKDP IWFLDHNYHESM+SMFKRINAKEHVVGWYSTGPKLRENDLD+H LF++
Sbjct: 62  AVPFEEDDKDPRIWFLDHNYHESMFSMFKRINAKEHVVGWYSTGPKLRENDLDVHALFNS 121

Query: 64  YVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 123
           YVPNPVLVIIDVQPKELGIPTKAYY VEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE
Sbjct: 122 YVPNPVLVIIDVQPKELGIPTKAYYAVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 181

Query: 124 HLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDV 183
           HLLRDVKDTTISTLA EVT KL ALKGLDARLREIR YLDLVID KLPLNHEILYHLQDV
Sbjct: 182 HLLRDVKDTTISTLATEVTSKLAALKGLDARLREIRSYLDLVIDGKLPLNHEILYHLQDV 241

Query: 184 FNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHEKTEDAKP 243
           FNLLPNLNV ELIKAF+VKTNDMMLVIYLSSLIRSVIALHNLINNK+LNKEHEK ED+KP
Sbjct: 242 FNLLPNLNVNELIKAFAVKTNDMMLVIYLSSLIRSVIALHNLINNKMLNKEHEKAEDSKP 301

Query: 244 TAVPTASSS 252
           TA+PTA+ S
Sbjct: 302 TAIPTAAGS 310

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357166548|ref|XP_003580746.1| PREDICTED: probable 26S proteasome non-ATPase regulatory subunit 7-like [Brachypodium distachyon]

 Score =  469 bits (1206), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 226/249 (90%), Positives = 238/249 (95%)

Query: 4   SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHN 63
           +VPFEEDDKDP IWFLDHNYHESM+SMFKRINAKEHVVGWYSTGPKL+ENDLD+H LF+N
Sbjct: 62  AVPFEEDDKDPRIWFLDHNYHESMFSMFKRINAKEHVVGWYSTGPKLKENDLDVHALFNN 121

Query: 64  YVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 123
           YVPNPVLVIIDVQPKELGIPTKAYY VEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE
Sbjct: 122 YVPNPVLVIIDVQPKELGIPTKAYYAVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 181

Query: 124 HLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDV 183
           HLLRDVKDTTISTLA EV+ KL ALKGLDARLREIRGYLDLVI+ KLPLNHEILYHLQDV
Sbjct: 182 HLLRDVKDTTISTLATEVSSKLAALKGLDARLREIRGYLDLVIEGKLPLNHEILYHLQDV 241

Query: 184 FNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHEKTEDAKP 243
           FNLLPNLNV ELIKAF+VKTNDMMLVIYLSSLIRSVIALHNLINNK+LNKEHEK ED+KP
Sbjct: 242 FNLLPNLNVNELIKAFAVKTNDMMLVIYLSSLIRSVIALHNLINNKMLNKEHEKAEDSKP 301

Query: 244 TAVPTASSS 252
            A+PTA+ S
Sbjct: 302 AAIPTAAGS 310

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|192913046|gb|ACF06631.1| 26S proteasome regulatory particle non-ATPase subunit 8 [Elaeis guineensis]

 Score =  468 bits (1205), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 225/249 (90%), Positives = 239/249 (95%)

Query: 4   SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHN 63
           +VPFEED+KDP IWFLDHNYHESM++MFKRINA+EHVVGWYSTGPKLRENDLDIH LF++
Sbjct: 62  AVPFEEDEKDPSIWFLDHNYHESMFAMFKRINAREHVVGWYSTGPKLRENDLDIHALFND 121

Query: 64  YVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 123
           YVPNPVLVIIDVQP ELGIPTKAYY VEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE
Sbjct: 122 YVPNPVLVIIDVQPVELGIPTKAYYAVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 181

Query: 124 HLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDV 183
           HLLRDVKDTTISTLA EVTGKL ALKGLDARLREIRGYLDLVID KLPLNHEILYHLQDV
Sbjct: 182 HLLRDVKDTTISTLATEVTGKLAALKGLDARLREIRGYLDLVIDGKLPLNHEILYHLQDV 241

Query: 184 FNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHEKTEDAKP 243
           FNLLPNLNV+EL+KAF+VKTNDMMLVIYLSSLIRSVIALHNLINNK+LNKEHEK ED+KP
Sbjct: 242 FNLLPNLNVSELVKAFAVKTNDMMLVIYLSSLIRSVIALHNLINNKMLNKEHEKAEDSKP 301

Query: 244 TAVPTASSS 252
           T VP+A+ S
Sbjct: 302 TVVPSAAGS 310

Source: Elaeis guineensis

Species: Elaeis guineensis

Genus: Elaeis

Family: Arecaceae

Order: Arecales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|226532518|ref|NP_001143713.1| uncharacterized protein LOC100276453 [Zea mays] gi|194702482|gb|ACF85325.1| unknown [Zea mays] gi|195625296|gb|ACG34478.1| hypothetical protein [Zea mays] gi|413919821|gb|AFW59753.1| hypothetical protein ZEAMMB73_301082 [Zea mays]

 Score =  466 bits (1198), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 225/249 (90%), Positives = 236/249 (94%)

Query: 4   SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHN 63
           +VPFEEDDKDP IWFLDHNYHESM+SMFKRINAKEHVVGWYSTGPKLRENDLD+H LF++
Sbjct: 62  AVPFEEDDKDPRIWFLDHNYHESMFSMFKRINAKEHVVGWYSTGPKLRENDLDVHALFNS 121

Query: 64  YVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 123
           YVPNPVLVIIDVQPKELGIPTKAYY VEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE
Sbjct: 122 YVPNPVLVIIDVQPKELGIPTKAYYAVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 181

Query: 124 HLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDV 183
           HLLRDVKDTTISTLA EVT KL ALKGLDARLREIR YLDLVI+ KLPLNHEILYHLQDV
Sbjct: 182 HLLRDVKDTTISTLATEVTSKLAALKGLDARLREIRSYLDLVIEGKLPLNHEILYHLQDV 241

Query: 184 FNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHEKTEDAKP 243
           FNLLPNLNV ELIKAF+VKTNDMMLVIYLSSLIRSVIALHNLINNK+LNKEHEK ED+KP
Sbjct: 242 FNLLPNLNVNELIKAFAVKTNDMMLVIYLSSLIRSVIALHNLINNKMLNKEHEKAEDSKP 301

Query: 244 TAVPTASSS 252
            A+PTA+  
Sbjct: 302 AAIPTAAGG 310

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|326505562|dbj|BAJ95452.1| predicted protein [Hordeum vulgare subsp. vulgare] gi|326508526|dbj|BAJ95785.1| predicted protein [Hordeum vulgare subsp. vulgare] gi|326509019|dbj|BAJ86902.1| predicted protein [Hordeum vulgare subsp. vulgare]

 Score =  465 bits (1196), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 225/249 (90%), Positives = 236/249 (94%)

Query: 4   SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHN 63
           +VPFEEDDKDP IWFLDHNYHESM+SMFKRINAKEHVVGWYSTGPKL+ENDLD+H LF N
Sbjct: 62  AVPFEEDDKDPRIWFLDHNYHESMFSMFKRINAKEHVVGWYSTGPKLKENDLDVHALFTN 121

Query: 64  YVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 123
           YVPNPVLVIIDVQPKELGIPTKAYY VEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE
Sbjct: 122 YVPNPVLVIIDVQPKELGIPTKAYYAVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 181

Query: 124 HLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDV 183
           HLLRDVKDTTISTLA EV+ KL ALKGLDARL EIRGYLDLVI+ KLPLNHEILYHLQDV
Sbjct: 182 HLLRDVKDTTISTLATEVSSKLAALKGLDARLTEIRGYLDLVIEGKLPLNHEILYHLQDV 241

Query: 184 FNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHEKTEDAKP 243
           FNLLPNLNV ELIKAF+VKTNDMMLVIYLSSLIRSVIALHNLINNK+LNKEHEK ED+KP
Sbjct: 242 FNLLPNLNVNELIKAFAVKTNDMMLVIYLSSLIRSVIALHNLINNKMLNKEHEKAEDSKP 301

Query: 244 TAVPTASSS 252
            A+PTA+ S
Sbjct: 302 AAIPTAAGS 310

Source: Hordeum vulgare subsp. vulgare

Species: Hordeum vulgare

Genus: Hordeum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357461159|ref|XP_003600861.1| 26S proteasome regulatory particle non-ATPase subunit [Medicago truncatula] gi|355489909|gb|AES71112.1| 26S proteasome regulatory particle non-ATPase subunit [Medicago truncatula]

 Score =  463 bits (1191), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 222/248 (89%), Positives = 239/248 (96%)

Query: 4   SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHN 63
           +VPFEEDDKDP IWFLDHNYHE+M+SMFKRINAKEHVVGWYSTGPKLRENDLDIH LF++
Sbjct: 62  AVPFEEDDKDPSIWFLDHNYHEAMFSMFKRINAKEHVVGWYSTGPKLRENDLDIHGLFND 121

Query: 64  YVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 123
           YVPNPVLVIIDV+PKELGIPTKAYY VEEVKENATQKSQKVFVHV SEIAAHEVEEIGVE
Sbjct: 122 YVPNPVLVIIDVEPKELGIPTKAYYAVEEVKENATQKSQKVFVHVQSEIAAHEVEEIGVE 181

Query: 124 HLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDV 183
           HLLRDVKDTTISTLA EV+GKLTALKGLDARL+EIRGYLDLVID KLPLNHEILYHLQDV
Sbjct: 182 HLLRDVKDTTISTLATEVSGKLTALKGLDARLKEIRGYLDLVIDGKLPLNHEILYHLQDV 241

Query: 184 FNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHEKTEDAKP 243
           FNLLPNLNV++LIKAF+VKTNDMMLVIYLSSLIRSVIALHNLINNK+LNKEHE+ ED+KP
Sbjct: 242 FNLLPNLNVSDLIKAFAVKTNDMMLVIYLSSLIRSVIALHNLINNKMLNKEHERAEDSKP 301

Query: 244 TAVPTASS 251
             VP+A++
Sbjct: 302 APVPSAAA 309

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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	252
TAIR|locus:2166449	308	RPN8A "AT5G05780" [Arabidopsis	0.980	0.801	0.862	2e-111
TAIR|locus:2074653	310	MEE34 "AT3G11270" [Arabidopsis	0.988	0.803	0.839	1e-109
UNIPROTKB|Q3ZBD0	322	PSMD7 "26S proteasome non-ATPa	0.932	0.729	0.580	1.9e-74
UNIPROTKB|P51665	324	PSMD7 "26S proteasome non-ATPa	0.932	0.725	0.576	8.4e-74
MGI|MGI:1351511	321	Psmd7 "proteasome (prosome, ma	0.932	0.732	0.576	1.1e-73
ZFIN|ZDB-GENE-030131-5541	327	psmd7 "proteasome (prosome, ma	0.932	0.718	0.576	1.7e-73
RGD|1306902	320	Psmd7 "proteasome (prosome, ma	0.932	0.734	0.576	2.8e-73
FB|FBgn0002787	338	Rpn8 "Regulatory particle non-	0.869	0.647	0.586	2.9e-71
DICTYBASE|DDB_G0279633	325	psmD7 "26S proteasome non-ATPa	0.980	0.76	0.548	4.8e-71
ASPGD|ASPL0000029143	349	AN5121 [Emericella nidulans (t	0.869	0.627	0.556	2.7e-68

TAIR|locus:2166449 RPN8A "AT5G05780" [Arabidopsis thaliana (taxid:3702)]

 Score = 1100 (392.3 bits), Expect = 2.0e-111, P = 2.0e-111
 Identities = 213/247 (86%), Positives = 222/247 (89%)

Query:     4 SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHN 63
             +VPFEEDDKDP IWFLDHNYHESM+ MFKRINAKEHVVGWYSTGPKLRENDLD+H LF+ 
Sbjct:    62 AVPFEEDDKDPSIWFLDHNYHESMFHMFKRINAKEHVVGWYSTGPKLRENDLDVHALFNG 121

Query:    64 YVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 123
             YVPNPVLVIIDVQPKELGIPTKAYY VEEVKENATQKSQKVFVHV +EIAAHEVEEIGVE
Sbjct:   122 YVPNPVLVIIDVQPKELGIPTKAYYAVEEVKENATQKSQKVFVHVSTEIAAHEVEEIGVE 181

Query:   124 HLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDV 183
             HLLRDVKDTTISTLA EVT KLTALKGLDARLREIR YLDLVI+ KLPLNHEILYHLQDV
Sbjct:   182 HLLRDVKDTTISTLATEVTAKLTALKGLDARLREIRSYLDLVIEGKLPLNHEILYHLQDV 241

Query:   184 FNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHXXXXXXXXXXEHEKTEDAKP 243
             FNLLPNLNV EL+KAFSVKTNDMMLVIYLSSLIRSVIALH          EHEK ED+KP
Sbjct:   242 FNLLPNLNVNELVKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKLLNKEHEKAEDSKP 301

Query:   244 TAVPTAS 250
              A+P  S
Sbjct:   302 VAIPATS 308

GO:0003674 "molecular_function" evidence=ND

GO:0005737 "cytoplasm" evidence=ISM

GO:0008541 "proteasome regulatory particle, lid subcomplex" evidence=ISS

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=TAS

GO:0009965 "leaf morphogenesis" evidence=IMP

GO:0000502 "proteasome complex" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0042023 "DNA endoreduplication" evidence=RCA

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

GO:0043248 "proteasome assembly" evidence=RCA

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

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

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

TAIR|locus:2074653 MEE34 "AT3G11270" [Arabidopsis thaliana (taxid:3702)]

 Score = 1084 (386.6 bits), Expect = 1.0e-109, P = 1.0e-109
 Identities = 209/249 (83%), Positives = 222/249 (89%)

Query:     4 SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHN 63
             +VPFEEDDKD  IWFLDHNYHESM+ MFKRINAKEH+VGWYSTGPKLRENDLD+H LF+ 
Sbjct:    62 AVPFEEDDKDTSIWFLDHNYHESMFHMFKRINAKEHIVGWYSTGPKLRENDLDVHALFNG 121

Query:    64 YVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 123
             YVPNPVLVIIDVQPKELGIPTKAYY VEEVKENATQKSQ+VFVHVP+EIAAHEVEEIGVE
Sbjct:   122 YVPNPVLVIIDVQPKELGIPTKAYYAVEEVKENATQKSQQVFVHVPTEIAAHEVEEIGVE 181

Query:   124 HLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDV 183
             HLLRDVKDTTISTLA EVT KLTALKGLDARLREIR YLDLVI+ KLPLNHEILYHLQDV
Sbjct:   182 HLLRDVKDTTISTLATEVTAKLTALKGLDARLREIRTYLDLVIEGKLPLNHEILYHLQDV 241

Query:   184 FNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHXXXXXXXXXXEHEKTEDAKP 243
             FNLLPNLNV EL+KAF+VKTNDMMLVIYLSSLIRSVIALH          EHEK ED+KP
Sbjct:   242 FNLLPNLNVNELVKAFAVKTNDMMLVIYLSSLIRSVIALHSLINNKLLNKEHEKAEDSKP 301

Query:   244 TAVPTASSS 252
               +P  + S
Sbjct:   302 VDIPLITES 310

GO:0003674 "molecular_function" evidence=ND

GO:0005737 "cytoplasm" evidence=ISM

GO:0008541 "proteasome regulatory particle, lid subcomplex" evidence=ISS

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=TAS

GO:0005634 "nucleus" evidence=TAS

GO:0030163 "protein catabolic process" evidence=TAS

GO:0009793 "embryo development ending in seed dormancy" evidence=IMP

GO:0000502 "proteasome complex" evidence=IDA

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

GO:0009407 "toxin catabolic process" evidence=RCA

GO:0010162 "seed dormancy process" evidence=RCA

GO:0010564 "regulation of cell cycle process" evidence=RCA

GO:0042023 "DNA endoreduplication" evidence=RCA

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

GO:0043248 "proteasome assembly" evidence=RCA

GO:0048366 "leaf development" evidence=RCA

GO:0048825 "cotyledon development" evidence=RCA

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

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

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

UNIPROTKB|Q3ZBD0 PSMD7 "26S proteasome non-ATPase regulatory subunit 7" [Bos taurus (taxid:9913)]

 Score = 751 (269.4 bits), Expect = 1.9e-74, P = 1.9e-74
 Identities = 137/236 (58%), Positives = 182/236 (77%)

Query:     4 SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHN 63
             +VPF+EDDKD  +WFLDH+Y E+MY MFK++NA+E +VGWY TGPKL +ND+ I++L   
Sbjct:    55 AVPFDEDDKDDSVWFLDHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELMKR 114

Query:    64 YVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 123
             Y PN VLVIIDV+PK+LG+PT+AY  VEEV ++ T  S K F HV SEI A E EE+GVE
Sbjct:   115 YCPNSVLVIIDVKPKDLGLPTEAYISVEEVHDDGTPTS-KTFEHVTSEIGAEEAEEVGVE 173

Query:   124 HLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDV 183
             HLLRD+KDTT+ TL+  +T ++  LKGL+++L +IRGYL+ V   KLP+NH+I+Y LQDV
Sbjct:   174 HLLRDIKDTTVGTLSQRITNQVHGLKGLNSKLLDIRGYLEKVATGKLPINHQIIYQLQDV 233

Query:   184 FNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHXXXXXXXXXXEHEKTE 239
             FNLLP++++ E +KAF +KTND M+V+YL+SLIRSV+ALH          + EK E
Sbjct:   234 FNLLPDVSLQEFVKAFYLKTNDQMVVVYLASLIRSVVALHNLINNKIANRDAEKKE 289

GO:0000502 "proteasome complex" evidence=IEA

UNIPROTKB|P51665 PSMD7 "26S proteasome non-ATPase regulatory subunit 7" [Homo sapiens (taxid:9606)]

 Score = 745 (267.3 bits), Expect = 8.4e-74, P = 8.4e-74
 Identities = 136/236 (57%), Positives = 181/236 (76%)

Query:     4 SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHN 63
             +VPF+EDDKD  +WFLDH+Y E+MY MFK++NA+E +VGWY TGPKL +ND+ I++L   
Sbjct:    55 AVPFDEDDKDDSVWFLDHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELMKR 114

Query:    64 YVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 123
             Y PN VLVIIDV+PK+LG+PT+AY  VEEV ++ T  S K F HV SEI A E EE+GVE
Sbjct:   115 YCPNSVLVIIDVKPKDLGLPTEAYISVEEVHDDGTPTS-KTFEHVTSEIGAEEAEEVGVE 173

Query:   124 HLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDV 183
             HLLRD+KDTT+ TL+  +T ++  LKGL+++L +IR YL+ V   KLP+NH+I+Y LQDV
Sbjct:   174 HLLRDIKDTTVGTLSQRITNQVHGLKGLNSKLLDIRSYLEKVATGKLPINHQIIYQLQDV 233

Query:   184 FNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHXXXXXXXXXXEHEKTE 239
             FNLLP++++ E +KAF +KTND M+V+YL+SLIRSV+ALH          + EK E
Sbjct:   234 FNLLPDVSLQEFVKAFYLKTNDQMVVVYLASLIRSVVALHNLINNKIANRDAEKKE 289

GO:0005515 "protein binding" evidence=IPI

GO:0000502 "proteasome complex" evidence=TAS

GO:0005838 "proteasome regulatory particle" 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

MGI|MGI:1351511 Psmd7 "proteasome (prosome, macropain) 26S subunit, non-ATPase, 7" [Mus musculus (taxid:10090)]

 Score = 744 (267.0 bits), Expect = 1.1e-73, P = 1.1e-73
 Identities = 136/236 (57%), Positives = 180/236 (76%)

Query:     4 SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHN 63
             +VPF+EDDKD  +WFLDH+Y E+MY MFK++NA+E +VGWY TGPKL +ND+ I++L   
Sbjct:    55 AVPFDEDDKDDSVWFLDHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELMKR 114

Query:    64 YVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 123
             Y PN VLVIIDV+PK+LG+PT+AY  VEEV ++ T  S K F HV SEI A E EE+GVE
Sbjct:   115 YCPNSVLVIIDVKPKDLGLPTEAYISVEEVHDDGTPTS-KTFEHVTSEIGAEEAEEVGVE 173

Query:   124 HLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDV 183
             HLLRD+KDTT+ TL+  +T ++  LKGL+++L +IR YL+ V   KLP+NH+I+Y LQDV
Sbjct:   174 HLLRDIKDTTVGTLSQRITNQVHGLKGLNSKLLDIRSYLEKVASGKLPINHQIIYQLQDV 233

Query:   184 FNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHXXXXXXXXXXEHEKTE 239
             FNLLP+ ++ E +KAF +KTND M+V+YL+SLIRSV+ALH          + EK E
Sbjct:   234 FNLLPDASLQEFVKAFYLKTNDQMVVVYLASLIRSVVALHNLINNKIANRDAEKKE 289

GO:0000502 "proteasome complex" evidence=IEA

ZFIN|ZDB-GENE-030131-5541 psmd7 "proteasome (prosome, macropain) 26S subunit, non-ATPase, 7 (Mov34 homolog)" [Danio rerio (taxid:7955)]

 Score = 742 (266.3 bits), Expect = 1.7e-73, P = 1.7e-73
 Identities = 136/236 (57%), Positives = 180/236 (76%)

Query:     4 SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHN 63
             +VPF+EDDKD  +WFLDH+Y E+MY MFK++NA+E +VGWY TGPKL +ND+ I++L   
Sbjct:    55 AVPFDEDDKDDSVWFLDHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELMKQ 114

Query:    64 YVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 123
             Y  N VLVIIDV+PK+LG+PT+AY  VEEV ++ T  S K F HV SEI A E EE+GVE
Sbjct:   115 YCSNSVLVIIDVKPKDLGLPTEAYISVEEVHDDGTPTS-KTFEHVTSEIGAEEAEEVGVE 173

Query:   124 HLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDV 183
             HLLRD+KDTT+ TL+  +T ++  LKGL+++L +I+ YL+ V   KLP+NH+I+Y LQDV
Sbjct:   174 HLLRDIKDTTVGTLSQRITNQVHGLKGLNSKLLDIKSYLEKVATGKLPINHQIIYQLQDV 233

Query:   184 FNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHXXXXXXXXXXEHEKTE 239
             FNLLP++N+ E +KAF +KTND MLV+YL+SLIRSV+ALH          + EK E
Sbjct:   234 FNLLPDVNLQEFVKAFYLKTNDQMLVVYLASLIRSVVALHNLINNKIANRDAEKKE 289

GO:0021551 "central nervous system morphogenesis" evidence=IMP

GO:0000502 "proteasome complex" evidence=IEA

RGD|1306902 Psmd7 "proteasome (prosome, macropain) 26S subunit, non-ATPase, 7" [Rattus norvegicus (taxid:10116)]

 Score = 740 (265.6 bits), Expect = 2.8e-73, P = 2.8e-73
 Identities = 136/236 (57%), Positives = 179/236 (75%)

Query:     4 SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHN 63
             +VPF+EDDKD  +WFLDH+Y E+MY MFK++NA+E +VGWY TGPKL +ND+ I++L   
Sbjct:    55 AVPFDEDDKDDSVWFLDHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELMKR 114

Query:    64 YVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 123
             Y PN VLVIIDV+PK+LG+PT+AY  VEEV ++ T  S K F HV SEI A E EE+GVE
Sbjct:   115 YCPNSVLVIIDVKPKDLGLPTEAYISVEEVHDDGTPTS-KTFEHVTSEIGAEEAEEVGVE 173

Query:   124 HLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDV 183
             HLLRD+KDTT+ TL+  +T ++  LKGL+++L +IR YL+ V   KLP+NH I+Y LQDV
Sbjct:   174 HLLRDIKDTTVGTLSQRITNQVHGLKGLNSKLLDIRTYLEKVASGKLPINHHIIYQLQDV 233

Query:   184 FNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHXXXXXXXXXXEHEKTE 239
             FNLLP+ ++ E +KAF +KTND M+V+YL+SLIRSV+ALH          + EK E
Sbjct:   234 FNLLPDASLQEFVKAFYLKTNDQMVVVYLASLIRSVVALHNLINNKIANRDAEKKE 289

GO:0000502 "proteasome complex" evidence=IEA

FB|FBgn0002787 Rpn8 "Regulatory particle non-ATPase 8" [Drosophila melanogaster (taxid:7227)]

 Score = 721 (258.9 bits), Expect = 2.9e-71, P = 2.9e-71
 Identities = 129/220 (58%), Positives = 173/220 (78%)

Query:     4 SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHN 63
             +VPF+EDDKD  +WFLDH+Y E+MY MFK++NA+E VVGWY TGPKL +ND+ I++L   
Sbjct:    58 AVPFDEDDKDKSVWFLDHDYLENMYGMFKKVNARERVVGWYHTGPKLHQNDIAINELVRR 117

Query:    64 YVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 123
             Y PN VLVIID +PK+LG+PT+AY  VEEV ++ +  S K F HVPSEI A E EE+GVE
Sbjct:   118 YCPNSVLVIIDAKPKDLGLPTEAYISVEEVHDDGSPTS-KTFEHVPSEIGAEEAEEVGVE 176

Query:   124 HLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDV 183
             HLLRD+KDTT+ +L+ ++T +L  LKGL+A+LR+I+ YL  V D K+P+NH+I+Y LQD+
Sbjct:   177 HLLRDIKDTTVGSLSQKITNQLMGLKGLNAQLRDIKQYLQRVGDSKMPINHQIVYQLQDI 236

Query:   184 FNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALH 223
             FNLLP++   +      VKTND MLV+YL+S++RS+IALH
Sbjct:   237 FNLLPDITNDQFTGTMYVKTNDQMLVVYLASMVRSIIALH 276

GO:0004175 "endopeptidase activity" evidence=NAS;IDA

GO:0000502 "proteasome complex" evidence=NAS;IDA

GO:0008541 "proteasome regulatory particle, lid subcomplex" evidence=ISS;NAS

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=NAS

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

GO:0006508 "proteolysis" evidence=ISS;IDA

GO:0009987 "cellular process" evidence=IMP

GO:0030425 "dendrite" evidence=IMP

GO:0008283 "cell proliferation" evidence=IMP

GO:0000022 "mitotic spindle elongation" evidence=IMP

GO:0007052 "mitotic spindle organization" evidence=IMP

GO:0022008 "neurogenesis" evidence=IMP

DICTYBASE|DDB_G0279633 psmD7 "26S proteasome non-ATPase regulatory subunit 7" [Dictyostelium discoideum (taxid:44689)]

 Score = 719 (258.2 bits), Expect = 4.8e-71, P = 4.8e-71
 Identities = 136/248 (54%), Positives = 183/248 (73%)

Query:     5 VPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHNY 64
             +PFEED+ +P IWFLDHN+HE+M++MFK+INA+E+VVGWYSTGPK+R  D DI++LF  Y
Sbjct:    54 LPFEEDEANPNIWFLDHNFHENMFAMFKKINARENVVGWYSTGPKIRPADQDINELFRRY 113

Query:    65 VPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVEH 124
              PNPV+VIIDV PKELGIPTK+Y  VEE+ ++ ++ + + F H+PS I A E EEI +EH
Sbjct:   114 TPNPVMVIIDVAPKELGIPTKSYVTVEEINKDTSESTMR-FQHIPSSIDAVEAEEICIEH 172

Query:   125 LLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDVF 184
             LLRDVKD++IS+L  ++T K  +LK L   L+E++ YL LV D  LP NH+I+ ++QD+ 
Sbjct:   173 LLRDVKDSSISSLTTQITDKKISLKHLLTNLQEMQHYLKLVCDGTLPPNHQIIGYIQDII 232

Query:   185 NLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHXXXXXXXXXXEHEKTEDAKPT 244
             NL PNLN  E+ K+F+V+ ND M VIYLSS+IRS+IALH          E EK  D   +
Sbjct:   233 NLSPNLNANEISKSFAVQNNDTMSVIYLSSMIRSIIALHNLIINKTANREAEKKADIINS 292

Query:   245 AVPTASSS 252
               PT ++S
Sbjct:   293 TPPTTATS 300

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=ISS

GO:0005838 "proteasome regulatory particle" evidence=ISS

GO:0000502 "proteasome complex" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

ASPGD|ASPL0000029143 AN5121 [Emericella nidulans (taxid:162425)]

 Score = 693 (249.0 bits), Expect = 2.7e-68, P = 2.7e-68
 Identities = 132/237 (55%), Positives = 175/237 (73%)

Query:     4 SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHN 63
             +VPFEED+KDP +WFLDHN+ ESM  MFK+INA+E ++GWY +GPKLR +DL+I++LF  
Sbjct:    61 AVPFEEDEKDPSVWFLDHNFVESMRDMFKKINAREKLIGWYHSGPKLRASDLEINELFKR 120

Query:    64 YVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 123
             Y PNP+LVI+DVQPKE+G+PT AY+ V+E+K++ T  S + FVH PS I A E EEIGVE
Sbjct:   121 YTPNPLLVIVDVQPKEVGVPTDAYFAVDEIKDDGTTTS-RTFVHTPSTIEAEEAEEIGVE 179

Query:   124 HLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDV 183
             HLLRD++D  + TL+  +T +L +L+GL  RLR+I  YL  V+D +LP+NH IL +LQDV
Sbjct:   180 HLLRDIRDVAVGTLSTRITSQLQSLQGLHLRLRDIGQYLQKVLDHELPVNHAILGNLQDV 239

Query:   184 FNLLPNLNV-----------------AELIKAFSVKTNDMMLVIYLSSLIRSVIALH 223
             FNLLPNL+                  AEL +A S+KTND ++ IYLSSL+R+V A H
Sbjct:   240 FNLLPNLSTPSTTARVGGEPEQSTDNAELARAMSIKTNDQLMAIYLSSLVRAVTAYH 296

GO:0005622 "intracellular" evidence=IDA

GO:0008150 "biological_process" evidence=ND

GO:0003674 "molecular_function" evidence=ND

GO:0008541 "proteasome regulatory particle, lid subcomplex" evidence=IEA

GO:0005635 "nuclear envelope" evidence=IEA

GO:0034515 "proteasome storage granule" evidence=IEA

---

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)
P51665	PSD7_HUMAN	No assigned EC number	0.6077	0.9166	0.7129	yes	no
Q54WI8	PSD7_DICDI	No assigned EC number	0.5702	0.9841	0.7630	yes	no
O74440	RPN8_SCHPO	No assigned EC number	0.5139	0.9484	0.7376	yes	no
O24412	PSD7_ARATH	No assigned EC number	0.8987	0.9801	0.8019	yes	no
P26516	PSD7_MOUSE	No assigned EC number	0.6077	0.9166	0.7196	yes	no
P26270	PSD7_DROME	No assigned EC number	0.5780	0.9365	0.6982	yes	no
Q3ZBD0	PSD7_BOVIN	No assigned EC number	0.6118	0.9365	0.7329	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

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.4.17.n1	LOW CONFIDENCE prediction!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

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	252
PLN03246	303	PLN03246, PLN03246, 26S proteasome regulatory subu	1e-174
cd08062	280	cd08062, MPN_RPN7_8, Mpr1p, Pad1p N-terminal (MPN)	1e-156
pfam13012	115	pfam13012, MitMem_reg, Maintenance of mitochondria	1e-42
cd08064	265	cd08064, MPN_eIF3f, Mpr1p, Pad1p N-terminal (MPN)	1e-29
cd08063	288	cd08063, MPN_CSN6, Mpr1p, Pad1p N-terminal (MPN) d	1e-26
pfam01398	117	pfam01398, JAB, JAB1/Mov34/MPN/PAD-1 ubiquitin pro	1e-17
cd07767	116	cd07767, MPN, Mpr1p, Pad1p N-terminal (MPN) domain	7e-13
smart00232	135	smart00232, JAB_MPN, JAB/MPN domain	7e-12
cd08057	157	cd08057, MPN_euk_non_mb, Mpr1p, Pad1p N-terminal (	4e-10
COG1310	134	COG1310, COG1310, Predicted metal-dependent protea	2e-04

>gnl|CDD|215645 PLN03246, PLN03246, 26S proteasome regulatory subunit; Provisional

 Score =  482 bits (1242), Expect = e-174
 Identities = 222/249 (89%), Positives = 232/249 (93%)

Query: 4   SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHN 63
           +VPFEEDDKDP IWFLDHNY ESM+ MFKRINAKEHVVGWYSTGPKLRENDLDIH+LF++
Sbjct: 53  AVPFEEDDKDPSIWFLDHNYLESMFGMFKRINAKEHVVGWYSTGPKLRENDLDIHELFND 112

Query: 64  YVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVE 123
           YVPNPVLVIIDVQPKELGIPTKAYY VEEVKENATQKSQKVFVHVPSEI AHE EEIGVE
Sbjct: 113 YVPNPVLVIIDVQPKELGIPTKAYYAVEEVKENATQKSQKVFVHVPSEIGAHEAEEIGVE 172

Query: 124 HLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDV 183
           HLLRDVKDTT+STLA EVTGKLTALKGLDARLREIR YLDLV++ KLPLNHEILYHLQDV
Sbjct: 173 HLLRDVKDTTVSTLATEVTGKLTALKGLDARLREIRSYLDLVVEGKLPLNHEILYHLQDV 232

Query: 184 FNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHEKTEDAKP 243
           FNLLPNLNV EL+KAF+VKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHEK EDAKP
Sbjct: 233 FNLLPNLNVEELVKAFAVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHEKAEDAKP 292

Query: 244 TAVPTASSS 252
            A P    S
Sbjct: 293 AAKPAKKGS 301

Length = 303

>gnl|CDD|163693 cd08062, MPN_RPN7_8, Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in 19S proteasomal subunits Rpn7 and Rpn8

 Score =  433 bits (1117), Expect = e-156
 Identities = 167/233 (71%), Positives = 201/233 (86%), Gaps = 1/233 (0%)

Query: 5   VPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHNY 64
           VPFEED+KDP +WFLDHNY E+MY MFK++NAKE +VGWYSTGPKLR NDLDI++LF  Y
Sbjct: 49  VPFEEDEKDPSVWFLDHNYLENMYGMFKKVNAKEKIVGWYSTGPKLRPNDLDINELFRRY 108

Query: 65  VPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVEH 124
            PNPVLVIIDV+PK+LG+PT+AY  VEEV ++ T  + K FVHVPSEI A E EE+GVEH
Sbjct: 109 CPNPVLVIIDVRPKDLGLPTEAYIAVEEVHDDGTP-TSKTFVHVPSEIGAEEAEEVGVEH 167

Query: 125 LLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDVF 184
           LLRD+KD T+STL+  VT KL +LKGL ++L+EI+ YL LV++ KLP+NH+I+Y+LQD+F
Sbjct: 168 LLRDIKDVTVSTLSTRVTNKLNSLKGLQSKLKEIKDYLQLVVEGKLPINHQIIYNLQDIF 227

Query: 185 NLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHEK 237
           NLLPNLN+ EL+KAF+VKTND MLVIYLSSLIRSVIALHNLINNKI NKE EK
Sbjct: 228 NLLPNLNLPELVKAFAVKTNDQMLVIYLSSLIRSVIALHNLINNKIANKEAEK 280

This family includes lid subunits of the 26 S proteasome regulatory particles, Rpn7 (PSMD7; proteasome 26S non-ATPase subunit 7; p44), and Rpn8 (PSMD8; proteasome 26S non-ATPase subunit 8; p40; Mov34). Rpn7 is known to be critical for the integrity of the 26 S proteasome complex by establishing a correct lid structure. It is necessary for the incorporation/anchoring of Rpn3 and Rpn12 to the lid and essential for viability and normal mitosis. Rpn7 and Rpn8 are ATP-independent components of the 19S regulator subunit, and contain the MPN structural motif on its N-terminal region. However, while they show a typical MPN metalloprotease fold, they lack the canonical JAMM motif, and therefore do not show catalytic isopeptidase activity. It is suggested that Rpn7 function is primarily structural. Length = 280

>gnl|CDD|205193 pfam13012, MitMem_reg, Maintenance of mitochondrial structure and function

 Score =  140 bits (355), Expect = 1e-42
 Identities = 59/115 (51%), Positives = 73/115 (63%)

Query: 115 HEVEEIGVEHLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNH 174
            E E+IGVEHLLR +     STL+ ++  +  ALK L  RL  I  YL+ VID KLP NH
Sbjct: 1   QEAEQIGVEHLLRGLNRHYYSTLSRKLELEQKALKNLHKRLWTIGLYLEDVIDGKLPPNH 60

Query: 175 EILYHLQDVFNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNK 229
           EIL  LQ + NLLPN +  E  + F+V+TND +LV+YL  L R   ALH LINN 
Sbjct: 61  EILRKLQSLLNLLPNYDNKEFEEEFNVETNDQLLVVYLGKLDRKQHALHELINNN 115

This is C-terminal to the Mov24 region of the yeast proteasomal subunit Rpn11 and seems likely to regulate the mitochondrial fission and tubulation processes, ie the outer mitochondrial membrane proteins. This function appears to be unrelated to the proteasome activity of the N-terminal region. Length = 115

>gnl|CDD|163695 cd08064, MPN_eIF3f, Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF3f

 Score =  111 bits (281), Expect = 1e-29
 Identities = 58/224 (25%), Positives = 110/224 (49%), Gaps = 10/224 (4%)

Query: 4   SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLF-- 61
           +VP  E +    +   D  YH +MY + +++N KE +VGWY+TG ++ E+   IH  +  
Sbjct: 45  AVPHNESEDQVAV---DMEYHRTMYELHQKVNPKEVIVGWYATGSEITEHSALIHDYYSR 101

Query: 62  HNYVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQK-VFVHVPSEIAAHEVEEI 120
                NP+ + +D    +  +  KAY            K+   +FV +P E+   E E +
Sbjct: 102 ECTSYNPIHLTVDTSLDDGKMSIKAYV---SSPLGVPGKTLGSMFVPIPLELLYSEAERV 158

Query: 121 GVEHLLRDVKDTTIS-TLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYH 179
            ++ L + +   + S  L +++     +L+ L   L  +  Y++ V+  K+  ++ I  +
Sbjct: 159 ALDLLAKTLASPSRSAPLTSDLEQLEASLEKLQEMLDRVLRYVEDVLAGKVKADNAIGRY 218

Query: 180 LQDVFNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALH 223
           L D    +P L+  E  K F+    D+++V YLS+L ++ +AL 
Sbjct: 219 LMDALTSVPKLDPEEFEKMFNSSLQDLLMVTYLSNLTKTQLALA 262

Eukaryotic translation initiation factor 3 (eIF3) subunit F (eIF3F; EIF3S5; eIF3-p47; eukaryotic translation initiation factor 3, subunit 5 epsilon, 47kDa; Mov34/MPN/PAD-1 family protein) is an evolutionarily non-conserved subunit of the functional core that comprises eIF3a, eIF3b, eIF3c, eIF3e, eIF3f, and eIF3h, and contains the MPN domain. However, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity. It has been shown that eIF3f mRNA expression is significantly decreased in many human tumors including pancreatic cancer and melanoma. EIF3f is a potent inhibitor of HIV-1 replication; it mediates restriction of HIV-1 expression through several factors including the serine/arginine-rich (SR) protein 9G8, and cyclin-dependent kinase 11 (CDK11). EIF3f phosphorylation by CDK11 is important in regulating its function in translation and apoptosis. It enhances its association with the core eIF3 subunits during apoptosis, suggesting that eIF3f may inhibit translation by increasing the binding to the eIF3 complex during apoptosis. Thus, eIF3f may be an important negative regulator of cell growth and proliferation. Length = 265

>gnl|CDD|163694 cd08063, MPN_CSN6, Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in COP9 signalosome complex subunit 6

 Score =  104 bits (261), Expect = 1e-26
 Identities = 66/223 (29%), Positives = 109/223 (48%), Gaps = 8/223 (3%)

Query: 10  DDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKL-RENDLDIHQLFHNYVPNP 68
           D  + G   LD  + E+    FK++      VGWY+TGP    E+DL IH+       +P
Sbjct: 55  DTNEDGEIVLDKEFLETRLEQFKQVFKDLDFVGWYTTGPGGPTESDLPIHKQILEINESP 114

Query: 69  VLVIIDVQPKELG--IPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVEHLL 126
           VL+++D +    G  +P   Y   E V E    ++   F  +P  I   E E IGV+H+ 
Sbjct: 115 VLLLLDPEANASGKDLPVTIY---ESVLELVDGEATLRFRELPYTIETGEAERIGVDHVA 171

Query: 127 R--DVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDVF 184
           R      +  ST+A  +  +  A+K L++R+  I  YL  V   ++P +H IL  +  + 
Sbjct: 172 RGGASGSSEKSTVAAHLQAQHNAIKMLNSRVELILEYLKAVPVGEVPPDHSILRSISALC 231

Query: 185 NLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLIN 227
           + LP L      +    + ND++LV YL++L +    L+ L++
Sbjct: 232 SRLPVLKSEAFREELLAEYNDVLLVAYLATLTKGCNTLNELVD 274

CSN6 (COP9 signalosome subunit 6; COP9 subunit 6; MOV34 homolog, 34 kD) is one of the eight subunits of COP9 signalosome, a highly conserved protein complex with diverse functions, including several important intracellular pathways such as the ubiquitin/proteasome system, DNA repair, cell cycle, developmental changes, and some aspects of immune responses. CSN6 is an MPN-domain protein that directly interacts with the MPN+-domain subunit CSN5. It is cleaved during apoptosis by activated caspases. CSN6 processing occurs in CSN/CRL (cullin-RING Ub ligase) complexes and is followed by the cleavage of Rbx1, the direct interaction partner of CSN6. CSN6 cleavage enhances CSN-mediated deneddylating activity (i.e. cleavage of ubiquitin-like protein Nedd8 (neural precursor cell expressed, developmentally downregulated 8)) in the cullin 1 in cells. The cleavage of Rbx1 and increased deneddylation of cullins inactivate CRLs and presumably stabilize pro-apoptotic factors for final apoptotic steps. While CSN6 shows a typical MPN metalloprotease fold, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity. Length = 288

>gnl|CDD|216478 pfam01398, JAB, JAB1/Mov34/MPN/PAD-1 ubiquitin protease

 Score = 75.9 bits (187), Expect = 1e-17
 Identities = 23/70 (32%), Positives = 33/70 (47%), Gaps = 4/70 (5%)

Query: 2   VISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPK----LRENDLDI 57
             ++P  E + D     LDH Y E M  M K++N  E VVGWY + P     L   D+  
Sbjct: 48  SFALPQSETEDDVEAVELDHEYMEKMLEMLKKVNRDEEVVGWYHSHPGYGCWLSSVDVHT 107

Query: 58  HQLFHNYVPN 67
            +L+   +P 
Sbjct: 108 QELYQRMIPE 117

Members of this family are found in proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors. This family is also known as the MPN domain and PAD-1-like domain, JABP1 domain or JAMM domain. These are metalloenzymes that function as the ubiquitin isopeptidase/ deubiquitinase in the ubiquitin-based signaling and protein turnover pathways in eukaryotes. Versions of the domain in prokaryotic cognates of the ubiquitin-modification pathway are predicted to have a similar role. Length = 117

>gnl|CDD|163686 cd07767, MPN, Mpr1p, Pad1p N-terminal (MPN) domains

 Score = 62.9 bits (153), Expect = 7e-13
 Identities = 44/90 (48%), Positives = 56/90 (62%), Gaps = 11/90 (12%)

Query: 2   VISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPK----LRENDLDI 57
           VI+VPF+E DKD  +WFL       MY  FK++NA   +VGWY T PK    L  NDL  
Sbjct: 34  VIAVPFDEGDKDDNVWFL-------MYLDFKKLNAGLRIVGWYHTHPKPSCFLSPNDLAT 86

Query: 58  HQLFHNYVPNPVLVIIDVQPKELGIPTKAY 87
           H+LF  Y P  V++I+DV+PK+LG   K Y
Sbjct: 87  HELFQRYFPEKVMIIVDVKPKDLGNSWKCY 116

MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains are found in the N-terminal termini of proteins with a variety of functions; they are components of the proteasome regulatory subunits, the signalosome (CSN), eukaryotic translation initiation factor 3 (eIF3) complexes, and regulators of transcription factors. These domains are isopeptidases that release ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. Catalytically active MPN domains contain a metalloprotease signature known as the JAB1/MPN/Mov34 metalloenzyme (JAMM) motif. For example, Rpn11 (also known as POH1 or PSMD14), a subunit of the 19S proteasome lid is involved in the ATP-dependent degradation of ubiquitinated proteins, contains the conserved JAMM motif involved in zinc ion coordination. Poh1 is a regulator of c-Jun, an important regulator of cell proliferation, differentiation, survival and death. JAB1 is a component of the COP9 signalosome (CSN), a regulatory particle of the ubiquitin (Ub)/26S proteasome system occurring in all eukaryotic cells; it cleaves the ubiquitin-like protein NEDD8 from the cullin subunit of the SCF (Skp1, Cullins, F-box proteins) family of E3 ubiquitin ligases. AMSH (associated molecule with the SH3 domain of STAM, also known as STAMBP), a member of JAMM/MPN+ deubiquitinases (DUBs), specifically cleaves Lys 63-linked polyubiquitin (poly-Ub) chains, thus facilitating the recycling and subsequent trafficking of receptors to the cell surface. Similarly, BRCC36, part of the nuclear complex that includes BRCA1 protein and is targeted to DNA damage foci after irradiation, specifically disassembles K63-linked polyUb. BRCC36 is aberrantly expressed in sporadic breast tumors, indicative of a potential role in the pathogenesis of the disease. Some variants of the JAB1/MPN domains lack key residues in their JAMM motif and are unable to coordinate a metal ion. Comparisons of key catalytic and metal binding residues explain why the MPN-containing proteins Mov34/PSMD7, Rpn8, CSN6, Prp8p, and the translation initiation factor 3 subunits f (p47) and h (p40) do not show catalytic isopeptidase activity. It has been proposed that the MPN domain in these proteins has a primarily structural function. Length = 116

>gnl|CDD|214573 smart00232, JAB_MPN, JAB/MPN domain

 Score = 60.9 bits (148), Expect = 7e-12
 Identities = 23/91 (25%), Positives = 41/91 (45%), Gaps = 7/91 (7%)

Query: 2   VISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGP----KLRENDLDI 57
           V +VP E  D    +   D +Y   M    K++N    +VGWY + P       E D+  
Sbjct: 42  VFAVPNEPQD--DSVQEYDEDYSHLMDEELKKVNKDLEIVGWYHSHPDESPFPSEVDVAT 99

Query: 58  HQLFHNYVPNPVLVIIDV-QPKELGIPTKAY 87
           H+ +    P  V++I+D  +  +  +  +A+
Sbjct: 100 HESYQAPWPISVVLIVDPIKSFQGRLSLRAF 130

Domain in Jun kinase activation domain binding protein and proteasomal subunits. Domain at Mpr1p and Pad1p N-termini. Domain of unknown function. Length = 135

>gnl|CDD|163688 cd08057, MPN_euk_non_mb, Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity (non metal-binding); eukaryotic

 Score = 56.7 bits (137), Expect = 4e-10
 Identities = 28/124 (22%), Positives = 53/124 (42%), Gaps = 19/124 (15%)

Query: 5   VPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLR----ENDLDIHQL 60
           +PF+E+++     F+D  Y E  Y++ K++  +E +VGWYS G        ++D  +H  
Sbjct: 46  LPFDEEEES---IFIDTEYLEKRYNLHKKVYPQEKIVGWYSIGSNNSNEISKSDNSLHSQ 102

Query: 61  FHNYV-PNPVLVIIDVQPKEL--GIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEV 117
           F      NP+++I+D   +     +    +   +  +             +  EI   E 
Sbjct: 103 FSLISEENPLILILDPSLQSDSEKLEISTFTSAQREEN---------GAEITYEIGTEET 153

Query: 118 EEIG 121
           E I 
Sbjct: 154 ERIA 157

This family contains MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains variants lacking key residues in the JAB1/MPN/Mov34 metalloenzyme (JAMM) motif and are unable to coordinate a metal ion. Comparisons of key catalytic and metal binding residues explain why the MPN-containing proteins Rpn7/PSMD7, Rpn8/PSMD8, CSN6, Prp8p, and the translation initiation factor 3 subunits f and h do not show catalytic isopeptidase activity. It has been proposed that the MPN domain in these proteins has a primarily structural function. Rpn7 is known to be critical for the integrity of the 26S proteasome complex by establishing a correct lid structure. It is necessary for the incorporation/anchoring of Rpn3 and Rpn12 to the lid and essential for viability and normal mitosis. CSN6 is a highly conserved protein complex with diverse functions, including several important intracellular pathways such as the ubiquitin/proteasome system, DNA repair, cell cycle, developmental changes, and some aspects of immune responses. It cleaves ubiquitin-like protein Nedd8 (neural precursor cell expressed, developmentally downregulated 8)) in the cullin 1 in cells. EIF3f s a potent inhibitor of HIV-1 replication as well as an important negative regulator of cell growth and proliferation. EIF3h regulates cell growth and viability, and that over-expression of the gene may provide growth advantage to prostate, breast, and liver cancer cells. Length = 157

>gnl|CDD|224229 COG1310, COG1310, Predicted metal-dependent protease of the PAD1/JAB1 superfamily [General function prediction only]

 Score = 40.2 bits (94), Expect = 2e-04
 Identities = 15/77 (19%), Positives = 26/77 (33%), Gaps = 10/77 (12%)

Query: 6   PFEEDDKDPGI----WFLDHNYHESMYSMFKRINAKEH--VVGWYSTGP--KLRENDLDI 57
             E +   P        +++   +  YS+F          VVGWY + P      ++ D 
Sbjct: 31  TREGERYFPLKNVSVEPVEYFEIDPEYSLFYLAAEDAGEVVVGWYHSHPGGPPYPSEADR 90

Query: 58  HQLFHNYVPNPVLVIID 74
                   P P L++  
Sbjct: 91  R--LSKLGPLPWLIVSV 105

Length = 134

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	252
PLN03246	303	26S proteasome regulatory subunit; Provisional	100.0
KOG2975	288	consensus Translation initiation factor 3, subunit	100.0
cd08062	280	MPN_RPN7_8 Mpr1p, Pad1p N-terminal (MPN) domains w	100.0
KOG1556	309	consensus 26S proteasome regulatory complex, subun	100.0
cd08063	288	MPN_CSN6 Mpr1p, Pad1p N-terminal (MPN) domains wit	100.0
cd08064	265	MPN_eIF3f Mpr1p, Pad1p N-terminal (MPN) domains wi	100.0
KOG3050	299	consensus COP9 signalosome, subunit CSN6 [Posttran	100.0
PF13012	115	MitMem_reg: Maintenance of mitochondrial structure	99.92
cd08057	157	MPN_euk_non_mb Mpr1p, Pad1p N-terminal (MPN) domai	99.92
cd08065	266	MPN_eIF3h Mpr1p, Pad1p N-terminal (MPN) domains wi	99.82
cd08069	268	MPN_RPN11_CSN5 Mov34/MPN/PAD-1 family: proteasomal	99.61
PF01398	114	JAB: JAB1/Mov34/MPN/PAD-1 ubiquitin protease; Inte	99.28
smart00232	135	JAB_MPN JAB/MPN domain. Domain in Jun kinase activ	99.27
cd07767	116	MPN Mpr1p, Pad1p N-terminal (MPN) domains. MPN (al	98.97
KOG1560	339	consensus Translation initiation factor 3, subunit	98.35
KOG1554	347	consensus COP9 signalosome, subunit CSN5 [Posttran	97.63
cd08068	244	MPN_BRCC36 Mov34/MPN/PAD-1 family: BRCC36, a subun	97.35
cd08058	119	MPN_euk_mb Mpr1p, Pad1p N-terminal (MPN) domains w	97.33
cd08067	187	MPN_2A_DUB Mov34/MPN/PAD-1 family: Histone H2A deu	97.21
KOG1555	316	consensus 26S proteasome regulatory complex, subun	97.18
cd08066	173	MPN_AMSH_like Mov34/MPN/PAD-1 family. AMSH (associ	96.34
COG1310	134	Predicted metal-dependent protease of the PAD1/JAB	94.79
cd08070	128	MPN_like Mpr1p, Pad1p N-terminal (MPN) domains wit	89.04
PF06442	78	DHFR_2: R67 dihydrofolate reductase; InterPro: IPR	86.27
cd08060	182	MPN_UPF0172 Mov34/MPN/PAD-1 family: UPF0172 family	82.34

>PLN03246 26S proteasome regulatory subunit; Provisional

Probab=100.00  E-value=7.4e-65  Score=455.74  Aligned_cols=247  Identities=89%  Similarity=1.327  Sum_probs=231.3

Q ss_pred             eeeecccCCCCCCceeEeCHHHHHHHHHHHhhcCCCCeeEEEEecCCCCCCCcHHHHHHHhccCCCcEEEEEeCCCCCCC
Q 036425            2 VISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHNYVPNPVLVIIDVQPKELG   81 (252)
Q Consensus         2 sF~Vp~~e~~~~~~~~~iD~~~~~~m~~l~kkV~p~e~iVGWYstg~~~~~~~~~Ih~~~~~~~~~PI~L~vD~~~~~~~   81 (252)
                      ||++||++++++.++|++|++|+++|+++|++|||++.+||||+||++++++|+.||++|++++++||||+||+.+.+++
T Consensus        51 sF~~p~~e~~~~~~~~~~D~~y~~~m~~~~k~V~~~~~vVGWY~tg~~i~~~d~~IH~~~~~~~~~Pv~L~vD~~~~~~~  130 (303)
T PLN03246         51 SFAVPFEEDDKDPSIWFLDHNYLESMFGMFKRINAKEHVVGWYSTGPKLRENDLDIHELFNDYVPNPVLVIIDVQPKELG  130 (303)
T ss_pred             ccccCcccCCCCccceeecHHHHHHHHHHHHHhCCCCcEEeeecCCCCCCcchHHHHHHHHhhCCCCeEEEEecCCCCCC
Confidence            89999998877666799999999999999999999999999999999999999999999999999999999999998889


Q ss_pred             CceEEEEeehhhhccccccccceeeeeeeeeeecchhHHHHHHHhhhcccCcccchhhhHHHHHHHHHHHHHHHHHHHHH
Q 036425           82 IPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVEHLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGY  161 (252)
Q Consensus        82 lpi~~Y~~~~~~~~~~~~~~~~~F~~v~~~i~~~eaEri~vd~l~k~~~~~~~~~l~~~l~~~~~al~~L~~~l~~i~~Y  161 (252)
                      ||+++|++...+.+++.+..+..|+++||+|+++|||||||+|++|++.+.+.+++.+++.++.+|+++|.+||+.|++|
T Consensus       131 lpi~aY~s~~~~~~~~~~~~~~~F~~vp~~i~~~EaE~Igve~l~r~~~~~~~s~l~~~l~~~~~al~~L~~rl~~i~~Y  210 (303)
T PLN03246        131 IPTKAYYAVEEVKENATQKSQKVFVHVPSEIGAHEAEEIGVEHLLRDVKDTTVSTLATEVTGKLTALKGLDARLREIRSY  210 (303)
T ss_pred             CceEEEEEEEeccCCCCcccccEEEECCeeeeecCHHHHHHHHHHhcccCCccchhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999998887654335678999999999999999999999998877667788889999999999999999999999


Q ss_pred             HHhhhCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHhhhhchhhhhhccC
Q 036425          162 LDLVIDEKLPLNHEILYHLQDVFNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHEKTEDA  241 (252)
Q Consensus       162 l~~V~~G~~~~d~~ilR~l~~lv~~lP~~~~~~f~~~~~~~~~D~lmv~yLs~ltk~~~~l~e~l~~~~~~~~~~~~~~~  241 (252)
                      |++|.+|+.++|++|||+|+++|+++|.+++++|+++|++++||++|++|||+|||+|++|+++++++.+|.++|+++..
T Consensus       211 l~~V~~g~~~~d~~IlR~l~~l~~~lP~l~~~~f~~~f~~~~nD~lmv~YLa~l~kt~~~l~e~l~~~~~~~~~~~~~~~  290 (303)
T PLN03246        211 LDLVVEGKLPLNHEILYHLQDVFNLLPNLNVEELVKAFAVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHEKAEDA  290 (303)
T ss_pred             HHHHhcCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999988877


Q ss_pred             CCCCCCC
Q 036425          242 KPTAVPT  248 (252)
Q Consensus       242 ~~~~~~~  248 (252)
                      ++.+-+.
T Consensus       291 ~~~~~~~  297 (303)
T PLN03246        291 KPAAKPA  297 (303)
T ss_pred             ccccccc
Confidence            7665444

>KOG2975 consensus Translation initiation factor 3, subunit f (eIF-3f) [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=2.1e-63  Score=425.52  Aligned_cols=222  Identities=25%  Similarity=0.441  Sum_probs=213.7

Q ss_pred             eeeecccCCCCCCceeEeCHHHHHHHHHHHhhcCCCCeeEEEEecCCCCCCCcHHHHHHHhccCCCcEEEEEeCCCCCCC
Q 036425            2 VISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHNYVPNPVLVIIDVQPKELG   81 (252)
Q Consensus         2 sF~Vp~~e~~~~~~~~~iD~~~~~~m~~l~kkV~p~e~iVGWYstg~~~~~~~~~Ih~~~~~~~~~PI~L~vD~~~~~~~   81 (252)
                      ||+|||+|++|+   +.+|++|++.|+++|+||||+|.|||||+||+.++.++..||+||.+++++||||+|||+++++.
T Consensus        65 CFaVPhnEssdq---vevdm~y~~~M~~l~~k~npnE~vvGWyaTg~dvt~~sslihdyYare~~~pvhLtVDT~~~n~r  141 (288)
T KOG2975|consen   65 CFAVPHNESSDQ---VEVDMEYAKNMYELHKKVNPNELVVGWYATGHDVTEHSSLIHDYYAREAPNPVHLTVDTSLQNGR  141 (288)
T ss_pred             eeeccCcccccc---ceeeHHHHHHHHHHhcccCCCceeEEEEecCCCcccchhHHHHHhhccCCCCeEEEEeccccCCc
Confidence            999999999988   78999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CceEEEEeehhhhccccccccceeeeeeeeeeecchhHHHHHHHhhhcccC-cccchhhhHHHHHHHHHHHHHHHHHHHH
Q 036425           82 IPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVEHLLRDVKDT-TISTLANEVTGKLTALKGLDARLREIRG  160 (252)
Q Consensus        82 lpi~~Y~~~~~~~~~~~~~~~~~F~~v~~~i~~~eaEri~vd~l~k~~~~~-~~~~l~~~l~~~~~al~~L~~~l~~i~~  160 (252)
                      ++|++|.+...|++|+.  .+.+|.|+|+++.++|+||+|++.+.|...++ +..++.++|+++..|...|+++|+.+++
T Consensus       142 m~ikaYvss~~Gvpg~~--~~~mF~plpvel~~~~~ervgl~li~kt~~sp~r~~~l~~dLqQv~~at~~l~~~L~~Vl~  219 (288)
T KOG2975|consen  142 MSIKAYVSSLMGVPGRT--MGVMFTPLPVELAYYDAERVGLDLIEKTSFSPSRVAGLSSDLQQVEGATARLQSLLERVLK  219 (288)
T ss_pred             cceeEEEEeccCCCCcc--cceeeeeeeeEEeecchhhhHHHHHHHhccChhhhccccchHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999886  67799999999999999999999999987543 3457889999999999999999999999


Q ss_pred             HHHhhhCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHh
Q 036425          161 YLDLVIDEKLPLNHEILYHLQDVFNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINN  228 (252)
Q Consensus       161 Yl~~V~~G~~~~d~~ilR~l~~lv~~lP~~~~~~f~~~~~~~~~D~lmv~yLs~ltk~~~~l~e~l~~  228 (252)
                      |+++|.+|+.+||+.|||+|.++++++|.+.+++|+.+|+++++|.||+.|||+|||||++|+|+|++
T Consensus       220 YVedVl~gk~~pdn~VGR~Lmd~v~~vP~l~p~~Fe~mfn~nLrD~Lmv~yLa~ltqTQl~l~EKL~~  287 (288)
T KOG2975|consen  220 YVEDVLAGKVKPDNAVGRFLMDLVTAVPKLVPDDFETMFNSNLRDLLMVIYLANLTQTQLALNEKLVN  287 (288)
T ss_pred             HHHHHHcCCCCCcchHHHHHHHHHHhcCCCCHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            99999999999999999999999999999999999999999999999999999999999999999975

>cd08062 MPN_RPN7_8 Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in 19S proteasomal subunits Rpn7 and Rpn8

Probab=100.00  E-value=1.9e-62  Score=436.83  Aligned_cols=234  Identities=71%  Similarity=1.173  Sum_probs=220.4

Q ss_pred             eeeecccCCCCCCceeEeCHHHHHHHHHHHhhcCCCCeeEEEEecCCCCCCCcHHHHHHHhccCCCcEEEEEeCCCCCCC
Q 036425            2 VISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHNYVPNPVLVIIDVQPKELG   81 (252)
Q Consensus         2 sF~Vp~~e~~~~~~~~~iD~~~~~~m~~l~kkV~p~e~iVGWYstg~~~~~~~~~Ih~~~~~~~~~PI~L~vD~~~~~~~   81 (252)
                      ||++||++++++.++|++|++|+++|+++|++|||++.+||||+||+++++.|+.||++|++++++||||+|||..++++
T Consensus        46 sF~~p~~~~~~~~~~~~~d~~y~~~m~~~~kkv~~~e~vVGWY~tg~~~~~~d~~ih~~~~~~~~~pv~l~vd~~~~~~~  125 (280)
T cd08062          46 SFAVPFEEDEKDPSVWFLDHNYLENMYGMFKKVNAKEKIVGWYSTGPKLRPNDLDINELFRRYCPNPVLVIIDVRPKDLG  125 (280)
T ss_pred             eeecCccCCCCCcchhhhhHHHHHHHHHHHHHhCCCCCeEEEecCCCCCCcchHHHHHHHHHhCCCCEEEEEecCCCCCC
Confidence            89999999887767799999999999999999999999999999999999999999999999999999999999998889


Q ss_pred             CceEEEEeehhhhccccccccceeeeeeeeeeecchhHHHHHHHhhhcccCcccchhhhHHHHHHHHHHHHHHHHHHHHH
Q 036425           82 IPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVEHLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGY  161 (252)
Q Consensus        82 lpi~~Y~~~~~~~~~~~~~~~~~F~~v~~~i~~~eaEri~vd~l~k~~~~~~~~~l~~~l~~~~~al~~L~~~l~~i~~Y  161 (252)
                      ||+++|++...+.++|. ..+..|+|+||+|+++|||||||+|++|.+.+.+.+++..++..+.+|+++|.+||+.|++|
T Consensus       126 lpi~aY~s~~~~~~~g~-~~~~~F~~vp~~i~~~eaE~igve~l~r~~~~~~~~~l~~~l~~~~~al~~L~~~l~~i~~Y  204 (280)
T cd08062         126 LPTEAYIAVEEVHDDGT-PTSKTFVHVPSEIGAEEAEEVGVEHLLRDIKDVTVSTLSTRVTNKLNSLKGLQSKLKEIKDY  204 (280)
T ss_pred             CceEEEEEeeeccCCCC-cceeEEEEcceEeeccchHHHHHHHHHhhccCcccchhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999998876552 25678999999999999999999999998776666778889999999999999999999999


Q ss_pred             HHhhhCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHhhhhchhhh
Q 036425          162 LDLVIDEKLPLNHEILYHLQDVFNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHE  236 (252)
Q Consensus       162 l~~V~~G~~~~d~~ilR~l~~lv~~lP~~~~~~f~~~~~~~~~D~lmv~yLs~ltk~~~~l~e~l~~~~~~~~~~  236 (252)
                      |++|.+|+.++|++|||+|+++|+++|.+++++|+++|++++||++|++|||+|||+|.+|+++++++.+|++.+
T Consensus       205 l~~V~~g~~~~d~~IlR~l~~~~~~lP~l~~~~f~~~~~~~~nD~lmv~yLs~l~k~~~~l~~~~~~~~~~~~~~  279 (280)
T cd08062         205 LQLVVEGKLPINHQIIYNLQDIFNLLPNLNLPELVKAFAVKTNDQMLVIYLSSLIRSVIALHNLINNKIANKEAE  279 (280)
T ss_pred             HHHHHCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Confidence            999999999999999999999999999999999999999999999999999999999999999999998765544

This family includes lid subunits of the 26 S proteasome regulatory particles, Rpn7 (PSMD7; proteasome 26S non-ATPase subunit 7; p44), and Rpn8 (PSMD8; proteasome 26S non-ATPase subunit 8; p40; Mov34). Rpn7 is known to be critical for the integrity of the 26 S proteasome complex by establishing a correct lid structure. It is necessary for the incorporation/anchoring of Rpn3 and Rpn12 to the lid and essential for viability and normal mitosis. Rpn7 and Rpn8 are ATP-independent components of the 19S regulator subunit, and contain the MPN structural motif on its N-terminal region. However, while they show a typical MPN metalloprotease fold, they lack the canonical JAMM motif, and therefore do not show catalytic isopeptidase activity. It is suggested that Rpn7 function is primarily structural.

>KOG1556 consensus 26S proteasome regulatory complex, subunit RPN8/PSMD7 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=9.1e-59  Score=393.45  Aligned_cols=241  Identities=72%  Similarity=1.144  Sum_probs=231.3

Q ss_pred             eeeecccCCCCCCceeEeCHHHHHHHHHHHhhcCCCCeeEEEEecCCCCCCCcHHHHHHHhccCCCcEEEEEeCCCCCCC
Q 036425            2 VISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHNYVPNPVLVIIDVQPKELG   81 (252)
Q Consensus         2 sF~Vp~~e~~~~~~~~~iD~~~~~~m~~l~kkV~p~e~iVGWYstg~~~~~~~~~Ih~~~~~~~~~PI~L~vD~~~~~~~   81 (252)
                      ||||||+|++++.++||+|++|+++|+++|+|||.+|.|||||+||+.+.++|+.|++.|.+++|||+.+++|..+.+-+
T Consensus        54 SfAvpFeEDdk~~svWFlDh~Y~esM~~mfkKvNakekivGWYhTGPkl~~nDl~In~l~k~y~pnpvLvIIdvkpk~~g  133 (309)
T KOG1556|consen   54 SFAVPFEEDDKDKSVWFLDHNYIESMFGMFKKVNAKEKVVGWYHTGPKLRENDLDINELLKRYVPNPVLVIIDVKPKELG  133 (309)
T ss_pred             ceeccccccCCCCceEEeccHHHHHHHHHHHHhcchhheeeeeccCCccccchhhHHHHHhhcCCCceEEEEecccccCC
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CceEEEEeehhhhccccccccceeeeeeeeeeecchhHHHHHHHhhhcccCcccchhhhHHHHHHHHHHHHHHHHHHHHH
Q 036425           82 IPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVEHLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGY  161 (252)
Q Consensus        82 lpi~~Y~~~~~~~~~~~~~~~~~F~~v~~~i~~~eaEri~vd~l~k~~~~~~~~~l~~~l~~~~~al~~L~~~l~~i~~Y  161 (252)
                      ||..||.++....++|++ ....|+++|++|+++|||.|||+|+.|++++.+.++++..++++..+|+.|++++..|.+|
T Consensus       134 LPT~AY~aVeev~dDgt~-t~ktF~Hvps~I~AeEAEEvGVEHLlRDikd~t~gtla~rit~ql~sLkgl~~~L~eI~~Y  212 (309)
T KOG1556|consen  134 LPTEAYIAVEEVKDDGTP-TSKTFVHVPSEIEAEEAEEVGVEHLLRDIKDTTVGTLATRITNQLMSLKGLQSRLREIRSY  212 (309)
T ss_pred             CCchheeeeeeeecCCCC-ccceeEecCcccchhHHHHhhHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999988777763 5678999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHhhhhchhhhhhccC
Q 036425          162 LDLVIDEKLPLNHEILYHLQDVFNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKILNKEHEKTEDA  241 (252)
Q Consensus       162 l~~V~~G~~~~d~~ilR~l~~lv~~lP~~~~~~f~~~~~~~~~D~lmv~yLs~ltk~~~~l~e~l~~~~~~~~~~~~~~~  241 (252)
                      |++|.+|+.|.|++|+.++++++++||.+...+|.+.|+...||.||+.|||+|+|++.+|+++++|+++|...|+ ++.
T Consensus       213 L~~Vi~g~lpiNh~Il~~lQdvfNllP~l~~~~~~~a~~vktndql~~iY~sslvrsViAlhdLi~Nkl~nk~~e~-~d~  291 (309)
T KOG1556|consen  213 LDKVIDGKLPINHEILYQLQDVFNLLPNLTRNELVKAFNVKTNDQLMVIYLSSLVRSVIALHDLINNKLANKKAEK-EDS  291 (309)
T ss_pred             HHHHhcCCCCCcHHHHHHHHHHHhhCccccchhhhhhhccccCceeeeeeHHHHHHHHHHHHHHHHhHhhhhhhhh-hhc
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999887 444


Q ss_pred             CCC
Q 036425          242 KPT  244 (252)
Q Consensus       242 ~~~  244 (252)
                      ||.
T Consensus       292 K~k  294 (309)
T KOG1556|consen  292 KDK  294 (309)
T ss_pred             ccc
Confidence            543

>cd08063 MPN_CSN6 Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in COP9 signalosome complex subunit 6

Probab=100.00  E-value=1.8e-57  Score=407.45  Aligned_cols=225  Identities=28%  Similarity=0.484  Sum_probs=210.2

Q ss_pred             eeeecccCCCCCCceeEeCHHHHHHHHHHHhhcCCCCeeEEEEecCCC-CCCCcHHHHHHHhccCCCcEEEEEeCCC--C
Q 036425            2 VISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPK-LRENDLDIHQLFHNYVPNPVLVIIDVQP--K   78 (252)
Q Consensus         2 sF~Vp~~e~~~~~~~~~iD~~~~~~m~~l~kkV~p~e~iVGWYstg~~-~~~~~~~Ih~~~~~~~~~PI~L~vD~~~--~   78 (252)
                      ||++||+++++  +.|.+|++|+++|+++|++|||++.+||||+||+. ++++|+.||++|++++++||||++||..  +
T Consensus        49 sF~~p~~~~~~--~~~~id~~y~~~m~~~~kkV~~~~~vVGWY~tg~~~~~~~~~~Ih~~~~~~~~~pv~L~~D~~~~~~  126 (288)
T cd08063          49 SFELKYDTNED--GEIVLDKEFLETRLEQFKQVFKDLDFVGWYTTGPGGPTESDLPIHKQILEINESPVLLLLDPEANAS  126 (288)
T ss_pred             EEecccccCCC--CceeeCHHHHHHHHHHHHHhccCCceEEEEecCCCCCCHHHHHHHHHHHhhCCCcEEEEEccccccC
Confidence            89999999862  23899999999999999999999999999999999 9999999999999999999999999988  5


Q ss_pred             CCCCceEEEEeehhhhccccccccceeeeeeeeeeecchhHHHHHHHhhhcc--cCcccchhhhHHHHHHHHHHHHHHHH
Q 036425           79 ELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVEHLLRDVK--DTTISTLANEVTGKLTALKGLDARLR  156 (252)
Q Consensus        79 ~~~lpi~~Y~~~~~~~~~~~~~~~~~F~~v~~~i~~~eaEri~vd~l~k~~~--~~~~~~l~~~l~~~~~al~~L~~~l~  156 (252)
                      +++||+++|++...+.++ .  ....|+|+||+|+++|||||||+|+++.+.  +...+.+..++..+.+|+++|.+||+
T Consensus       127 ~~~lpi~ay~s~~~~~~~-~--~~~~F~~i~~~i~~~eaErIgv~~l~~~~~~~~~~~~~~~~~l~~~~~al~~L~~rl~  203 (288)
T cd08063         127 GKDLPVTIYESVLELVDG-E--ATLRFRELPYTIETGEAERIGVDHVARGGASGSSEKSTVAAHLQAQHNAIKMLNSRVE  203 (288)
T ss_pred             CCCCceeEEEEEEeccCC-c--cccEEEeeeeEEEeccCceeeHHHHHhcCCCCCCcchHHHHHHHHHHHHHHHHHHHHH
Confidence            788999999999888765 2  567899999999999999999999999863  33455678899999999999999999


Q ss_pred             HHHHHHHhhhCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 036425          157 EIRGYLDLVIDEKLPLNHEILYHLQDVFNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKIL  231 (252)
Q Consensus       157 ~i~~Yl~~V~~G~~~~d~~ilR~l~~lv~~lP~~~~~~f~~~~~~~~~D~lmv~yLs~ltk~~~~l~e~l~~~~~  231 (252)
                      .|++||++|.+|+.++|++|||+|+++|+++|.++.++|+++|..++||++|++|||+||||+.+|+++++||.-
T Consensus       204 ~i~~Yl~~V~~g~~~~d~~ilR~l~~~~~~lP~~~~~~~~~~~~~~~~D~lmv~yLs~lt~~~~~l~~~~~k~~~  278 (288)
T cd08063         204 LILEYLKAVPVGEVPPDHSILRSISALCSRLPVLKSEAFREELLAEYNDVLLVAYLATLTKGCNTLNELVDKFNV  278 (288)
T ss_pred             HHHHHHHHhcCCCCCCCHHHHHHHHHHHHhCccCChHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999965

CSN6 (COP9 signalosome subunit 6; COP9 subunit 6; MOV34 homolog, 34 kD) is one of the eight subunits of COP9 signalosome, a highly conserved protein complex with diverse functions, including several important intracellular pathways such as the ubiquitin/proteasome system, DNA repair, cell cycle, developmental changes, and some aspects of immune responses. CSN6 is an MPN-domain protein that directly interacts with the MPN+-domain subunit CSN5. It is cleaved during apoptosis by activated caspases. CSN6 processing occurs in CSN/CRL (cullin-RING Ub ligase) complexes and is followed by the cleavage of Rbx1, the direct interaction partner of CSN6. CSN6 cleavage enhances CSN-mediated deneddylating activity (i.e. cleavage of ubiquitin-like protein Nedd8 (neural precursor cell expressed, developmentally downregulated 8)) in the cullin 1 in cells. The cleav

>cd08064 MPN_eIF3f Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF3f

Probab=100.00  E-value=1.2e-56  Score=397.87  Aligned_cols=220  Identities=26%  Similarity=0.477  Sum_probs=206.7

Q ss_pred             eeeecccCCCCCCceeEeCHHHHHHHHHHHhhcCCCCeeEEEEecCCCCCCCcHHHHHHHhccCC--CcEEEEEeCCCCC
Q 036425            2 VISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHNYVP--NPVLVIIDVQPKE   79 (252)
Q Consensus         2 sF~Vp~~e~~~~~~~~~iD~~~~~~m~~l~kkV~p~e~iVGWYstg~~~~~~~~~Ih~~~~~~~~--~PI~L~vD~~~~~   79 (252)
                      ||++||++++++   |.+|.+|+++|+++|++|||++.+||||+||+.+++++..||++|+++++  +||||++|+..++
T Consensus        43 sF~~p~~~~~~~---~~~d~~y~~~m~~~~kkv~~~~~vVGWY~tg~~~~~~~~~Ih~~~~~~~~~~~pI~L~~D~~~~~  119 (265)
T cd08064          43 CFAVPHNESEDQ---VAVDMEYHRTMYELHQKVNPKEVIVGWYATGSEITEHSALIHDYYSRECTSYNPIHLTVDTSLDD  119 (265)
T ss_pred             CeecceeCCCCe---EEEcHHHHHHHHHHHHHhCCCCcEEeeeeCCCCCCccHHHHHHHHHhhCCCCCCEEEEEeCCCCC
Confidence            899999998765   89999999999999999999999999999999999999999999999988  9999999999887


Q ss_pred             CCCceEEEEeehhhhccccccccceeeeeeeeeeecchhHHHHHHHhhhcccCc-ccchhhhHHHHHHHHHHHHHHHHHH
Q 036425           80 LGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVEHLLRDVKDTT-ISTLANEVTGKLTALKGLDARLREI  158 (252)
Q Consensus        80 ~~lpi~~Y~~~~~~~~~~~~~~~~~F~~v~~~i~~~eaEri~vd~l~k~~~~~~-~~~l~~~l~~~~~al~~L~~~l~~i  158 (252)
                      +++|++||++.+.+++++.  ....|.++|++|.++|+|||||+|+++...+.+ ...+.+++..+.+|+++|.+||+.|
T Consensus       120 ~~l~i~ay~~~~~~~~~~~--~~~~F~~ip~~i~~~eaE~i~v~~l~~~~~~~~~~~~~~~~l~~~~~al~~L~~~l~~i  197 (265)
T cd08064         120 GKMSIKAYVSSPLGVPGKT--LGSMFVPIPLELLYSEAERVALDLLAKTLASPSRSAPLTSDLEQLEASLEKLQEMLDRV  197 (265)
T ss_pred             CCcceEEEEEEecccCCCC--cceEEEEcceeeecCcHHHHHHHHHHhhccCCcccccchhhHHHHHHHHHHHHHHHHHH
Confidence            7999999999988776654  668899999999999999999999999876543 3346689999999999999999999


Q ss_pred             HHHHHhhhCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHH
Q 036425          159 RGYLDLVIDEKLPLNHEILYHLQDVFNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLI  226 (252)
Q Consensus       159 ~~Yl~~V~~G~~~~d~~ilR~l~~lv~~lP~~~~~~f~~~~~~~~~D~lmv~yLs~ltk~~~~l~e~l  226 (252)
                      ++||++|.+|+.++|++|||+|+++|+++|.+++++|+++|++++||++|++|||+|||+|++|+|+|
T Consensus       198 ~~Yl~~V~~g~~~~d~~i~r~l~~~~~~lp~~~~~~f~~~~~~~~~D~lmv~YLs~l~k~~~~l~ekl  265 (265)
T cd08064         198 LRYVEDVLAGKVKADNAIGRYLMDALTSVPKLDPEEFEKMFNSSLQDLLMVTYLSNLTKTQLALAEKL  265 (265)
T ss_pred             HHHHHHHHcCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHhhhC
Confidence            99999999999999999999999999999999999999999999999999999999999999999985

Eukaryotic translation initiation factor 3 (eIF3) subunit F (eIF3F; EIF3S5; eIF3-p47; eukaryotic translation initiation factor 3, subunit 5 epsilon, 47kDa; Mov34/MPN/PAD-1 family protein) is an evolutionarily non-conserved subunit of the functional core that comprises eIF3a, eIF3b, eIF3c, eIF3e, eIF3f, and eIF3h, and contains the MPN domain. However, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity. It has been shown that eIF3f mRNA expression is significantly decreased in many human tumors including pancreatic cancer and melanoma. EIF3f is a potent inhibitor of HIV-1 replication; it mediates restriction of HIV-1 expression through several factors including the serine/arginine-rich (SR) protein 9G8, and cyclin-dependent kinase 11 (CDK11). EIF3f phosphorylation by CDK11 is important in regulating its function in translation and ap

>KOG3050 consensus COP9 signalosome, subunit CSN6 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=100.00  E-value=7.6e-48  Score=326.38  Aligned_cols=224  Identities=23%  Similarity=0.387  Sum_probs=205.8

Q ss_pred             eeeecccCCCCCCceeEeCHHHHHHHHHHHhhcCCCCeeEEEEecCCCCCCCcHHHHHHHhccCCCcEEEEEeCCCCC-C
Q 036425            2 VISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHNYVPNPVLVIIDVQPKE-L   80 (252)
Q Consensus         2 sF~Vp~~e~~~~~~~~~iD~~~~~~m~~l~kkV~p~e~iVGWYstg~~~~~~~~~Ih~~~~~~~~~PI~L~vD~~~~~-~   80 (252)
                      ||++..+-.++.   ..+|.+|+.++.+||++|||++.++|||+||+.+++.|+.||++++..+++|++|.++|...+ +
T Consensus        57 SFeL~~d~~~~~---~~~dke~l~kk~eqykqVFpdl~vlGwYttG~d~t~sd~~i~k~l~~i~esplflkLNp~t~~t~  133 (299)
T KOG3050|consen   57 SFELKMDTEEDT---ETIDKEYLEKKEEQYKQVFPDLYVLGWYTTGSDPTPSDIHIHKQLMDINESPLFLKLNPATNHTD  133 (299)
T ss_pred             eeEEEecchhhh---hhccHHHHHHHHHHHHHhcccceEEEEeecCCCCChhhhHHHHHHHhhhcCceEEEecchhcccc
Confidence            788887666544   469999999999999999999999999999999999999999999999999999999987763 5


Q ss_pred             CCceEEEEeehhhhccccccccceeeeeeeeeeecchhHHHHHHHhhhcc--cCcccchhhhHHHHHHHHHHHHHHHHHH
Q 036425           81 GIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVEHLLRDVK--DTTISTLANEVTGKLTALKGLDARLREI  158 (252)
Q Consensus        81 ~lpi~~Y~~~~~~~~~~~~~~~~~F~~v~~~i~~~eaEri~vd~l~k~~~--~~~~~~l~~~l~~~~~al~~L~~~l~~i  158 (252)
                      +.|+.+|++....++|.   .+..|+|+.|+++++|||||||||+++-..  ++..+++..++..+..|++||+.|++.|
T Consensus       134 ~~pv~lfese~dvidg~---~q~~f~~~tytl~teEaERIgVdHVA~lt~~~gge~s~VaeHl~AQdsA~~ml~~Rvkli  210 (299)
T KOG3050|consen  134 KDPVTLFESEIDVIDGE---AQMLFVPLTYTLATEEAERIGVDHVARLTPSDGGEGSSVAEHLEAQDSAIKMLDNRVKLI  210 (299)
T ss_pred             CCCceeeeeeheeecCc---ceeeeeeeEEEEeehhhhhccchhheeeccCCCCCcchHHHHHhhHHHHHHHHhhHHHHH
Confidence            56999999998887654   678999999999999999999999999532  2334577899999999999999999999


Q ss_pred             HHHHHhhhCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 036425          159 RGYLDLVIDEKLPLNHEILYHLQDVFNLLPNLNVAELIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINNKIL  231 (252)
Q Consensus       159 ~~Yl~~V~~G~~~~d~~ilR~l~~lv~~lP~~~~~~f~~~~~~~~~D~lmv~yLs~ltk~~~~l~e~l~~~~~  231 (252)
                      +.||++|.+|+.++|.+|+|+...+|..||.++.++|.+.|..++||+.+++||+.+|+|+..+++++|+|--
T Consensus       211 l~Y~k~~e~G~l~~N~eILrea~~L~~~Lp~~~~~~F~d~F~~e~nd~~l~syl~~iT~~~~nMn~~vnKfn~  283 (299)
T KOG3050|consen  211 LAYLKKVEAGTLQPNFEILREAYALCHRLPVMESEKFQDNFYMECNDVGLISYLGTITKCCNNMNEVVNKFNT  283 (299)
T ss_pred             HHHHhhhhcCCcCccHHHHHHHHHHHhhccccchHHHhHHHHHhcchhhHHHHHHHHHHhhccHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999954

>PF13012 MitMem_reg: Maintenance of mitochondrial structure and function; PDB: 2O96_B 2O95_A

Probab=99.92  E-value=1.6e-26  Score=180.48  Aligned_cols=114  Identities=39%  Similarity=0.631  Sum_probs=13.7

Q ss_pred             cchhHHHHHHHhhhcccCcccchhhhHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCCHHHHHHHHHHHhhCCCCCHHH
Q 036425          115 HEVEEIGVEHLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDVFNLLPNLNVAE  194 (252)
Q Consensus       115 ~eaEri~vd~l~k~~~~~~~~~l~~~l~~~~~al~~L~~~l~~i~~Yl~~V~~G~~~~d~~ilR~l~~lv~~lP~~~~~~  194 (252)
                      +|||||||+|++|+..+...+++..++..+..|+.+|.++++.+..||++|.+|+.++|+++||+|+++|+++|.+++++
T Consensus         1 eEaErigv~~l~~~~~~~~~s~~~~~l~~~~~al~~L~~~l~~i~~Yl~~v~~g~~~~d~~i~r~l~~l~~~lp~~~~~~   80 (115)
T PF13012_consen    1 EEAERIGVDHLARGLGDHYYSSLSSQLENEQNALKMLHKRLWQILDYLEDVISGEIPPDHEILRQLQDLLSSLPKYDPEE   80 (115)
T ss_dssp             SHHHHHHHHHHHHH--S---------------------------------------------------------------
T ss_pred             CchHHHHHHHHHccCCCccccHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHcCcCCCchhHHHHHHHHHHhcccccHHH
Confidence            58999999999998766655588899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHh
Q 036425          195 LIKAFSVKTNDMMLVIYLSSLIRSVIALHNLINN  228 (252)
Q Consensus       195 f~~~~~~~~~D~lmv~yLs~ltk~~~~l~e~l~~  228 (252)
                      |+++|..+++|.+|++|||.+||++.++++++++
T Consensus        81 ~~~~~~~~~~D~l~v~yL~~l~k~~~~l~e~l~~  114 (115)
T PF13012_consen   81 FEEEFNSEINDVLMVSYLAKLTKKQHALNELLNN  114 (115)
T ss_dssp             ----------------------------------
T ss_pred             HHHHHHhhchHHHHHHHHHHHhHHHHHHHHHHhc
Confidence            9999999999999999999999999999999987

>cd08057 MPN_euk_non_mb Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity (non metal-binding); eukaryotic

Probab=99.92  E-value=6.2e-25  Score=180.64  Aligned_cols=108  Identities=26%  Similarity=0.560  Sum_probs=97.0

Q ss_pred             eeeecccCCCCCCceeEeCHHHHHHHHHHHhhcCCCCeeEEEEecCCC----CCCCcHHHHHHHhcc-CCCcEEEEEeCC
Q 036425            2 VISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPK----LRENDLDIHQLFHNY-VPNPVLVIIDVQ   76 (252)
Q Consensus         2 sF~Vp~~e~~~~~~~~~iD~~~~~~m~~l~kkV~p~e~iVGWYstg~~----~~~~~~~Ih~~~~~~-~~~PI~L~vD~~   76 (252)
                      ||++|++++++.   +.+|.+|+++|+++|++|||++.+||||++|+.    ++..+..||++|+.. .++||+|++||.
T Consensus        43 sF~lp~~~~~~~---~~~d~~y~~~m~~~~~~v~~~~~vVGWY~~~~~~~~~~~~~~~~i~~~~~~~~~~~~v~L~~D~~  119 (157)
T cd08057          43 SFELPFDEEEES---IFIDTEYLEKRYNLHKKVYPQEKIVGWYSIGSNNSNEISKSDNSLHSQFSLISEENPLILILDPS  119 (157)
T ss_pred             eEEccccCCCcc---hhhhHHHHHHHHHHHHHhCCCCCEEEEEeecCCCCCCCChhHHHHHHHHHhccCCCCEEEEEcCC
Confidence            899999888665   789999999999999999999999999999998    899999999999997 889999999998


Q ss_pred             C--CCCCCceEEEEeehhhhccccccccceeeeeeeeeeecchhHHH
Q 036425           77 P--KELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIG  121 (252)
Q Consensus        77 ~--~~~~lpi~~Y~~~~~~~~~~~~~~~~~F~~v~~~i~~~eaEri~  121 (252)
                      .  .++++|+++|++.+...         .+.++|+++.++|+||||
T Consensus       120 ~~~~~~~l~i~ay~~~~~~~---------~~~~~~~~i~~~e~E~I~  157 (157)
T cd08057         120 LQSDSEKLEISTFTSAQREE---------NGAEITYEIGTEETERIA  157 (157)
T ss_pred             cccCCCcccEEEEEEecCCC---------CCceeeeEEecccccccC
Confidence            6  46899999999985421         133999999999999996

This family contains MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains variants lacking key residues in the JAB1/MPN/Mov34 metalloenzyme (JAMM) motif and are unable to coordinate a metal ion. Comparisons of key catalytic and metal binding residues explain why the MPN-containing proteins Rpn7/PSMD7, Rpn8/PSMD8, CSN6, Prp8p, and the translation initiation factor 3 subunits f and h do not show catalytic isopeptidase activity. It has been proposed that the MPN domain in these proteins has a primarily structural function. Rpn7 is known to be critical for the integrity of the 26S proteasome complex by establishing a correct lid structure. It is necessary for the incorporation/anchoring of Rpn3 and Rpn12 to the lid and essential for viability and normal mitosis. CSN6 is a highly conserved protein complex with diverse functions, including several import

>cd08065 MPN_eIF3h Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF2h

Probab=99.82  E-value=3.4e-19  Score=158.28  Aligned_cols=163  Identities=17%  Similarity=0.161  Sum_probs=123.3

Q ss_pred             eeeecccCCCCCCceeEeCHHHHHHHHHHHhhcCCCCeeEEEEecCC-CCCCCcHHHHHHHhccC--CCcEEEEEeCCC-
Q 036425            2 VISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGP-KLRENDLDIHQLFHNYV--PNPVLVIIDVQP-   77 (252)
Q Consensus         2 sF~Vp~~e~~~~~~~~~iD~~~~~~m~~l~kkV~p~e~iVGWYstg~-~~~~~~~~Ih~~~~~~~--~~PI~L~vD~~~-   77 (252)
                      ||++|+.+++++...+.+|.+|+.+|+++++++++++.+||||++++ ....+...||.+|....  +.||||++|+.. 
T Consensus        43 ~Fp~P~~~~~~~~~~~~~~~~yq~~m~~~~r~v~~~e~iVGWY~S~p~~~~~~~s~id~~~~~q~~~~~~v~Li~D~~~s  122 (266)
T cd08065          43 CFPFPKSEEDDSDRADEDIADYQLEMMRLLREVNVDHNHVGWYQSTYLGSFFTRDLIETQYNYQEAIEESVVLVYDPSKT  122 (266)
T ss_pred             ccCCCCCCCCCcchhhhhHHHHHHHHHHHHHHhCCCCcEEEeEeecCCCCcCCHHHHHHHHHHhccCCCCEEEEECCCcc
Confidence            89999998866533456788999999999999999999999999999 22334777888887653  779999999986 


Q ss_pred             CCCCCceEEEEeehhhhc---------------cccccccceeeeeeeeeeecchhHHHHHHHhhhcccC-c-cc-chhh
Q 036425           78 KELGIPTKAYYDVEEVKE---------------NATQKSQKVFVHVPSEIAAHEVEEIGVEHLLRDVKDT-T-IS-TLAN  139 (252)
Q Consensus        78 ~~~~lpi~~Y~~~~~~~~---------------~~~~~~~~~F~~v~~~i~~~eaEri~vd~l~k~~~~~-~-~~-~l~~  139 (252)
                      .++.++++||...+.+++               +.  ..+.+|.+||++|..+.-+.+.+..+....... . -. -..+
T Consensus       123 ~~g~l~lkAyrl~~~~~~~~~~~~~~~~~l~~~~~--~~~~if~eiPv~i~n~~l~~~~L~~l~~~~~~~~~~~~~l~l~  200 (266)
T cd08065         123 SQGSLSLKAYRLSEKFMELYKEGKFSTESLREANL--TFSNIFEEIPVVIRNSHLVNALLSELEEDSPSSQSDFDRLDLS  200 (266)
T ss_pred             cccceeeEEEEEcHHHHHHhhcCCcCHHHHHHhcC--chhcEEEEEEEEEEchHHHHHHHHhcccCCCcccCCccccccc
Confidence            467899999999988765               22  256899999999999999999999986643321 1 00 1112


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 036425          140 EVTGKLTALKGLDARLREIRGYLDLVI  166 (252)
Q Consensus       140 ~l~~~~~al~~L~~~l~~i~~Yl~~V~  166 (252)
                      ....+...+..|.+.||.+..+.++..
T Consensus       201 ~~~~le~~l~~l~~~id~l~~e~~~~~  227 (266)
T cd08065         201 TNSFLEKNLELLMESVDELSQEQGKFN  227 (266)
T ss_pred             CchhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            244455666777777777776666543

Eukaryotic translation initiation factor 3 (eIF3) subunit h (eIF3h; eIF3 subunit 3; eIF3S3; eIF3-gamma; eIF3-p40) is an evolutionarily non-conserved subunit of the functional core that comprises eIF3a, eIF3b, eIF3c, eIF3e, eIF3f, and eIF3h, and contains the MPN domain. However, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity.Together with eIF3e and eIF3f, eIF3h stabilizes the eIF3 complex. Results suggest that eIF3h regulates cell growth and viability, and that over-expression of the gene may provide growth advantage to prostate, breast, and liver cancer cells. For example, EIF3h gene amplification is common in late-stage prostate cancer suggesting that it may be functionally involved in the progression of the disease. It has been shown that coamplification of MYC, a well characterized oncogene involved in cell growth, different

>cd08069 MPN_RPN11_CSN5 Mov34/MPN/PAD-1 family: proteasomal regulatory protein Rpn11 and signalosome complex subunit CSN5

Probab=99.61  E-value=2.1e-14  Score=127.67  Aligned_cols=124  Identities=22%  Similarity=0.319  Sum_probs=106.7

Q ss_pred             eeeecccCCCCCCceeEeCHHHHHHHHH--HHhhcCCCCeeEEEEecCCC----CCCCcHHHHHHHhccCCCcEEEEEeC
Q 036425            2 VISVPFEEDDKDPGIWFLDHNYHESMYS--MFKRINAKEHVVGWYSTGPK----LRENDLDIHQLFHNYVPNPVLVIIDV   75 (252)
Q Consensus         2 sF~Vp~~e~~~~~~~~~iD~~~~~~m~~--l~kkV~p~e~iVGWYstg~~----~~~~~~~Ih~~~~~~~~~PI~L~vD~   75 (252)
                      ||++|+.+++..   +..+.+|...|.+  +++++++++.+||||++++.    ++..|+.+|..|.+.++.+|+|++||
T Consensus        52 ~fp~p~~~t~~~---v~~~~e~~~~m~~~~~~~~~~~~~~vVGWYHSHP~~g~~~S~~Dv~tq~~yq~~~~~~V~lViDP  128 (268)
T cd08069          52 VFALPVEGTETR---VNAQDEFQEYMVQYEMLKQTGRPENVVGWYHSHPGYGCWLSGIDVNTQQLNQQLQDPFVAVVVDP  128 (268)
T ss_pred             EEECCcCCCCCc---eeccHHHHHHHHHHHHHHHhCCCceeEeeeccCCCcCCcCCHHHHHHHHHHHhcCCCcEEEEEeC
Confidence            899998887655   5677799999999  99999999999999999987    88999999999999988899999997


Q ss_pred             CCC--CCCCceEEEEeehhhhcc----cc---------------ccccceeeeeeeeeeecchhHHHHHHHhhh
Q 036425           76 QPK--ELGIPTKAYYDVEEVKEN----AT---------------QKSQKVFVHVPSEIAAHEVEEIGVEHLLRD  128 (252)
Q Consensus        76 ~~~--~~~lpi~~Y~~~~~~~~~----~~---------------~~~~~~F~~v~~~i~~~eaEri~vd~l~k~  128 (252)
                      ..+  .+++.++||...+.+...    +.               ......|.+||+++..++.|+..++.+.+.
T Consensus       129 ~~t~~~g~~~i~Afr~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~y~~l~i~~~~s~l~~~~L~~l~~~  202 (268)
T cd08069         129 IRSLVKGKVVIGAFRTIPPGYKPLEPRQTTSNIGHLPKPKIEDFGGHNKQYYSLPIEYFKSSLDRKLLLNLWNK  202 (268)
T ss_pred             CccccCCcceeeEEEEECccccccCcccCccccCccCcHHHHHhCchhcEEEEeeeEEecCHHHHHHHHHHHHH
Confidence            544  688999999999876541    10               014568999999999999999999999875

This family contains proteasomal regulatory protein Rpn11 (26S proteasome regulatory subunit rpn11; PAD1; POH1; RPN11; PSMD14; Rpn11 subunit of the 19S-proteasome; regulatory particle number 11) and signalosomal CSN5 (COP9 signalosome complex subunit 5; COP9 complex homolog subunit 5; c-Jun activation domain-binding protein-1; CSN5/JAB1; JAB1). COP9 signalosome (CSN) and the proteasome lid are paralogous complexes and their respective subunits CSN5 and Rpn11 are most closely related between the two complexes, both containing the conserved JAMM (JAB1/MPN/Mov34 metalloenzyme) motif involved in zinc ion coordination and providing the active site for isopeptidase activity. Rpn11 is responsible for substrate deubiquitination during proteasomal degradation. It is essential for maintaining a correct cell cycle and normal mitochondrial morphology and physiology; mutations i

>PF01398 JAB: JAB1/Mov34/MPN/PAD-1 ubiquitin protease; InterPro: IPR000555 Members of this family are found in proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors

Probab=99.28  E-value=2.1e-12  Score=100.32  Aligned_cols=64  Identities=25%  Similarity=0.626  Sum_probs=55.5

Q ss_pred             eeeecccCCCCCCceeEeCHHHHHHHHHHHhhcCCCCeeEEEEecCCCC----CCCcHHHHHHHhccCCC
Q 036425            2 VISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKL----RENDLDIHQLFHNYVPN   67 (252)
Q Consensus         2 sF~Vp~~e~~~~~~~~~iD~~~~~~m~~l~kkV~p~e~iVGWYstg~~~----~~~~~~Ih~~~~~~~~~   67 (252)
                      ||++|+.+++++.  ...+.++.++|++++++++|++.+||||+|++..    +..|+.+|++|.+.+|+
T Consensus        47 ~f~~p~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~iVGWY~s~p~~~~~~S~~di~~q~~~q~~~~~  114 (114)
T PF01398_consen   47 SFPVPHSESEDDC--DMDDEDFQKKMIELLKKVNPNLEIVGWYHSHPNISCFPSPTDIETQKQYQRMNPN  114 (114)
T ss_dssp             EEEESEEEESSEE--EEECCHHHHHHHHHHHHCSTTSEEEEEEEEESSS-SS--HHHHHHHHHHHHHTTT
T ss_pred             EEEeeEecCcccc--ccchhhHHHHHHhhhccccccceEEEEEEccCCccccCCHHHHHHHHHHHHhCCC
Confidence            8999999886542  4577777899999999999999999999999987    89999999999988764

This family is also known as the MPN domain [] and PAD-1-like domain []. It has been shown that this domain occurs in prokaryotes []. Mov34 proteins act as the regulatory subunit of the 26 proteasome, which is involved in the ATP-dependent degradation of ubiquitinated proteins. The function of this domain is unclear, but it is found in the N terminus of the proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors. A number of the proteins associated with this family belong to MEROPS peptidase family M67 (clan M-). This includes the Poh1 peptidase of Saccharomyces cerevisiae (Baker's yeast) which is a component of the 19S proteasome regulatory particle.; GO: 0005515 protein binding; PDB: 2ZNV_D 2ZNR_A 4E0Q_A 2P87_A 2P8R_A 2O96_B 2O95_A 3RZU_F 3RZV_A.

>smart00232 JAB_MPN JAB/MPN domain

Probab=99.27  E-value=1.8e-11  Score=96.97  Aligned_cols=87  Identities=26%  Similarity=0.428  Sum_probs=74.0

Q ss_pred             eeeecccCCCCCCceeEeCHHHHHHHHHHHhhcCCCCeeEEEEecCC----CCCCCcHHHHHHHhccCCCcEEEEEeCCC
Q 036425            2 VISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGP----KLRENDLDIHQLFHNYVPNPVLVIIDVQP   77 (252)
Q Consensus         2 sF~Vp~~e~~~~~~~~~iD~~~~~~m~~l~kkV~p~e~iVGWYstg~----~~~~~~~~Ih~~~~~~~~~PI~L~vD~~~   77 (252)
                      ||++|.....+.  ...++.+|.+.|.++++++++++.+||||++++    .++..|..+|..+....+.++++.+|+..
T Consensus        42 ~~~~p~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~vGwyhshp~~~~~pS~~D~~~~~~~~~~~~~~~~~~v~~~~  119 (135)
T smart00232       42 VFAVPNEPQDDS--VQEYDEDYSHLMDEELKKVNKDLEIVGWYHSHPDESPFPSEVDVATHESYQAPWPISVVLIVDPIK  119 (135)
T ss_pred             EEecCcCCCCcc--hhhhhhhHHHHHHHHHHhhCCCceEEEEEEcCCCCCCCcCHHHHHHHHHHHhcCCceEEEEECCCc
Confidence            688897665433  236899999999999999999999999999987    45677999999998888889999999887


Q ss_pred             CC-CCCceEEEEee
Q 036425           78 KE-LGIPTKAYYDV   90 (252)
Q Consensus        78 ~~-~~lpi~~Y~~~   90 (252)
                      +. +++++++|+..
T Consensus       120 s~~g~~~~~af~~~  133 (135)
T smart00232      120 SFQGRLSLRAFRLT  133 (135)
T ss_pred             cccCcEEEEEEEec
Confidence            64 88999999985

Domain in Jun kinase activation domain binding protein and proteasomal subunits. Domain at Mpr1p and Pad1p N-termini. Domain of unknown function.

>cd07767 MPN Mpr1p, Pad1p N-terminal (MPN) domains

Probab=98.97  E-value=1.9e-09  Score=83.22  Aligned_cols=79  Identities=52%  Similarity=0.928  Sum_probs=61.9

Q ss_pred             eeeecccCCCCCCceeEeCHHHHHHHHHHHhhcCCCCeeEEEEecCCC----CCCCcHHHHHHHhccCCCcEEEEEeCCC
Q 036425            2 VISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPK----LRENDLDIHQLFHNYVPNPVLVIIDVQP   77 (252)
Q Consensus         2 sF~Vp~~e~~~~~~~~~iD~~~~~~m~~l~kkV~p~e~iVGWYstg~~----~~~~~~~Ih~~~~~~~~~PI~L~vD~~~   77 (252)
                      ||.+|+.++...     .+..+  -|......+.+++.+||||+|++.    ++..|...|..|.+..+++++|++|+..
T Consensus        34 ~~~~~~~~~~~~-----~~~~~--~~~~~~~~~~~~~~iVGwyhshp~~~~~~s~~dv~~~~~~q~~~~~~v~li~~~~~  106 (116)
T cd07767          34 VIAVPFDEGDKD-----DNVWF--LMYLDFKKLNAGLRIVGWYHTHPKPSCFLSPNDLATHELFQRYFPEKVMIIVDVKP  106 (116)
T ss_pred             EEecccCCCCCc-----cHHHH--HHHHHHHHhcCCCeEEEEEEcCCCCCCccCHHHHHHHHHHHHhCCCCEEEEEECCC
Confidence            688888766433     23222  266666778899999999999876    6788888898888877889999999998


Q ss_pred             CCCCCceEEE
Q 036425           78 KELGIPTKAY   87 (252)
Q Consensus        78 ~~~~lpi~~Y   87 (252)
                      .+.++|+++|
T Consensus       107 ~~~~~~~~~~  116 (116)
T cd07767         107 KDLGNSWKCY  116 (116)
T ss_pred             ccCCCCcccC
Confidence            7667888887

MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains are found in the N-terminal termini of proteins with a variety of functions; they are components of the proteasome regulatory subunits, the signalosome (CSN), eukaryotic translation initiation factor 3 (eIF3) complexes, and regulators of transcription factors. These domains are isopeptidases that release ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. Catalytically active MPN domains contain a metalloprotease signature known as the JAB1/MPN/Mov34 metalloenzyme (JAMM) motif. For example, Rpn11 (also known as POH1 or PSMD14), a subunit of the 19S proteasome lid is involved in the ATP-dependent degradation of ubiquitinated proteins, contains the conserved JAMM motif involved in zinc ion coordination. Poh1 is a regulator of c-Jun, an important regulator of cell proliferation, differentiation, survival and death. J

>KOG1560 consensus Translation initiation factor 3, subunit h (eIF-3h) [Translation, ribosomal structure and biogenesis]

Probab=98.35  E-value=9.6e-06  Score=71.39  Aligned_cols=163  Identities=17%  Similarity=0.294  Sum_probs=104.4

Q ss_pred             eeeecccC-CCCC-CceeEeCHH---HHHHHHHHHhhcCCCCeeEEEEec---CCCCCCCcHHHHHHH--hccCCCcEEE
Q 036425            2 VISVPFEE-DDKD-PGIWFLDHN---YHESMYSMFKRINAKEHVVGWYST---GPKLRENDLDIHQLF--HNYVPNPVLV   71 (252)
Q Consensus         2 sF~Vp~~e-~~~~-~~~~~iD~~---~~~~m~~l~kkV~p~e~iVGWYst---g~~~~~~~~~Ih~~~--~~~~~~PI~L   71 (252)
                      ||.-|..+ .+|+ ++.-..|..   |...|+..++.||-+...||||-.   |+-++  ...+--+|  ..-+|.-|.|
T Consensus        57 cFp~p~~~~~edda~~~~~~de~rq~~~l~mlrrlr~vnid~~hVGwYqs~~vgs~lS--~~lveSqy~YQ~a~pesVvl  134 (339)
T KOG1560|consen   57 CFPFPSVLENEDDAVNKSVSDEARQAYQLAMLRRLRYVNIDHLHVGWYQSAYVGSFLS--PALVESQYAYQKAIPESVVL  134 (339)
T ss_pred             ccCCCccCCCccchhhhhhhHHHHHHHHHHHHHHhhhcCccceeeeeeeeehhccccC--HHHHHHHHHHHhcCCccEEE
Confidence            89888533 3332 122234544   888999999999999999999975   44444  22223333  3346778999


Q ss_pred             EEeCCCC-CCCCceEEEEeehhhhcc---cc------c----cccceeeeeeeeeeecchhHHHHHHHh--hhcccC---
Q 036425           72 IIDVQPK-ELGIPTKAYYDVEEVKEN---AT------Q----KSQKVFVHVPSEIAAHEVEEIGVEHLL--RDVKDT---  132 (252)
Q Consensus        72 ~vD~~~~-~~~lpi~~Y~~~~~~~~~---~~------~----~~~~~F~~v~~~i~~~eaEri~vd~l~--k~~~~~---  132 (252)
                      +.||.-+ .|.|.++||...+....-   +.      +    ....+|..+|..|..+---.+-+.-+.  +.+...   
T Consensus       135 iYD~~kssqG~L~lrAyrLTp~am~~~kekdwtpealk~~nltyenmfeElPIVIknS~L~nvlmseLs~~e~c~sdk~~  214 (339)
T KOG1560|consen  135 IYDPIKSSQGTLSLRAYRLTPEAMAAHKEKDWTPEALKSANLTYENMFEELPIVIKNSHLANVLMSELSEPEDCESDKPL  214 (339)
T ss_pred             EeccccccCceEEeehhhcCHHHHHHHhcCCCCHHHHHhcCCCHHHHHhhcCeeeeccHHHHHHHHhccccccccccccc
Confidence            9999865 688999999998764310   00      0    134589999999998765555555554  222111   


Q ss_pred             -------cccchhhhHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 036425          133 -------TISTLANEVTGKLTALKGLDARLREIRGYLDLVI  166 (252)
Q Consensus       133 -------~~~~l~~~l~~~~~al~~L~~~l~~i~~Yl~~V~  166 (252)
                             +...+..+++.++..+..|..-+...-+|-+.+.
T Consensus       215 ~~~fdlgs~t~leknir~lme~vDEl~qe~~~l~kyqr~~~  255 (339)
T KOG1560|consen  215 HSNFDLGSGTRLEKNIRLLMERVDELHQEIVNLNKYQRQLA  255 (339)
T ss_pred             cccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                   1224555666666666666666666677776664

>KOG1554 consensus COP9 signalosome, subunit CSN5 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=97.63  E-value=0.00028  Score=62.47  Aligned_cols=92  Identities=21%  Similarity=0.271  Sum_probs=66.9

Q ss_pred             eeeecccCCCCCCceeEeCHHHHHHHHHHHhhcCCCCeeEEEEecCCC----CCCCcHHHHHHHhccCCCcEEEEEeCCC
Q 036425            2 VISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPK----LRENDLDIHQLFHNYVPNPVLVIIDVQP   77 (252)
Q Consensus         2 sF~Vp~~e~~~~~~~~~iD~~~~~~m~~l~kkV~p~e~iVGWYstg~~----~~~~~~~Ih~~~~~~~~~PI~L~vD~~~   77 (252)
                      ||++|-..++--+++..--.+|+-.-.+.-+.|...|.+||||++.+.    ++..|..-+..=.++-+.=+.++|||.-
T Consensus        95 ~FaLPVeGTETRVNAq~~AyEYmv~Y~e~~k~~gr~envVGWyHSHPgYgCWLSgIDVsTQ~lNQ~fQePfvAvViDP~R  174 (347)
T KOG1554|consen   95 SFALPVEGTETRVNAQAEAYEYMVQYIEEAKNVGRLENVVGWYHSHPGYGCWLSGIDVSTQMLNQRFQEPFVAVVIDPTR  174 (347)
T ss_pred             ccccccccccceechHHHHHHHHHHHHHHHHHhhhhhceeeeeecCCCCCccccCcchhHHHHhhhhcCCeEEEEecCcc
Confidence            899998777655555555678998888999999999999999999765    4555655443333332323788999864


Q ss_pred             --CCCCCceEEEEeehhh
Q 036425           78 --KELGIPTKAYYDVEEV   93 (252)
Q Consensus        78 --~~~~lpi~~Y~~~~~~   93 (252)
                        +.+++-+-||..-+.+
T Consensus       175 tlsagkv~iGAFRTyp~g  192 (347)
T KOG1554|consen  175 TLSAGKVNIGAFRTYPKG  192 (347)
T ss_pred             ccccCceeeceeecccCC
Confidence              4678888888776654

>cd08068 MPN_BRCC36 Mov34/MPN/PAD-1 family: BRCC36, a subunit of BRCA1-A complex

Probab=97.35  E-value=0.0038  Score=54.89  Aligned_cols=94  Identities=16%  Similarity=0.203  Sum_probs=63.1

Q ss_pred             eeEeCHHHH----HHHHHHHhhcCCCCeeEEEEecCCC----CCCCcHHHHHHHhccCCCcEEEEEeCCCC-----CCCC
Q 036425           16 IWFLDHNYH----ESMYSMFKRINAKEHVVGWYSTGPK----LRENDLDIHQLFHNYVPNPVLVIIDVQPK-----ELGI   82 (252)
Q Consensus        16 ~~~iD~~~~----~~m~~l~kkV~p~e~iVGWYstg~~----~~~~~~~Ih~~~~~~~~~PI~L~vD~~~~-----~~~l   82 (252)
                      -+.+|.+-+    +.+.++-+.+..++.+||||++-+.    ++..|..-+..|....+.-++++|++...     .++.
T Consensus        63 r~eidPee~~~a~~ea~~~~~~~~rgl~vVGwYHSHP~~~a~PS~~Dv~tq~~~q~~~p~~v~lIvS~~~~~~~~~~~~~  142 (244)
T cd08068          63 RVEISPEQLSAASTEAERLTEETGRPMRVVGWYHSHPHITVWPSHVDVRTQAMYQMMDSGFVGLIFSCFNEDKSTKMGEV  142 (244)
T ss_pred             eEEeCHHHHHHHHHHHHHHHhhccCCceEEEEEecCCCCCCCCCHhHHHHHHHHHhhCCCcEEEEEEecCCccccccCCE
Confidence            378898633    4555666777899999999999775    45566655444544456678999975432     2567


Q ss_pred             ceEEEEeehhhhccccccccceeeeeeeeeee
Q 036425           83 PTKAYYDVEEVKENATQKSQKVFVHVPSEIAA  114 (252)
Q Consensus        83 pi~~Y~~~~~~~~~~~~~~~~~F~~v~~~i~~  114 (252)
                      .+++|...+..     ++......++|+.|..
T Consensus       143 ~i~aFr~~~g~-----~~~~~~~~e~pl~i~~  169 (244)
T cd08068         143 QVTCFQSVQGN-----KAGQYERIEVPLEIVP  169 (244)
T ss_pred             EEEEEEecCCC-----CCCcceEEEeeeEEec
Confidence            78999986431     1234567788887765

BRCC36 (BRCA1-A complex subunit BRCC36; BRCA1/BRCA2-containing complex subunit 36; BRCA1/BRCA2-containing complex subunit 3; BRCC3; BRISC complex subunit BRCC36; BRCC36 isopeptidase complex; Lys-63-specific deubiquitinase BRCC36) and BRCC36-like domains are members of JAMM/MPN+ deubiquitinases (DUBs), possibly with Zn2+-dependent ubiquitin isopeptidase activity. BRCC36 is part of the BRCA1/BRCA2/BARD1-containing nuclear complex that displays an E3 ubiquitin ligase activity. It is targeted to DNA damage foci after irradiation; RAP80 recruits the Abraxas-BRCC36-BRCA1-BARD1 complex to DNA double strand breaks (DSBs) for DNA repair through specific recognition of Lys 63-linked polyubiquitinated proteins by its tandem ubiquitin-interacting motifs. A new protein, MERIT40 (mediator of RAP80 interactions and targeting 40 kDa), also named NBA1 (new component of the BRCA1 A complex), exists in the same BRCA1-contai

>cd08058 MPN_euk_mb Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); eukaryotic

Probab=97.33  E-value=0.00071  Score=52.81  Aligned_cols=62  Identities=16%  Similarity=0.296  Sum_probs=44.5

Q ss_pred             HHHHHHhhcCCCCeeEEEEecCCC----CCCCcHHHHHHHhccCCCcEEEEEeCCCCCCCCceEEEEe
Q 036425           26 SMYSMFKRINAKEHVVGWYSTGPK----LRENDLDIHQLFHNYVPNPVLVIIDVQPKELGIPTKAYYD   89 (252)
Q Consensus        26 ~m~~l~kkV~p~e~iVGWYstg~~----~~~~~~~Ih~~~~~~~~~PI~L~vD~~~~~~~lpi~~Y~~   89 (252)
                      .|..+.....-++.+||||++.+.    ++..|+..|..|....+..++|++|+..  ....+++|..
T Consensus        53 ~~~~~~~~~~~g~~~vG~YHSHP~~~~~pS~~Di~~~~~~q~~~p~~~~lI~s~~~--~~~~~~a~rl  118 (119)
T cd08058          53 VEELFNVQTGRPLLVVGWYHSHPTFTAWLSSVDIHTQASYQLMLPEAIAIVVSPKH--RNKDTGIFRL  118 (119)
T ss_pred             HHHHHHHHhCCCCeEEEEEecCCCCCCccCHHHHHHHHHHhccCCCeEEEEECcCC--CCcccceEEe
Confidence            344455567889999999999773    5566666566566666778999999865  2667777754

This family contains eukaryotic MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains found in proteins with a variety of functions, including AMSH (associated molecule with the Src homology 3 domain (SH3) of STAM), H2A-DUB (histone H2A deubiquitinase), BRCC36 (BRCA1/BRCA2-containing complex subunit 36), as well as Rpn11 (regulatory particle number 11) and CSN5 (COP9 signalosome complex subunit 5). These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity. Rpn11 is responsible for substrate deubiquitination during proteasomal degradation. It is essential for maintaining a correct cell cycle and normal mitochondrial morphology and physiology. CSN5 is critical for nuclear export and the degradation of several tumor suppressor prot

>cd08067 MPN_2A_DUB Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase

Probab=97.21  E-value=0.0055  Score=51.88  Aligned_cols=87  Identities=14%  Similarity=0.156  Sum_probs=59.0

Q ss_pred             eeeecccCCCCCCceeEeCHHHHHHHHHHHhhcCCCCeeEEEEecCCC----CCCCcHHHHHHHhccCC-------CcEE
Q 036425            2 VISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPK----LRENDLDIHQLFHNYVP-------NPVL   70 (252)
Q Consensus         2 sF~Vp~~e~~~~~~~~~iD~~~~~~m~~l~kkV~p~e~iVGWYstg~~----~~~~~~~Ih~~~~~~~~-------~PI~   70 (252)
                      ||.+|.....+.   +.+|.++...|.+..++.+  +.+||||++.+.    ++..|+.-|..|....+       .-|.
T Consensus        48 ~~p~~~~~~~~~---~e~dp~~q~e~~~~l~~~g--l~vVGwYHSHP~~~~~pS~~Di~tQ~~yQ~~~~~~~~~~~p~v~  122 (187)
T cd08067          48 AFPCRSRLTGLD---CEMDPVSETEIRESLESRG--LSVVGWYHSHPTFPPNPSLRDIDTQLDYQIMFKGSDSGYEPCVG  122 (187)
T ss_pred             EEecCCCCCCcc---cccCHHHHHHHHHHHHHcC--CEEEEEEecCCCCCcCCCHHHHHHHHHHHhhccccccCCCCeEE
Confidence            566665444333   6689999999998888754  799999999764    34445555555544332       2389


Q ss_pred             EEEeCCCC---CCCCceEEEEeehhh
Q 036425           71 VIIDVQPK---ELGIPTKAYYDVEEV   93 (252)
Q Consensus        71 L~vD~~~~---~~~lpi~~Y~~~~~~   93 (252)
                      ++++|-..   +....|.+|-..+..
T Consensus       123 ~I~~P~~~~~~~~~s~i~~f~~~~~~  148 (187)
T cd08067         123 LICSPYDRRNSTPESQITCFWVMPPP  148 (187)
T ss_pred             EEEccccCCCCCCCCcEEEEEEECCC
Confidence            99998653   345678999887653

This family includes histone H2A deubiquitinase (Histone H2A DUB;MYSM1; myb-like, SWIRM and MPN domains 1; 2ADUB; 2A-DUB; KIAA19152ADUB, or KIAA1915/MYSM1), a member of JAMM/MPN+ deubiquitinases (DUBs), with possible Zn2+-dependent ubiquitin isopeptidase activity. It contains the SWIRM (Swi3p, Rsc8p and Moira), and SANT (SWI-SNF, ADA N-CoR, TFIIIB)/Myb domains; the SANT, but not the SWIRM, domain can bind directly to DNA. 2A-DUB is specific for monoubiquitinated H2A (uH2A), regulating transcription by coordinating histone acetylation and deubiquitination, and destabilizing the association of linker histone H1 with nucleosomes. 2A-DUB interacts with p/CAF (p300/CBP-associated factor) in a co-regulatory protein complex, where the status of acetylation of nucleosomal histones modulates its deubiquitinase activity. 2A-DUB is a positive regulator of androgen receptor (AR) transactivation activity on a reporter gene; it p

>KOG1555 consensus 26S proteasome regulatory complex, subunit RPN11 [Posttranslational modification, protein turnover, chaperones]

Probab=97.18  E-value=0.00077  Score=60.88  Aligned_cols=89  Identities=20%  Similarity=0.344  Sum_probs=65.6

Q ss_pred             eeecccCCCCCCceeEeCHHHHHHHHHHHhhcCCCCeeEEEEecCCC----CCCCcHHHHHHHhccCCCcEEEEEeCCCC
Q 036425            3 ISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPK----LRENDLDIHQLFHNYVPNPVLVIIDVQPK   78 (252)
Q Consensus         3 F~Vp~~e~~~~~~~~~iD~~~~~~m~~l~kkV~p~e~iVGWYstg~~----~~~~~~~Ih~~~~~~~~~PI~L~vD~~~~   78 (252)
                      |+.|+...+=..-+-++|.-|...|.++.++.-..+.|||||++-+.    ++..|+.-++.|...++..+...||+..+
T Consensus        80 ~am~~sg~~is~~~e~~d~V~q~q~~~~l~~tGrp~~VVGWYHSHP~f~~wpS~vDi~tQ~syq~~~~r~~a~~v~~i~S  159 (316)
T KOG1555|consen   80 FAMPQSGTGISKFVEAVDPVFQTQMMDLLKQTGRPELVVGWYHSHPGFGCWPSLVDIDTQQSYQALSSRAVAVVVDPIQS  159 (316)
T ss_pred             eccccccceecccchhccHHHHHHHHHHHHhcCCcceEEeeccCCCCCCCCccccchhHHHHHhhhccCCcceeeecccC
Confidence            55665554321013469999999999999998877999999998654    56788888999988888888999998765


Q ss_pred             -CCCCceEEEEeeh
Q 036425           79 -ELGIPTKAYYDVE   91 (252)
Q Consensus        79 -~~~lpi~~Y~~~~   91 (252)
                       .++.-+.+|-.+.
T Consensus       160 ~~g~vv~d~f~~In  173 (316)
T KOG1555|consen  160 PYGKVVPDAFSSIN  173 (316)
T ss_pred             CCCCccCChhhhcC
Confidence             3444444665543

>cd08066 MPN_AMSH_like Mov34/MPN/PAD-1 family

Probab=96.34  E-value=0.0086  Score=50.06  Aligned_cols=55  Identities=16%  Similarity=0.236  Sum_probs=43.3

Q ss_pred             CCCeeEEEEecCCC----CCCCcHHHHHHHhccCCCcEEEEEeCCCCCCCCceEEEEee-hhhh
Q 036425           36 AKEHVVGWYSTGPK----LRENDLDIHQLFHNYVPNPVLVIIDVQPKELGIPTKAYYDV-EEVK   94 (252)
Q Consensus        36 p~e~iVGWYstg~~----~~~~~~~Ih~~~~~~~~~PI~L~vD~~~~~~~lpi~~Y~~~-~~~~   94 (252)
                      .++.+||||+|-+.    +++.|+..|..|....+..++|++++.    ...+.+|... +.|.
T Consensus        73 ~gle~vGwyHSHP~~~~~pS~~Dv~t~~~~~~~~p~~~~lIvSp~----~~~l~afrl~~~~g~  132 (173)
T cd08066          73 HDLITLGWIHTHPTQTCFLSSVDLHTHCSYQLMLPEAIAIVCAPK----YNEFGIFRLTDPPGL  132 (173)
T ss_pred             CCCeeEEEEeccCCCCCccCHHHHHHHHHHHhcCCCeEEEEECCC----CcEEeEEEeecCCcc
Confidence            68999999999653    677888888777666688899999863    5668899887 5544

AMSH (associated molecule with the Src homology 3 domain (SH3) of STAM (signal-transducing adapter molecule, also known as STAMBP)) and AMSH-like proteins (AMSH-LP) are members of JAMM/MPN+ deubiquitinases (DUBs), with Zn2+-dependent ubiquitin isopeptidase activity. AMSH specifically cleaves Lys 63 and not Lys48-linked polyubiquitin (poly-Ub) chains, thus facilitating the recycling and subsequent trafficking of receptors to the cell surface. AMSH and AMSH-LP are anchored on the early endosomal membrane via interaction with the clathrin coat. AMSH shares a common SH3-binding site with another endosomal DUB, UBPY (ubiquitin-specific protease Y; also known as USP8), the latter being a cysteine protease that does not discriminate between Lys48 and Lys63-linked ubiquitin. AMSH is involved in the degradation of EGF receptor (EGFR) and possibly other ubiquitinated endocytosed proteins. AMSH also interacts with CHMP1, CHMP2, and CHMP3 proteins, al

>COG1310 Predicted metal-dependent protease of the PAD1/JAB1 superfamily [General function prediction only]

Probab=94.79  E-value=0.13  Score=40.73  Aligned_cols=53  Identities=28%  Similarity=0.484  Sum_probs=34.7

Q ss_pred             eEeCHHHHHHHHHHHhhcCCCCeeEEEEecCCC--CCCCcHHHHHHHhccCCCcEEEEEe
Q 036425           17 WFLDHNYHESMYSMFKRINAKEHVVGWYSTGPK--LRENDLDIHQLFHNYVPNPVLVIID   74 (252)
Q Consensus        17 ~~iD~~~~~~m~~l~kkV~p~e~iVGWYstg~~--~~~~~~~Ih~~~~~~~~~PI~L~vD   74 (252)
                      ..++.++.. ++.....  ..+.|||||++.+.  ..+++..++  +++..+.|-+++..
T Consensus        51 ~~~~~~~~~-~~~~~~~--~g~~vvg~yHSHP~~~~~pS~~D~~--~~~~~~~~~~iv~~  105 (134)
T COG1310          51 FEIDPEYSL-FYLAAED--AGEVVVGWYHSHPGGPPYPSEADRR--LSKLGPLPWLIVSV  105 (134)
T ss_pred             EeeCHHHHH-HHHHHhh--CCCEEEEEEcCCCCCCCCcCHHHHh--hccccCCCEEEEEc
Confidence            556666665 4444443  34999999999884  456666666  77776555566554

>cd08070 MPN_like Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding)

Probab=89.04  E-value=7  Score=30.46  Aligned_cols=69  Identities=16%  Similarity=0.200  Sum_probs=44.3

Q ss_pred             ceeEeCHHHHHHHHHHHhhcCCCCeeEEEEecCCC--CCCCcHHHHHHHhccCCCcEEEEEeCCCCCCCCceEEEEee
Q 036425           15 GIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPK--LRENDLDIHQLFHNYVPNPVLVIIDVQPKELGIPTKAYYDV   90 (252)
Q Consensus        15 ~~~~iD~~~~~~m~~l~kkV~p~e~iVGWYstg~~--~~~~~~~Ih~~~~~~~~~PI~L~vD~~~~~~~lpi~~Y~~~   90 (252)
                      ..+.+|...+....+..++-  ++.+||||+|-+.  ..+....+..+..   ...+++++.....  ...+++|...
T Consensus        49 ~~f~~d~~~~~~~~~~~~~~--g~~~vG~~HSHP~~~~~PS~~D~~~~~~---~~~~~lIv~~~~~--~~~~~~~~~~  119 (128)
T cd08070          49 RRFEIDPAEQLAAQREARER--GLEVVGIYHSHPDGPARPSETDLRLAWP---PGVSYLIVSLAGG--APELRAWRLE  119 (128)
T ss_pred             ceEEECHHHHHHHHHHHHHC--CCeEEEEEeCCCCCCCCCCHHHHHhccC---CCCeEEEEECCCC--CcEEEEEEEc
Confidence            34889998887777776653  6999999999775  2333333322211   2357888875432  4457888773

This family contains archaeal and bacterial MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.

>PF06442 DHFR_2: R67 dihydrofolate reductase; InterPro: IPR009159 Dihydrofolate reductase (DHFR) (1

Probab=86.27  E-value=0.39  Score=33.38  Aligned_cols=12  Identities=50%  Similarity=0.974  Sum_probs=7.1

Q ss_pred             CeeEEEEecCCC
Q 036425           38 EHVVGWYSTGPK   49 (252)
Q Consensus        38 e~iVGWYstg~~   49 (252)
                      -.|||||+|.-.
T Consensus        40 g~vvgwy~t~lt   51 (78)
T PF06442_consen   40 GQVVGWYCTKLT   51 (78)
T ss_dssp             EEEEEEE--SS-
T ss_pred             ceEeEEEecccc
Confidence            479999998633

5.1.3 from EC) catalyses the NADPH-dependent reduction of dihydrofolate to tetrahydrofolate, an essential step in de novo synthesis both of glycine and of purines and deoxythymidine phosphate (the precursors of DNA synthesis) [], and important also in the conversion of deoxyuridine monophosphate to deoxythymidine monophosphate. Although DHFR is found ubiquitously in prokaryotes and eukaryotes, and is found in all dividing cells, maintaining levels of fully reduced folate coenzymes, the catabolic steps are still not well understood []. Bacterial species possesses distinct DHFR enzymes (based on their pattern of binding diaminoheterocyclic molecules), but mammalian DHFRs are highly similar []. The active site is situated in the N-terminal half of the sequence, which includes a conserved Pro-Trp dipeptide; the tryptophan has been shown [] to be involved in the binding of substrate by the enzyme. Its central role in DNA precursor synthesis, coupled with its inhibition by antagonists such as trimethoprim and methotrexate, which are used as anti-bacterial or anti-cancer agents, has made DHFR a target of anticancer chemotherapy. However, resistance has developed against some drugs, as a result of changes in DHFR itself []. This entry represents a plasmid-encoded DHFR which shows a high level of resistance to the antibiotic trimethoprim. It is a homotetramer with an unusual pore, which contains the active site, passing through the middle of the molecule []. Its structure is unrelated to that of chromosomal DHFRs.; GO: 0004146 dihydrofolate reductase activity, 0042493 response to drug, 0055114 oxidation-reduction process; PDB: 1VIF_A 3SFM_A 2P4T_A 2GQV_A 2RK2_A 2RH2_A 2RK1_A 1VIE_A.

>cd08060 MPN_UPF0172 Mov34/MPN/PAD-1 family: UPF0172 family of unknown function includes neighbor of COX4 (Noc4p)

Probab=82.34  E-value=2.1  Score=36.06  Aligned_cols=59  Identities=15%  Similarity=0.251  Sum_probs=38.6

Q ss_pred             eEeCHHH--HHHHHHHHhhcCCCCeeEEEEecCCCCC-----CCcHHHHHHHhccCCCcEEEEEeCC
Q 036425           17 WFLDHNY--HESMYSMFKRINAKEHVVGWYSTGPKLR-----ENDLDIHQLFHNYVPNPVLVIIDVQ   76 (252)
Q Consensus        17 ~~iD~~~--~~~m~~l~kkV~p~e~iVGWYstg~~~~-----~~~~~Ih~~~~~~~~~PI~L~vD~~   76 (252)
                      +.+|...  ...+.+.+.+- .++.|||+|++.+...     +....|=+.+.+.++++++|+||-.
T Consensus        48 ~~l~P~~Eval~~ve~~~~~-~gl~IvG~Yhsh~~~~d~~~~~~a~kIadki~~~~~~a~ll~vdn~  113 (182)
T cd08060          48 LALAPMLEVALALVDAYCKS-SGLVIVGYYQANERLDDSSPSPVAKKIADKIAENFSNACLLMVDNE  113 (182)
T ss_pred             cccCHHHHHHHHHHHHHHHH-CCCEEEEEEecCCcccCCCCcHHHHHHHHHHHHhCCCCEEEEEeCc
Confidence            3466553  23344444444 4799999999987543     3334455667777789999999844

This family includes Noc4p (neighbor of COX4; neighbor of Cytochrome c Oxidase 4; nucleolar complex associated 4 homolog) which belongs to the family of unknown function, UPF0172, with MPN/JAMM-like domains. Proteins in this family are homologs of the NOC4 gene which is conserved in eukaryotic members including human, dog, mouse, rat, chicken, zebrafish, fruit fly, mosquito, S.pombe, K.lactis, E.gossypii, M.grisea, N.crassa, A.thaliana, and rice. NOC4 highly expressed in the pancreas and moderately in liver, heart, lung, kidney, brain, skeletal muscle, and placenta. This nucleolar protein forms a complex with Nop14p that mediates maturation and nuclear export of 40S ribosomal subunits. This family of eukaryotic MPN-like domains lacks the key residues that coordinate a metal ion and therefore does not show catalytic isopeptidase activity.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	252
4b4t_U	338	Near-Atomic Resolution Structural Model Of The Yeas		1e-60
2o95_A	187	Crystal Structure Of The Metal-Free Dimeric Human M		3e-41
2o96_A	178	Crystal Structure Of The Metal-Free Dimeric Human M		8e-37

>pdb|4B4T|U Chain U, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 338

Iteration: 1
 Score =  229 bits (583), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 118/237 (49%), Positives = 168/237 (70%), Gaps = 19/237 (8%)
Query: 4   SVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHN 63
           ++PFEED+K+  +WFLDHNY E+M  M K+INAKE ++GWY +GPKLR +DL I++LF  
Sbjct: 53  ALPFEEDEKNSDVWFLDHNYIENMNEMCKKINAKEKLIGWYHSGPKLRASDLKINELFKK 112
Query: 64  YVPN-PVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGV 122
           Y  N P+L+I+DV+ + +G+PT AY  +E+VK++ T  ++K F+H+P  I A E EEIGV
Sbjct: 113 YTQNNPLLLIVDVKQQGVGLPTDAYVAIEQVKDDGTS-TEKTFLHLPCTIEAEEAEEIGV 171
Query: 123 EHLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQD 182
           EHLLRDV+D     L+  +T +L +LKGL ++L+++  YLD VI+++LP+NH IL  LQD
Sbjct: 172 EHLLRDVRDQAAGGLSIRLTNQLKSLKGLQSKLKDVVEYLDKVINKELPINHTILGKLQD 231
Query: 183 VFNLLPNLNVAE-----------------LIKAFSVKTNDMMLVIYLSSLIRSVIAL 222
           VFNLLPNL   +                 L KA +VKTND ++VIY+S+L+RS+IA 
Sbjct: 232 VFNLLPNLGTPDDDEIDVENHDRINISNNLQKALTVKTNDELMVIYISNLVRSIIAF 288

>pdb|2O95|A Chain A, Crystal Structure Of The Metal-Free Dimeric Human Mov34 Mpn Domain (Residues 1-186) Length = 187

Iteration: 1
 Score =  164 bits (416), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 84/134 (62%), Positives = 106/134 (79%), Gaps = 1/134 (0%)
Query: 3   ISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFH 62
            +VPF+EDDKD  +WFLDH+Y E+MY MFK++NA+E +VGWY TGPKL +ND+ I++L  
Sbjct: 55  FAVPFDEDDKDDSVWFLDHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELMK 114
Query: 63  NYVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGV 122
            Y PN VLVIIDV+PK+LG+PT+AY  VEEV ++ T  S K F HV SEI A E EE+GV
Sbjct: 115 RYCPNSVLVIIDVKPKDLGLPTEAYISVEEVHDDGTPTS-KTFEHVTSEIGAEEAEEVGV 173
Query: 123 EHLLRDVKDTTIST 136
           EHLLRD+KDTT+ T
Sbjct: 174 EHLLRDIKDTTVGT 187

>pdb|2O96|A Chain A, Crystal Structure Of The Metal-Free Dimeric Human Mov34 Mpn Domain (Residues 1-177) Length = 178

Iteration: 1
 Score =  150 bits (378), Expect = 8e-37,   Method: Compositional matrix adjust.
 Identities = 78/125 (62%), Positives = 98/125 (78%), Gaps = 1/125 (0%)
Query: 3   ISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFH 62
            +VPF+EDDKD  +WFLDH+Y E+MY MFK++NA+E +VGWY TGPKL +ND+ I++L  
Sbjct: 55  FAVPFDEDDKDDSVWFLDHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELMK 114
Query: 63  NYVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGV 122
            Y PN VLVIIDV+PK+LG+PT+AY  VEEV ++ T  S K F HV SEI A E EE+GV
Sbjct: 115 RYCPNSVLVIIDVKPKDLGLPTEAYISVEEVHDDGTPTS-KTFEHVTSEIGAEEAEEVGV 173
Query: 123 EHLLR 127
           EHLLR
Sbjct: 174 EHLLR 178

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	252
2o95_A	187	26S proteasome non-ATPase regulatory subunit 7; PS	5e-45
4e0q_A	141	COP9 signalosome complex subunit 6; MPN (MPR1P and	3e-26
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04

>2o95_A 26S proteasome non-ATPase regulatory subunit 7; PSMD7, MOV34, JAB1/MPN, metal-free dimer, UN function; HET: SO4 12P ETE PG4 PGE; 1.95A {Homo sapiens} PDB: 2o96_A Length = 187

 Score =  148 bits (375), Expect = 5e-45
 Identities = 84/135 (62%), Positives = 106/135 (78%), Gaps = 1/135 (0%)

Query: 2   VISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLF 61
             +VPF+EDDKD  +WFLDH+Y E+MY MFK++NA+E +VGWY TGPKL +ND+ I++L 
Sbjct: 54  SFAVPFDEDDKDDSVWFLDHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELM 113

Query: 62  HNYVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIG 121
             Y PN VLVIIDV+PK+LG+PT+AY  VEEV ++ T  S K F HV SEI A E EE+G
Sbjct: 114 KRYCPNSVLVIIDVKPKDLGLPTEAYISVEEVHDDGTPTS-KTFEHVTSEIGAEEAEEVG 172

Query: 122 VEHLLRDVKDTTIST 136
           VEHLLRD+KDTT+ T
Sbjct: 173 VEHLLRDIKDTTVGT 187

>4e0q_A COP9 signalosome complex subunit 6; MPN (MPR1P and PAD1P N-terminal) domain, unknown function; 2.50A {Drosophila melanogaster} Length = 141

 Score = 98.8 bits (246), Expect = 3e-26
 Identities = 12/89 (13%), Positives = 39/89 (43%), Gaps = 4/89 (4%)

Query: 5   VPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHNY 64
           +  +    +     ++ +Y+      +K++ +    +GWY+TG     +D+ I +     
Sbjct: 56  LKTDVIGDE---TVINKDYYNKKEQQYKQVFSDLDFIGWYTTGDNPTADDIKIQRQIAAI 112

Query: 65  VPNPVLVIIDVQPKELG-IPTKAYYDVEE 92
              P+++ ++   + +  +P K +  + +
Sbjct: 113 NECPIMLQLNPLSRSVDHLPLKLFESLID 141

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 46.4 bits (109), Expect = 5e-06
 Identities = 46/256 (17%), Positives = 94/256 (36%), Gaps = 50/256 (19%)

Query: 25  ESMYSMFKRINAKEHVVGWYSTGPKLRENDLD--IHQLF--HNYVPNPVLVIIDVQPKEL 80
           E +  +  +I+        +S+  KLR + +   + +L     Y  N +LV+++VQ  + 
Sbjct: 200 EMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPY-ENCLLVLLNVQNAKA 258

Query: 81  GIPTKAYYDVE-------EVKENATQKSQKVFVHVPSEIAAHEVEEIGVEHLLRDVKDTT 133
                A+ ++          K+     S     H+  +  +  +    V+ LL    D  
Sbjct: 259 ---WNAF-NLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCR 314

Query: 134 ISTLANEV-TGKLTALKGLDARLREIRG---YLDLVIDEKL------------PLNHEIL 177
              L  EV T     L  +   +R+          V  +KL            P  +  +
Sbjct: 315 PQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKM 374

Query: 178 YHLQDVFNLLPNLNV-AELIKAF--SVKTNDMMLVI---YLSSLI-----RSVIALHNL- 225
           +    VF   P+ ++   L+      V  +D+M+V+   +  SL+      S I++ ++ 
Sbjct: 375 FDRLSVFP--PSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIY 432

Query: 226 --INNKILNKE--HEK 237
             +  K+ N+   H  
Sbjct: 433 LELKVKLENEYALHRS 448

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 41.4 bits (96), Expect = 2e-04
 Identities = 50/285 (17%), Positives = 92/285 (32%), Gaps = 78/285 (27%)

Query: 2   VISVPFEED-DKDPGIWFLDHNY-HESMYSMFKR------INAKEHVVGWYSTGPKLREN 53
           ++SV FE+    +      D     +   S+  +      I +K+ V G       L   
Sbjct: 21  ILSV-FEDAFVDN-----FDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSK 74

Query: 54  DLDIHQLF------HNYVPNPVLVIIDVQPKELGIPTKAYYDVEEVKENATQKSQKVFVH 107
             ++ Q F       NY    ++  I  + ++  + T+ Y +  +   N  Q   K   +
Sbjct: 75  QEEMVQKFVEEVLRINY--KFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAK--YN 130

Query: 108 VPSEIAAHEVEEIGVEHL--LRDVKDTTI--------STLANEV---------------- 141
           V          ++  + L  LR  K+  I        + +A +V                
Sbjct: 131 VSRL---QPYLKL-RQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFW 186

Query: 142 --TGKLTA----LKGLDARLREIRGYLDLVID--EKLPLN-HEILYHLQDVF--NLLPN- 189
                  +    L+ L   L +I        D    + L  H I   L+ +       N 
Sbjct: 187 LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC 246

Query: 190 L----NV--AELIKAFSVK------TNDMMLVIYLSSLIRSVIAL 222
           L    NV  A+   AF++       T    +  +LS+   + I+L
Sbjct: 247 LLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISL 291

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	252
4b4t_U	338	RPN8, 26S proteasome regulatory subunit RPN8; hydr	100.0
2o95_A	187	26S proteasome non-ATPase regulatory subunit 7; PS	99.96
4e0q_A	141	COP9 signalosome complex subunit 6; MPN (MPR1P and	99.91
4b4t_V	306	26S proteasome regulatory subunit RPN11; hydrolase	99.82
3rzv_A	211	STAM-binding protein; ubiquitin hydrolase, endosom	96.98
2znr_A	178	AMSH-like protease; metal binding protein, alterna	96.93
2kks_A	146	Uncharacterized protein; NESG, structural genomics	94.52
2kcq_A	153	MOV34/MPN/PAD-1 family; NESG, structure, structura	90.48
2rh2_A	62	Dihydrofolate reductase type 2; folate metabolism,	85.87

>4b4t_U RPN8, 26S proteasome regulatory subunit RPN8; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=1.1e-59  Score=428.86  Aligned_cols=234  Identities=53%  Similarity=0.949  Sum_probs=150.5

Q ss_pred             eeeecccCCCCCCceeEeCHHHHHHHHHHHhhcCCCCeeEEEEecCCCCCCCcHHHHHHHhccCC-CcEEEEEeCCCCCC
Q 036425            2 VISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHNYVP-NPVLVIIDVQPKEL   80 (252)
Q Consensus         2 sF~Vp~~e~~~~~~~~~iD~~~~~~m~~l~kkV~p~e~iVGWYstg~~~~~~~~~Ih~~~~~~~~-~PI~L~vD~~~~~~   80 (252)
                      ||+|||+|+++++++|++|++|+++|+++|++|||++.|||||+||+.++++|+.||++|+++++ +||+|++|+.+.++
T Consensus        51 sF~~p~~e~~~~~~~~~~D~~y~~~m~~~~kkV~~~e~iVGWY~tg~~~~~~d~~Ih~~~~~~~~~~pi~l~~d~~~~~~  130 (338)
T 4b4t_U           51 SFALPFEEDEKNSDVWFLDHNYIENMNEMCKKINAKEKLIGWYHSGPKLRASDLKINELFKKYTQNNPLLLIVDVKQQGV  130 (338)
T ss_dssp             EEECCEEECSSSTTCEEECHHHHHHHHHHHHHHCCSCEEEEEEECCSSCCSTHHHHHHHHGGGCCSCCCEEEECSCCCSS
T ss_pred             EEEeccccCCCCCccccccHHHHHHHHHHHhhcCccCCEEEEEecCCCCCccHHHHHHHHHhccCCCcEEEEecCCCCCC
Confidence            99999999988888899999999999999999999999999999999999999999999999985 89999999999999


Q ss_pred             CCceEEEEeehhhhccccccccceeeeeeeeeeecchhHHHHHHHhhhcccCcccchhhhHHHHHHHHHHHHHHHHHHHH
Q 036425           81 GIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVEHLLRDVKDTTISTLANEVTGKLTALKGLDARLREIRG  160 (252)
Q Consensus        81 ~lpi~~Y~~~~~~~~~~~~~~~~~F~~v~~~i~~~eaEri~vd~l~k~~~~~~~~~l~~~l~~~~~al~~L~~~l~~i~~  160 (252)
                      +||+++|++...+.+++. ..+..|+++|++|+++|+|||||+|++|+..+.+.+.+..++.++.+|+++|.+||+.|++
T Consensus       131 ~lpi~aY~s~~~~~~~~~-~~~~~F~~lp~~i~~~eaE~Igv~~l~r~~~~~~~~~l~~~l~~~~~al~~L~~~l~~i~~  209 (338)
T 4b4t_U          131 GLPTDAYVAIEQVKDDGT-STEKTFLHLPCTIEAEEAEEIGVEHLLRDVRDQAAGGLSIRLTNQLKSLKGLQSKLKDVVE  209 (338)
T ss_dssp             SCSEEEEEEEEECSSCST-TCEEEEEEECEEECSCHHHHHHHHHHHHHHSSCC---CHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcceEEEEeehhccCCCc-ccccEEEEeeeEeecCcHHHHHHHHHHhccccCcccccchhHHHHHHHHHHHHHHHHHHHH
Confidence            999999999887766553 3567899999999999999999999999988777778889999999999999999999999


Q ss_pred             HHHhhhCCCCCCCHHHHHHHHHHHhhCCCCCH-----------------HHHHHHHHhhhchHHHHHHHHHHHHHHHHHH
Q 036425          161 YLDLVIDEKLPLNHEILYHLQDVFNLLPNLNV-----------------AELIKAFSVKTNDMMLVIYLSSLIRSVIALH  223 (252)
Q Consensus       161 Yl~~V~~G~~~~d~~ilR~l~~lv~~lP~~~~-----------------~~f~~~~~~~~~D~lmv~yLs~ltk~~~~l~  223 (252)
                      ||++|.+|++++|++|||+|+++|+++|.+++                 ++|+++|+.+.||+||++|||+|||||.+|+
T Consensus       210 Yl~~V~~g~~~~n~~ilr~l~~~~~~lP~l~~~~~~~~~~~~~~~~~~~~~f~~~f~~~~nD~Lmv~YLs~L~rs~~al~  289 (338)
T 4b4t_U          210 YLDKVINKELPINHTILGKLQDVFNLLPNLGTPDDDEIDVENHDRINISNNLQKALTVKTNDELMVIYISNLVRSIIAFD  289 (338)
T ss_dssp             HHHHC---------------------------------------------------------------------------
T ss_pred             HHHhhccCCCCCCHHHHHHHHHHHhhCCcCCcccccccccccccccchhHHHHHHHHhhcccHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999998854                 4589999999999999999999999999999


Q ss_pred             HHHHhhhhchhhh
Q 036425          224 NLINNKILNKEHE  236 (252)
Q Consensus       224 e~l~~~~~~~~~~  236 (252)
                      ++++|+++|...+
T Consensus       290 eli~nk~~~~~~~  302 (338)
T 4b4t_U          290 DLIENKIQNKKIQ  302 (338)
T ss_dssp             -------------
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999975443

>2o95_A 26S proteasome non-ATPase regulatory subunit 7; PSMD7, MOV34, JAB1/MPN, metal-free dimer, UN function; HET: SO4 12P ETE PG4 PGE; 1.95A {Homo sapiens} PDB: 2o96_A

Probab=99.96  E-value=1.1e-29  Score=213.09  Aligned_cols=132  Identities=62%  Similarity=1.124  Sum_probs=115.8

Q ss_pred             eeeecccCCCCCCceeEeCHHHHHHHHHHHhhcCCCCeeEEEEecCCCCCCCcHHHHHHHhccCCCcEEEEEeCCCCCCC
Q 036425            2 VISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHNYVPNPVLVIIDVQPKELG   81 (252)
Q Consensus         2 sF~Vp~~e~~~~~~~~~iD~~~~~~m~~l~kkV~p~e~iVGWYstg~~~~~~~~~Ih~~~~~~~~~PI~L~vD~~~~~~~   81 (252)
                      ||++||.+++.++++|++|.+|+..|+++|++|+|++.|||||++++..+..|..||++|.+++++|++|++|+....++
T Consensus        54 ~f~lp~~~~~~~~~~~~~d~ey~~~m~~~~~~v~~~~~iVGWY~s~~~~s~~d~~i~~~~~~~~~~~v~Livd~~~~~~~  133 (187)
T 2o95_A           54 SFAVPFDEDDKDDSVWFLDHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELMKRYCPNSVLVIIDVKPKDLG  133 (187)
T ss_dssp             EEEECEEECSSCTTSEEECHHHHHHHHHHHHTTSSSCEEEEEEECCSSCCTTHHHHHHHHTTTCTTCEEEEECCCTTC-C
T ss_pred             EEEeCCcccCCCcchhhcCHHHHHHHHHHHHHhCCCCCEEEEEcCCCcCCcccHHHHHHHHhcCCCCEEEEECCCCCCCC
Confidence            89999998876555689999999999999999999999999999999999999999999999999999999999876567


Q ss_pred             CceEEEEeehhhhccccccccceeeeeeeeeeecchhHHHHHHHhhhcccCcc
Q 036425           82 IPTKAYYDVEEVKENATQKSQKVFVHVPSEIAAHEVEEIGVEHLLRDVKDTTI  134 (252)
Q Consensus        82 lpi~~Y~~~~~~~~~~~~~~~~~F~~v~~~i~~~eaEri~vd~l~k~~~~~~~  134 (252)
                      +|+++|++.+.+.+++. .....|.++|++|.++|||||||+|++|++++++.
T Consensus       134 l~i~ay~~~~~~~~~~~-~~~~~F~~ip~~I~~~eaE~i~v~~l~~~~~~~~~  185 (187)
T 2o95_A          134 LPTEAYISVEEVHDDGT-PTSKTFEHVTSEIGAEEAEEVGVEHLLRDIKDTTV  185 (187)
T ss_dssp             CSEEEEEEEEECC-----CCEEEEEEEEEEECCCHHHHHHHHHHHHHCCSCCC
T ss_pred             cCeEEEEEechhcCCCC-cccCEEEEeeEEEecCcHHHHHHHHHHhcCCCccc
Confidence            99999999887665432 13578999999999999999999999999887654

>4e0q_A COP9 signalosome complex subunit 6; MPN (MPR1P and PAD1P N-terminal) domain, unknown function; 2.50A {Drosophila melanogaster}

Probab=99.91  E-value=1.3e-25  Score=180.41  Aligned_cols=87  Identities=14%  Similarity=0.349  Sum_probs=73.7

Q ss_pred             eeeecccCCCCCCceeEeCHHHHHHHHHHHhhcCCCCeeEEEEecCCCCCCCcHHHHHHHhccCCCcEEEEEeCCCCC-C
Q 036425            2 VISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKLRENDLDIHQLFHNYVPNPVLVIIDVQPKE-L   80 (252)
Q Consensus         2 sF~Vp~~e~~~~~~~~~iD~~~~~~m~~l~kkV~p~e~iVGWYstg~~~~~~~~~Ih~~~~~~~~~PI~L~vD~~~~~-~   80 (252)
                      ||++|+++++++   +++|.+|+++|+++||+|||++.+||||+||+.+++.|+.||++|++++++||+|++||..+. +
T Consensus        53 sF~~p~~~~~~~---~~~d~~y~~~m~~~~k~v~~~e~iVGWY~s~~~~~~~d~~i~~~~~~~~~~pV~L~~Dp~~~~~g  129 (141)
T 4e0q_A           53 SFELKTDVIGDE---TVINKDYYNKKEQQYKQVFSDLDFIGWYTTGDNPTADDIKIQRQIAAINECPIMLQLNPLSRSVD  129 (141)
T ss_dssp             EEECCEEEETTE---EEECHHHHHHHHHHHHHHSTTCEEEEEEEEEC-------CHHHHHHHTTCCCEEEEESCSCCCCT
T ss_pred             EEEecccCCCCc---eeecHHHHHHHHHHHHHhCCCccEEEEEeCCCCCCcchHHHHHHHHHHCCCCEEEEECCCccCCC
Confidence            899999988654   799999999999999999999999999999999999999999999999999999999999875 5


Q ss_pred             CCceEEEEeeh
Q 036425           81 GIPTKAYYDVE   91 (252)
Q Consensus        81 ~lpi~~Y~~~~   91 (252)
                      +||++||++..
T Consensus       130 ~Lp~~ay~sv~  140 (141)
T 4e0q_A          130 HLPLKLFESLI  140 (141)
T ss_dssp             THHHHHHCC--
T ss_pred             eEEEEEEEEEc
Confidence            79999999863

>4b4t_V 26S proteasome regulatory subunit RPN11; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.82  E-value=2.5e-20  Score=167.33  Aligned_cols=197  Identities=13%  Similarity=0.183  Sum_probs=146.7

Q ss_pred             eeeecccCCCCCCceeEeCHHHHHHHHHHHhhcCCCCeeEEEEecCCCC----CCCcHHHHHHHhccCCCcEEEEEeCCC
Q 036425            2 VISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKL----RENDLDIHQLFHNYVPNPVLVIIDVQP   77 (252)
Q Consensus         2 sF~Vp~~e~~~~~~~~~iD~~~~~~m~~l~kkV~p~e~iVGWYstg~~~----~~~~~~Ih~~~~~~~~~PI~L~vD~~~   77 (252)
                      ||++|+.++++.  ++++|..|+..|.+++++|++++.+||||++++..    +..|+..|..|...++.||+|++||..
T Consensus        68 ~f~~P~~~~~~~--v~~~d~~y~~~m~~~~~~v~~~~~vVGWYhShP~~~~~~S~~Di~tq~~yQ~~~~~~V~lV~Dp~~  145 (306)
T 4b4t_V           68 VFAMPQSGTGVS--VEAVDDVFQAKMMDMLKQTGRDQMVVGWYHSHPGFGCWLSSVDVNTQKSFEQLNSRAVAVVVDPIQ  145 (306)
T ss_dssp             EECCCCEESSSC--EECCCHHHHHHHHHHHHHHSCCCCCSEEEEECCSSSCCCCHHHHHHHHHHHHHCSSCEEEEECSSS
T ss_pred             EEeCCcCCCCCc--hhcCCHHHHHHHHHHHHHhCCCcceeeEEecCCCCCCcCCHHHHHHHHHHHhcCCCcEEEEECCCc
Confidence            899999988654  57899999999999999999999999999998864    445777777788889999999999976


Q ss_pred             C-CCCCceEEEEeehhhhcccc----------------------ccccceeeeeeeeeeecchhHHHHHHHhhhcccCcc
Q 036425           78 K-ELGIPTKAYYDVEEVKENAT----------------------QKSQKVFVHVPSEIAAHEVEEIGVEHLLRDVKDTTI  134 (252)
Q Consensus        78 ~-~~~lpi~~Y~~~~~~~~~~~----------------------~~~~~~F~~v~~~i~~~eaEri~vd~l~k~~~~~~~  134 (252)
                      + .|+++++||.+.+.+.....                      ......|.++|+++...+.|+..++.+.+..-.. .
T Consensus       146 t~~G~~~i~Afr~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~yy~l~i~~~ks~le~~~L~~L~~~~w~~-~  224 (306)
T 4b4t_V          146 SVKGKVVIDAFRLIDTGALINNLEPRQTTSNTGLLNKANIQALIHGLNRHYYSLNIDYHKTAKETKMLMNLHKEQWQS-G  224 (306)
T ss_dssp             SSSCSSCEEEEECCHHHHHHCCCCCSCC----------------------CEEECSCCCCCSSCTHHHHHHHHC------
T ss_pred             CCCCceeeeEEEecCccccccccCcccccccccccCchhhhhhhccccceEEEeeeEEEeCcHHHHHHHHHHhccccc-c
Confidence            4 58999999999875421000                      0112458999999999999999999998753211 1


Q ss_pred             cchhhhHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCCHHHHHHHHHHHhhCCCCCH-----HHHHHHHHhhhchHH
Q 036425          135 STLANEVTGKLTALKGLDARLREIRGYLDLVIDEKLPLNHEILYHLQDVFNLLPNLNV-----AELIKAFSVKTNDMM  207 (252)
Q Consensus       135 ~~l~~~l~~~~~al~~L~~~l~~i~~Yl~~V~~G~~~~d~~ilR~l~~lv~~lP~~~~-----~~f~~~~~~~~~D~l  207 (252)
                      -...+.......+.+.+.++++.+.+|.+.|.+|+...+.+++      ...+|++++     +.++..+++++.+.|
T Consensus       225 l~~~~~~~~~~~~~~~i~~m~~~~~~y~k~v~~e~~~~~~~l~------~~~vgk~dp~~~l~~~~~~l~~~ni~~~l  296 (306)
T 4b4t_V          225 LKMYDYEEKEESNLAATKSMVKIAEQYSKRIEEEKELTEEELK------TRYVGRQDPKKHLSETADETLENNIVSVL  296 (306)
T ss_dssp             -----CHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHHHH------HTCSCSSCCSSSSHHHHHHHHHHHHHHHH
T ss_pred             cccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHccccCCHHHHH------hhccCccChHHHHHHHHHHHHHHHHHHHH
Confidence            2223345566777888999999999999999988766666654      466787776     566777776655444

>3rzv_A STAM-binding protein; ubiquitin hydrolase, endosome-associated deubiquitinat enzyme, hydrolase; 1.67A {Homo sapiens} PDB: 3rzu_A

Probab=96.98  E-value=0.0017  Score=54.82  Aligned_cols=56  Identities=21%  Similarity=0.307  Sum_probs=43.7

Q ss_pred             CCCeeEEEEecCCC----CCCCcHHHHHHHhccCCCcEEEEEeCCCCCCCCceEEEEeehhhhc
Q 036425           36 AKEHVVGWYSTGPK----LRENDLDIHQLFHNYVPNPVLVIIDVQPKELGIPTKAYYDVEEVKE   95 (252)
Q Consensus        36 p~e~iVGWYstg~~----~~~~~~~Ih~~~~~~~~~PI~L~vD~~~~~~~lpi~~Y~~~~~~~~   95 (252)
                      .++.+||||+|.+.    ++..|+..|..|....+.-|.+++|+..    -++.+|...+.|..
T Consensus       113 ~~l~~vGWyHSHP~~~~~pS~~Dl~tq~~~q~~~~~~I~IVvsP~~----~~lgaFrLtp~G~~  172 (211)
T 3rzv_A          113 QGLITLGWIHTHPTQTAFLSSVDLHTHCSYQMMLPESVAIVCSPKF----QETGFFKLTDHGLE  172 (211)
T ss_dssp             HTCEEEEEEEECTTSCSCCCHHHHHHHHHHHHHCTTCEEEEEETTT----TEEEEEEECHHHHH
T ss_pred             CCCEEEEEEeCCCCCCCCCCHHHHHHHHHHHhcCCCeEEEEEcCCC----CeeeEEEeccchhh
Confidence            58999999998653    5677877777676666777999999763    27899999887754

>2znr_A AMSH-like protease; metal binding protein, alternative splicing, hydrolase, metal-binding, metalloprotease, UBL conjugation pathway, zinc; 1.20A {Homo sapiens} PDB: 2znv_A

Probab=96.93  E-value=0.00066  Score=55.79  Aligned_cols=83  Identities=16%  Similarity=0.208  Sum_probs=54.2

Q ss_pred             eeeecccCCCCCCceeEeCHHHHHHHHHHHhhcCCCCeeEEEEecCCC----CCCCcHHHHHHHhccCCCcEEEEEeCCC
Q 036425            2 VISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPK----LRENDLDIHQLFHNYVPNPVLVIIDVQP   77 (252)
Q Consensus         2 sF~Vp~~e~~~~~~~~~iD~~~~~~m~~l~kkV~p~e~iVGWYstg~~----~~~~~~~Ih~~~~~~~~~PI~L~vD~~~   77 (252)
                      +|.+|...+.+.  +...|.+-   .++.  ....++.+||||+|.+.    ++..|+..|..|....+..|++++++..
T Consensus        53 v~~~pq~~t~~~--~~~~~~~e---~~~~--~~~~~l~~vGwyHSHP~~~~~pS~~Dv~tq~~yq~~~~~~v~iIvsp~~  125 (178)
T 2znr_A           53 VIVPKQSAGPDY--CDMENVEE---LFNV--QDQHDLLTLGWIHTHPTQTAFLSSVDLHTHCSYQLMLPEAIAIVCSPKH  125 (178)
T ss_dssp             EEECCEEEETTE--EEECCHHH---HHHH--HHHHTCEEEEEEEECSSSCSCCCHHHHHHHHHHHHHCTTCEEEEEEGGG
T ss_pred             EEeCCcCCCCCe--eccCCHHH---HHHH--HHhCCCEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhcCCEEEEEEcCCC
Confidence            466776554332  22344321   1221  23468999999999754    5667777777776667778999999875


Q ss_pred             CCCCCceEEEEeehhhhc
Q 036425           78 KELGIPTKAYYDVEEVKE   95 (252)
Q Consensus        78 ~~~~lpi~~Y~~~~~~~~   95 (252)
                      +    .+.+|...+.+..
T Consensus       126 ~----~~~afrl~~~g~~  139 (178)
T 2znr_A          126 K----DTGIFRLTNAGML  139 (178)
T ss_dssp             T----EEEEEEECHHHHH
T ss_pred             C----cceEEEEECCcEe
Confidence            3    3799998876543

>2kks_A Uncharacterized protein; NESG, structural genomics, PSI-2, protein structure initiati northeast structural genomics consortium; NMR {Desulfitobacterium hafniense}

Probab=94.52  E-value=0.27  Score=38.35  Aligned_cols=93  Identities=10%  Similarity=0.043  Sum_probs=55.2

Q ss_pred             eeecccCCCCCCceeEeCHHHHHHHHHHHhhcCCCCeeEEEEecCCC--CCCCcHHHHHHHhccCCCcEEEEEeCCCCCC
Q 036425            3 ISVPFEEDDKDPGIWFLDHNYHESMYSMFKRINAKEHVVGWYSTGPK--LRENDLDIHQLFHNYVPNPVLVIIDVQPKEL   80 (252)
Q Consensus         3 F~Vp~~e~~~~~~~~~iD~~~~~~m~~l~kkV~p~e~iVGWYstg~~--~~~~~~~Ih~~~~~~~~~PI~L~vD~~~~~~   80 (252)
                      |.+|......  ..+.+|.+.+....+...+  ..+.+||||++-+.  ..++...++.  .. .+..+++++.+.. ++
T Consensus        43 ~p~~n~~~~~--~~f~~dp~~~~~~~~~~~~--~g~~ivG~~HSHP~~~~~PS~~D~~~--~~-~~~~~~lIvs~~~-~~  114 (146)
T 2kks_A           43 YPLNNLDQSP--EHFSMDPREQLTAVKDMRK--NGWVMLGNFHSHPATPARPSAEDKRL--AF-DPSLSYLIISLAE-PQ  114 (146)
T ss_dssp             ECCCCCSCCS--SSCCCCHHHHHHHHHHHHH--HTCEEEEEEEEESSSCSSCCHHHHTT--CC-SSSCEEEEEECSC-SS
T ss_pred             EECCCcCCCC--ceEEECHHHHHHHHHHHHH--CCCEEEEEEeCCCcCCCCCCHHHHHh--hh-cCCCeEEEEEccC-CC
Confidence            4555333322  2377888776665544443  36899999999664  2344444442  11 2445788887643 23


Q ss_pred             CCceEEEEeehhhhccccccccceeeeeeeeeee
Q 036425           81 GIPTKAYYDVEEVKENATQKSQKVFVHVPSEIAA  114 (252)
Q Consensus        81 ~lpi~~Y~~~~~~~~~~~~~~~~~F~~v~~~i~~  114 (252)
                      ...+++|...     ++      .|.++|+.+..
T Consensus       115 ~~~~~af~~~-----~~------~~~e~~i~~~~  137 (146)
T 2kks_A          115 KPVCKSFLIK-----KD------GVDEEEIILKE  137 (146)
T ss_dssp             SCEEEEEEEC-----SS------CEEEECEEEES
T ss_pred             ceEEEEEEEe-----CC------eEEEEEEEEeh
Confidence            4568999872     22      48888887743

>2kcq_A MOV34/MPN/PAD-1 family; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Salinibacter ruber dsm 13855}

Probab=90.48  E-value=0.52  Score=37.00  Aligned_cols=83  Identities=17%  Similarity=0.153  Sum_probs=48.4

Q ss_pred             eEeCHHHHHHHHHHHhhcCCCCeeEEEEecCCCC--CCCcHHHHHHHhccCCCcEEEEEeCCCCCCC-CceEEEEeehhh
Q 036425           17 WFLDHNYHESMYSMFKRINAKEHVVGWYSTGPKL--RENDLDIHQLFHNYVPNPVLVIIDVQPKELG-IPTKAYYDVEEV   93 (252)
Q Consensus        17 ~~iD~~~~~~m~~l~kkV~p~e~iVGWYstg~~~--~~~~~~Ih~~~~~~~~~PI~L~vD~~~~~~~-lpi~~Y~~~~~~   93 (252)
                      +.+|.+.+....+...+  .++.+||||++-+..  .++...+..+   ..+..++++|.+..  ++ ..+++|....  
T Consensus        57 f~~dp~~~~~~~~~~~~--~g~~ivG~yHSHP~~~~~PS~~D~~~~---~~~~~~~lIvs~~~--~~~~~~~af~~~~--  127 (153)
T 2kcq_A           57 YELTADDYRAADAAAQE--QGLDVVGVYHSHPDHPARPSATDLEEA---TFPGFTYVIVSVRD--GAPEALTAWALAP--  127 (153)
T ss_dssp             SSCCCCSHHHHHHHHHH--HTCEEEEEEEECSSSSSSCCHHHHHTC---CCTTSEEEEEEEET--TEEEEEEEEEECT--
T ss_pred             EEECHHHHHHHHHHHHH--CCCeEEEEEeCCCCCCCCCCHHHHHhh---hcCCCeEEEEECCC--CCccEEEEEEEeC--
Confidence            66775544444444433  368999999997652  3343334322   22456888886432  23 3478887731  


Q ss_pred             hccccccccceeeeeeeeeeec
Q 036425           94 KENATQKSQKVFVHVPSEIAAH  115 (252)
Q Consensus        94 ~~~~~~~~~~~F~~v~~~i~~~  115 (252)
                             ....|.+.++.|...
T Consensus       128 -------~~g~~~e~~i~v~~~  142 (153)
T 2kcq_A          128 -------DRSEFHREDIVRPDP  142 (153)
T ss_dssp             -------TCSCEEEECCBCCCS
T ss_pred             -------CCCcEEEEEEEEecC
Confidence                   112588888877543

>2rh2_A Dihydrofolate reductase type 2; folate metabolism, plasmid-encoded R67 DHFR, TMP-resistant DHFR, antibiotic resistance, methotrexate resistance; 0.96A {Escherichia coli} SCOP: b.34.4.1 PDB: 1vif_A* 1vie_A 2gqv_A 2rk1_A* 2rk2_A* 3sfm_A 2p4t_A*

Probab=85.87  E-value=0.36  Score=31.01  Aligned_cols=12  Identities=42%  Similarity=1.007  Sum_probs=9.4

Q ss_pred             CeeEEEEecCCC
Q 036425           38 EHVVGWYSTGPK   49 (252)
Q Consensus        38 e~iVGWYstg~~   49 (252)
                      -.|||||+|.-.
T Consensus        24 g~ivgwyct~lt   35 (62)
T 2rh2_A           24 GQIVGWYCTNLT   35 (62)
T ss_dssp             EEEEEEECCSSC
T ss_pred             ceEeEEEEcccc
Confidence            479999998643

---

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	252
d2rh2a1	58	R67 dihydrofolate reductase {Escherichia coli, pla	87.16

>d2rh2a1 b.34.4.1 (A:21-78) R67 dihydrofolate reductase {Escherichia coli, plasmid PLZ1 [TaxId: 562]}

class: All beta proteins
fold: SH3-like barrel
superfamily: Electron transport accessory proteins
family: R67 dihydrofolate reductase
domain: R67 dihydrofolate reductase
species: Escherichia coli, plasmid PLZ1 [TaxId: 562]

Probab=87.16  E-value=0.13  Score=31.09  Aligned_cols=12  Identities=42%  Similarity=1.007  Sum_probs=9.3

Q ss_pred             CeeEEEEecCCC
Q 036425           38 EHVVGWYSTGPK   49 (252)
Q Consensus        38 e~iVGWYstg~~   49 (252)
                      -.|||||+|.-.
T Consensus        20 g~ivgwyct~lt   31 (58)
T d2rh2a1          20 GQIVGWYCTNLT   31 (58)
T ss_dssp             EEEEEEECCSSC
T ss_pred             ceEeEEEEcccc
Confidence            469999998643