Psyllid ID: psy401

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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-------260-------270-------280-------290-------300-------310-------320------
Protein Sequence
MSTNTAAAPTATSSEVMDVDDTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQMLGRKLRGILYF
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccEEEEEEccEEEHHHHHHHHHHcccccccEEEEEEEEEEEccEEEEEEEEEEccccccccEEEcHHHHHHHHHHHHHccccccEEEEEccccccccccHHHHHHHHHHccccEEEEEccccccccccEEEEEEEEEcccccccEEEEEccEEEEEHHHHHHHHHHHHHHccccccccccHHccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHcccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccccccccccEEEEEEEEEEEEEEccHHHcccccccccEEEEEEEEEccccEEEEEEcEEEccccccccEEEcHHHHHHHHHHHHHcccccEEEEEEcccccccHcHHHHHHHHHHHccccEEEEEEcccccccccEEEEEEEEEccccccEEEEEEccEEEEEHcHHHHcHHHHEEccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccEEEEc
Coil and Loop (DISEMBL)
mstntaaaptatssevmdvddtpagksvmakgvtgsihvslHPLVIMNISEHytrrraqegkpvQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFcdldflgwyttgdtvneLDIKVHKQICEinespiflklnphpihsnlpvsVYESIIDLVGGEATMLFIELPYTIITEEAERMGVDHVarmsnndsgessLVAEHLTAQYNAIKMLHVRIKILLDYLKevesgtlpvnHDILRELNALRhrlpvldnpafktdfytQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQMLGRKLRGILYF
Flexible Loop (DISEMBL)
mstntaaaptatssevmdvddtpAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIgiqvgrkleiKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNvlfdkqmlgrklrgilyf
Low Complexity Region (SEG)
MstntaaaptatssEVMDVDDTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQMLGRKLRGILYF
Disordered region (IsUnstruct)
*****************************AKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERMGV***************LVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQMLGRKLRGILY*
Disordered Region (DISOPRED)
**************************************VSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERMGVDHVARM********************AIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNK***************GILYF
Disordered Region (DISEMBL)
***************VMDVDDTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQMLGRKLRGILYF
Disordered Region (DISPRO)
**********************************GSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQMLGRKLRGILYF
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSTNTAAAPTATSSEVMDVDDTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQMLGRKLRGILYF
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	326	2.2.26 [Sep-21-2011]
Q6NUC2	318	COP9 signalosome complex	N/A	N/A	0.972	0.996	0.625	1e-118
Q07G98	319	COP9 signalosome complex	yes	N/A	0.935	0.956	0.639	1e-118
A6QQ21	324	COP9 signalosome complex	yes	N/A	0.935	0.941	0.642	1e-118
Q5REY0	328	COP9 signalosome complex	yes	N/A	0.957	0.951	0.635	1e-118
O88545	324	COP9 signalosome complex	yes	N/A	0.941	0.947	0.640	1e-117
Q7L5N1	327	COP9 signalosome complex	yes	N/A	0.957	0.954	0.635	1e-117
A7TX81	323	COP9 signalosome complex	yes	N/A	0.957	0.965	0.632	1e-117
Q9VCY3	341	COP9 signalosome complex	yes	N/A	0.944	0.903	0.618	1e-112
Q54C92	309	COP9 signalosome complex	yes	N/A	0.892	0.941	0.418	1e-60
Q8W206	317	COP9 signalosome complex	yes	N/A	0.868	0.892	0.383	1e-57

>sp|Q6NUC2|CSN6_XENLA COP9 signalosome complex subunit 6 OS=Xenopus laevis GN=cops6 PE=2 SV=1

 Score =  426 bits (1096), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 199/318 (62%), Positives = 256/318 (80%), Gaps = 1/318 (0%)

Query: 8   APTATSSEVMDVDDTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVI 67
           A  A++   M+VD   A  SVMA+GVTGS+ V+LHPLVI+NIS+H+ R R+QEG+P+QVI
Sbjct: 2   AAAASNGNGMEVD-VAALPSVMAQGVTGSVTVALHPLVILNISDHWIRMRSQEGRPMQVI 60

Query: 68  GALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGD 127
           GALIG Q GR +E+ NSFEL+  I ++++ IN++YY  KEEQFKQVF D++FLGWYTTG 
Sbjct: 61  GALIGKQEGRNIEVMNSFELLSQINDEKITINKEYYYTKEEQFKQVFKDMEFLGWYTTGG 120

Query: 128 TVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYT 187
           T +  DI VHKQ+CEI ESP+FLKLNP   H++LPVSVYES+ID+V GEATML  EL YT
Sbjct: 121 TPDPSDIHVHKQVCEIIESPLFLKLNPMTKHTDLPVSVYESVIDIVNGEATMLLAELSYT 180

Query: 188 IITEEAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGT 247
           + TEEAER+GVDHVARM+   SGE+S VAEHL AQ++AIKMLH R++++L+Y++  E G 
Sbjct: 181 LATEEAERIGVDHVARMTATGSGENSTVAEHLIAQHSAIKMLHSRVRLILEYVRAAEGGE 240

Query: 248 LPVNHDILRELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKF 307
           +P NH+ILRE +AL H LPVL    FKTDFY QCNDV L++YLGTITK CN +NQFVNKF
Sbjct: 241 VPFNHEILREASALCHCLPVLSTDKFKTDFYDQCNDVGLMSYLGTITKTCNTMNQFVNKF 300

Query: 308 NVLFDKQMLGRKLRGILY 325
           N+L+D+Q +GR++RG+ +
Sbjct: 301 NILYDRQGIGRRMRGLFF 318

Component of the COP9 signalosome complex (CSN), a complex involved in various cellular and developmental processes. The CSN complex is an essential regulator of the ubiquitin (Ubl) conjugation pathway by mediating the deneddylation of the cullin subunits of E3 ligase complexes, leading to modify the Ubl ligase activity.
Xenopus laevis (taxid: 8355)

>sp|Q07G98|CSN6_XENTR COP9 signalosome complex subunit 6 OS=Xenopus tropicalis GN=cops6 PE=2 SV=1

 Score =  424 bits (1090), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 195/305 (63%), Positives = 249/305 (81%)

Query: 21  DTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLE 80
           D  A  +VMA+GVTGS+ V+LHPLVI+NIS+H+ R R+QEG+PVQVIGALIG Q GR +E
Sbjct: 15  DVAAFPTVMAQGVTGSVTVALHPLVILNISDHWIRMRSQEGRPVQVIGALIGKQEGRNIE 74

Query: 81  IKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQI 140
           + NSFEL+  I E+++ IN++YY  KEEQFKQVF D++FLGWYTTG T +  DI VHKQ+
Sbjct: 75  VMNSFELLSQINEEKITINKEYYYTKEEQFKQVFKDMEFLGWYTTGGTPDPSDIHVHKQV 134

Query: 141 CEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERMGVDH 200
           CEI ESP+FLKLNP   H++LPVSVYES+ID+V GEATML  EL YT+ TEEAER+GVDH
Sbjct: 135 CEIIESPLFLKLNPMTKHTDLPVSVYESVIDIVNGEATMLLAELSYTLATEEAERIGVDH 194

Query: 201 VARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNA 260
           VARM+   SGE+S VAEHL AQ++AIKMLH R++++L+Y++  E+G +P NH+ILRE +A
Sbjct: 195 VARMTATGSGENSTVAEHLIAQHSAIKMLHSRVRLILEYVRAAEAGEVPFNHEILREASA 254

Query: 261 LRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQMLGRKL 320
           L H LPVL    FK DFY QCNDV L++YLGTITK CN +NQFVNKFN+L+D+Q +GR++
Sbjct: 255 LCHCLPVLSTDKFKMDFYDQCNDVGLMSYLGTITKTCNTMNQFVNKFNILYDRQGIGRRM 314

Query: 321 RGILY 325
           RG+ +
Sbjct: 315 RGLFF 319

Component of the COP9 signalosome complex (CSN), a complex involved in various cellular and developmental processes. The CSN complex is an essential regulator of the ubiquitin (Ubl) conjugation pathway by mediating the deneddylation of the cullin subunits of E3 ligase complexes, leading to modify the Ubl ligase activity.

Xenopus tropicalis (taxid: 8364)

>sp|A6QQ21|CSN6_BOVIN COP9 signalosome complex subunit 6 OS=Bos taurus GN=COPS6 PE=2 SV=1

 Score =  424 bits (1089), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 196/305 (64%), Positives = 248/305 (81%)

Query: 21  DTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLE 80
           D     SVMA GVTGS+ V+LHPLVI+NIS+H+ R R+QEG+P+QVIGALIG Q GR +E
Sbjct: 20  DAAVVPSVMASGVTGSVSVALHPLVILNISDHWIRMRSQEGRPMQVIGALIGKQEGRNIE 79

Query: 81  IKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQI 140
           + NSFEL+ + +E+++II+++YY  KEEQFKQVF +LDFLGWYTTG   +  DI VHKQ+
Sbjct: 80  VMNSFELLSHTVEEKIIIDKEYYYTKEEQFKQVFKELDFLGWYTTGGPPDPSDIHVHKQV 139

Query: 141 CEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERMGVDH 200
           CEI ESP+FLKLNP   H++LPVSV+ES+ID++ GEATMLF EL YT+ TEEAER+GVDH
Sbjct: 140 CEIIESPLFLKLNPMTKHTDLPVSVFESVIDIINGEATMLFAELTYTLATEEAERIGVDH 199

Query: 201 VARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNA 260
           VARM+   SGE+S VAEHL AQ++AIKMLH R+K++L+Y+K  E+G +P NH+ILRE  A
Sbjct: 200 VARMTATGSGENSTVAEHLIAQHSAIKMLHSRVKLILEYVKASEAGEVPFNHEILREAYA 259

Query: 261 LRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQMLGRKL 320
           L H LPVL    FKTDFY QCNDV L+ YLGTITK CN +NQFVNKFNVL+D+Q +GR++
Sbjct: 260 LCHCLPVLSTDKFKTDFYDQCNDVGLMAYLGTITKTCNTMNQFVNKFNVLYDRQGIGRRM 319

Query: 321 RGILY 325
           RG+ +
Sbjct: 320 RGLFF 324

Component of the COP9 signalosome complex (CSN), a complex involved in various cellular and developmental processes. The CSN complex is an essential regulator of the ubiquitin (Ubl) conjugation pathway by mediating the deneddylation of the cullin subunits of SCF-type E3 ligase complexes, leading to decrease the Ubl ligase activity of SCF-type complexes such as SCF, CSA or DDB2. The complex is also involved in phosphorylation of p53/TP53, c-jun/JUN, IkappaBalpha/NFKBIA, ITPK1 and IRF8, possibly via its association with CK2 and PKD kinases. CSN-dependent phosphorylation of TP53 and JUN promotes and protects degradation by the Ubl system, respectively. Has some glucocorticoid receptor-responsive activity.

Bos taurus (taxid: 9913)

>sp|Q5REY0|CSN6_PONAB COP9 signalosome complex subunit 6 OS=Pongo abelii GN=COPS6 PE=2 SV=1

 Score =  424 bits (1089), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 199/313 (63%), Positives = 252/313 (80%), Gaps = 1/313 (0%)

Query: 13  SSEVMDVDDTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIG 72
            S  M+VD      SVMA GVTGS+ V+LHPLVI+NIS+H+ R R+QEG+PVQVIGALIG
Sbjct: 17  GSSGMEVDAAVV-PSVMASGVTGSVSVALHPLVILNISDHWIRMRSQEGRPVQVIGALIG 75

Query: 73  IQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNEL 132
            Q GR +E+ NSFEL+ + +E+++II+++YY  KEEQFKQVF +L+FLGWYTTG   +  
Sbjct: 76  KQEGRNIEVMNSFELLSHTVEEKIIIDKEYYYTKEEQFKQVFKELEFLGWYTTGGPPDPS 135

Query: 133 DIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEE 192
           DI VHKQ+CEI ESP+FLKLNP   H++LPVSV+ES+ID++ GEATMLF EL YT+ TEE
Sbjct: 136 DIHVHKQVCEIIESPLFLKLNPMTKHTDLPVSVFESVIDIINGEATMLFAELTYTLATEE 195

Query: 193 AERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNH 252
           AER+GVDHVARM+   SGE+S VAEHL AQ++AIKMLH R+K++L+Y+K  E+G +P NH
Sbjct: 196 AERIGVDHVARMTATGSGENSTVAEHLIAQHSAIKMLHSRVKLILEYVKASEAGEVPFNH 255

Query: 253 DILRELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFD 312
           +ILRE  AL H LPVL    FKTDFY QCNDV L+ YLGTITK CN +NQFVNKFNVL+D
Sbjct: 256 EILREAYALCHCLPVLSTDKFKTDFYDQCNDVGLMAYLGTITKTCNTMNQFVNKFNVLYD 315

Query: 313 KQMLGRKLRGILY 325
           +Q +GR++RG+ +
Sbjct: 316 RQGIGRRMRGLFF 328

Component of the COP9 signalosome complex (CSN), a complex involved in various cellular and developmental processes. The CSN complex is an essential regulator of the ubiquitin (Ubl) conjugation pathway by mediating the deneddylation of the cullin subunits of SCF-type E3 ligase complexes, leading to decrease the Ubl ligase activity of SCF-type complexes such as SCF, CSA or DDB2. The complex is also involved in phosphorylation of p53/TP53, c-jun/JUN, IkappaBalpha/NFKBIA, ITPK1 and IRF8, possibly via its association with CK2 and PKD kinases. CSN-dependent phosphorylation of TP53 and JUN promotes and protects degradation by the Ubl system, respectively. Has some glucocorticoid receptor-responsive activity.

Pongo abelii (taxid: 9601)

>sp|O88545|CSN6_MOUSE COP9 signalosome complex subunit 6 OS=Mus musculus GN=Cops6 PE=1 SV=1

 Score =  423 bits (1087), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 198/309 (64%), Positives = 252/309 (81%), Gaps = 2/309 (0%)

Query: 17  MDVDDTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVG 76
           M+VD   A  SVMA GVTGS+ V+LHPLVI+NIS+H+ R R+QEG+P+QVIGALIG Q G
Sbjct: 18  MEVD--AAVPSVMASGVTGSVSVALHPLVILNISDHWIRMRSQEGRPMQVIGALIGKQEG 75

Query: 77  RKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKV 136
           R +E+ NSFEL+ + +E+++II+++YY  KEEQFKQVF +L+FLGWYTTG   +  DI V
Sbjct: 76  RNIEVMNSFELLSHTVEEKIIIDKEYYYTKEEQFKQVFKELEFLGWYTTGGPPDPSDIHV 135

Query: 137 HKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERM 196
           HKQ+CEI ESP+FLKLNP   H++LPVSV+ES+ID++ GEATMLF EL YT+ TEEAER+
Sbjct: 136 HKQVCEIIESPLFLKLNPMTKHTDLPVSVFESVIDIINGEATMLFAELTYTLATEEAERI 195

Query: 197 GVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILR 256
           GVDHVARM+   SGE+S VAEHL AQ++AIKMLH R+K++L+Y+K  E+G +P NH+ILR
Sbjct: 196 GVDHVARMTATGSGENSTVAEHLIAQHSAIKMLHSRVKLILEYVKASEAGEVPFNHEILR 255

Query: 257 ELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQML 316
           E  AL H LPVL    FKTDFY QCNDV L+ YLGTITK CN +NQFVNKFNVL+D+Q +
Sbjct: 256 EAYALCHCLPVLSTDKFKTDFYDQCNDVGLMAYLGTITKTCNTMNQFVNKFNVLYDRQGI 315

Query: 317 GRKLRGILY 325
           GR++RG+ +
Sbjct: 316 GRRMRGLFF 324

Component of the COP9 signalosome complex (CSN), a complex involved in various cellular and developmental processes. The CSN complex is an essential regulator of the ubiquitin (Ubl) conjugation pathway by mediating the deneddylation of the cullin subunits of SCF-type E3 ligase complexes, leading to decrease the Ubl ligase activity of SCF-type complexes such as SCF, CSA or DDB2. The complex is also involved in phosphorylation of p53/TP53, c-jun/JUN, IkappaBalpha/NFKBIA, ITPK1 and IRF8, possibly via its association with CK2 and PKD kinases. CSN-dependent phosphorylation of TP53 and JUN promotes and protects degradation by the Ubl system, respectively. Has some glucocorticoid receptor-responsive activity.

Mus musculus (taxid: 10090)

>sp|Q7L5N1|CSN6_HUMAN COP9 signalosome complex subunit 6 OS=Homo sapiens GN=COPS6 PE=1 SV=1

 Score =  422 bits (1085), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 199/313 (63%), Positives = 252/313 (80%), Gaps = 1/313 (0%)

Query: 13  SSEVMDVDDTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIG 72
            S  M+VD      SVMA GVTGS+ V+LHPLVI+NIS+H+ R R+QEG+PVQVIGALIG
Sbjct: 16  GSSGMEVDAAVV-PSVMACGVTGSVSVALHPLVILNISDHWIRMRSQEGRPVQVIGALIG 74

Query: 73  IQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNEL 132
            Q GR +E+ NSFEL+ + +E+++II+++YY  KEEQFKQVF +L+FLGWYTTG   +  
Sbjct: 75  KQEGRNIEVMNSFELLSHTVEEKIIIDKEYYYTKEEQFKQVFKELEFLGWYTTGGPPDPS 134

Query: 133 DIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEE 192
           DI VHKQ+CEI ESP+FLKLNP   H++LPVSV+ES+ID++ GEATMLF EL YT+ TEE
Sbjct: 135 DIHVHKQVCEIIESPLFLKLNPMTKHTDLPVSVFESVIDIINGEATMLFAELTYTLATEE 194

Query: 193 AERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNH 252
           AER+GVDHVARM+   SGE+S VAEHL AQ++AIKMLH R+K++L+Y+K  E+G +P NH
Sbjct: 195 AERIGVDHVARMTATGSGENSTVAEHLIAQHSAIKMLHSRVKLILEYVKASEAGEVPFNH 254

Query: 253 DILRELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFD 312
           +ILRE  AL H LPVL    FKTDFY QCNDV L+ YLGTITK CN +NQFVNKFNVL+D
Sbjct: 255 EILREAYALCHCLPVLSTDKFKTDFYDQCNDVGLMAYLGTITKTCNTMNQFVNKFNVLYD 314

Query: 313 KQMLGRKLRGILY 325
           +Q +GR++RG+ +
Sbjct: 315 RQGIGRRMRGLFF 327

Component of the COP9 signalosome complex (CSN), a complex involved in various cellular and developmental processes. The CSN complex is an essential regulator of the ubiquitin (Ubl) conjugation pathway by mediating the deneddylation of the cullin subunits of SCF-type E3 ligase complexes, leading to decrease the Ubl ligase activity of SCF-type complexes such as SCF, CSA or DDB2. The complex is also involved in phosphorylation of p53/TP53, c-jun/JUN, IkappaBalpha/NFKBIA, ITPK1 and IRF8, possibly via its association with CK2 and PKD kinases. CSN-dependent phosphorylation of TP53 and JUN promotes and protects degradation by the Ubl system, respectively. Has some glucocorticoid receptor-responsive activity.

Homo sapiens (taxid: 9606)

>sp|A7TX81|CSN6_PIG COP9 signalosome complex subunit 6 OS=Sus scrofa GN=COPS6 PE=2 SV=1

 Score =  422 bits (1084), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 198/313 (63%), Positives = 252/313 (80%), Gaps = 1/313 (0%)

Query: 13  SSEVMDVDDTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIG 72
            S  M+VD      SVMA GVTGS+ V+LHPLVI+NIS+H+ R R+QEG+P+QVIGALIG
Sbjct: 12  GSSGMEVDAAVV-PSVMASGVTGSVSVALHPLVILNISDHWIRMRSQEGRPMQVIGALIG 70

Query: 73  IQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNEL 132
            Q GR +E+ NSFEL+ + +E+++II+++YY  KEEQFKQVF +L+FLGWYTTG   +  
Sbjct: 71  KQEGRNIEVMNSFELLSHTVEEKIIIDKEYYYTKEEQFKQVFKELEFLGWYTTGGPPDPS 130

Query: 133 DIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEE 192
           DI VHKQ+CEI ESP+FLKLNP   H++LPVSV+ES+ID++ GEATMLF EL YT+ TEE
Sbjct: 131 DIHVHKQVCEIIESPLFLKLNPMTKHTDLPVSVFESVIDIINGEATMLFAELTYTLATEE 190

Query: 193 AERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNH 252
           AER+GVDHVARM+   SGE+S VAEHL AQ++AIKMLH R+K++L+Y+K  E+G +P NH
Sbjct: 191 AERIGVDHVARMTATGSGENSTVAEHLIAQHSAIKMLHSRVKLILEYVKASEAGEVPFNH 250

Query: 253 DILRELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFD 312
           +ILRE  AL H LPVL    FKTDFY QCNDV L+ YLGTITK CN +NQFVNKFNVL+D
Sbjct: 251 EILREAYALCHCLPVLSTDKFKTDFYDQCNDVGLMAYLGTITKTCNTMNQFVNKFNVLYD 310

Query: 313 KQMLGRKLRGILY 325
           +Q +GR++RG+ +
Sbjct: 311 RQGIGRRMRGLFF 323

Component of the COP9 signalosome complex (CSN), a complex involved in various cellular and developmental processes. The CSN complex is an essential regulator of the ubiquitin (Ubl) conjugation pathway by mediating the deneddylation of the cullin subunits of SCF-type E3 ligase complexes, leading to decrease the Ubl ligase activity of SCF-type complexes such as SCF, CSA or DDB2. The complex is also involved in phosphorylation of p53/TP53, c-jun/JUN, IkappaBalpha/NFKBIA, ITPK1 and IRF8, possibly via its association with CK2 and PKD kinases. CSN-dependent phosphorylation of TP53 and JUN promotes and protects degradation by the Ubl system, respectively. Has some glucocorticoid receptor-responsive activity.

Sus scrofa (taxid: 9823)

>sp|Q9VCY3|CSN6_DROME COP9 signalosome complex subunit 6 OS=Drosophila melanogaster GN=CSN6 PE=1 SV=1

 Score =  405 bits (1040), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 191/309 (61%), Positives = 242/309 (78%), Gaps = 1/309 (0%)

Query: 18  DVDDTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGR 77
           D +  P G  + A G +GS+ +SLHPLVIMNISEH+TR RAQ G+P QV GALIG Q GR
Sbjct: 33  DQNPQPQGNIMAAAGTSGSVTISLHPLVIMNISEHWTRFRAQHGEPRQVYGALIGKQKGR 92

Query: 78  KLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVH 137
            +EI NSFEL  ++I DE +IN+DYY  KE+Q+KQVF DLDF+GWYTTGD     DIK+ 
Sbjct: 93  NIEIMNSFELKTDVIGDETVINKDYYNKKEQQYKQVFSDLDFIGWYTTGDNPTADDIKIQ 152

Query: 138 KQICEINESPIFLKLNPHPIH-SNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERM 196
           +QI  INE PI L+LNP      +LP+ ++ES+IDLV GEATMLF+ L YT+ TEEAER+
Sbjct: 153 RQIAAINECPIMLQLNPLSRSVDHLPLKLFESLIDLVDGEATMLFVPLTYTLATEEAERI 212

Query: 197 GVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILR 256
           GVDHVARM++N+SGE S+VAEHL AQ +AIKML+ RIKI+L Y+++VE+G L  N +ILR
Sbjct: 213 GVDHVARMTSNESGEKSVVAEHLVAQDSAIKMLNTRIKIVLQYIRDVEAGKLRANQEILR 272

Query: 257 ELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQML 316
           E  AL HRLPV+  PAF+ +FYTQCNDV LI+YLGT+TKGCND++ FVNKFN+L+D+Q  
Sbjct: 273 EAYALCHRLPVMQVPAFQEEFYTQCNDVGLISYLGTLTKGCNDMHHFVNKFNMLYDRQGS 332

Query: 317 GRKLRGILY 325
            R++RG+ Y
Sbjct: 333 ARRMRGLYY 341

Component of the COP9 signalosome complex (CSN), a complex involved in various cellular and developmental processes. The CSN complex is an essential regulator of the ubiquitin (Ubl) conjugation pathway by mediating the deneddylation of the cullin subunits of the SCF-type E3 ligase complexes, leading to decrease the Ubl ligase activity of SCF. The CSN complex plays an essential role in oogenesis and embryogenesis and is required for proper photoreceptor R cell differentiation and promote lamina glial cell migration or axon targeting. It also promotes Ubl-dependent degradation of cyclin E (CycE) during early oogenesis.

Drosophila melanogaster (taxid: 7227)

>sp|Q54C92|CSN6_DICDI COP9 signalosome complex subunit 6 OS=Dictyostelium discoideum GN=csn6 PE=1 SV=1

 Score =  233 bits (594), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 125/299 (41%), Positives = 194/299 (64%), Gaps = 8/299 (2%)

Query: 24  AGKSVMAKGVTGS-IHVSLHPLVIMNISEHYTRRRAQEG--KPVQVIGALIGIQVGRKLE 80
           A K V+ K    S + V LHPLV++NIS+H+TR + Q       +VIG ++G+Q GR +E
Sbjct: 12  ANKLVLEKSANSSGLEVDLHPLVLINISDHFTRTKVQSNYQDNCRVIGVILGVQNGRNVE 71

Query: 81  IKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQI 140
           I NSFE+VY  ++ +++++ +Y     ++++Q+F   D LGWY+TG  V++ DI +HKQI
Sbjct: 72  ICNSFEMVYATVDKQLVLDIEYL---RKKYEQLFPLYDLLGWYSTGSQVSKDDILLHKQI 128

Query: 141 CEINESPIFLKLNP-HPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERMGVD 199
            E NESP++L L+   P   +LPV +YES + +V  E T +F++ PY I T EAER+GV+
Sbjct: 129 SEHNESPLYLMLDTDSPKSKDLPVIIYESELHIVNDEPTTIFVKTPYKIQTGEAERIGVN 188

Query: 200 HVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELN 259
           H+A+++ + S E S +  HL   +NAI ML++R+K L DYL+ V+   LP   +ILR+ +
Sbjct: 189 HIAKVTPSGS-EGSGLTSHLFTMHNAISMLNIRVKALSDYLQAVKEKRLPYEQNILRKAS 247

Query: 260 ALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQMLGR 318
           +L ++LP +D   FK  +  + NDV L+TYL +ITK    LN  ++K+ V  +KQ   R
Sbjct: 248 SLCNQLPTIDTHDFKKSYLQEYNDVLLVTYLASITKTSASLNDTIDKYLVSNEKQSKRR 306

Component of the COP9 signalosome complex (CSN), a complex involved in various cellular and developmental processes. The CSN complex is an essential regulator of the ubiquitin (Ubl) conjugation pathway by mediating the deneddylation of the cullin subunits of E3 ligase complexes, leading to modify the Ubl ligase activity.

Dictyostelium discoideum (taxid: 44689)

>sp|Q8W206|CSN6A_ARATH COP9 signalosome complex subunit 6a OS=Arabidopsis thaliana GN=CSN6A PE=1 SV=2

 Score =  223 bits (569), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 118/308 (38%), Positives = 185/308 (60%), Gaps = 25/308 (8%)

Query: 29  MAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPV--------------------QVIG 68
           MA   +  +   LHPLVI+NIS+HYTR + Q   P                     +V G
Sbjct: 1   MAPSSSSGLTFKLHPLVIVNISDHYTRVKTQLNPPASICASGHGSNNGEAMFQQNPRVYG 60

Query: 69  ALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDT 128
            +IG+Q GR +EI NSFEL+Y+       ++R +   K+E +K+VF D   LGWY+TG  
Sbjct: 61  CVIGVQRGRTVEIFNSFELLYD--PSTQTLDRSFLEKKQELYKKVFPDFYILGWYSTGSD 118

Query: 129 VNELDIKVHKQICEINESPIFLKLNPHPIHS--NLPVSVYESIIDLVGGEATMLFIELPY 186
             E D+ +HK + +INESP+++ LNP   H+  +LPV++YES + ++ G   ++F    Y
Sbjct: 119 AEESDMHIHKALMDINESPVYVLLNPAINHTQKDLPVTIYESELHVIDGIPQLIFAHTSY 178

Query: 187 TIITEEAERMGVDHVARMSNNDSGESSL-VAEHLTAQYNAIKMLHVRIKILLDYLKEVES 245
           TI T EAER+ VDHVA +  +D G ++  +A HLT  ++AIKML+ RI++L   L  ++ 
Sbjct: 179 TIETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLYQNLAAMQK 238

Query: 246 GTLPVNHDILRELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVN 305
           G    ++ +LR++++L  RLP +++  F+ +F  + ND  LITYL  IT   +++N+ V+
Sbjct: 239 GDKSCDNSVLRQVSSLLRRLPAMESERFQDNFLMEYNDKLLITYLAMITNCSSNMNEMVD 298

Query: 306 KFNVLFDK 313
           KFN  +D+
Sbjct: 299 KFNTAYDR 306

Component of the COP9 signalosome complex (CSN), a complex involved in various cellular and developmental processes such as photomorphogenesis and auxin and jasmonate responses. The CSN complex is an essential regulator of the ubiquitin (Ubl) conjugation pathway by mediating the deneddylation of the cullin subunits of SCF-type E3 ligase complexes, leading to decrease the Ubl ligase activity of SCF. It is involved in repression of photomorphogenesis in darkness by regulating the activity of COP1-containing Ubl ligase complexes. The complex is also required for degradation of PSIAA6 by regulating the activity of the Ubl ligase SCF-TIR complex.

Arabidopsis thaliana (taxid: 3702)

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	326
91094221	329	PREDICTED: similar to COP9 complex homol	0.996	0.987	0.647	1e-125
242005763	321	COP9 signalosome complex subunit, putati	0.966	0.981	0.651	1e-122
405968693	312	COP9 signalosome complex subunit 6 [Cras	0.935	0.977	0.655	1e-122
346469409	310	hypothetical protein [Amblyomma maculatu	0.947	0.996	0.655	1e-122
427788173	310	Putative cop9 signalosome subunit csn6 [	0.947	0.996	0.652	1e-121
241564313	310	COP9 signalosome, subunit CSN6, putative	0.947	0.996	0.646	1e-119
410914285	316	PREDICTED: COP9 signalosome complex subu	0.935	0.965	0.645	1e-119
47226158	316	unnamed protein product [Tetraodon nigro	0.935	0.965	0.645	1e-119
348515403	316	PREDICTED: COP9 signalosome complex subu	0.935	0.965	0.649	1e-119
432876707	316	PREDICTED: COP9 signalosome complex subu	0.935	0.965	0.649	1e-118

>gi|91094221|ref|XP_973281.1| PREDICTED: similar to COP9 complex homolog subunit 6 CG6932-PA [Tribolium castaneum] gi|270016217|gb|EFA12663.1| hypothetical protein TcasGA2_TC002246 [Tribolium castaneum]

 Score =  454 bits (1169), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 213/329 (64%), Positives = 266/329 (80%), Gaps = 4/329 (1%)

Query: 1   MSTNTAAAPTATSSEVMDVDDTPAG---KSVMAKGVTGSIHVSLHPLVIMNISEHYTRRR 57
           MST  +      +    DV + PA    KSVMA G  GS+  SLHPLVIMN+SEH+TR +
Sbjct: 1   MSTKESMEMEVDNPASADVANNPAEDSEKSVMAAGAVGSVTCSLHPLVIMNVSEHWTREK 60

Query: 58  AQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDL 117
           AQEG   +VIGALIG Q GR +EI NSFELV+++I  ++II+RDYY +KEEQFKQVF D+
Sbjct: 61  AQEGSVQRVIGALIGKQKGRNIEIMNSFELVFSVIGGDVIIDRDYYNMKEEQFKQVFSDM 120

Query: 118 DFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLNPHPIH-SNLPVSVYESIIDLVGGE 176
           DF+GWYTTGD  N  DIK+HKQIC+INESPI LKLNP+  +  +LPV++YES+IDL+GGE
Sbjct: 121 DFIGWYTTGDIPNTTDIKIHKQICDINESPILLKLNPYDKNIDHLPVALYESVIDLIGGE 180

Query: 177 ATMLFIELPYTIITEEAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKIL 236
           ATMLF+ L YT+ TEEAER+GVDHVARMS+ DSGESSLVAEHLTAQ++AIKMLH R++++
Sbjct: 181 ATMLFVNLSYTLATEEAERIGVDHVARMSSTDSGESSLVAEHLTAQHSAIKMLHSRVRLV 240

Query: 237 LDYLKEVESGTLPVNHDILRELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKG 296
           L+Y+K V+SG LP NH+ILRE  +L HRLPV+ +  F+ DFY QCNDV L+TYLGT+TKG
Sbjct: 241 LEYMKAVQSGQLPTNHEILREAYSLCHRLPVIQSARFRQDFYNQCNDVGLMTYLGTLTKG 300

Query: 297 CNDLNQFVNKFNVLFDKQMLGRKLRGILY 325
           CNDLNQFVNKFN+L+D+Q LGR++RGI +
Sbjct: 301 CNDLNQFVNKFNILYDRQGLGRRMRGIFF 329

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242005763|ref|XP_002423731.1| COP9 signalosome complex subunit, putative [Pediculus humanus corporis] gi|212506922|gb|EEB10993.1| COP9 signalosome complex subunit, putative [Pediculus humanus corporis]

 Score =  445 bits (1145), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 211/324 (65%), Positives = 264/324 (81%), Gaps = 9/324 (2%)

Query: 7   AAPTATSSEVMDVDDTPAGKSVMAK-GVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQ 65
           A P+  +  VM+VDD    K+VMA  G  GS+ VSLHPLVIMNISEH+TR RAQEG   Q
Sbjct: 2   ADPSGPT--VMEVDDN--NKNVMASSGTVGSVSVSLHPLVIMNISEHWTRLRAQEGTVQQ 57

Query: 66  VIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTT 125
           VIGA+IG Q GR LEI NSFELVYN++E ++II+RDYY+ KEEQFKQVF D+DFLGWYT+
Sbjct: 58  VIGAVIGKQKGRNLEIMNSFELVYNVVEGDVIIDRDYYSTKEEQFKQVFSDMDFLGWYTS 117

Query: 126 GDTVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELP 185
           GDT ++ DIK+HKQICEINESP+ LKLNP   HS+LPV++YES+IDL+ GEATMLF++L 
Sbjct: 118 GDTPDDKDIKIHKQICEINESPVLLKLNPMAKHSDLPVTMYESVIDLLNGEATMLFVQLH 177

Query: 186 YTIITEEAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVES 245
           YT+ TEEAER+GVDHVAR+S N++GESSLVAEHLTAQ++AIKMLH R+K++L+Y+K V+ 
Sbjct: 178 YTLATEEAERIGVDHVARVSTNEAGESSLVAEHLTAQHSAIKMLHSRVKLVLEYVKAVQE 237

Query: 246 GTLPVN----HDILRELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLN 301
           G LP N    H+ILRE  +L HRLPVL    F  D Y QCNDV L+ YLGT+TKGCND+N
Sbjct: 238 GKLPENNLNHHEILREAYSLSHRLPVLQTSQFSIDLYNQCNDVGLMAYLGTMTKGCNDIN 297

Query: 302 QFVNKFNVLFDKQMLGRKLRGILY 325
           Q +NKFNV++D+Q +GR++RG+ +
Sbjct: 298 QLINKFNVIYDRQGIGRRMRGLFF 321

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|405968693|gb|EKC33739.1| COP9 signalosome complex subunit 6 [Crassostrea gigas]

 Score =  444 bits (1143), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 200/305 (65%), Positives = 253/305 (82%)

Query: 21  DTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLE 80
           D P G  + +    GS+ VSLHPLVIMNISEH+TR RAQEGKP QV+GA+IG Q GRK+E
Sbjct: 8   DGPGGGVMASTSCPGSVSVSLHPLVIMNISEHWTRVRAQEGKPTQVLGAVIGKQKGRKIE 67

Query: 81  IKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQI 140
           + NSFEL++++IE E+I+N +YY  KEEQFKQVF DLDFLGWY+TGDT    DIK+HKQI
Sbjct: 68  VMNSFELLFDLIEGEIIVNMEYYNTKEEQFKQVFSDLDFLGWYSTGDTPTSSDIKIHKQI 127

Query: 141 CEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERMGVDH 200
           C+INESPIF++LNP    S+LPV+++ES+IDLV  EATMLF+EL YT+ TEEAER+GVDH
Sbjct: 128 CQINESPIFVRLNPLARQSDLPVTIFESVIDLVNNEATMLFVELQYTLATEEAERIGVDH 187

Query: 201 VARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNA 260
           VARMS +D+GE S VAEHL AQ+++IKMLH R+K++L+Y+K V+SG +P NHDILRE  +
Sbjct: 188 VARMSTSDAGEGSSVAEHLIAQHSSIKMLHSRVKLILEYIKAVQSGEVPKNHDILREAYS 247

Query: 261 LRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQMLGRKL 320
           L +RLPVL+ P FK DFY QCNDV L+ YLGTITKGCN +NQFVNKFNV++D+Q +GR++
Sbjct: 248 LCYRLPVLNTPKFKEDFYNQCNDVCLMAYLGTITKGCNTINQFVNKFNVMYDRQGMGRRM 307

Query: 321 RGILY 325
           RG+ +
Sbjct: 308 RGLFF 312

Source: Crassostrea gigas

Species: Crassostrea gigas

Genus: Crassostrea

Family: Ostreidae

Order: Ostreoida

Class: Bivalvia

Phylum: Mollusca

Superkingdom: Eukaryota

>gi|346469409|gb|AEO34549.1| hypothetical protein [Amblyomma maculatum]

 Score =  443 bits (1140), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 204/311 (65%), Positives = 258/311 (82%), Gaps = 2/311 (0%)

Query: 17  MDVDDTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVG 76
           M+VD+ PA   + A G TGS+ VSLHPLVIMNISEH+TR RAQEGKP QVIGALIG Q G
Sbjct: 1   MEVDEAPA-NVMAASGTTGSVCVSLHPLVIMNISEHWTRIRAQEGKPQQVIGALIGKQKG 59

Query: 77  RKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKV 136
           R +E+ NSFEL++N IE  ++I+ DYY +KE+QFKQVF DLDFLGWYTTGD   E DIKV
Sbjct: 60  RNIEVMNSFELLFNTIEGNVVIDNDYYNVKEQQFKQVFSDLDFLGWYTTGDAPTESDIKV 119

Query: 137 HKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERM 196
           H+QIC INESP+ LKLNP   HS LPV++YES+IDLV G+ATMLF+ELPYT+ TEEAER+
Sbjct: 120 HRQICCINESPVLLKLNPQARHSQLPVAMYESVIDLVDGQATMLFVELPYTLATEEAERI 179

Query: 197 GVDHVARMS-NNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDIL 255
           G+DH+ARMS   +SGESSLVA+HL AQ++AIKMLH R++++L+Y+K V +G+LP NH+++
Sbjct: 180 GLDHMARMSAAGESGESSLVAQHLQAQHSAIKMLHSRVRLVLEYVKAVAAGSLPANHEVM 239

Query: 256 RELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQM 315
           R+  +L HRLPVL  P+F+  FY QCNDVAL+TYLGT+TKGCN +NQFVNKFN+L+D+Q 
Sbjct: 240 RDAFSLCHRLPVLHTPSFQGQFYNQCNDVALMTYLGTLTKGCNTINQFVNKFNLLYDRQG 299

Query: 316 LGRKLRGILYF 326
           +GR++   L+F
Sbjct: 300 MGRRMGRGLFF 310

Source: Amblyomma maculatum

Species: Amblyomma maculatum

Genus: Amblyomma

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|427788173|gb|JAA59538.1| Putative cop9 signalosome subunit csn6 [Rhipicephalus pulchellus]

 Score =  439 bits (1130), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 203/311 (65%), Positives = 257/311 (82%), Gaps = 2/311 (0%)

Query: 17  MDVDDTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVG 76
           M+VD++PA   + A G TGS+ VSLHPLVIMNISEH+TR +AQEGK  QVIGALIG Q G
Sbjct: 1   MEVDESPA-NVMAASGTTGSVCVSLHPLVIMNISEHWTRIKAQEGKAQQVIGALIGKQKG 59

Query: 77  RKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKV 136
           R +E+ NSFELV+N IE  ++I+ DYY +KE+QFKQVF DLDFLGWYTTG    E DI+V
Sbjct: 60  RNIEVMNSFELVFNTIEGNIVIDNDYYNVKEQQFKQVFSDLDFLGWYTTGGAPTESDIQV 119

Query: 137 HKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERM 196
           H+QIC INESP+ LKLNP   HS LPV++YES+IDLV G+ATMLF+ELPYT+ TEEAER+
Sbjct: 120 HRQICCINESPVLLKLNPQARHSQLPVAMYESVIDLVNGQATMLFVELPYTLATEEAERI 179

Query: 197 GVDHVARMS-NNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDIL 255
           G+DH+ARMS   +SGESSLVA+HL AQ++AIKMLH R++++L+Y+K V +GTLP NH++L
Sbjct: 180 GLDHMARMSAAGESGESSLVAQHLQAQHSAIKMLHSRVRLVLEYVKAVSAGTLPANHEVL 239

Query: 256 RELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQM 315
           R+  +L HRLPVL  P+F+  FY QCNDVAL+TYLGT+TKGCN +NQFVNKFN+L+D+Q 
Sbjct: 240 RDAFSLCHRLPVLHTPSFQGQFYNQCNDVALMTYLGTLTKGCNTINQFVNKFNLLYDRQG 299

Query: 316 LGRKLRGILYF 326
           +GR++   L+F
Sbjct: 300 MGRRMGRGLFF 310

Source: Rhipicephalus pulchellus

Species: Rhipicephalus pulchellus

Genus: Rhipicephalus

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|241564313|ref|XP_002401875.1| COP9 signalosome, subunit CSN6, putative [Ixodes scapularis] gi|215501921|gb|EEC11415.1| COP9 signalosome, subunit CSN6, putative [Ixodes scapularis]

 Score =  435 bits (1118), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 201/311 (64%), Positives = 256/311 (82%), Gaps = 2/311 (0%)

Query: 17  MDVDDTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVG 76
           M+VD+ P  K + A G TGS+ VSLHPLVIMNISEH+TR RAQEGKP QVIGALIG Q G
Sbjct: 1   MEVDEAP-NKVMAASGTTGSVCVSLHPLVIMNISEHWTRIRAQEGKPQQVIGALIGKQKG 59

Query: 77  RKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKV 136
           R ++I NSFEL+++ IE  ++I++DYYT+KE+QFKQVF DLDFLGWYTTG+   E DI V
Sbjct: 60  RNIDIMNSFELLFDTIEGNIVIDKDYYTIKEQQFKQVFSDLDFLGWYTTGEGPTEGDIGV 119

Query: 137 HKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERM 196
           HKQ+C INESP+ LKLNP   H+ LPV++YES+IDLVGG+ATMLF+ELPYT+ TEEAER+
Sbjct: 120 HKQVCGINESPVLLKLNPQARHTELPVAMYESVIDLVGGQATMLFVELPYTLATEEAERI 179

Query: 197 GVDHVARMSN-NDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDIL 255
           G+DH+ARMS   +SGESSLVA+HL AQ++AIKMLH R++++L+Y++ V  GTL  NH++L
Sbjct: 180 GLDHMARMSAMGESGESSLVAQHLQAQHSAIKMLHSRVRLVLEYVRSVSGGTLAPNHEVL 239

Query: 256 RELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQM 315
           R+   L HRLPVL   +F+ DFY QCNDV L+TYLGT+TKGCN +NQFVNKFN+L+D+Q 
Sbjct: 240 RDAFGLCHRLPVLHTRSFQADFYNQCNDVGLMTYLGTLTKGCNTINQFVNKFNLLYDRQG 299

Query: 316 LGRKLRGILYF 326
           +GR++   L+F
Sbjct: 300 MGRRMGRGLFF 310

Source: Ixodes scapularis

Species: Ixodes scapularis

Genus: Ixodes

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|410914285|ref|XP_003970618.1| PREDICTED: COP9 signalosome complex subunit 6-like [Takifugu rubripes]

 Score =  434 bits (1115), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 197/305 (64%), Positives = 251/305 (82%)

Query: 21  DTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLE 80
           D  A  SVMA GVTGS+ V+LHPLVI+NIS+H+ R R+QEG+P+QVIGALIG Q GR +E
Sbjct: 12  DGAASPSVMASGVTGSVSVALHPLVILNISDHWIRIRSQEGRPIQVIGALIGKQEGRNIE 71

Query: 81  IKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQI 140
           + NSFEL+ + I+D + I+++YY  KEEQFKQVF D++FLGWYTTG   ++ DI +HKQ+
Sbjct: 72  VMNSFELLSHTIDDRVHIDKEYYYTKEEQFKQVFKDMEFLGWYTTGGPPDQSDIHIHKQV 131

Query: 141 CEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERMGVDH 200
           CEI ESP+FLKLNP   H++LPVSVYES+ID++ GEATMLF EL YT+ TEEAER+GVDH
Sbjct: 132 CEIIESPLFLKLNPMTKHTDLPVSVYESVIDIISGEATMLFAELTYTLATEEAERIGVDH 191

Query: 201 VARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNA 260
           VARM+   +GE+S VAEHL AQ++AIKMLH R+KI+L+Y+K VE+G +P NH+ILRE NA
Sbjct: 192 VARMTATGTGENSTVAEHLIAQHSAIKMLHSRVKIILEYVKAVEAGEVPFNHEILREANA 251

Query: 261 LRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQMLGRKL 320
           L HRLPVL    FKTDFY QCNDV L+ YLGTITK CN +NQF+NKFN+L+D+Q +GR++
Sbjct: 252 LCHRLPVLSTSKFKTDFYDQCNDVGLMAYLGTITKTCNSMNQFINKFNILYDRQGIGRRM 311

Query: 321 RGILY 325
           RG+ +
Sbjct: 312 RGLFF 316

Source: Takifugu rubripes

Species: Takifugu rubripes

Genus: Takifugu

Family: Tetraodontidae

Order: Tetraodontiformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|47226158|emb|CAG08305.1| unnamed protein product [Tetraodon nigroviridis]

 Score =  433 bits (1113), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 197/305 (64%), Positives = 251/305 (82%)

Query: 21  DTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLE 80
           D  A  SVMA GVTGS+ V+LHPLVI+NIS+H+ R R+QEG+P+QVIGALIG Q GR +E
Sbjct: 12  DGAASPSVMASGVTGSVSVALHPLVILNISDHWIRIRSQEGRPMQVIGALIGKQEGRNIE 71

Query: 81  IKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQI 140
           + NSFEL+ + I+D + I+++YY  KEEQFKQVF D++FLGWYTTG   ++ DI +HKQ+
Sbjct: 72  VMNSFELLSHTIDDRVHIDKEYYYTKEEQFKQVFKDMEFLGWYTTGGPPDQSDIHIHKQV 131

Query: 141 CEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERMGVDH 200
           CEI ESP+FLKLNP   H++LPVSVYES+ID++ GEATMLF EL YT+ TEEAER+GVDH
Sbjct: 132 CEIIESPLFLKLNPMTKHTDLPVSVYESVIDIISGEATMLFAELTYTLATEEAERIGVDH 191

Query: 201 VARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNA 260
           VARM+   +GE+S VAEHL AQ++AIKMLH R+KI+L+Y+K VE+G +P NH+ILRE NA
Sbjct: 192 VARMTATGTGENSTVAEHLIAQHSAIKMLHSRVKIILEYVKAVEAGEVPFNHEILREANA 251

Query: 261 LRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQMLGRKL 320
           L HRLPVL    FKTDFY QCNDV L+ YLGTITK CN +NQF+NKFN+L+D+Q +GR++
Sbjct: 252 LCHRLPVLSTSKFKTDFYDQCNDVGLMAYLGTITKTCNSMNQFINKFNILYDRQGIGRRM 311

Query: 321 RGILY 325
           RG+ +
Sbjct: 312 RGLFF 316

Source: Tetraodon nigroviridis

Species: Tetraodon nigroviridis

Genus: Tetraodon

Family: Tetraodontidae

Order: Tetraodontiformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|348515403|ref|XP_003445229.1| PREDICTED: COP9 signalosome complex subunit 6-like [Oreochromis niloticus]

 Score =  432 bits (1112), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 198/305 (64%), Positives = 252/305 (82%)

Query: 21  DTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLE 80
           D  A  SVMA GVTGS+ V+LHPLVI+NIS+H+ R R+QEG+P+QVIGALIG Q GR +E
Sbjct: 12  DGAASPSVMASGVTGSVSVALHPLVILNISDHWIRIRSQEGRPMQVIGALIGKQEGRNIE 71

Query: 81  IKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQI 140
           + NSFEL+ + I+D++ I+++YY  KEEQFKQVF D++FLGWYTTG   ++ DI +HKQ+
Sbjct: 72  VMNSFELLSHTIDDKVHIDKEYYYTKEEQFKQVFKDMEFLGWYTTGGPPDQSDIHIHKQV 131

Query: 141 CEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERMGVDH 200
           CEI ESP+FLKLNP   H++LPVSVYES+ID++ GEATMLF EL YT+ TEEAER+GVDH
Sbjct: 132 CEIIESPLFLKLNPMTKHTDLPVSVYESVIDIISGEATMLFAELTYTLATEEAERIGVDH 191

Query: 201 VARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNA 260
           VARM+   +GE+S VAEHL AQ++AIKMLH R+KI+L+Y+K VE+G +P NH+ILRE NA
Sbjct: 192 VARMTATGTGENSTVAEHLIAQHSAIKMLHSRVKIILEYVKAVEAGEVPFNHEILREANA 251

Query: 261 LRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQMLGRKL 320
           L HRLPVL    FKTDFY QCNDV L+ YLGTITK CN +NQF+NKFNVL+D+Q +GR++
Sbjct: 252 LCHRLPVLSTIKFKTDFYDQCNDVGLMAYLGTITKTCNSMNQFINKFNVLYDRQGIGRRM 311

Query: 321 RGILY 325
           RG+ +
Sbjct: 312 RGLFF 316

Source: Oreochromis niloticus

Species: Oreochromis niloticus

Genus: Oreochromis

Family: Cichlidae

Order: Perciformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|432876707|ref|XP_004073073.1| PREDICTED: COP9 signalosome complex subunit 6-like [Oryzias latipes]

 Score =  432 bits (1111), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 198/305 (64%), Positives = 252/305 (82%)

Query: 21  DTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLE 80
           D  A  SVMA GVTGS+ V+LHPLVI+NIS+H+ R R+QEG+P+QVIGALIG Q GR +E
Sbjct: 12  DGAATPSVMASGVTGSVSVALHPLVILNISDHWIRIRSQEGRPMQVIGALIGKQEGRNIE 71

Query: 81  IKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQI 140
           + NSFEL+ + I+D++ I+++YY  KEEQFKQVF D++FLGWYTTG   ++ DI +HKQ+
Sbjct: 72  VMNSFELMSHTIDDKVHIDKEYYYTKEEQFKQVFKDMEFLGWYTTGGPPDQSDIHIHKQV 131

Query: 141 CEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERMGVDH 200
           CEI ESP+FLKLNP   H++LPVSVYES+ID++ GEATMLF EL YT+ TEEAER+GVDH
Sbjct: 132 CEIIESPLFLKLNPMTKHTDLPVSVYESVIDIISGEATMLFAELTYTLATEEAERIGVDH 191

Query: 201 VARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNA 260
           VARM+   +GE+S VAEHL AQ++AIKMLH R+KI+L+Y+K VE+G +P NH+ILRE NA
Sbjct: 192 VARMTATGTGENSTVAEHLIAQHSAIKMLHSRVKIILEYVKAVEAGEVPFNHEILREANA 251

Query: 261 LRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQMLGRKL 320
           L HRLPVL    FKTDFY QCNDV L+ YLGTITK CN +NQF+NKFNVL+D+Q +GR++
Sbjct: 252 LCHRLPVLSTIKFKTDFYDQCNDVGLMAYLGTITKTCNSMNQFINKFNVLYDRQGIGRRM 311

Query: 321 RGILY 325
           RG+ +
Sbjct: 312 RGLFF 316

Source: Oryzias latipes

Species: Oryzias latipes

Genus: Oryzias

Family: Adrianichthyidae

Order: Beloniformes

Class: Actinopterygii

Phylum: Chordata

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	326
ZFIN|ZDB-GENE-050417-289	297	cops6 "COP9 constitutive photo	0.911	1.0	0.639	5.7e-107
UNIPROTKB|A6QQ21	324	COPS6 "COP9 signalosome comple	0.944	0.950	0.640	2.5e-106
UNIPROTKB|E7EM64	326	COPS6 "COP9 signalosome comple	0.941	0.941	0.644	4e-106
MGI|MGI:1349439	324	Cops6 "COP9 (constitutive phot	0.941	0.947	0.640	4e-106
UNIPROTKB|F1MG10	324	COPS6 "COP9 signalosome comple	0.944	0.950	0.637	6.5e-106
UNIPROTKB|Q7L5N1	327	COPS6 "COP9 signalosome comple	0.944	0.941	0.640	6.5e-106
UNIPROTKB|A7TX81	323	COPS6 "COP9 signalosome comple	0.944	0.953	0.637	6.5e-106
RGD|1309919	344	Cops6 "COP9 signalosome subuni	0.941	0.892	0.640	8.3e-106
FB|FBgn0028837	341	CSN6 "COP9 complex homolog sub	0.944	0.903	0.618	6.2e-101
DICTYBASE|DDB_G0293180	309	csn6 "Mov34/MPN/PAD-1 family p	0.886	0.935	0.424	5.7e-59

ZFIN|ZDB-GENE-050417-289 cops6 "COP9 constitutive photomorphogenic homolog subunit 6 (Arabidopsis)" [Danio rerio (taxid:7955)]

 Score = 1058 (377.5 bits), Expect = 5.7e-107, P = 5.7e-107
 Identities = 190/297 (63%), Positives = 251/297 (84%)

Query:    29 MAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELV 88
             MA GVTGS+ V+LHPLVI+NIS+H+ R R+QEG+ VQV+GALIG Q GR +E+ NSFEL+
Sbjct:     1 MASGVTGSVSVALHPLVILNISDHWIRIRSQEGRAVQVVGALIGKQEGRNIEVMNSFELL 60

Query:    89 YNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPI 148
             ++ +ED++ I+++YY  KEEQFKQVF +++FLGWYTTG + ++ DI +HKQ+CEI ESP+
Sbjct:    61 FHTVEDQIHIDKEYYYTKEEQFKQVFKEMEFLGWYTTGGSPDQSDIHIHKQVCEIIESPL 120

Query:   149 FLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERMGVDHVARMSNND 208
             FLKLNP   H++LPVSV+ES+ID++ GEATMLF ELPYT+ TEEAER+GVDHVARM+   
Sbjct:   121 FLKLNPMTKHTDLPVSVFESVIDIISGEATMLFAELPYTLATEEAERIGVDHVARMTATG 180

Query:   209 SGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVL 268
             +GE+S VAEHL AQ++AIKMLH R+K++L+Y+K V++G +P NH+ILRE NAL HRLPVL
Sbjct:   181 TGENSTVAEHLIAQHSAIKMLHSRVKVILEYVKAVQAGEVPFNHEILREANALCHRLPVL 240

Query:   269 DNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQMLGRKLRGILY 325
             +   FKTDFY QCNDV L+ YLGTITK CN +NQF+NKFNVL+D+Q +GR++RG+ +
Sbjct:   241 NTLKFKTDFYDQCNDVGLMAYLGTITKTCNSMNQFINKFNVLYDRQGIGRRMRGLFF 297

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

GO:0060026 "convergent extension" evidence=IMP

GO:0007420 "brain development" evidence=IMP

GO:0009953 "dorsal/ventral pattern formation" evidence=IMP

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

UNIPROTKB|A6QQ21 COPS6 "COP9 signalosome complex subunit 6" [Bos taurus (taxid:9913)]

 Score = 1052 (375.4 bits), Expect = 2.5e-106, P = 2.5e-106
 Identities = 198/309 (64%), Positives = 251/309 (81%)

Query:    17 MDVDDTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVG 76
             M+VD      SVMA GVTGS+ V+LHPLVI+NIS+H+ R R+QEG+P+QVIGALIG Q G
Sbjct:    17 MEVDAAVV-PSVMASGVTGSVSVALHPLVILNISDHWIRMRSQEGRPMQVIGALIGKQEG 75

Query:    77 RKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKV 136
             R +E+ NSFEL+ + +E+++II+++YY  KEEQFKQVF +LDFLGWYTTG   +  DI V
Sbjct:    76 RNIEVMNSFELLSHTVEEKIIIDKEYYYTKEEQFKQVFKELDFLGWYTTGGPPDPSDIHV 135

Query:   137 HKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERM 196
             HKQ+CEI ESP+FLKLNP   H++LPVSV+ES+ID++ GEATMLF EL YT+ TEEAER+
Sbjct:   136 HKQVCEIIESPLFLKLNPMTKHTDLPVSVFESVIDIINGEATMLFAELTYTLATEEAERI 195

Query:   197 GVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILR 256
             GVDHVARM+   SGE+S VAEHL AQ++AIKMLH R+K++L+Y+K  E+G +P NH+ILR
Sbjct:   196 GVDHVARMTATGSGENSTVAEHLIAQHSAIKMLHSRVKLILEYVKASEAGEVPFNHEILR 255

Query:   257 ELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQML 316
             E  AL H LPVL    FKTDFY QCNDV L+ YLGTITK CN +NQFVNKFNVL+D+Q +
Sbjct:   256 EAYALCHCLPVLSTDKFKTDFYDQCNDVGLMAYLGTITKTCNTMNQFVNKFNVLYDRQGI 315

Query:   317 GRKLRGILY 325
             GR++RG+ +
Sbjct:   316 GRRMRGLFF 324

GO:0005737 "cytoplasm" evidence=IEA

GO:0008180 "signalosome" evidence=IEA

UNIPROTKB|E7EM64 COPS6 "COP9 signalosome complex subunit 6" [Homo sapiens (taxid:9606)]

 Score = 1050 (374.7 bits), Expect = 4.0e-106, P = 4.0e-106
 Identities = 199/309 (64%), Positives = 252/309 (81%)

Query:    17 MDVDDTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVG 76
             M+VD   A  SVMA GVTGS+ V+LHPLVI+NIS+H+ R R+QEG+PVQVIGALIG Q G
Sbjct:    20 MEVD--AAVPSVMACGVTGSVSVALHPLVILNISDHWIRMRSQEGRPVQVIGALIGKQEG 77

Query:    77 RKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKV 136
             R +E+ NSFEL+ + +E+++II+++YY  KEEQFKQVF +L+FLGWYTTG   +  DI V
Sbjct:    78 RNIEVMNSFELLSHTVEEKIIIDKEYYYTKEEQFKQVFKELEFLGWYTTGGPPDPSDIHV 137

Query:   137 HKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERM 196
             HKQ+CEI ESP+FLKLNP   H++LPVSV+ES+ID++ GEATMLF EL YT+ TEEAER+
Sbjct:   138 HKQVCEIIESPLFLKLNPMTKHTDLPVSVFESVIDIINGEATMLFAELTYTLATEEAERI 197

Query:   197 GVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILR 256
             GVDHVARM+   SGE+S VAEHL AQ++AIKMLH R+K++L+Y+K  E+G +P NH+ILR
Sbjct:   198 GVDHVARMTATGSGENSTVAEHLIAQHSAIKMLHSRVKLILEYVKASEAGEVPFNHEILR 257

Query:   257 ELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQML 316
             E  AL H LPVL    FKTDFY QCNDV L+ YLGTITK CN +NQFVNKFNVL+D+Q +
Sbjct:   258 EAYALCHCLPVLSTDKFKTDFYDQCNDVGLMAYLGTITKTCNTMNQFVNKFNVLYDRQGI 317

Query:   317 GRKLRGILY 325
             GR++RG+ +
Sbjct:   318 GRRMRGLFF 326

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

MGI|MGI:1349439 Cops6 "COP9 (constitutive photomorphogenic) homolog, subunit 6 (Arabidopsis thaliana)" [Mus musculus (taxid:10090)]

 Score = 1050 (374.7 bits), Expect = 4.0e-106, P = 4.0e-106
 Identities = 198/309 (64%), Positives = 252/309 (81%)

Query:    17 MDVDDTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVG 76
             M+VD   A  SVMA GVTGS+ V+LHPLVI+NIS+H+ R R+QEG+P+QVIGALIG Q G
Sbjct:    18 MEVD--AAVPSVMASGVTGSVSVALHPLVILNISDHWIRMRSQEGRPMQVIGALIGKQEG 75

Query:    77 RKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKV 136
             R +E+ NSFEL+ + +E+++II+++YY  KEEQFKQVF +L+FLGWYTTG   +  DI V
Sbjct:    76 RNIEVMNSFELLSHTVEEKIIIDKEYYYTKEEQFKQVFKELEFLGWYTTGGPPDPSDIHV 135

Query:   137 HKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERM 196
             HKQ+CEI ESP+FLKLNP   H++LPVSV+ES+ID++ GEATMLF EL YT+ TEEAER+
Sbjct:   136 HKQVCEIIESPLFLKLNPMTKHTDLPVSVFESVIDIINGEATMLFAELTYTLATEEAERI 195

Query:   197 GVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILR 256
             GVDHVARM+   SGE+S VAEHL AQ++AIKMLH R+K++L+Y+K  E+G +P NH+ILR
Sbjct:   196 GVDHVARMTATGSGENSTVAEHLIAQHSAIKMLHSRVKLILEYVKASEAGEVPFNHEILR 255

Query:   257 ELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQML 316
             E  AL H LPVL    FKTDFY QCNDV L+ YLGTITK CN +NQFVNKFNVL+D+Q +
Sbjct:   256 EAYALCHCLPVLSTDKFKTDFYDQCNDVGLMAYLGTITKTCNTMNQFVNKFNVLYDRQGI 315

Query:   317 GRKLRGILY 325
             GR++RG+ +
Sbjct:   316 GRRMRGLFF 324

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0008180 "signalosome" evidence=ISO;IDA

GO:0010388 "cullin deneddylation" evidence=ISO

UNIPROTKB|F1MG10 COPS6 "COP9 signalosome complex subunit 6" [Bos taurus (taxid:9913)]

 Score = 1048 (374.0 bits), Expect = 6.5e-106, P = 6.5e-106
 Identities = 197/309 (63%), Positives = 251/309 (81%)

Query:    17 MDVDDTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVG 76
             M+VD      SVMA GVTGS+ V+LHPLVI+NIS+H+ R R+QEG+P+QVIGALIG Q G
Sbjct:    17 MEVDAAVV-PSVMASGVTGSVSVALHPLVILNISDHWIRMRSQEGRPMQVIGALIGKQEG 75

Query:    77 RKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKV 136
             R +E+ NSFEL+ + +E+++II+++YY  KEEQFKQVF +L+FLGWYTTG   +  DI V
Sbjct:    76 RNIEVMNSFELLSHTVEEKIIIDKEYYYTKEEQFKQVFKELEFLGWYTTGGPPDPSDIHV 135

Query:   137 HKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERM 196
             HKQ+CEI ESP+FLKLNP   H++LPVSV+ES+ID++ GEATMLF EL YT+ TEEAER+
Sbjct:   136 HKQVCEIIESPLFLKLNPMTKHTDLPVSVFESVIDIINGEATMLFAELTYTLATEEAERI 195

Query:   197 GVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILR 256
             GVDHVARM+   SGE+S VAEHL AQ++AIKMLH R+K++L+Y+K  E+G +P NH+ILR
Sbjct:   196 GVDHVARMTATGSGENSTVAEHLIAQHSAIKMLHSRVKLILEYVKASEAGEVPFNHEILR 255

Query:   257 ELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQML 316
             E  AL H LPVL    FKTDFY QCNDV L+ YLGTITK CN +NQFVNKFNVL+D+Q +
Sbjct:   256 EAYALCHCLPVLSTDKFKTDFYDQCNDVGLMAYLGTITKTCNTMNQFVNKFNVLYDRQGI 315

Query:   317 GRKLRGILY 325
             GR++RG+ +
Sbjct:   316 GRRMRGLFF 324

GO:0010388 "cullin deneddylation" evidence=IEA

GO:0008180 "signalosome" evidence=IEA

UNIPROTKB|Q7L5N1 COPS6 "COP9 signalosome complex subunit 6" [Homo sapiens (taxid:9606)]

 Score = 1048 (374.0 bits), Expect = 6.5e-106, P = 6.5e-106
 Identities = 198/309 (64%), Positives = 251/309 (81%)

Query:    17 MDVDDTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVG 76
             M+VD      SVMA GVTGS+ V+LHPLVI+NIS+H+ R R+QEG+PVQVIGALIG Q G
Sbjct:    20 MEVDAAVV-PSVMACGVTGSVSVALHPLVILNISDHWIRMRSQEGRPVQVIGALIGKQEG 78

Query:    77 RKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKV 136
             R +E+ NSFEL+ + +E+++II+++YY  KEEQFKQVF +L+FLGWYTTG   +  DI V
Sbjct:    79 RNIEVMNSFELLSHTVEEKIIIDKEYYYTKEEQFKQVFKELEFLGWYTTGGPPDPSDIHV 138

Query:   137 HKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERM 196
             HKQ+CEI ESP+FLKLNP   H++LPVSV+ES+ID++ GEATMLF EL YT+ TEEAER+
Sbjct:   139 HKQVCEIIESPLFLKLNPMTKHTDLPVSVFESVIDIINGEATMLFAELTYTLATEEAERI 198

Query:   197 GVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILR 256
             GVDHVARM+   SGE+S VAEHL AQ++AIKMLH R+K++L+Y+K  E+G +P NH+ILR
Sbjct:   199 GVDHVARMTATGSGENSTVAEHLIAQHSAIKMLHSRVKLILEYVKASEAGEVPFNHEILR 258

Query:   257 ELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQML 316
             E  AL H LPVL    FKTDFY QCNDV L+ YLGTITK CN +NQFVNKFNVL+D+Q +
Sbjct:   259 EAYALCHCLPVLSTDKFKTDFYDQCNDVGLMAYLGTITKTCNTMNQFVNKFNVLYDRQGI 318

Query:   317 GRKLRGILY 325
             GR++RG+ +
Sbjct:   319 GRRMRGLFF 327

GO:0019048 "virus-host interaction" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0008180 "signalosome" evidence=IDA

GO:0010388 "cullin deneddylation" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

UNIPROTKB|A7TX81 COPS6 "COP9 signalosome complex subunit 6" [Sus scrofa (taxid:9823)]

 Score = 1048 (374.0 bits), Expect = 6.5e-106, P = 6.5e-106
 Identities = 197/309 (63%), Positives = 251/309 (81%)

Query:    17 MDVDDTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVG 76
             M+VD      SVMA GVTGS+ V+LHPLVI+NIS+H+ R R+QEG+P+QVIGALIG Q G
Sbjct:    16 MEVDAAVV-PSVMASGVTGSVSVALHPLVILNISDHWIRMRSQEGRPMQVIGALIGKQEG 74

Query:    77 RKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKV 136
             R +E+ NSFEL+ + +E+++II+++YY  KEEQFKQVF +L+FLGWYTTG   +  DI V
Sbjct:    75 RNIEVMNSFELLSHTVEEKIIIDKEYYYTKEEQFKQVFKELEFLGWYTTGGPPDPSDIHV 134

Query:   137 HKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERM 196
             HKQ+CEI ESP+FLKLNP   H++LPVSV+ES+ID++ GEATMLF EL YT+ TEEAER+
Sbjct:   135 HKQVCEIIESPLFLKLNPMTKHTDLPVSVFESVIDIINGEATMLFAELTYTLATEEAERI 194

Query:   197 GVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILR 256
             GVDHVARM+   SGE+S VAEHL AQ++AIKMLH R+K++L+Y+K  E+G +P NH+ILR
Sbjct:   195 GVDHVARMTATGSGENSTVAEHLIAQHSAIKMLHSRVKLILEYVKASEAGEVPFNHEILR 254

Query:   257 ELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQML 316
             E  AL H LPVL    FKTDFY QCNDV L+ YLGTITK CN +NQFVNKFNVL+D+Q +
Sbjct:   255 EAYALCHCLPVLSTDKFKTDFYDQCNDVGLMAYLGTITKTCNTMNQFVNKFNVLYDRQGI 314

Query:   317 GRKLRGILY 325
             GR++RG+ +
Sbjct:   315 GRRMRGLFF 323

GO:0005737 "cytoplasm" evidence=IEA

GO:0008180 "signalosome" evidence=IEA

RGD|1309919 Cops6 "COP9 signalosome subunit 6" [Rattus norvegicus (taxid:10116)]

 Score = 1047 (373.6 bits), Expect = 8.3e-106, P = 8.3e-106
 Identities = 198/309 (64%), Positives = 251/309 (81%)

Query:    17 MDVDDTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVG 76
             M+VD   A  SVMA GVTGS+ V+LHPLVI+NIS+H+ R R+QEG+P+QVIGALIG Q G
Sbjct:    38 MEVD--AAVPSVMASGVTGSVSVALHPLVILNISDHWIRMRSQEGRPMQVIGALIGKQEG 95

Query:    77 RKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKV 136
             R +E+ NSFEL+ + +E ++II+++YY  KEEQFKQVF +L+FLGWYTTG   +  DI V
Sbjct:    96 RNIEVMNSFELLSHTVEKKIIIDKEYYYTKEEQFKQVFKELEFLGWYTTGGPPDPSDIHV 155

Query:   137 HKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERM 196
             HKQ+CEI ESP+FLKLNP   H++LPVSV+ES+ID++ GEATMLF EL YT+ TEEAER+
Sbjct:   156 HKQVCEIIESPLFLKLNPMTKHTDLPVSVFESVIDIINGEATMLFAELTYTLATEEAERI 215

Query:   197 GVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILR 256
             GVDHVARM+   SGE+S VAEHL AQ++AIKMLH R+K++L+Y+K  E+G +P NH+ILR
Sbjct:   216 GVDHVARMTATGSGENSTVAEHLIAQHSAIKMLHSRVKLILEYVKASEAGEVPFNHEILR 275

Query:   257 ELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQML 316
             E  AL H LPVL    FKTDFY QCNDV L+ YLGTITK CN +NQFVNKFNVL+D+Q +
Sbjct:   276 EAYALCHCLPVLSTDKFKTDFYDQCNDVGLMAYLGTITKTCNTMNQFVNKFNVLYDRQGI 335

Query:   317 GRKLRGILY 325
             GR++RG+ +
Sbjct:   336 GRRMRGLFF 344

GO:0005634 "nucleus" evidence=ISO

GO:0008180 "signalosome" evidence=IEA;ISO

GO:0010388 "cullin deneddylation" evidence=IEA;ISO

GO:0005730 "nucleolus" evidence=ISO

FB|FBgn0028837 CSN6 "COP9 complex homolog subunit 6" [Drosophila melanogaster (taxid:7227)]

 Score = 1001 (357.4 bits), Expect = 6.2e-101, P = 6.2e-101
 Identities = 191/309 (61%), Positives = 242/309 (78%)

Query:    18 DVDDTPAGKSVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGR 77
             D +  P G  + A G +GS+ +SLHPLVIMNISEH+TR RAQ G+P QV GALIG Q GR
Sbjct:    33 DQNPQPQGNIMAAAGTSGSVTISLHPLVIMNISEHWTRFRAQHGEPRQVYGALIGKQKGR 92

Query:    78 KLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVH 137
              +EI NSFEL  ++I DE +IN+DYY  KE+Q+KQVF DLDF+GWYTTGD     DIK+ 
Sbjct:    93 NIEIMNSFELKTDVIGDETVINKDYYNKKEQQYKQVFSDLDFIGWYTTGDNPTADDIKIQ 152

Query:   138 KQICEINESPIFLKLNPHPIH-SNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERM 196
             +QI  INE PI L+LNP      +LP+ ++ES+IDLV GEATMLF+ L YT+ TEEAER+
Sbjct:   153 RQIAAINECPIMLQLNPLSRSVDHLPLKLFESLIDLVDGEATMLFVPLTYTLATEEAERI 212

Query:   197 GVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILR 256
             GVDHVARM++N+SGE S+VAEHL AQ +AIKML+ RIKI+L Y+++VE+G L  N +ILR
Sbjct:   213 GVDHVARMTSNESGEKSVVAEHLVAQDSAIKMLNTRIKIVLQYIRDVEAGKLRANQEILR 272

Query:   257 ELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQML 316
             E  AL HRLPV+  PAF+ +FYTQCNDV LI+YLGT+TKGCND++ FVNKFN+L+D+Q  
Sbjct:   273 EAYALCHRLPVMQVPAFQEEFYTQCNDVGLISYLGTLTKGCNDMHHFVNKFNMLYDRQGS 332

Query:   317 GRKLRGILY 325
              R++RG+ Y
Sbjct:   333 ARRMRGLYY 341

GO:0008180 "signalosome" evidence=ISS

GO:0050821 "protein stabilization" evidence=IMP

GO:0007095 "mitotic G2 DNA damage checkpoint" evidence=IGI

GO:0046331 "lateral inhibition" evidence=IMP

DICTYBASE|DDB_G0293180 csn6 "Mov34/MPN/PAD-1 family protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 605 (218.0 bits), Expect = 5.7e-59, P = 5.7e-59
 Identities = 126/297 (42%), Positives = 192/297 (64%)

Query:    22 TPAGKSVMAKGVTGS-IHVSLHPLVIMNISEHYTRRRAQEGKP--VQVIGALIGIQVGRK 78
             T A K V+ K    S + V LHPLV++NIS+H+TR + Q       +VIG ++G+Q GR 
Sbjct:    10 TDANKLVLEKSANSSGLEVDLHPLVLINISDHFTRTKVQSNYQDNCRVIGVILGVQNGRN 69

Query:    79 LEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHK 138
             +EI NSFE+VY  ++ +++++ +Y   K EQ   ++   D LGWY+TG  V++ DI +HK
Sbjct:    70 VEICNSFEMVYATVDKQLVLDIEYLRKKYEQLFPLY---DLLGWYSTGSQVSKDDILLHK 126

Query:   139 QICEINESPIFLKLNPH-PIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERMG 197
             QI E NESP++L L+   P   +LPV +YES + +V  E T +F++ PY I T EAER+G
Sbjct:   127 QISEHNESPLYLMLDTDSPKSKDLPVIIYESELHIVNDEPTTIFVKTPYKIQTGEAERIG 186

Query:   198 VDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRE 257
             V+H+A+++ + S E S +  HL   +NAI ML++R+K L DYL+ V+   LP   +ILR+
Sbjct:   187 VNHIAKVTPSGS-EGSGLTSHLFTMHNAISMLNIRVKALSDYLQAVKEKRLPYEQNILRK 245

Query:   258 LNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQ 314
              ++L ++LP +D   FK  +  + NDV L+TYL +ITK    LN  ++K+ V  +KQ
Sbjct:   246 ASSLCNQLPTIDTHDFKKSYLQEYNDVLLVTYLASITKTSASLNDTIDKYLVSNEKQ 302

GO:0045335 "phagocytic vesicle" evidence=IEA;IDA

GO:0008180 "signalosome" evidence=IEA;ISS;IPI

GO:0005515 "protein binding" evidence=IPI

GO:0031410 "cytoplasmic vesicle" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

---

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)
Q7L5N1	CSN6_HUMAN	No assigned EC number	0.6357	0.9570	0.9541	yes	N/A
Q54C92	CSN6_DICDI	No assigned EC number	0.4180	0.8926	0.9417	yes	N/A
A7TX81	CSN6_PIG	No assigned EC number	0.6325	0.9570	0.9659	yes	N/A
Q6FMD8	RPN8_CANGA	No assigned EC number	0.2532	0.8343	0.8267	yes	N/A
Q8W206	CSN6A_ARATH	No assigned EC number	0.3831	0.8680	0.8927	yes	N/A
Q07G98	CSN6_XENTR	No assigned EC number	0.6393	0.9355	0.9561	yes	N/A
O88545	CSN6_MOUSE	No assigned EC number	0.6407	0.9417	0.9475	yes	N/A
Q9VCY3	CSN6_DROME	No assigned EC number	0.6181	0.9447	0.9032	yes	N/A
Q5REY0	CSN6_PONAB	No assigned EC number	0.6357	0.9570	0.9512	yes	N/A
Q6NUC2	CSN6_XENLA	No assigned EC number	0.6257	0.9723	0.9968	N/A	N/A
A6QQ21	CSN6_BOVIN	No assigned EC number	0.6426	0.9355	0.9413	yes	N/A

EC Number Prediction by EFICAz Software

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	326
cd08063	288	cd08063, MPN_CSN6, Mpr1p, Pad1p N-terminal (MPN) d	1e-146
cd08062	280	cd08062, MPN_RPN7_8, Mpr1p, Pad1p N-terminal (MPN)	3e-37
cd08064	265	cd08064, MPN_eIF3f, Mpr1p, Pad1p N-terminal (MPN)	7e-34
pfam13012	115	pfam13012, MitMem_reg, Maintenance of mitochondria	1e-33
cd08057	157	cd08057, MPN_euk_non_mb, Mpr1p, Pad1p N-terminal (	2e-33
PLN03246	303	PLN03246, PLN03246, 26S proteasome regulatory subu	2e-29
smart00232	135	smart00232, JAB_MPN, JAB/MPN domain	6e-16
pfam01398	117	pfam01398, JAB, JAB1/Mov34/MPN/PAD-1 ubiquitin pro	3e-14
cd08065	266	cd08065, MPN_eIF3h, Mpr1p, Pad1p N-terminal (MPN)	3e-06

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

 Score =  413 bits (1064), Expect = e-146
 Identities = 158/288 (54%), Positives = 214/288 (74%), Gaps = 5/288 (1%)

Query: 37  IHVSLHPLVIMNISEHYTRRRAQEGK-PVQVIGALIGIQVGRKLEIKNSFELVYNIIED- 94
           + V LHPLVI+NIS+H TR RAQ    P +V+GAL+G Q GR++EI+NSFEL Y+  ED 
Sbjct: 1   LSVKLHPLVILNISDHITRHRAQSQSEPPRVVGALLGQQDGREIEIENSFELKYDTNEDG 60

Query: 95  EMIINRDYYTLKEEQFKQVFCDLDFLGWYTTG-DTVNELDIKVHKQICEINESPIFLKLN 153
           E+++++++   + EQFKQVF DLDF+GWYTTG     E D+ +HKQI EINESP+ L L+
Sbjct: 61  EIVLDKEFLETRLEQFKQVFKDLDFVGWYTTGPGGPTESDLPIHKQILEINESPVLLLLD 120

Query: 154 PHPIHS--NLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERMGVDHVARMSNNDSGE 211
           P    S  +LPV++YES+++LV GEAT+ F ELPYTI T EAER+GVDHVAR   + S E
Sbjct: 121 PEANASGKDLPVTIYESVLELVDGEATLRFRELPYTIETGEAERIGVDHVARGGASGSSE 180

Query: 212 SSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVLDNP 271
            S VA HL AQ+NAIKML+ R++++L+YLK V  G +P +H ILR ++AL  RLPVL + 
Sbjct: 181 KSTVAAHLQAQHNAIKMLNSRVELILEYLKAVPVGEVPPDHSILRSISALCSRLPVLKSE 240

Query: 272 AFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQMLGRK 319
           AF+ +   + NDV L+ YL T+TKGCN LN+ V+KFNV++D++  GR+
Sbjct: 241 AFREELLAEYNDVLLVAYLATLTKGCNTLNELVDKFNVVYDRKGSGRR 288

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

 Score =  133 bits (338), Expect = 3e-37
 Identities = 76/265 (28%), Positives = 133/265 (50%), Gaps = 13/265 (4%)

Query: 38  HVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMI 97
            V +HPLV++++ +HY R      K  +V+G L+G      L++ NSF + +   EDE  
Sbjct: 2   KVVVHPLVLLSVVDHYNRVAKGTSK--RVVGVLLGSWKKGVLDVTNSFAVPFE--EDEKD 57

Query: 98  IN-----RDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKL 152
            +      +Y       FK+V      +GWY+TG  +   D+ +++       +P+ + +
Sbjct: 58  PSVWFLDHNYLENMYGMFKKVNAKEKIVGWYSTGPKLRPNDLDINELFRRYCPNPVLVII 117

Query: 153 NPHPIHSNLPVSVYESI--IDLVGGEATMLFIELPYTIITEEAERMGVDHVARMSNNDSG 210
           +  P    LP   Y ++  +   G   +  F+ +P  I  EEAE +GV+H+ R    D  
Sbjct: 118 DVRPKDLGLPTEAYIAVEEVHDDGTPTSKTFVHVPSEIGAEEAEEVGVEHLLR-DIKDVT 176

Query: 211 ESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVLDN 270
            S+L +  +T + N++K L  ++K + DYL+ V  G LP+NH I+  L  + + LP L+ 
Sbjct: 177 VSTL-STRVTNKLNSLKGLQSKLKEIKDYLQLVVEGKLPINHQIIYNLQDIFNLLPNLNL 235

Query: 271 PAFKTDFYTQCNDVALITYLGTITK 295
           P     F  + ND  L+ YL ++ +
Sbjct: 236 PELVKAFAVKTNDQMLVIYLSSLIR 260

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

 Score =  125 bits (315), Expect = 7e-34
 Identities = 69/271 (25%), Positives = 128/271 (47%), Gaps = 29/271 (10%)

Query: 39  VSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMII 98
           V +HP+V+ +I + Y RR   EG+  +VIG L+G +   ++EI N F + +N  ED++ +
Sbjct: 1   VRVHPVVLFSILDSYERR--NEGQE-RVIGTLLGTRSEGEVEITNCFAVPHNESEDQVAV 57

Query: 99  NRDY----YTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLNP 154
           + +Y    Y L     ++V      +GWY TG  + E    +H        S        
Sbjct: 58  DMEYHRTMYELH----QKVNPKEVIVGWYATGSEITEHSALIHDYYSRECTSY------- 106

Query: 155 HPIH---------SNLPVSVYESI-IDLVGGEATMLFIELPYTIITEEAERMGVDHVARM 204
           +PIH           + +  Y S  + + G     +F+ +P  ++  EAER+ +D +A+ 
Sbjct: 107 NPIHLTVDTSLDDGKMSIKAYVSSPLGVPGKTLGSMFVPIPLELLYSEAERVALDLLAK- 165

Query: 205 SNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHR 264
           +      S+ +   L     +++ L   +  +L Y+++V +G +  ++ I R L      
Sbjct: 166 TLASPSRSAPLTSDLEQLEASLEKLQEMLDRVLRYVEDVLAGKVKADNAIGRYLMDALTS 225

Query: 265 LPVLDNPAFKTDFYTQCNDVALITYLGTITK 295
           +P LD   F+  F +   D+ ++TYL  +TK
Sbjct: 226 VPKLDPEEFEKMFNSSLQDLLMVTYLSNLTK 256

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|205193 pfam13012, MitMem_reg, Maintenance of mitochondrial structure and function

 Score =  119 bits (301), Expect = 1e-33
 Identities = 42/117 (35%), Positives = 69/117 (58%), Gaps = 2/117 (1%)

Query: 191 EEAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPV 250
           +EAE++GV+H+ R  N      S ++  L  +  A+K LH R+  +  YL++V  G LP 
Sbjct: 1   QEAEQIGVEHLLRGLNRHY--YSTLSRKLELEQKALKNLHKRLWTIGLYLEDVIDGKLPP 58

Query: 251 NHDILRELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKF 307
           NH+ILR+L +L + LP  DN  F+ +F  + ND  L+ YLG + +  + L++ +N  
Sbjct: 59  NHEILRKLQSLLNLLPNYDNKEFEEEFNVETNDQLLVVYLGKLDRKQHALHELINNN 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|163688 cd08057, MPN_euk_non_mb, Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity (non metal-binding); eukaryotic

 Score =  120 bits (303), Expect = 2e-33
 Identities = 56/166 (33%), Positives = 88/166 (53%), Gaps = 16/166 (9%)

Query: 39  VSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMII 98
           V LHPLV++NIS+HYTRR+    +   VIG L+G   G K+E+ NSFEL ++  E+ + I
Sbjct: 1   VQLHPLVLLNISDHYTRRKYGIKR---VIGVLLGYVDGDKIEVTNSFELPFDEEEESIFI 57

Query: 99  NRDYYTLKEEQFKQVFCDLDFLGWYTTG----DTVNELDIKVHKQICEINE-SPIFLKLN 153
           + +Y   +    K+V+     +GWY+ G    + +++ D  +H Q   I+E +P+ L L+
Sbjct: 58  DTEYLEKRYNLHKKVYPQEKIVGWYSIGSNNSNEISKSDNSLHSQFSLISEENPLILILD 117

Query: 154 PHPI--HSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAERMG 197
           P        L +S + S              E+ Y I TEE ER+ 
Sbjct: 118 PSLQSDSEKLEISTFTSAQRE------ENGAEITYEIGTEETERIA 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|215645 PLN03246, PLN03246, 26S proteasome regulatory subunit; Provisional

 Score =  114 bits (286), Expect = 2e-29
 Identities = 74/275 (26%), Positives = 141/275 (51%), Gaps = 14/275 (5%)

Query: 39  VSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDE--- 95
           V +HPLV+++I +HY   R  +    +V+G L+G     ++++ NSF + +   ED+   
Sbjct: 8   VVVHPLVLLSIVDHY--NRVAKDTRKRVVGVLLGSSFRGRVDVTNSFAVPFE--EDDKDP 63

Query: 96  --MIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLN 153
               ++ +Y       FK++      +GWY+TG  + E D+ +H+   +   +P+ + ++
Sbjct: 64  SIWFLDHNYLESMFGMFKRINAKEHVVGWYSTGPKLRENDLDIHELFNDYVPNPVLVIID 123

Query: 154 PHPIHSNLPVSVYESIIDL---VGGEATMLFIELPYTIITEEAERMGVDHVARMSNNDSG 210
             P    +P   Y ++ ++      ++  +F+ +P  I   EAE +GV+H+ R    D+ 
Sbjct: 124 VQPKELGIPTKAYYAVEEVKENATQKSQKVFVHVPSEIGAHEAEEIGVEHLLR-DVKDTT 182

Query: 211 ESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVLDN 270
            S+L  E +T +  A+K L  R++ +  YL  V  G LP+NH+IL  L  + + LP L+ 
Sbjct: 183 VSTLATE-VTGKLTALKGLDARLREIRSYLDLVVEGKLPLNHEILYHLQDVFNLLPNLNV 241

Query: 271 PAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVN 305
                 F  + ND+ L+ YL ++ +    L+  +N
Sbjct: 242 EELVKAFAVKTNDMMLVIYLSSLIRSVIALHNLIN 276

Length = 303

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

 Score = 73.2 bits (180), Expect = 6e-16
 Identities = 35/138 (25%), Positives = 60/138 (43%), Gaps = 11/138 (7%)

Query: 38  HVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMI 97
            V +HPLV +NI +H  R       P +V G L+G     + E+K  F +     +D + 
Sbjct: 1   EVKVHPLVPLNILKHAIRDG-----PEEVCGVLLGKSNKDRPEVKEVFAVPNEPQDDSVQ 55

Query: 98  INR-DYYTLKEEQFKQVFCDLDFLGWYTTG----DTVNELDIKVHKQICEINESPIFLKL 152
               DY  L +E+ K+V  DL+ +GWY +        +E+D+  H+         + L +
Sbjct: 56  EYDEDYSHLMDEELKKVNKDLEIVGWYHSHPDESPFPSEVDVATHESYQAPWPISVVLIV 115

Query: 153 NPHP-IHSNLPVSVYESI 169
           +P       L +  +   
Sbjct: 116 DPIKSFQGRLSLRAFRLT 133

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

 Score = 67.8 bits (166), Expect = 3e-14
 Identities = 29/117 (24%), Positives = 53/117 (45%), Gaps = 11/117 (9%)

Query: 38  HVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRK-LEIKNSFELVYNIIEDEM 96
            V +HPLV++ I +H  R         +V+G L+G   G + +E+ NSF L  +  ED++
Sbjct: 4   TVVIHPLVLLKIVDHARRGGKSG---EEVMGVLLGTLEGDRVIEVTNSFALPQSETEDDV 60

Query: 97  IIN---RDYYTLKEEQFKQVFCDLDFLGWYTTGDT----VNELDIKVHKQICEINES 146
                  +Y     E  K+V  D + +GWY +       ++ +D+   +    +   
Sbjct: 61  EAVELDHEYMEKMLEMLKKVNRDEEVVGWYHSHPGYGCWLSSVDVHTQELYQRMIPE 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|163696 cd08065, MPN_eIF3h, Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF2h

 Score = 47.6 bits (114), Expect = 3e-06
 Identities = 26/91 (28%), Positives = 43/91 (47%), Gaps = 8/91 (8%)

Query: 38  HVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMI 97
            V +  LV++ I +H      +E  P  V G L+G+ VG  LE+ N F    +  +D   
Sbjct: 2   SVQIDGLVVLKIIKHC-----KEELPELVQGQLLGLDVGGTLEVTNCFPFPKSEEDDSDR 56

Query: 98  INRDY--YTLKE-EQFKQVFCDLDFLGWYTT 125
            + D   Y L+     ++V  D + +GWY +
Sbjct: 57  ADEDIADYQLEMMRLLREVNVDHNHVGWYQS 87

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, differentiation, and apoptosis, and EIF3h in patients with non-small cell lung cancer (NSCLC) improves survival if treated with the Epidermal Growth Factor Receptor Tyrosine Kinase Inhibitor (EGFR-TKI), Gefitinib. Plant eIF3h is implicated in translation of specific mRNAs. Length = 266

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	326
KOG3050|consensus	299		100.0
cd08063	288	MPN_CSN6 Mpr1p, Pad1p N-terminal (MPN) domains wit	100.0
PLN03246	303	26S proteasome regulatory subunit; Provisional	100.0
cd08062	280	MPN_RPN7_8 Mpr1p, Pad1p N-terminal (MPN) domains w	100.0
KOG2975|consensus	288		100.0
cd08064	265	MPN_eIF3f Mpr1p, Pad1p N-terminal (MPN) domains wi	100.0
KOG1556|consensus	309		100.0
cd08057	157	MPN_euk_non_mb Mpr1p, Pad1p N-terminal (MPN) domai	100.0
cd08065	266	MPN_eIF3h Mpr1p, Pad1p N-terminal (MPN) domains wi	99.98
cd08069	268	MPN_RPN11_CSN5 Mov34/MPN/PAD-1 family: proteasomal	99.94
PF01398	114	JAB: JAB1/Mov34/MPN/PAD-1 ubiquitin protease; Inte	99.94
smart00232	135	JAB_MPN JAB/MPN domain. Domain in Jun kinase activ	99.87
PF13012	115	MitMem_reg: Maintenance of mitochondrial structure	99.87
KOG1560|consensus	339		99.83
cd07767	116	MPN Mpr1p, Pad1p N-terminal (MPN) domains. MPN (al	99.62
KOG1554|consensus	347		99.56
cd08067	187	MPN_2A_DUB Mov34/MPN/PAD-1 family: Histone H2A deu	99.49
cd08058	119	MPN_euk_mb Mpr1p, Pad1p N-terminal (MPN) domains w	99.46
cd08068	244	MPN_BRCC36 Mov34/MPN/PAD-1 family: BRCC36, a subun	99.16
cd08066	173	MPN_AMSH_like Mov34/MPN/PAD-1 family. AMSH (associ	98.71
KOG1555|consensus	316		98.47
cd08060	182	MPN_UPF0172 Mov34/MPN/PAD-1 family: UPF0172 family	98.41
PF03665	196	UPF0172: Uncharacterised protein family (UPF0172);	98.27
cd08070	128	MPN_like Mpr1p, Pad1p N-terminal (MPN) domains wit	98.21
COG1310	134	Predicted metal-dependent protease of the PAD1/JAB	98.0
KOG3289|consensus	199		97.11
TIGR02256	131	ICE_VC0181 integrative and conjugative element pro	96.11
PF14464	104	Prok-JAB: Prokaryotic homologs of the JAB domain;	95.59
cd08072	117	MPN_archaeal Mov34/MPN/PAD-1 family: archaeal JAB1	95.34
cd08056	252	MPN_PRP8 Mpr1p, Pad1p N-terminal (MPN) domains wit	94.73
cd08073	108	MPN_NLPC_P60 Mpr1p, Pad1p N-terminal (MPN) domains	90.0
cd08061	274	MPN_NPL4 Mov34/MPN/PAD-1 family: nuclear protein l	82.76
cd08059	101	MPN_prok_mb Mpr1p, Pad1p N-terminal (MPN) domains	82.2

>KOG3050|consensus

Probab=100.00  E-value=2.7e-73  Score=504.04  Aligned_cols=295  Identities=59%  Similarity=0.946  Sum_probs=280.5

Q ss_pred             cCCCCceEEEEehhhHhhHHHHHhHhcccCCCCc-eEEEEEeeEEeCCEEEEEEEEeecccccccchhhhHHHHHHHHHH
Q psy401           31 KGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPV-QVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQ  109 (326)
Q Consensus        31 s~~~~~~~V~IHPlVll~I~dH~~R~~~~~~~~~-~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l  109 (326)
                      .+++++.+|.+|||||+||+|||+|.+.|.|.+- +|+|+|+|.|.|+.|||.|||++..+..++...+|.+|+.++.+|
T Consensus         3 ps~S~s~tv~LHPLVImniSdH~tR~k~Q~gpp~~~VyGaliG~Q~GR~vEi~NSFeL~~d~~~~~~~~dke~l~kk~eq   82 (299)
T KOG3050|consen    3 PSSSGSVTVKLHPLVIMNISDHYTRVKTQLGPPVKQVYGALIGKQRGRNVEIMNSFELKMDTEEDTETIDKEYLEKKEEQ   82 (299)
T ss_pred             CCCCCceeEEeccEEEEehhHHHHHHHhhcCCcHHHhhhhheecccCceEEEeeeeEEEecchhhhhhccHHHHHHHHHH
Confidence            3448889999999999999999999988876554 899999999999999999999999987776678999999999999


Q ss_pred             HHHhCCCCceeEEEecCCCCChhhHHHHHHHHhhCCCceEEEEcCCCCCC-CCCeeeeeeeeeccCCcccceeEEeeEEE
Q psy401          110 FKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLNPHPIHS-NLPVSVYESIIDLVGGEATMLFIELPYTI  188 (326)
Q Consensus       110 ~k~V~p~~~iVGWY~tg~~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~-~lpi~ay~~~~~~~~~~~~~~f~~i~~~i  188 (326)
                      ||+|||++.++|||++|+.+++.|+.||++++..+++|++|.++|..... +.|+.+|++..++.+|.....|+|+.|++
T Consensus        83 ykqVFpdl~vlGwYttG~d~t~sd~~i~k~l~~i~esplflkLNp~t~~t~~~pv~lfese~dvidg~~q~~f~~~tytl  162 (299)
T KOG3050|consen   83 YKQVFPDLYVLGWYTTGSDPTPSDIHIHKQLMDINESPLFLKLNPATNHTDKDPVTLFESEIDVIDGEAQMLFVPLTYTL  162 (299)
T ss_pred             HHHhcccceEEEEeecCCCCChhhhHHHHHHHhhhcCceEEEecchhccccCCCceeeeeeheeecCcceeeeeeeEEEE
Confidence            99999999999999999999999999999999999999999999987754 46999999999999999999999999999


Q ss_pred             ecChHHHHHHHHHhhccCCCCCCchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhcCCCC
Q psy401          189 ITEEAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVL  268 (326)
Q Consensus       189 ~~~eaErI~vd~l~~~~~~~~~~~~~l~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~d~~ilR~i~~lv~~lP~~  268 (326)
                      .++|||||||||+++....++++.+.+.+|+..+.+|++||..|++.|++||++|.+|++++|.+|||+...+|..||.+
T Consensus       163 ~teEaERIgVdHVA~lt~~~gge~s~VaeHl~AQdsA~~ml~~Rvklil~Y~k~~e~G~l~~N~eILrea~~L~~~Lp~~  242 (299)
T KOG3050|consen  163 ATEEAERIGVDHVARLTPSDGGEGSSVAEHLEAQDSAIKMLDNRVKLILAYLKKVEAGTLQPNFEILREAYALCHRLPVM  242 (299)
T ss_pred             eehhhhhccchhheeeccCCCCCcchHHHHHhhHHHHHHHHhhHHHHHHHHHhhhhcCCcCccHHHHHHHHHHHhhcccc
Confidence            99999999999999998887777788899999999999999999999999999999999999999999999999999999


Q ss_pred             ChhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhccccccccccCccC
Q psy401          269 DNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQMLGRKLRGILY  325 (326)
Q Consensus       269 ~~~~f~~~~~~~~~D~lmv~yLa~ltk~~~~l~~~~~k~~~~~~~~~~~~~~~~~~~  325 (326)
                      +.+.|.+.|..++||+.+++||+.+|++++.||++++||++.++|+|++|||||.|+
T Consensus       243 ~~~~F~d~F~~e~nd~~l~syl~~iT~~~~nMn~~vnKfn~~ydr~gt~R~~r~~~f  299 (299)
T KOG3050|consen  243 ESEKFQDNFYMECNDVGLISYLGTITKCCNNMNEVVNKFNTLYDRQGTRRRMRGLFF  299 (299)
T ss_pred             chHHHhHHHHHhcchhhHHHHHHHHHHhhccHHHHHHHHHHHHHhhhhhccccccCC
Confidence            999999999999999999999999999999999999999999999999999999985

>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=5.2e-72  Score=527.07  Aligned_cols=283  Identities=55%  Similarity=0.919  Sum_probs=262.2

Q ss_pred             eEEEEehhhHhhHHHHHhHhcccCC-CCceEEEEEeeEEeCCEEEEEEEEeecccccc-cchhhhHHHHHHHHHHHHHhC
Q psy401           37 IHVSLHPLVIMNISEHYTRRRAQEG-KPVQVIGALIGIQVGRKLEIKNSFELVYNIIE-DEMIINRDYYTLKEEQFKQVF  114 (326)
Q Consensus        37 ~~V~IHPlVll~I~dH~~R~~~~~~-~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~-~~~~iD~~y~~~m~~l~k~V~  114 (326)
                      ++|.|||+|||+|+|||+|++.+.. .+.+|+|+|||+++|++|||+|||++|+++++ +.+.+|.+|+++|+++||+||
T Consensus         1 ~~V~lHPlVll~I~dH~~R~~~~~~~~~~~v~G~LLG~~~~~~veItnsF~~p~~~~~~~~~~id~~y~~~m~~~~kkV~   80 (288)
T cd08063           1 LSVKLHPLVILNISDHITRHRAQSQSEPPRVVGALLGQQDGREIEIENSFELKYDTNEDGEIVLDKEFLETRLEQFKQVF   80 (288)
T ss_pred             CeEEEecceeeeHHhhHhHHhccCCCCCCcEEEEEEEEEcCCEEEEEEEEecccccCCCCceeeCHHHHHHHHHHHHHhc
Confidence            3699999999999999999876432 25899999999999999999999999998876 779999999999999999999


Q ss_pred             CCCceeEEEecCCC-CChhhHHHHHHHHhhCCCceEEEEcCCC--CCCCCCeeeeeeeeeccCCcccceeEEeeEEEecC
Q psy401          115 CDLDFLGWYTTGDT-VNELDIKVHKQICEINESPIFLKLNPHP--IHSNLPVSVYESIIDLVGGEATMLFIELPYTIITE  191 (326)
Q Consensus       115 p~~~iVGWY~tg~~-~~~~d~~ih~~~~~~~~~pI~L~vD~~~--~~~~lpi~ay~~~~~~~~~~~~~~f~~i~~~i~~~  191 (326)
                      |++.+||||++|+. ++..|+.||++|++++++||+|++||..  ..+++|+++|++.....++.....|+|+||+|+++
T Consensus        81 ~~~~vVGWY~tg~~~~~~~~~~Ih~~~~~~~~~pv~L~~D~~~~~~~~~lpi~ay~s~~~~~~~~~~~~F~~i~~~i~~~  160 (288)
T cd08063          81 KDLDFVGWYTTGPGGPTESDLPIHKQILEINESPVLLLLDPEANASGKDLPVTIYESVLELVDGEATLRFRELPYTIETG  160 (288)
T ss_pred             cCCceEEEEecCCCCCCHHHHHHHHHHHhhCCCcEEEEEccccccCCCCCceeEEEEEEeccCCccccEEEeeeeEEEec
Confidence            99999999999998 9999999999999999999999999988  46789999999987766666778999999999999


Q ss_pred             hHHHHHHHHHhhccCCCCCCchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhcCCCCChh
Q psy401          192 EAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVLDNP  271 (326)
Q Consensus       192 eaErI~vd~l~~~~~~~~~~~~~l~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~d~~ilR~i~~lv~~lP~~~~~  271 (326)
                      ||||||++++++.....+.+.+.+..+++.+.+|+++|..||+.|++||++|.+|++++|++|||+|+++|+++|.++.+
T Consensus       161 eaErIgv~~l~~~~~~~~~~~~~~~~~l~~~~~al~~L~~rl~~i~~Yl~~V~~g~~~~d~~ilR~l~~~~~~lP~~~~~  240 (288)
T cd08063         161 EAERIGVDHVARGGASGSSEKSTVAAHLQAQHNAIKMLNSRVELILEYLKAVPVGEVPPDHSILRSISALCSRLPVLKSE  240 (288)
T ss_pred             cCceeeHHHHHhcCCCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHhCccCChH
Confidence            99999999999987544444566788999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccccccc
Q psy401          272 AFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQMLGRK  319 (326)
Q Consensus       272 ~f~~~~~~~~~D~lmv~yLa~ltk~~~~l~~~~~k~~~~~~~~~~~~~  319 (326)
                      +|+++|++++||++|++|||+|||++++|+++++||++++++.+.|||
T Consensus       241 ~~~~~~~~~~~D~lmv~yLs~lt~~~~~l~~~~~k~~~~~~~~~~~rr  288 (288)
T cd08063         241 AFREELLAEYNDVLLVAYLATLTKGCNTLNELVDKFNVVYDRKGSGRR  288 (288)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccccCCC
Confidence            999999999999999999999999999999999999999998666665

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

>PLN03246 26S proteasome regulatory subunit; Provisional

Probab=100.00  E-value=1.3e-69  Score=511.10  Aligned_cols=271  Identities=26%  Similarity=0.517  Sum_probs=249.6

Q ss_pred             CCceEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccc---hhhhHHHHHHHHHHH
Q psy401           34 TGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDE---MIINRDYYTLKEEQF  110 (326)
Q Consensus        34 ~~~~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~---~~iD~~y~~~m~~l~  110 (326)
                      ++..+|.|||+|||+|+|||+|+..+  .+.||+|+|||.+.|+.|||+|||++|+++++++   |++|.+|+++|+++|
T Consensus         3 ~~~~~V~vhPlVll~I~dh~~R~~~~--~~~rviG~LLG~~~~~~ieItnsF~~p~~e~~~~~~~~~~D~~y~~~m~~~~   80 (303)
T PLN03246          3 RGIEKVVVHPLVLLSIVDHYNRVAKD--TRKRVVGVLLGSSFRGRVDVTNSFAVPFEEDDKDPSIWFLDHNYLESMFGMF   80 (303)
T ss_pred             CCCcEEEECcHHHHHHHHHHHhccCC--CCCeeEEEEEeeecCCEEEEEeccccCcccCCCCccceeecHHHHHHHHHHH
Confidence            66788999999999999999998643  3589999999999999999999999999876554   889999999999999


Q ss_pred             HHhCCCCceeEEEecCCCCChhhHHHHHHHHhhCCCceEEEEcCCCCCCCCCeeeeeeeeeccC-Cc--ccceeEEeeEE
Q psy401          111 KQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVG-GE--ATMLFIELPYT  187 (326)
Q Consensus       111 k~V~p~~~iVGWY~tg~~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~lpi~ay~~~~~~~~-~~--~~~~f~~i~~~  187 (326)
                      |+|||++.+||||++|+.+++.|+.||++|++++++||||++|+...++++|+++|+++....+ +.  .+..|+++|++
T Consensus        81 k~V~~~~~vVGWY~tg~~i~~~d~~IH~~~~~~~~~Pv~L~vD~~~~~~~lpi~aY~s~~~~~~~~~~~~~~~F~~vp~~  160 (303)
T PLN03246         81 KRINAKEHVVGWYSTGPKLRENDLDIHELFNDYVPNPVLVIIDVQPKELGIPTKAYYAVEEVKENATQKSQKVFVHVPSE  160 (303)
T ss_pred             HHhCCCCcEEeeecCCCCCCcchHHHHHHHHhhCCCCeEEEEecCCCCCCCceEEEEEEEeccCCCCcccccEEEECCee
Confidence            9999999999999999999999999999999999999999999998888899999999865432 22  45789999999


Q ss_pred             EecChHHHHHHHHHhhccCCCCCCchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhcCCC
Q psy401          188 IITEEAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPV  267 (326)
Q Consensus       188 i~~~eaErI~vd~l~~~~~~~~~~~~~l~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~d~~ilR~i~~lv~~lP~  267 (326)
                      |+++|||||||+|++|....  .+.+.+..++..+.+|+++|..||+.|++||++|.+|+.++|++|||+|+++|+++|.
T Consensus       161 i~~~EaE~Igve~l~r~~~~--~~~s~l~~~l~~~~~al~~L~~rl~~i~~Yl~~V~~g~~~~d~~IlR~l~~l~~~lP~  238 (303)
T PLN03246        161 IGAHEAEEIGVEHLLRDVKD--TTVSTLATEVTGKLTALKGLDARLREIRSYLDLVVEGKLPLNHEILYHLQDVFNLLPN  238 (303)
T ss_pred             eeecCHHHHHHHHHHhcccC--CccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHhhCCC
Confidence            99999999999999997653  2345677899999999999999999999999999999999999999999999999999


Q ss_pred             CChhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy401          268 LDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFN  308 (326)
Q Consensus       268 ~~~~~f~~~~~~~~~D~lmv~yLa~ltk~~~~l~~~~~k~~  308 (326)
                      +++++|+++|++++||++|++|||+|||+|++|+++++...
T Consensus       239 l~~~~f~~~f~~~~nD~lmv~YLa~l~kt~~~l~e~l~~~~  279 (303)
T PLN03246        239 LNVEELVKAFAVKTNDMMLVIYLSSLIRSVIALHNLINNKI  279 (303)
T ss_pred             CCHHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence            99999999999999999999999999999999999998765

>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=1.4e-68  Score=500.46  Aligned_cols=267  Identities=27%  Similarity=0.517  Sum_probs=247.5

Q ss_pred             EEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccc---hhhhHHHHHHHHHHHHHhC
Q psy401           38 HVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDE---MIINRDYYTLKEEQFKQVF  114 (326)
Q Consensus        38 ~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~---~~iD~~y~~~m~~l~k~V~  114 (326)
                      +|.|||+|||+|+|||+|+..+  .+.||+|+|||++.++.|||+|||++|+++++++   |++|.+|+++|+++||+||
T Consensus         2 ~V~ihplVLl~I~dh~~R~~~~--~~~~ViG~LLG~~~~~~veItnsF~~p~~~~~~~~~~~~~d~~y~~~m~~~~kkv~   79 (280)
T cd08062           2 KVVVHPLVLLSVVDHYNRVAKG--TSKRVVGVLLGSWKKGVLDVTNSFAVPFEEDEKDPSVWFLDHNYLENMYGMFKKVN   79 (280)
T ss_pred             eEEEehHHHHHHHHHHhhhcCC--CCceEEEEEEEEEeCCEEEEEEeeecCccCCCCCcchhhhhHHHHHHHHHHHHHhC
Confidence            6899999999999999998652  4689999999999999999999999999886654   6899999999999999999


Q ss_pred             CCCceeEEEecCCCCChhhHHHHHHHHhhCCCceEEEEcCCCCCCCCCeeeeeeeeecc-CCc-ccceeEEeeEEEecCh
Q psy401          115 CDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLV-GGE-ATMLFIELPYTIITEE  192 (326)
Q Consensus       115 p~~~iVGWY~tg~~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~lpi~ay~~~~~~~-~~~-~~~~f~~i~~~i~~~e  192 (326)
                      |++.+||||++|+.+++.|+.||++|++++++||+|++||...++++|+++|++..... +|. ....|+|+|++|+++|
T Consensus        80 ~~e~vVGWY~tg~~~~~~d~~ih~~~~~~~~~pv~l~vd~~~~~~~lpi~aY~s~~~~~~~g~~~~~~F~~vp~~i~~~e  159 (280)
T cd08062          80 AKEKIVGWYSTGPKLRPNDLDINELFRRYCPNPVLVIIDVRPKDLGLPTEAYIAVEEVHDDGTPTSKTFVHVPSEIGAEE  159 (280)
T ss_pred             CCCCeEEEecCCCCCCcchHHHHHHHHHhCCCCEEEEEecCCCCCCCceEEEEEeeeccCCCCcceeEEEEcceEeeccc
Confidence            99999999999999999999999999999999999999999988889999999986544 555 6789999999999999


Q ss_pred             HHHHHHHHHhhccCCCCCCchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhcCCCCChhH
Q psy401          193 AERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVLDNPA  272 (326)
Q Consensus       193 aErI~vd~l~~~~~~~~~~~~~l~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~d~~ilR~i~~lv~~lP~~~~~~  272 (326)
                      ||||||++++|.....  ..+.+..++..+.+|+++|..||+.|++||++|.+|+.++|++|||.|+++|+++|.++.++
T Consensus       160 aE~igve~l~r~~~~~--~~~~l~~~l~~~~~al~~L~~~l~~i~~Yl~~V~~g~~~~d~~IlR~l~~~~~~lP~l~~~~  237 (280)
T cd08062         160 AEEVGVEHLLRDIKDV--TVSTLSTRVTNKLNSLKGLQSKLKEIKDYLQLVVEGKLPINHQIIYNLQDIFNLLPNLNLPE  237 (280)
T ss_pred             hHHHHHHHHHhhccCc--ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHhCCCCCHHH
Confidence            9999999999965432  34567779999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy401          273 FKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFN  308 (326)
Q Consensus       273 f~~~~~~~~~D~lmv~yLa~ltk~~~~l~~~~~k~~  308 (326)
                      |+++|++++||++|++|||+|+|+|++|+++++...
T Consensus       238 f~~~~~~~~nD~lmv~yLs~l~k~~~~l~~~~~~~~  273 (280)
T cd08062         238 LVKAFAVKTNDQMLVIYLSSLIRSVIALHNLINNKI  273 (280)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999997654

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.

>KOG2975|consensus

Probab=100.00  E-value=6e-69  Score=481.68  Aligned_cols=275  Identities=24%  Similarity=0.399  Sum_probs=256.0

Q ss_pred             cccccCCCCceEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccchhhhHHHHHHH
Q psy401           27 SVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLK  106 (326)
Q Consensus        27 ~~~~s~~~~~~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m  106 (326)
                      +..++..++.++|.|||+|+|+|+|||.||..+   ..||||+|||+.++|.|||+|||+|||+|.+|++.+|++|.+.|
T Consensus        11 ~~~~~~~ss~ltv~ihP~Vlf~ivD~~~RR~~~---~~rviGTLLG~~~~g~ieitNCFaVPhnEssdqvevdm~y~~~M   87 (288)
T KOG2975|consen   11 PALPSPFSSNLTVRLHPVVLFSIVDAYERRNKG---AERVIGTLLGTVDKGSVEVTNCFAVPHNESSDQVEVDMEYAKNM   87 (288)
T ss_pred             cCCCCCCCCCceEEEcceEEeEeehhhhcCCcc---chhhhhheeecccCCeEEEEEeeeccCccccccceeeHHHHHHH
Confidence            344466788899999999999999999999754   68999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCceeEEEecCCCCChhhHHHHHHHHhhCCCceEEEEcCCCCCCCCCeeeeeeee-eccCCcccceeEEee
Q psy401          107 EEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESII-DLVGGEATMLFIELP  185 (326)
Q Consensus       107 ~~l~k~V~p~~~iVGWY~tg~~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~lpi~ay~~~~-~~~~~~~~~~f~~i~  185 (326)
                      +++++|+||+|.+||||+||+.++.+...||++|.+.+++||||+||++.+++.+++++|.++. ++.++....+|.|+|
T Consensus        88 ~~l~~k~npnE~vvGWyaTg~dvt~~sslihdyYare~~~pvhLtVDT~~~n~rm~ikaYvss~~Gvpg~~~~~mF~plp  167 (288)
T KOG2975|consen   88 YELHKKVNPNELVVGWYATGHDVTEHSSLIHDYYAREAPNPVHLTVDTSLQNGRMSIKAYVSSLMGVPGRTMGVMFTPLP  167 (288)
T ss_pred             HHHhcccCCCceeEEEEecCCCcccchhHHHHHhhccCCCCeEEEEeccccCCccceeEEEEeccCCCCcccceeeeeee
Confidence            9999999999999999999999999999999999999999999999999999999999999874 555666778999999


Q ss_pred             EEEecChHHHHHHHHHhhccCCCCCCchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhcC
Q psy401          186 YTIITEEAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRL  265 (326)
Q Consensus       186 ~~i~~~eaErI~vd~l~~~~~~~~~~~~~l~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~d~~ilR~i~~lv~~l  265 (326)
                      +++.+.|+||+|++.|.+.+...+ ....+..+|+++..|...|+.+|+++++|+++|.+|+.++|..|||+|.++++++
T Consensus       168 vel~~~~~ervgl~li~kt~~sp~-r~~~l~~dLqQv~~at~~l~~~L~~Vl~YVedVl~gk~~pdn~VGR~Lmd~v~~v  246 (288)
T KOG2975|consen  168 VELAYYDAERVGLDLIEKTSFSPS-RVAGLSSDLQQVEGATARLQSLLERVLKYVEDVLAGKVKPDNAVGRFLMDLVTAV  246 (288)
T ss_pred             eEEeecchhhhHHHHHHHhccChh-hhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHhc
Confidence            999999999999999999885433 3345678899999999999999999999999999999999999999999999999


Q ss_pred             CCCChhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHH
Q psy401          266 PVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVN  305 (326)
Q Consensus       266 P~~~~~~f~~~~~~~~~D~lmv~yLa~ltk~~~~l~~~~~  305 (326)
                      |++.+++|+.+|+++++|.||+.|||++||||++|+|.+.
T Consensus       247 P~l~p~~Fe~mfn~nLrD~Lmv~yLa~ltqTQl~l~EKL~  286 (288)
T KOG2975|consen  247 PKLVPDDFETMFNSNLRDLLMVIYLANLTQTQLALNEKLV  286 (288)
T ss_pred             CCCCHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            9999999999999999999999999999999999999754

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

Probab=100.00  E-value=1.3e-66  Score=485.21  Aligned_cols=261  Identities=26%  Similarity=0.416  Sum_probs=242.4

Q ss_pred             EEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccchhhhHHHHHHHHHHHHHhCCCCc
Q psy401           39 VSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLD  118 (326)
Q Consensus        39 V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p~~~  118 (326)
                      |.|||+|||+|+|||+|++.+   +.+|+|+|||++.++.|||+|||++|++++++++.+|.+|+++|+++||+|||++.
T Consensus         1 v~ihPlVll~I~dH~~R~~~~---~~~V~G~LLG~~~~~~veItnsF~~p~~~~~~~~~~d~~y~~~m~~~~kkv~~~~~   77 (265)
T cd08064           1 VRVHPVVLFSILDSYERRNEG---QERVIGTLLGTRSEGEVEITNCFAVPHNESEDQVAVDMEYHRTMYELHQKVNPKEV   77 (265)
T ss_pred             CEEccHHHHhHHHHHhhhcCC---CcEEEEEEEEEEeCCEEEEEeCeecceeCCCCeEEEcHHHHHHHHHHHHHhCCCCc
Confidence            689999999999999998643   58999999999999999999999999998888899999999999999999999999


Q ss_pred             eeEEEecCCCCChhhHHHHHHHHhhCC--CceEEEEcCCCCCCCCCeeeeeeeeec-cCCcccceeEEeeEEEecChHHH
Q psy401          119 FLGWYTTGDTVNELDIKVHKQICEINE--SPIFLKLNPHPIHSNLPVSVYESIIDL-VGGEATMLFIELPYTIITEEAER  195 (326)
Q Consensus       119 iVGWY~tg~~~~~~d~~ih~~~~~~~~--~pI~L~vD~~~~~~~lpi~ay~~~~~~-~~~~~~~~f~~i~~~i~~~eaEr  195 (326)
                      +||||++|+.+++.+..||++|+++++  +||+|++||...++++|++||++.... .++.....|.++|++|.++|+||
T Consensus        78 vVGWY~tg~~~~~~~~~Ih~~~~~~~~~~~pI~L~~D~~~~~~~l~i~ay~~~~~~~~~~~~~~~F~~ip~~i~~~eaE~  157 (265)
T cd08064          78 IVGWYATGSEITEHSALIHDYYSRECTSYNPIHLTVDTSLDDGKMSIKAYVSSPLGVPGKTLGSMFVPIPLELLYSEAER  157 (265)
T ss_pred             EEeeeeCCCCCCccHHHHHHHHHhhCCCCCCEEEEEeCCCCCCCcceEEEEEEecccCCCCcceEEEEcceeeecCcHHH
Confidence            999999999999999999999999988  999999999988779999999987543 34456789999999999999999


Q ss_pred             HHHHHHhhccCCCCCCchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhcCCCCChhHHHH
Q psy401          196 MGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVLDNPAFKT  275 (326)
Q Consensus       196 I~vd~l~~~~~~~~~~~~~l~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~d~~ilR~i~~lv~~lP~~~~~~f~~  275 (326)
                      ||++++++.....+ ..+.+..+++.+.+|+++|..||+.|++||++|.+|+.++|++|||+|+++++++|.++.++|++
T Consensus       158 i~v~~l~~~~~~~~-~~~~~~~~l~~~~~al~~L~~~l~~i~~Yl~~V~~g~~~~d~~i~r~l~~~~~~lp~~~~~~f~~  236 (265)
T cd08064         158 VALDLLAKTLASPS-RSAPLTSDLEQLEASLEKLQEMLDRVLRYVEDVLAGKVKADNAIGRYLMDALTSVPKLDPEEFEK  236 (265)
T ss_pred             HHHHHHHhhccCCc-ccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhhCCCCCHHHHHH
Confidence            99999999876544 23345688999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhhhhHHHHHHHHHHHHHHHHHHHH
Q psy401          276 DFYTQCNDVALITYLGTITKGCNDLNQF  303 (326)
Q Consensus       276 ~~~~~~~D~lmv~yLa~ltk~~~~l~~~  303 (326)
                      +|++++||++|++|||+|||+|++|++.
T Consensus       237 ~~~~~~~D~lmv~YLs~l~k~~~~l~ek  264 (265)
T cd08064         237 MFNSSLQDLLMVTYLSNLTKTQLALAEK  264 (265)
T ss_pred             HHHhhcchHHHHHHHHHHHHHHHHHhhh
Confidence            9999999999999999999999999985

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

>KOG1556|consensus

Probab=100.00  E-value=1.5e-60  Score=423.32  Aligned_cols=270  Identities=26%  Similarity=0.505  Sum_probs=252.1

Q ss_pred             CCceEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccc---hhhhHHHHHHHHHHH
Q psy401           34 TGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDE---MIINRDYYTLKEEQF  110 (326)
Q Consensus        34 ~~~~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~---~~iD~~y~~~m~~l~  110 (326)
                      -...+|.+||||||++.|||.|....  .++||+|+|||..+++++.|+|||++||+|++++   |++|.+|++.|+++|
T Consensus         6 ~~~~kViVhPLVLLS~VDhynR~~k~--~~KRvvGvLLG~~~~~~i~vtnSfAvpFeEDdk~~svWFlDh~Y~esM~~mf   83 (309)
T KOG1556|consen    6 LTVEKVIVHPLVLLSAVDHYNRVGKD--TNKRVVGVLLGSWNGDVIDVTNSFAVPFEEDDKDKSVWFLDHNYIESMFGMF   83 (309)
T ss_pred             cccceeeeehhHHHHHHHHHhhhccC--cCceEEEEEEecCCCCeEEeecceeccccccCCCCceEEeccHHHHHHHHHH
Confidence            45678999999999999999997532  3599999999999999999999999999998876   999999999999999


Q ss_pred             HHhCCCCceeEEEecCCCCChhhHHHHHHHHhhCCCceEEEEcCCCCCCCCCeeeeeeeeeccC-C-cccceeEEeeEEE
Q psy401          111 KQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVG-G-EATMLFIELPYTI  188 (326)
Q Consensus       111 k~V~p~~~iVGWY~tg~~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~lpi~ay~~~~~~~~-~-~~~~~f~~i~~~i  188 (326)
                      +|||.++.+||||+||+.+.++|+.|++.+.+|+++|+++++|..+.+-+||..||..+.++.+ | ..+..|.++|++|
T Consensus        84 kKvNakekivGWYhTGPkl~~nDl~In~l~k~y~pnpvLvIIdvkpk~~gLPT~AY~aVeev~dDgt~t~ktF~Hvps~I  163 (309)
T KOG1556|consen   84 KKVNAKEKVVGWYHTGPKLRENDLDINELLKRYVPNPVLVIIDVKPKELGLPTEAYIAVEEVKDDGTPTSKTFVHVPSEI  163 (309)
T ss_pred             HHhcchhheeeeeccCCccccchhhHHHHHhhcCCCceEEEEecccccCCCCchheeeeeeeecCCCCccceeEecCccc
Confidence            9999999999999999999999999999999999999999999999988999999999877653 3 3567899999999


Q ss_pred             ecChHHHHHHHHHhhccCCCCCCchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhcCCCC
Q psy401          189 ITEEAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVL  268 (326)
Q Consensus       189 ~~~eaErI~vd~l~~~~~~~~~~~~~l~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~d~~ilR~i~~lv~~lP~~  268 (326)
                      +++|||.|||+|+.|.....  +.++++..+..+..+++.|..++..|.+||++|.+|++|.|++|+-+++++++.||.+
T Consensus       164 ~AeEAEEvGVEHLlRDikd~--t~gtla~rit~ql~sLkgl~~~L~eI~~YL~~Vi~g~lpiNh~Il~~lQdvfNllP~l  241 (309)
T KOG1556|consen  164 EAEEAEEVGVEHLLRDIKDT--TVGTLATRITNQLMSLKGLQSRLREIRSYLDKVIDGKLPINHEILYQLQDVFNLLPNL  241 (309)
T ss_pred             chhHHHHhhHHHHHHHHHhh--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHhhCccc
Confidence            99999999999999998654  4677889999999999999999999999999999999999999999999999999999


Q ss_pred             ChhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHh
Q psy401          269 DNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKF  307 (326)
Q Consensus       269 ~~~~f~~~~~~~~~D~lmv~yLa~ltk~~~~l~~~~~k~  307 (326)
                      ...+|.+.|+-..||.||+.|||+|.|++.+|++|++.-
T Consensus       242 ~~~~~~~a~~vktndql~~iY~sslvrsViAlhdLi~Nk  280 (309)
T KOG1556|consen  242 TRNELVKAFNVKTNDQLMVIYLSSLVRSVIALHDLINNK  280 (309)
T ss_pred             cchhhhhhhccccCceeeeeeHHHHHHHHHHHHHHHHhH
Confidence            999999999999999999999999999999999999643

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

Probab=100.00  E-value=3e-39  Score=279.04  Aligned_cols=150  Identities=37%  Similarity=0.629  Sum_probs=135.8

Q ss_pred             EEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccchhhhHHHHHHHHHHHHHhCCCCc
Q psy401           39 VSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLD  118 (326)
Q Consensus        39 V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p~~~  118 (326)
                      |+|||+|||+|+|||+|+..   .+.+|+|+|||.+.++.++|+|||++|++++++.+.+|.+|+++|+++|++|||++.
T Consensus         1 V~ihplvll~I~dh~~R~~~---~~~~v~G~LlG~~~~~~veV~nsF~lp~~~~~~~~~~d~~y~~~m~~~~~~v~~~~~   77 (157)
T cd08057           1 VQLHPLVLLNISDHYTRRKY---GIKRVIGVLLGYVDGDKIEVTNSFELPFDEEEESIFIDTEYLEKRYNLHKKVYPQEK   77 (157)
T ss_pred             CEEccHHHhhHHHHHHhccC---CCCeEEEEEEeEEeCCEEEEEEeEEccccCCCcchhhhHHHHHHHHHHHHHhCCCCC
Confidence            68999999999999999864   257999999999999999999999999988777789999999999999999999999


Q ss_pred             eeEEEecCCC----CChhhHHHHHHHHhh-CCCceEEEEcCCC--CCCCCCeeeeeeeeeccCCcccceeEEeeEEEecC
Q psy401          119 FLGWYTTGDT----VNELDIKVHKQICEI-NESPIFLKLNPHP--IHSNLPVSVYESIIDLVGGEATMLFIELPYTIITE  191 (326)
Q Consensus       119 iVGWY~tg~~----~~~~d~~ih~~~~~~-~~~pI~L~vD~~~--~~~~lpi~ay~~~~~~~~~~~~~~f~~i~~~i~~~  191 (326)
                      +||||++++.    ++..+..||++|+.. +++||+|++||..  ..+++|+++|++.....      .+.++++++.++
T Consensus        78 vVGWY~~~~~~~~~~~~~~~~i~~~~~~~~~~~~v~L~~D~~~~~~~~~l~i~ay~~~~~~~------~~~~~~~~i~~~  151 (157)
T cd08057          78 IVGWYSIGSNNSNEISKSDNSLHSQFSLISEENPLILILDPSLQSDSEKLEISTFTSAQREE------NGAEITYEIGTE  151 (157)
T ss_pred             EEEEEeecCCCCCCCChhHHHHHHHHHhccCCCCEEEEEcCCcccCCCcccEEEEEEecCCC------CCceeeeEEecc
Confidence            9999999987    889999999999987 8899999999987  45789999999874322      233999999999


Q ss_pred             hHHHHH
Q psy401          192 EAERMG  197 (326)
Q Consensus       192 eaErI~  197 (326)
                      |+||||
T Consensus       152 e~E~I~  157 (157)
T cd08057         152 ETERIA  157 (157)
T ss_pred             cccccC
Confidence            999986

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=99.98  E-value=3.2e-31  Score=247.21  Aligned_cols=201  Identities=18%  Similarity=0.235  Sum_probs=153.4

Q ss_pred             EEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccc---hhhhHHHHHHHHHHHHHhC
Q psy401           38 HVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDE---MIINRDYYTLKEEQFKQVF  114 (326)
Q Consensus        38 ~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~---~~iD~~y~~~m~~l~k~V~  114 (326)
                      +|.|||+|+++|+|||.|+.     +.+|+|+|||...|+.+||+|||++|+.+++++   +..|.+|+.+|++++++++
T Consensus         2 ~V~I~~~vllkIv~H~~~~~-----p~~v~G~LLG~~~~~~leVtn~Fp~P~~~~~~~~~~~~~~~~yq~~m~~~~r~v~   76 (266)
T cd08065           2 SVQIDGLVVLKIIKHCKEEL-----PELVQGQLLGLDVGGTLEVTNCFPFPKSEEDDSDRADEDIADYQLEMMRLLREVN   76 (266)
T ss_pred             EEEEeHHHHHHHHHHHhcCC-----CcEEEEEEeeeEcCCEEEEEeccCCCCCCCCCcchhhhhHHHHHHHHHHHHHHhC
Confidence            69999999999999999863     689999999999999999999999999887665   5777899999999999999


Q ss_pred             CCCceeEEEecCC-CCChhhHHHHHHHHh--hCCCceEEEEcCCCC-CCCCCeeeeeeeeecc----------------C
Q psy401          115 CDLDFLGWYTTGD-TVNELDIKVHKQICE--INESPIFLKLNPHPI-HSNLPVSVYESIIDLV----------------G  174 (326)
Q Consensus       115 p~~~iVGWY~tg~-~~~~~d~~ih~~~~~--~~~~pI~L~vD~~~~-~~~lpi~ay~~~~~~~----------------~  174 (326)
                      +++.+||||++++ ........||.++..  ..+.+|+|++||..+ .+.++++||+......                +
T Consensus        77 ~~e~iVGWY~S~p~~~~~~~s~id~~~~~q~~~~~~v~Li~D~~~s~~g~l~lkAyrl~~~~~~~~~~~~~~~~~l~~~~  156 (266)
T cd08065          77 VDHNHVGWYQSTYLGSFFTRDLIETQYNYQEAIEESVVLVYDPSKTSQGSLSLKAYRLSEKFMELYKEGKFSTESLREAN  156 (266)
T ss_pred             CCCcEEEeEeecCCCCcCCHHHHHHHHHHhccCCCCEEEEECCCcccccceeeEEEEEcHHHHHHhhcCCcCHHHHHHhc
Confidence            9999999999998 323234556666554  347789999999874 5679999999874322                1


Q ss_pred             CcccceeEEeeEEEecChHHHHHHHHHhhccCCCCCCchhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy401          175 GEATMLFIELPYTIITEEAERMGVDHVARMSNNDSGESSLV-AEHLTAQYNAIKMLHVRIKILLDYLKEV  243 (326)
Q Consensus       175 ~~~~~~f~~i~~~i~~~eaErI~vd~l~~~~~~~~~~~~~l-~~~l~~~~~ai~~L~~~i~~i~~Yl~~V  243 (326)
                      ...+.+|.+||++|..+.-+.+.+..+.............+ ......+...++.|.+.||.+..+.++.
T Consensus       157 ~~~~~if~eiPv~i~n~~l~~~~L~~l~~~~~~~~~~~~~l~l~~~~~le~~l~~l~~~id~l~~e~~~~  226 (266)
T cd08065         157 LTFSNIFEEIPVVIRNSHLVNALLSELEEDSPSSQSDFDRLDLSTNSFLEKNLELLMESVDELSQEQGKF  226 (266)
T ss_pred             CchhcEEEEEEEEEEchHHHHHHHHhcccCCCcccCCcccccccCchhHHHHHHHHHHHHHHHHHHHHHH
Confidence            24578999999999999999999999866543320001111 1223334555666666666666665553

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=99.94  E-value=1.1e-25  Score=209.90  Aligned_cols=167  Identities=13%  Similarity=0.222  Sum_probs=146.9

Q ss_pred             CCceEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccchhhhHHHHHHHHH--HHH
Q psy401           34 TGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEE--QFK  111 (326)
Q Consensus        34 ~~~~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~--l~k  111 (326)
                      .-..+|.|||+|+++|++|+.|.     .+..|+|+|+|..+++.++|++||++|+.++++.+..+.+|++.|.+  +++
T Consensus         7 ~~~~~V~Is~~allkil~Ha~~~-----~p~Ev~GlLlG~~~~~~v~Vt~~fp~p~~~t~~~v~~~~e~~~~m~~~~~~~   81 (268)
T cd08069           7 DYFEKVYISSLALLKMLKHARAG-----GPIEVMGLMLGKVDDYTIIVVDVFALPVEGTETRVNAQDEFQEYMVQYEMLK   81 (268)
T ss_pred             CcccEEEECHHHHHHHHHHHhcc-----CCceEEEEEEeeecCCeEEEEEEEECCcCCCCCceeccHHHHHHHHHHHHHH
Confidence            45567999999999999999884     36899999999999999999999999998777777777899999999  999


Q ss_pred             HhCCCCceeEEEecCCC----CChhhHHHHHHHHhhCCCceEEEEcCCCC--CCCCCeeeeeeeeecc-----CC-----
Q psy401          112 QVFCDLDFLGWYTTGDT----VNELDIKVHKQICEINESPIFLKLNPHPI--HSNLPVSVYESIIDLV-----GG-----  175 (326)
Q Consensus       112 ~V~p~~~iVGWY~tg~~----~~~~d~~ih~~~~~~~~~pI~L~vD~~~~--~~~lpi~ay~~~~~~~-----~~-----  175 (326)
                      ++++++.+||||++++.    ++..|+.+|..|++.++++|+|++||..+  .|++.++||+......     .+     
T Consensus        82 ~~~~~~~vVGWYHSHP~~g~~~S~~Dv~tq~~yq~~~~~~V~lViDP~~t~~~g~~~i~Afr~~~~~~~~~~~~~~~s~~  161 (268)
T cd08069          82 QTGRPENVVGWYHSHPGYGCWLSGIDVNTQQLNQQLQDPFVAVVVDPIRSLVKGKVVIGAFRTIPPGYKPLEPRQTTSNI  161 (268)
T ss_pred             HhCCCceeEeeeccCCCcCCcCCHHHHHHHHHHHhcCCCcEEEEEeCCccccCCcceeeEEEEECccccccCcccCcccc
Confidence            99999999999999986    89999999999999988899999999765  5779999999875421     11     


Q ss_pred             ------------cccceeEEeeEEEecChHHHHHHHHHhhcc
Q psy401          176 ------------EATMLFIELPYTIITEEAERMGVDHVARMS  205 (326)
Q Consensus       176 ------------~~~~~f~~i~~~i~~~eaErI~vd~l~~~~  205 (326)
                                  .....|.+||++|..++.|+..++.+.+..
T Consensus       162 ~~~~~~~~~~~~~~~~~y~~l~i~~~~s~l~~~~L~~l~~~~  203 (268)
T cd08069         162 GHLPKPKIEDFGGHNKQYYSLPIEYFKSSLDRKLLLNLWNKY  203 (268)
T ss_pred             CccCcHHHHHhCchhcEEEEeeeEEecCHHHHHHHHHHHHHh
Confidence                        146789999999999999999999988753

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=99.94  E-value=3.3e-26  Score=187.03  Aligned_cols=107  Identities=35%  Similarity=0.567  Sum_probs=94.3

Q ss_pred             CceEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCC-EEEEEEEEeecccccccc-hhhhHHHHHHHHHHHHH
Q psy401           35 GSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGR-KLEIKNSFELVYNIIEDE-MIINRDYYTLKEEQFKQ  112 (326)
Q Consensus        35 ~~~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~-~veI~nsF~vp~~e~~~~-~~iD~~y~~~m~~l~k~  112 (326)
                      ++.+|.|||+|+++|+||+.|+.     +.+|+|+|+|+++++ .++|+|||++|+.+++++ ...+.++.++|++++++
T Consensus         2 s~~~V~i~p~vll~i~~h~~r~~-----~~~v~G~LlG~~~~~~~v~I~~~f~~p~~~~~~~~~~~~~~~~~~~~~~~~~   76 (114)
T PF01398_consen    2 SVQTVQIHPLVLLKIIDHATRSS-----PNEVIGLLLGTQDGDNTVEITNSFPVPHSESEDDCDMDDEDFQKKMIELLKK   76 (114)
T ss_dssp             SCEEEEEEHHHHHHHHHHHHHHH-----CTEEEEEEEEEEETT-EEEEEEEEEESEEEESSEEEEECCHHHHHHHHHHHH
T ss_pred             CcEEEEECHHHHHHHHHHHhcCC-----CCEEEEEEEEEecCceEEEEEEEEEeeEecCccccccchhhHHHHHHhhhcc
Confidence            56889999999999999999985     359999999999999 999999999999886654 34556666899999999


Q ss_pred             hCCCCceeEEEecCCCC----ChhhHHHHHHHHhhCCC
Q psy401          113 VFCDLDFLGWYTTGDTV----NELDIKVHKQICEINES  146 (326)
Q Consensus       113 V~p~~~iVGWY~tg~~~----~~~d~~ih~~~~~~~~~  146 (326)
                      ++|++.+||||++++..    +..|+.+|+.|++++++
T Consensus        77 ~~~~~~iVGWY~s~p~~~~~~S~~di~~q~~~q~~~~~  114 (114)
T PF01398_consen   77 VNPNLEIVGWYHSHPNISCFPSPTDIETQKQYQRMNPN  114 (114)
T ss_dssp             CSTTSEEEEEEEEESSS-SS--HHHHHHHHHHHHHTTT
T ss_pred             ccccceEEEEEEccCCccccCCHHHHHHHHHHHHhCCC
Confidence            99999999999999876    99999999999998653

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=99.87  E-value=2.6e-21  Score=161.41  Aligned_cols=127  Identities=28%  Similarity=0.473  Sum_probs=113.4

Q ss_pred             EEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccch-hhhHHHHHHHHHHHHHhCCC
Q psy401           38 HVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEM-IINRDYYTLKEEQFKQVFCD  116 (326)
Q Consensus        38 ~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~-~iD~~y~~~m~~l~k~V~p~  116 (326)
                      .|.|||+++++|++|+.|.     .+.+++|+|+|...++.++|+++|++|...+++.+ .++.+|.+.|.+++++++++
T Consensus         1 ~v~i~~~v~~~i~~h~~~~-----~p~e~~G~L~G~~~~~~~~i~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   75 (135)
T smart00232        1 EVKVHPLVPLNILKHAIRD-----GPEEVCGVLLGKSNKDRPEVKEVFAVPNEPQDDSVQEYDEDYSHLMDEELKKVNKD   75 (135)
T ss_pred             CEEEcHHHHHHHHHHHhcC-----CCcEEEEEEEEEEcCCEEEEEEEEecCcCCCCcchhhhhhhHHHHHHHHHHhhCCC
Confidence            3789999999999999885     36799999999999999999999999987655554 78899999999999999999


Q ss_pred             CceeEEEecCC----CCChhhHHHHHHHHhhCCCceEEEEcCCCCC-CCCCeeeeeee
Q psy401          117 LDFLGWYTTGD----TVNELDIKVHKQICEINESPIFLKLNPHPIH-SNLPVSVYESI  169 (326)
Q Consensus       117 ~~iVGWY~tg~----~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~-~~lpi~ay~~~  169 (326)
                      +.+||||++++    .++..|+.+|..+......++++.+|+..+. ++++++||+.+
T Consensus        76 ~~~vGwyhshp~~~~~pS~~D~~~~~~~~~~~~~~~~~~v~~~~s~~g~~~~~af~~~  133 (135)
T smart00232       76 LEIVGWYHSHPDESPFPSEVDVATHESYQAPWPISVVLIVDPIKSFQGRLSLRAFRLT  133 (135)
T ss_pred             ceEEEEEEcCCCCCCCcCHHHHHHHHHHHhcCCceEEEEECCCccccCcEEEEEEEec
Confidence            99999999987    5788899999999888888999999998865 78999999974

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

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

Probab=99.87  E-value=2.1e-23  Score=170.89  Aligned_cols=114  Identities=43%  Similarity=0.704  Sum_probs=13.3

Q ss_pred             ChHHHHHHHHHhhccCCCCCCchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhcCCCCCh
Q psy401          191 EEAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVLDN  270 (326)
Q Consensus       191 ~eaErI~vd~l~~~~~~~~~~~~~l~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~d~~ilR~i~~lv~~lP~~~~  270 (326)
                      +|||||||+++++......  .+.+..+++.+.+++.+|.++++.+..||++|.+|+.++|++++|+|+++|+++|.+++
T Consensus         1 eEaErigv~~l~~~~~~~~--~s~~~~~l~~~~~al~~L~~~l~~i~~Yl~~v~~g~~~~d~~i~r~l~~l~~~lp~~~~   78 (115)
T PF13012_consen    1 EEAERIGVDHLARGLGDHY--YSSLSSQLENEQNALKMLHKRLWQILDYLEDVISGEIPPDHEILRQLQDLLSSLPKYDP   78 (115)
T ss_dssp             SHHHHHHHHHHHHH--S---------------------------------------------------------------
T ss_pred             CchHHHHHHHHHccCCCcc--ccHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHcCcCCCchhHHHHHHHHHHhcccccH
Confidence            5899999999999654332  23667899999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q psy401          271 PAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNK  306 (326)
Q Consensus       271 ~~f~~~~~~~~~D~lmv~yLa~ltk~~~~l~~~~~k  306 (326)
                      ++|+++|.++.+|.+||.||++++|++.++++++++
T Consensus        79 ~~~~~~~~~~~~D~l~v~yL~~l~k~~~~l~e~l~~  114 (115)
T PF13012_consen   79 EEFEEEFNSEINDVLMVSYLAKLTKKQHALNELLNN  114 (115)
T ss_dssp             ------------------------------------
T ss_pred             HHHHHHHHhhchHHHHHHHHHHHhHHHHHHHHHHhc
Confidence            999999999999999999999999999999999875

>KOG1560|consensus

Probab=99.83  E-value=5.2e-19  Score=160.76  Aligned_cols=241  Identities=19%  Similarity=0.273  Sum_probs=168.1

Q ss_pred             cCCCCceEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccc-cccch----hhhH---HH
Q psy401           31 KGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNI-IEDEM----IINR---DY  102 (326)
Q Consensus        31 s~~~~~~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e-~~~~~----~iD~---~y  102 (326)
                      .++.+...|.+..||+++|++||.....+   ..-+.|+|+|..-++.+||+||||.|-.+ .+|+-    ..|.   .|
T Consensus         7 ~~~p~vk~v~ldsLvVMkiiKHc~ee~~n---~d~~~GvL~Glvvd~~LeITncFp~p~~~~~edda~~~~~~de~rq~~   83 (339)
T KOG1560|consen    7 LESPPVKRVELDSLVVMKIIKHCREEFPN---GDGTQGVLLGLVVDGRLEITNCFPFPSVLENEDDAVNKSVSDEARQAY   83 (339)
T ss_pred             CCCCccceeeehhHHHHHHHHHHHhhcCC---cchhhheeeeeeecceeEeecccCCCccCCCccchhhhhhhHHHHHHH
Confidence            34456678999999999999999765322   36799999999999999999999999743 22221    3443   58


Q ss_pred             HHHHHHHHHHhCCCCceeEEEec---CCCCChhhHHHHHHHHhhCCCceEEEEcCCCC-CCCCCeeeeeeeeecc----C
Q psy401          103 YTLKEEQFKQVFCDLDFLGWYTT---GDTVNELDIKVHKQICEINESPIFLKLNPHPI-HSNLPVSVYESIIDLV----G  174 (326)
Q Consensus       103 ~~~m~~l~k~V~p~~~iVGWY~t---g~~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~-~~~lpi~ay~~~~~~~----~  174 (326)
                      +..|++.++.||-+..+||||.+   |+.++..-+.-+-.|+..++..|.|++||..+ .|.|.++||+.+++..    +
T Consensus        84 ~l~mlrrlr~vnid~~hVGwYqs~~vgs~lS~~lveSqy~YQ~a~pesVvliYD~~kssqG~L~lrAyrLTp~am~~~ke  163 (339)
T KOG1560|consen   84 QLAMLRRLRYVNIDHLHVGWYQSAYVGSFLSPALVESQYAYQKAIPESVVLIYDPIKSSQGTLSLRAYRLTPEAMAAHKE  163 (339)
T ss_pred             HHHHHHHhhhcCccceeeeeeeeehhccccCHHHHHHHHHHHhcCCccEEEEeccccccCceEEeehhhcCHHHHHHHhc
Confidence            89999999999999999999997   56777555555666788888889999999986 4789999999876431    1


Q ss_pred             C------------cccceeEEeeEEEecChHHHHHHHHHh--hccCCCC--------CCchhhhhhHHHHHHHHHHHHHH
Q psy401          175 G------------EATMLFIELPYTIITEEAERMGVDHVA--RMSNNDS--------GESSLVAEHLTAQYNAIKMLHVR  232 (326)
Q Consensus       175 ~------------~~~~~f~~i~~~i~~~eaErI~vd~l~--~~~~~~~--------~~~~~l~~~l~~~~~ai~~L~~~  232 (326)
                      +            ....+|.++|+.|+.+---.+-+..+.  +.+....        +....+.+++..+...+..|...
T Consensus       164 kdwtpealk~~nltyenmfeElPIVIknS~L~nvlmseLs~~e~c~sdk~~~~~fdlgs~t~leknir~lme~vDEl~qe  243 (339)
T KOG1560|consen  164 KDWTPEALKSANLTYENMFEELPIVIKNSHLANVLMSELSEPEDCESDKPLHSNFDLGSGTRLEKNIRLLMERVDELHQE  243 (339)
T ss_pred             CCCCHHHHHhcCCCHHHHHhhcCeeeeccHHHHHHHHhccccccccccccccccccccchhhHHHHHHHHHHHHHHHHHH
Confidence            1            246789999999998776566665555  2221110        01123445566666667777777


Q ss_pred             HHHHHHHHHHhhcCCCCCCHHHHHHHHH--------HHhcCCCCChhHHHHHHH
Q psy401          233 IKILLDYLKEVESGTLPVNHDILRELNA--------LRHRLPVLDNPAFKTDFY  278 (326)
Q Consensus       233 i~~i~~Yl~~V~~G~~~~d~~ilR~i~~--------lv~~lP~~~~~~f~~~~~  278 (326)
                      +...-+|-+.+..    .|..+-+.++.        .-.-.|.+..+++.+.|.
T Consensus       244 ~~~l~kyqr~~~r----qq~~~~q~~aKrqaENa~R~argep~lP~dd~kr~fk  293 (339)
T KOG1560|consen  244 IVNLNKYQRQLAR----QQAKKHQWIAKRQAENANRAARGEPPLPEDDWKRIFK  293 (339)
T ss_pred             HHHHHHHHHHHHH----HHHHHHHHHHHHHHHhhhhhhcCCCCCChHHHHHHhc
Confidence            7777777776543    23333333222        223456666666666554

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

Probab=99.62  E-value=7.8e-15  Score=119.28  Aligned_cols=111  Identities=17%  Similarity=0.286  Sum_probs=88.5

Q ss_pred             hhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccchhhhHHHHHHHHHHHHHhCCCCceeEEEecC
Q psy401           47 MNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTG  126 (326)
Q Consensus        47 l~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p~~~iVGWY~tg  126 (326)
                      ..|++|+.+.     .+..|+|.|+|...++.++|+++|++|....+..  .+...  .|......+..++.+||||+++
T Consensus         2 k~il~~a~~~-----~~~ev~G~L~G~~~~~~~~i~~~~~~~~~~~~~~--~~~~~--~~~~~~~~~~~~~~iVGwyhsh   72 (116)
T cd07767           2 KMFLDAAKSI-----NGKEVIGLLYGSKTKKVLDVDEVIAVPFDEGDKD--DNVWF--LMYLDFKKLNAGLRIVGWYHTH   72 (116)
T ss_pred             HhHHHHHhcC-----CCcEEEEEeEEEEcCCEEEEEEEEecccCCCCCc--cHHHH--HHHHHHHHhcCCCeEEEEEEcC
Confidence            3577888663     2578999999999988999999999998654322  22222  2666667788999999999998


Q ss_pred             CC----CChhhHHHHHHHHhhCCCceEEEEcCCCCCCCCCeeee
Q psy401          127 DT----VNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVY  166 (326)
Q Consensus       127 ~~----~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~lpi~ay  166 (326)
                      +.    ++..|+..|..|++..+++++|++|+.....+++++||
T Consensus        73 p~~~~~~s~~dv~~~~~~q~~~~~~v~li~~~~~~~~~~~~~~~  116 (116)
T cd07767          73 PKPSCFLSPNDLATHELFQRYFPEKVMIIVDVKPKDLGNSWKCY  116 (116)
T ss_pred             CCCCCccCHHHHHHHHHHHHhCCCCEEEEEECCCccCCCCcccC
Confidence            64    78899999988988778899999999986667888887

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

>KOG1554|consensus

Probab=99.56  E-value=4.6e-14  Score=129.09  Aligned_cols=131  Identities=16%  Similarity=0.268  Sum_probs=107.8

Q ss_pred             CceEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccch---hhhHHHHHHHHHHHH
Q psy401           35 GSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEM---IINRDYYTLKEEQFK  111 (326)
Q Consensus        35 ~~~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~---~iD~~y~~~m~~l~k  111 (326)
                      .-..|.|..|+||+|.-|..|.     .+-.|+|.+.|..+|+.+.|.+||++|.+.++..+   .--.+|+-...+..+
T Consensus        51 ~fk~vkISalAllKm~~hA~~G-----gnlEiMGlm~Gkv~g~t~IvmD~FaLPVeGTETRVNAq~~AyEYmv~Y~e~~k  125 (347)
T KOG1554|consen   51 YFKHVKISALALLKMVMHARSG-----GNLEIMGLMQGKVDGDTIIVMDSFALPVEGTETRVNAQAEAYEYMVQYIEEAK  125 (347)
T ss_pred             hhhhhhhHHHHHHHHHHHHhcC-----CCeEEEeeecccccCCeEEEEeccccccccccceechHHHHHHHHHHHHHHHH
Confidence            3457899999999999988663     36799999999999999999999999998876544   233678888889999


Q ss_pred             HhCCCCceeEEEecCCC----CChhhHHHHHHHHhhCCCceEEEEcCCCC--CCCCCeeeeeeee
Q psy401          112 QVFCDLDFLGWYTTGDT----VNELDIKVHKQICEINESPIFLKLNPHPI--HSNLPVSVYESII  170 (326)
Q Consensus       112 ~V~p~~~iVGWY~tg~~----~~~~d~~ih~~~~~~~~~pI~L~vD~~~~--~~~lpi~ay~~~~  170 (326)
                      .+...+.+||||++.++    ++..|+..|..-+++-+.=+++++||..+  .+++.+.||+.-+
T Consensus       126 ~~gr~envVGWyHSHPgYgCWLSgIDVsTQ~lNQ~fQePfvAvViDP~Rtlsagkv~iGAFRTyp  190 (347)
T KOG1554|consen  126 NVGRLENVVGWYHSHPGYGCWLSGIDVSTQMLNQRFQEPFVAVVIDPTRTLSAGKVNIGAFRTYP  190 (347)
T ss_pred             HhhhhhceeeeeecCCCCCccccCcchhHHHHhhhhcCCeEEEEecCccccccCceeeceeeccc
Confidence            99999999999999885    46677766666666655558999999875  5789999999754

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

Probab=99.49  E-value=2e-12  Score=114.72  Aligned_cols=128  Identities=16%  Similarity=0.154  Sum_probs=104.7

Q ss_pred             CceEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEe--CCEEEEEEEEeecccccccchhhhHHHHHHHHHHHHH
Q psy401           35 GSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQV--GRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQ  112 (326)
Q Consensus        35 ~~~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~--~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~  112 (326)
                      .+.+|.|+++|+|.|..|+...      ...++|.|+|..+  ++.++|+++|++|....+++..+|.+++.+|++..++
T Consensus         3 ~pf~V~Is~~all~m~~Ha~~~------~~EvcGlL~G~~d~~~~~l~Vt~~~p~~~~~~~~~~e~dp~~q~e~~~~l~~   76 (187)
T cd08067           3 QPFKVTVSSNALLLMDFHCHLT------TSEVIGYLGGTWDPNTQNLTILQAFPCRSRLTGLDCEMDPVSETEIRESLES   76 (187)
T ss_pred             CCEEEEECHHHHHHHHHHhcCC------CcEEEEEEEeEEcCCCCeEEEEEEEecCCCCCCcccccCHHHHHHHHHHHHH
Confidence            4678999999999999999763      2679999999965  5789999999999866556678899999999999888


Q ss_pred             hCCCCceeEEEecCC----CCChhhHHHHHHHHhhCC-------CceEEEEcCCCCC---CCCCeeeeeeee
Q psy401          113 VFCDLDFLGWYTTGD----TVNELDIKVHKQICEINE-------SPIFLKLNPHPIH---SNLPVSVYESII  170 (326)
Q Consensus       113 V~p~~~iVGWY~tg~----~~~~~d~~ih~~~~~~~~-------~pI~L~vD~~~~~---~~lpi~ay~~~~  170 (326)
                      .+  +.+||||++.+    .++..|+..|..|+....       .-|.++++|....   .+..|++|....
T Consensus        77 ~g--l~vVGwYHSHP~~~~~pS~~Di~tQ~~yQ~~~~~~~~~~~p~v~~I~~P~~~~~~~~~s~i~~f~~~~  146 (187)
T cd08067          77 RG--LSVVGWYHSHPTFPPNPSLRDIDTQLDYQIMFKGSDSGYEPCVGLICSPYDRRNSTPESQITCFWVMP  146 (187)
T ss_pred             cC--CEEEEEEecCCCCCcCCCHHHHHHHHHHHhhccccccCCCCeEEEEEccccCCCCCCCCcEEEEEEEC
Confidence            76  59999999986    467788888888887542       3489999997642   346799998764

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

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

Probab=99.46  E-value=6.6e-13  Score=109.45  Aligned_cols=108  Identities=15%  Similarity=0.207  Sum_probs=85.3

Q ss_pred             hHhhHHHHHhHhcccCCCCceEEEEEeeEEe-----CCEEEEEEEEeecccccccchhhhHHHHHHHHHHHHHhCCCCce
Q psy401           45 VIMNISEHYTRRRAQEGKPVQVIGALIGIQV-----GRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDF  119 (326)
Q Consensus        45 Vll~I~dH~~R~~~~~~~~~~viG~LLG~~~-----~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p~~~i  119 (326)
                      |+++|.+|+.+.     .+..++|.|+|...     ...++|+++|+.|...+.         .+.|..+.+...-++.+
T Consensus         2 ~~~~i~~ha~~~-----~p~E~cGlL~G~~~~~~~~~~~~~v~~~~p~~~~~~~---------~~~~~~~~~~~~~g~~~   67 (119)
T cd08058           2 ALLKMLQHAESN-----TGIEVMGLLCGELTHNEFTDKHVIVPKQSAGPDSCTG---------ENVEELFNVQTGRPLLV   67 (119)
T ss_pred             HHHHHHHHhcCC-----CCeEEEEEeeeEEecCccceeEEEEeecCCCCCCchh---------HHHHHHHHHHhCCCCeE
Confidence            789999999875     36789999999865     456899999999875321         11444555668889999


Q ss_pred             eEEEecCC----CCChhhHHHHHHHHhhCCCceEEEEcCCCCCCCCCeeeeee
Q psy401          120 LGWYTTGD----TVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYES  168 (326)
Q Consensus       120 VGWY~tg~----~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~lpi~ay~~  168 (326)
                      ||||++.+    .++..|+..|..|+...+..++|++||..+  .+.+++|+.
T Consensus        68 vG~YHSHP~~~~~pS~~Di~~~~~~q~~~p~~~~lI~s~~~~--~~~~~a~rl  118 (119)
T cd08058          68 VGWYHSHPTFTAWLSSVDIHTQASYQLMLPEAIAIVVSPKHR--NKDTGIFRL  118 (119)
T ss_pred             EEEEecCCCCCCccCHHHHHHHHHHhccCCCeEEEEECcCCC--CcccceEEe
Confidence            99999987    578889887887877767779999999763  688899875

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

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

Probab=99.16  E-value=1.4e-09  Score=100.02  Aligned_cols=147  Identities=18%  Similarity=0.188  Sum_probs=104.0

Q ss_pred             eEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEe-------CCEEEEEEEEeecccc-cccchhhhHHH----HH
Q psy401           37 IHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQV-------GRKLEIKNSFELVYNI-IEDEMIINRDY----YT  104 (326)
Q Consensus        37 ~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~-------~~~veI~nsF~vp~~e-~~~~~~iD~~y----~~  104 (326)
                      .+|.|.+.++..|..|..+.     .+..+||.|+|...       ++.+.|..-++.+..+ ..+.+.+|.+-    .+
T Consensus         2 ~~V~Is~~~l~~il~HA~~~-----~P~EvCGLL~G~~~~~~~~~~~~~v~i~~~~~~~~~~~s~~r~eidPee~~~a~~   76 (244)
T cd08068           2 SKVHLSADVYLVCLTHALST-----EKEEVMGLLIGEIEVSKKGEEVAIVHISAVIILRRSDKRKDRVEISPEQLSAAST   76 (244)
T ss_pred             cEEEECHHHHHHHHHHHHhC-----CCcceeEEEEeecccccccccceeEEEeeeccccccCCCCceEEeCHHHHHHHHH
Confidence            36899999999999999775     37899999999874       3455554444443322 23457777653    34


Q ss_pred             HHHHHHHHhCCCCceeEEEecCC----CCChhhHHHHHHHHhhCCCceEEEEcCCCC-----CCCCCeeeeeeeeeccCC
Q psy401          105 LKEEQFKQVFCDLDFLGWYTTGD----TVNELDIKVHKQICEINESPIFLKLNPHPI-----HSNLPVSVYESIIDLVGG  175 (326)
Q Consensus       105 ~m~~l~k~V~p~~~iVGWY~tg~----~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~-----~~~lpi~ay~~~~~~~~~  175 (326)
                      .+.++.+.+..++.+||||++.+    .++..|+..+..|+...+.-+++++++...     .++..+++|+...+..+ 
T Consensus        77 ea~~~~~~~~rgl~vVGwYHSHP~~~a~PS~~Dv~tq~~~q~~~p~~v~lIvS~~~~~~~~~~~~~~i~aFr~~~g~~~-  155 (244)
T cd08068          77 EAERLTEETGRPMRVVGWYHSHPHITVWPSHVDVRTQAMYQMMDSGFVGLIFSCFNEDKSTKMGEVQVTCFQSVQGNKA-  155 (244)
T ss_pred             HHHHHHhhccCCceEEEEEecCCCCCCCCCHhHHHHHHHHHhhCCCcEEEEEEecCCccccccCCEEEEEEEecCCCCC-
Confidence            56666777889999999999987    467788877677765556668999875432     25678999998543221 


Q ss_pred             cccceeEEeeEEEec
Q psy401          176 EATMLFIELPYTIIT  190 (326)
Q Consensus       176 ~~~~~f~~i~~~i~~  190 (326)
                       ......++|+.|..
T Consensus       156 -~~~~~~e~pl~i~~  169 (244)
T cd08068         156 -GQYERIEVPLEIVP  169 (244)
T ss_pred             -CcceEEEeeeEEec
Confidence             24577888888875

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

>cd08066 MPN_AMSH_like Mov34/MPN/PAD-1 family

Probab=98.71  E-value=3.6e-07  Score=80.29  Aligned_cols=118  Identities=16%  Similarity=0.167  Sum_probs=85.7

Q ss_pred             EEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccchh-hhHHHHHHHHHHHHHh-CCC
Q psy401           39 VSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMI-INRDYYTLKEEQFKQV-FCD  116 (326)
Q Consensus        39 V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~~-iD~~y~~~m~~l~k~V-~p~  116 (326)
                      +.|-.-.+-.|+.|..++-.   .+..++|.|+|...++..+|++.|-.|...++.... .|..      +.++.. -.+
T Consensus         4 l~Ipk~il~~~l~~A~~~~~---~p~E~cGlL~G~~~~~~~~I~~i~~~~q~~~~~~~~~~~~~------e~~~~~~~~g   74 (173)
T cd08066           4 VVVPADLMDKFLQLAEPNTS---RNLETCGILCGKLSNNAFFITHLIIPKQSGTSDSCQTTNEE------ELFDFQDQHD   74 (173)
T ss_pred             EEECHHHHHHHHHHHHhCCC---CCCeEEEEEEeEcCCCeEEEEEEEeccccCCCceecCCCHH------HHHHHHHhCC
Confidence            55666778888888877521   136899999999888888999887777655443322 2311      122222 357


Q ss_pred             CceeEEEecCC----CCChhhHHHHHHHHhhCCCceEEEEcCCCCCCCCCeeeeeee
Q psy401          117 LDFLGWYTTGD----TVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESI  169 (326)
Q Consensus       117 ~~iVGWY~tg~----~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~lpi~ay~~~  169 (326)
                      +.+||||+|.+    .++..|+..|..|+...+..++|+++|.    ...+++|+..
T Consensus        75 le~vGwyHSHP~~~~~pS~~Dv~t~~~~~~~~p~~~~lIvSp~----~~~l~afrl~  127 (173)
T cd08066          75 LITLGWIHTHPTQTCFLSSVDLHTHCSYQLMLPEAIAIVCAPK----YNEFGIFRLT  127 (173)
T ss_pred             CeeEEEEeccCCCCCccCHHHHHHHHHHHhcCCCeEEEEECCC----CcEEeEEEee
Confidence            99999999976    4788999999988877777899999974    4678999876

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

>KOG1555|consensus

Probab=98.47  E-value=7.2e-06  Score=77.51  Aligned_cols=131  Identities=15%  Similarity=0.232  Sum_probs=103.9

Q ss_pred             CCceEEEEehhhHhhHHHHHhHhcccCCCCc-eEEEEE-ee---E-EeCCEEEEEEEEeeccccccc---chhhhHHHHH
Q psy401           34 TGSIHVSLHPLVIMNISEHYTRRRAQEGKPV-QVIGAL-IG---I-QVGRKLEIKNSFELVYNIIED---EMIINRDYYT  104 (326)
Q Consensus        34 ~~~~~V~IHPlVll~I~dH~~R~~~~~~~~~-~viG~L-LG---~-~~~~~veI~nsF~vp~~e~~~---~~~iD~~y~~  104 (326)
                      ..+.+|.++.++++..++|- |.+    .+. .++|.+ +|   . .+..++-|...|+.|....+=   .-.+|.-|..
T Consensus        28 ~~~e~v~i~slall~m~rh~-r~~----~p~e~v~Glm~lg~~~~fv~~~Tv~vv~v~am~~sg~~is~~~e~~d~V~q~  102 (316)
T KOG1555|consen   28 DEKETVYISSLALLKMLRHD-RAG----SPEETVMGLMSLGRLPEFVDDYTVRVVDVFAMPQSGTGISKFVEAVDPVFQT  102 (316)
T ss_pred             cCcceeeeehhhhhhccccc-ccC----CchhhccceeecccccceeeecceeeeeeeccccccceecccchhccHHHHH
Confidence            45678999999999999986 332    233 489999 99   3 356788888899999876432   2368999999


Q ss_pred             HHHHHHHHhCCCCceeEEEecCCC----CChhhHHHHHHHHhhCCCceEEEEcCCCC-CCCCCeeeeeee
Q psy401          105 LKEEQFKQVFCDLDFLGWYTTGDT----VNELDIKVHKQICEINESPIFLKLNPHPI-HSNLPVSVYESI  169 (326)
Q Consensus       105 ~m~~l~k~V~p~~~iVGWY~tg~~----~~~~d~~ih~~~~~~~~~pI~L~vD~~~~-~~~lpi~ay~~~  169 (326)
                      +|.++.++..-.+.+||||++.+.    ++..|+..|+.|+..++..+..++||..+ .|+.-+.+|..+
T Consensus       103 q~~~~l~~tGrp~~VVGWYHSHP~f~~wpS~vDi~tQ~syq~~~~r~~a~~v~~i~S~~g~vv~d~f~~I  172 (316)
T KOG1555|consen  103 QMMDLLKQTGRPELVVGWYHSHPGFGCWPSLVDIDTQQSYQALSSRAVAVVVDPIQSPYGKVVPDAFSSI  172 (316)
T ss_pred             HHHHHHHhcCCcceEEeeccCCCCCCCCccccchhHHHHHhhhccCCcceeeecccCCCCCccCChhhhc
Confidence            999999999888999999999874    56788888999998888889999999865 345555577765

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

Probab=98.41  E-value=4.1e-06  Score=74.14  Aligned_cols=106  Identities=16%  Similarity=0.280  Sum_probs=74.8

Q ss_pred             ehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEe-CCEEEEEEEEeecccccccchhhhHHH--HHHHHHHHHHhCCCCc
Q psy401           42 HPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQV-GRKLEIKNSFELVYNIIEDEMIINRDY--YTLKEEQFKQVFCDLD  118 (326)
Q Consensus        42 HPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~-~~~veI~nsF~vp~~e~~~~~~iD~~y--~~~m~~l~k~V~p~~~  118 (326)
                      .+.+..+|.-|..+..     +..|+|.|+|... ++.+.|++++|+.+.    ...++...  ...+.+.+-+- .++.
T Consensus         2 s~~ay~ki~~HA~k~p-----~~evcGlLlG~~~~~~~~~V~d~vPl~h~----~~~l~P~~Eval~~ve~~~~~-~gl~   71 (182)
T cd08060           2 STLAYVKMLLHAAKYP-----HCAVNGLLLGKKSSGGSVEITDAVPLFHS----CLALAPMLEVALALVDAYCKS-SGLV   71 (182)
T ss_pred             CHHHHHHHHHHHHHcC-----CchheEEEEeeecCCCCEEEEEEEEcCCC----ccccCHHHHHHHHHHHHHHHH-CCCE
Confidence            3567889999998842     4689999999987 788999999999985    24455442  12222223333 4789


Q ss_pred             eeEEEecCCCCC-----hhhHHHHHHHHhhCCCceEEEEcCCCC
Q psy401          119 FLGWYTTGDTVN-----ELDIKVHKQICEINESPIFLKLNPHPI  157 (326)
Q Consensus       119 iVGWY~tg~~~~-----~~d~~ih~~~~~~~~~pI~L~vD~~~~  157 (326)
                      |||+|++.+...     ..-..|-+.+.+.++++++|++|-..-
T Consensus        72 IvG~Yhsh~~~~d~~~~~~a~kIadki~~~~~~a~ll~vdn~~l  115 (182)
T cd08060          72 IVGYYQANERLDDSSPSPVAKKIADKIAENFSNACLLMVDNEKL  115 (182)
T ss_pred             EEEEEecCCcccCCCCcHHHHHHHHHHHHhCCCCEEEEEeCccc
Confidence            999999987543     333345556667778899999997653

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.

>PF03665 UPF0172: Uncharacterised protein family (UPF0172); InterPro: IPR005366 This is a small family of proteins of unknown function

Probab=98.27  E-value=7.7e-05  Score=66.83  Aligned_cols=122  Identities=16%  Similarity=0.258  Sum_probs=85.8

Q ss_pred             EEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCC--EEEEEEEEeecccccccchhhhHHHHHHHHHHHHHhCC
Q psy401           38 HVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGR--KLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFC  115 (326)
Q Consensus        38 ~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~--~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p  115 (326)
                      +|.+.+.+..+|.=|..+-.     ...|.|+|||...++  .|+|++|.|+=|....  ..--.|---.+.+.|-+. .
T Consensus         3 ~v~is~~AY~K~~LHaaKyP-----~~aVnGvLlg~~~~~~~~v~i~DaVPLfH~~~~--L~PmlEvAL~qvd~~~~~-~   74 (196)
T PF03665_consen    3 SVEISSRAYAKMILHAAKYP-----HCAVNGVLLGKSSKSSSEVEIVDAVPLFHHWLS--LSPMLEVALAQVDAYAKS-N   74 (196)
T ss_pred             eEEEcHHHHHHHHHHhccCC-----CCceeeEEEeccCCCCceEEEeeceeccccccC--cchHHHHHHHHHHHHHhh-C
Confidence            58899999999999998864     468999999998643  3999999999995321  222223333445555543 5


Q ss_pred             CCceeEEEecCCC-----CChhhHHHHHHHHhhCCCceEEEEcCCCCC---CCCCeeeee
Q psy401          116 DLDFLGWYTTGDT-----VNELDIKVHKQICEINESPIFLKLNPHPIH---SNLPVSVYE  167 (326)
Q Consensus       116 ~~~iVGWY~tg~~-----~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~---~~lpi~ay~  167 (326)
                      ++.|||||+....     ++..-..|-+.+.+.++.+++|++|-..-.   +..++.+|.
T Consensus        75 gl~IvGyY~Ane~~~d~~~~~~a~kiad~I~~~~~~a~ll~idn~kl~~~~~~~~~~~~~  134 (196)
T PF03665_consen   75 GLVIVGYYQANERLDDNSPSPVAEKIADKIAENFSDACLLMIDNKKLSSDCKAPAISVYQ  134 (196)
T ss_pred             CCEEEEEEEeccccccCCCCHHHHHHHHHHHhhCCCcEEEEEECcccccccCCCcceeee
Confidence            6999999999763     333334455566677788999999976532   334566776

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

Probab=98.21  E-value=1.8e-05  Score=65.82  Aligned_cols=110  Identities=13%  Similarity=0.162  Sum_probs=77.5

Q ss_pred             hHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccc--cchhhhHHHHHHHHHHHHHhCCCCceeEE
Q psy401           45 VIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIE--DEMIINRDYYTLKEEQFKQVFCDLDFLGW  122 (326)
Q Consensus        45 Vll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~--~~~~iD~~y~~~m~~l~k~V~p~~~iVGW  122 (326)
                      ++-+|+.|+.+.     .+..++|.|+|...+....|+..|++|....+  ..+.+|...+.+..+..++.  ++.+|||
T Consensus         3 ~~~~il~ha~~~-----~P~E~cGlL~G~~~~~~~~i~~~~p~~n~~~~~~~~f~~d~~~~~~~~~~~~~~--g~~~vG~   75 (128)
T cd08070           3 LLEAILAHAEAE-----YPEECCGLLLGKGGGVTAIVTEVYPVRNVAESPRRRFEIDPAEQLAAQREARER--GLEVVGI   75 (128)
T ss_pred             HHHHHHHHHHhC-----CCCceEEEEEeecCCCCceEEEEEEccCCCCCCCceEEECHHHHHHHHHHHHHC--CCeEEEE
Confidence            456788888774     36789999999998766677889999875443  35678887777766666654  5899999


Q ss_pred             EecCCC----CChhhHHHHHHHHhhCCCceEEEEcCCCCCCCCCeeeeee
Q psy401          123 YTTGDT----VNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYES  168 (326)
Q Consensus       123 Y~tg~~----~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~lpi~ay~~  168 (326)
                      |+|.+.    ++..|.....     ....++|++.....  ...+++|..
T Consensus        76 ~HSHP~~~~~PS~~D~~~~~-----~~~~~~lIv~~~~~--~~~~~~~~~  118 (128)
T cd08070          76 YHSHPDGPARPSETDLRLAW-----PPGVSYLIVSLAGG--APELRAWRL  118 (128)
T ss_pred             EeCCCCCCCCCCHHHHHhcc-----CCCCeEEEEECCCC--CcEEEEEEE
Confidence            999873    4555553221     12357888876533  356888876

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.

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

Probab=98.00  E-value=4.9e-05  Score=63.75  Aligned_cols=100  Identities=20%  Similarity=0.290  Sum_probs=63.6

Q ss_pred             EEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeeccccc--ccchhhhHHHHHHHHHHHHHhCCCC
Q psy401           40 SLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNII--EDEMIINRDYYTLKEEQFKQVFCDL  117 (326)
Q Consensus        40 ~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~--~~~~~iD~~y~~~m~~l~k~V~p~~  117 (326)
                      .+-..++-.|+.|..|..     +..++|.|+|...+     ...|+++....  .....++.++.. ++....+.  ++
T Consensus         3 ~i~~~~l~~il~~a~~~~-----p~E~~g~l~~~~~~-----~~~~~~~n~~~~~~~~~~~~~~~~~-~~~~~~~~--g~   69 (134)
T COG1310           3 VIPKEVLGAILEHARREH-----PREVCGLLAGTREG-----ERYFPLKNVSVEPVEYFEIDPEYSL-FYLAAEDA--GE   69 (134)
T ss_pred             eecHHHHHHHHHHHHhcC-----ChheEEEEEeeccc-----ceeeccccccCCcceeEeeCHHHHH-HHHHHhhC--CC
Confidence            456778889999998862     57899999999887     44444444321  122345555554 33333333  39


Q ss_pred             ceeEEEecCCC--CChhhHHHHHHHHhhCCCceEEEEcC
Q psy401          118 DFLGWYTTGDT--VNELDIKVHKQICEINESPIFLKLNP  154 (326)
Q Consensus       118 ~iVGWY~tg~~--~~~~d~~ih~~~~~~~~~pI~L~vD~  154 (326)
                      .+||||++++.  +...+..++  ++++.+.|.+++..+
T Consensus        70 ~vvg~yHSHP~~~~~pS~~D~~--~~~~~~~~~~iv~~~  106 (134)
T COG1310          70 VVVGWYHSHPGGPPYPSEADRR--LSKLGPLPWLIVSVP  106 (134)
T ss_pred             EEEEEEcCCCCCCCCcCHHHHh--hccccCCCEEEEEcC
Confidence            99999999983  344444445  666655555665553

>KOG3289|consensus

Probab=97.11  E-value=0.011  Score=51.49  Aligned_cols=122  Identities=20%  Similarity=0.281  Sum_probs=83.6

Q ss_pred             EEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeE--EeCCEEEEEEEEeecccccccchhhhHHHHHHHHHHHHHhCC
Q psy401           38 HVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGI--QVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFC  115 (326)
Q Consensus        38 ~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~--~~~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p  115 (326)
                      .|.+..++-.+|+=|+.|-+     ..-|-|.|+|.  ..|+.|||++|.++=|+.-.  ...-.|-.-.|++-+- +--
T Consensus         3 ~veis~~aY~kmiLH~akyp-----h~aVnGLLla~~~~kg~~v~itdcVPLfH~~la--LaPmlEvAl~lId~~~-~~~   74 (199)
T KOG3289|consen    3 EVEISALAYVKMILHAAKYP-----HAAVNGLLLAPATGKGECVEITDCVPLFHSHLA--LAPMLEVALNLIDVWG-AQA   74 (199)
T ss_pred             ceeehhhHHHHHHHHhccCc-----ccceeeEEEeccCCCCCeEEEEecchhhccccc--cccHHHHHHHHHHHHH-Hhc
Confidence            47788899999999999964     35799999994  46899999999999886421  1222233333444333 235


Q ss_pred             CCceeEEEecCCCCCh-----hhHHHHHHHHhhCCCceEEEEcCCC-CC--CCCCeeeee
Q psy401          116 DLDFLGWYTTGDTVNE-----LDIKVHKQICEINESPIFLKLNPHP-IH--SNLPVSVYE  167 (326)
Q Consensus       116 ~~~iVGWY~tg~~~~~-----~d~~ih~~~~~~~~~pI~L~vD~~~-~~--~~lpi~ay~  167 (326)
                      .+.|+|.|+....+++     .-..|-..+++++++..+|++|-.. ..  ..-|+-+|+
T Consensus        75 GlviaGyy~Ane~~~D~s~~~~A~kiadrIse~f~~A~ilv~dn~~l~~~~e~~~v~v~e  134 (199)
T KOG3289|consen   75 GLVIAGYYHANERVNDQSLNPVALKIADRISEFFPDAAILVLDNKKLVPQCERPPVIVLE  134 (199)
T ss_pred             CeEEEEEeecCCCccccCccHHHHHHHHHHHhhCCCCeEEEEeccccccccCCCCEEEee
Confidence            7899999999865443     3345666778877776666666543 22  236888888

>TIGR02256 ICE_VC0181 integrative and conjugative element protein, VC0181 family

Probab=96.11  E-value=0.084  Score=44.31  Aligned_cols=104  Identities=15%  Similarity=0.108  Sum_probs=62.5

Q ss_pred             hHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccc---cchhhhHHHHHHHHHH-HHHhCCCCcee
Q psy401           45 VIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIE---DEMIINRDYYTLKEEQ-FKQVFCDLDFL  120 (326)
Q Consensus        45 Vll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~---~~~~iD~~y~~~m~~l-~k~V~p~~~iV  120 (326)
                      +++.+...|.....   .+....|+|+|.+.+..+.|+.+- .|...+-   ..+.-+.+.+++.++- +++-+-....|
T Consensus         1 ~v~~~~~~~~Q~~~---~~~EtGGiLiG~~~~~~~ii~~~t-~P~p~d~~tr~~F~r~~~~~q~~i~~~~~~s~g~~~yl   76 (131)
T TIGR02256         1 VVVAMLKSYRQWHD---LSTETGGVLIGERRGAHAVITKIS-EPGSGDIRTRKRFSRDGEHHQSEVDEHFEVSGGVDTYL   76 (131)
T ss_pred             CHHHHHHHHHhCcC---CCCccceEEEEEEcCCcEEEEEEE-cCCCCcccCceEEEeCcHHHHHHHHHHHHHhCCceEEE
Confidence            35666777755432   357899999999988888888754 3333211   1244566777766554 44555568999


Q ss_pred             EEEecCCC----CChhhHHHHHHHHhhCCCceEEEE
Q psy401          121 GWYTTGDT----VNELDIKVHKQICEINESPIFLKL  152 (326)
Q Consensus       121 GWY~tg~~----~~~~d~~ih~~~~~~~~~pI~L~v  152 (326)
                      |=++|.+.    ++..|..--..+.+..+..+++++
T Consensus        77 GeWHtHP~~~p~PS~~D~~~~~~~~~~~~~~l~iIv  112 (131)
T TIGR02256        77 GEWHTHPEDQPEPSWTDRRSWRTIIRSPEAMLLLIV  112 (131)
T ss_pred             EecCcCCCCCCCCCHHHHHHHHHHHhCCCeeEEEEE
Confidence            99999874    445554333333333333334444

This uncharacterized protein is found in several Proteobacteria, among them Rhizobium sp. NGR234, Vibrio cholerae, Myxococcus xanthus, and E. coli strain ECOR31. In the latter, it is part of an integrative and conjugative element that is readily induced to excise and circularize.

>PF14464 Prok-JAB: Prokaryotic homologs of the JAB domain; PDB: 1OI0_A 1R5X_B 2KKS_A 2KCQ_A

Probab=95.59  E-value=0.15  Score=40.12  Aligned_cols=73  Identities=18%  Similarity=0.205  Sum_probs=44.1

Q ss_pred             hHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccchhhhHHHHHHHHHHHHHhCCCCceeEEEe
Q psy401           45 VIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYT  124 (326)
Q Consensus        45 Vll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p~~~iVGWY~  124 (326)
                      ++-.|..|..+..     +...+|.|+|...+..+.++........   +.......         +....+..+||+|+
T Consensus         4 ~~~~i~~~~~~~~-----p~E~~G~L~g~~~~~~~~~~~~~~~~p~---~~~~~~~~---------~~~~~~~~~vg~~H   66 (104)
T PF14464_consen    4 VLEQIIAHARAAY-----PNEACGLLLGRRDDQRFIVVPNVNPDPR---DSFRRERF---------EARERGLEIVGIWH   66 (104)
T ss_dssp             HHHHHHHHHHHHT-----TS-EEEEEEEEEECCEEEEEEEEE--HH---CHHHHHH----------HHHHHT-EEEEEEE
T ss_pred             HHHHHHHHHhhCC-----CCeEEEEEEEEecCCEEEEEeCCCCCcH---HHHHHHhh---------hhhcccceeeEEEE
Confidence            4556777776653     6789999999998777777776651111   11111111         44557889999999


Q ss_pred             cCC----CCChhhH
Q psy401          125 TGD----TVNELDI  134 (326)
Q Consensus       125 tg~----~~~~~d~  134 (326)
                      |.+    .++..|.
T Consensus        67 SHP~~~a~pS~~D~   80 (104)
T PF14464_consen   67 SHPSGPAFPSSTDI   80 (104)
T ss_dssp             EESSSSSS--HHHH
T ss_pred             cCCCCCCCCCHHHH
Confidence            976    3455554

>cd08072 MPN_archaeal Mov34/MPN/PAD-1 family: archaeal JAB1/MPN/Mov34 metalloenzyme

Probab=95.34  E-value=0.07  Score=43.76  Aligned_cols=98  Identities=12%  Similarity=0.060  Sum_probs=61.3

Q ss_pred             hHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccch-hhhHHHHHHHHHHHHHhCCCCceeEEE
Q psy401           45 VIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEM-IINRDYYTLKEEQFKQVFCDLDFLGWY  123 (326)
Q Consensus        45 Vll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~-~iD~~y~~~m~~l~k~V~p~~~iVGWY  123 (326)
                      .+-.|.+|..+.     .+..+||.|+|...    .|++.+.+|....++.. ..+.+    +.      -.++.+||-|
T Consensus         5 ~~~~i~~ha~~~-----~P~E~CGlL~G~~~----~v~~~~~~~n~~~~~~~~~f~~~----~~------~~g~~ivgi~   65 (117)
T cd08072           5 LLDSILEAAKSS-----HPNEFAALLRGKDG----VITELLILPGTESGEVSAVFPLL----ML------PLDMSIVGSV   65 (117)
T ss_pred             HHHHHHHHHhhc-----CCceEEEEEEeecc----EEEEEEECCCCCCCCcceeechH----Hh------cCCCeEEEEE
Confidence            445788888765     37899999999764    58888999865433221 12221    11      2478999999


Q ss_pred             ecCC----CCChhhHHHHHHHHhhCCCceEEEEcCCCCCCCCCeeeeee
Q psy401          124 TTGD----TVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYES  168 (326)
Q Consensus       124 ~tg~----~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~lpi~ay~~  168 (326)
                      ++.+    .++..|+.    ++.. ..-.+|++.+..  ..=.+++|..
T Consensus        66 HSHP~~~~~PS~~D~~----~~~~-~~~~~lIvs~~~--~~~~~~a~~~  107 (117)
T cd08072          66 HSHPSGSPRPSDADLS----FFSK-TGLVHIIVGYPY--DEDDWRAYDS  107 (117)
T ss_pred             EcCCCCCCCCCHHHHH----hhhc-CCCEEEEEECcC--CCCCEEEEec
Confidence            9986    35666642    1222 233677776432  1135888875

This family contains only archaeal 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.

>cd08056 MPN_PRP8 Mpr1p, Pad1p N-terminal (MPN) domains without isopeptidase activity found in splicing factor Prp8

Probab=94.73  E-value=0.14  Score=47.54  Aligned_cols=99  Identities=19%  Similarity=0.249  Sum_probs=66.4

Q ss_pred             ceEEEEEeeEEeC---CEEEEEEEEeecccccccchhhhHHHHHHHHHHHHHhCCCCceeEEEecCC----CCChhhHHH
Q psy401           64 VQVIGALIGIQVG---RKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGD----TVNELDIKV  136 (326)
Q Consensus        64 ~~viG~LLG~~~~---~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p~~~iVGWY~tg~----~~~~~d~~i  136 (326)
                      ..++|.|.|....   +.-||+--..+|...+.+.+.+-.+-     -.+ +---++..|||=+|.+    .+++.|+..
T Consensus        56 tQ~~GyLyG~~~~d~~~vkeI~cIvipPQ~gt~~sv~l~~~~-----~~~-~~l~~Le~LGWIHTqp~e~~~Lss~Dv~t  129 (252)
T cd08056          56 TQIAGYLYGKSPPDNPQVKEIRCIVLVPQLGTHQTVTLPQQL-----PQH-EYLEDLEPLGWIHTQPNELPQLSPQDVTT  129 (252)
T ss_pred             ceEEEEEeccCCCCCCCeEEEEEEEECCEeCCcCcEECCccC-----ccc-hhhCCCEeeEEEEcCCCCccccCHHHHHH
Confidence            5799999999753   66688877777776554444332110     111 1124689999999975    468899999


Q ss_pred             HHHHHhhCC-----CceEEEEcCCCCCCCCCeeeeeeee
Q psy401          137 HKQICEINE-----SPIFLKLNPHPIHSNLPVSVYESII  170 (326)
Q Consensus       137 h~~~~~~~~-----~pI~L~vD~~~~~~~lpi~ay~~~~  170 (326)
                      |..++..++     +.|.+++-.  +.|...+.||..+.
T Consensus       130 ha~~~~~~~~w~~~~~V~it~Sf--tpGs~sl~ay~LT~  166 (252)
T cd08056         130 HAKILADNPSWDGEKTVILTCSF--TPGSCSLTAYKLTP  166 (252)
T ss_pred             HHHHHHhccccCCCcEEEEEEcC--CCCceEEEEEecCH
Confidence            998887664     345554433  35667899998763

Members of this family are found in pre-mRNA-processing factor 8 (Prp8) which is a critical splicing factor, interacting with several other spliceosomal proteins, snRNAs, and the pre-mRNA, thus organizing and stabilizing the spliceosome catalytic core. Prp8 is one of the largest and most highly conserved of nuclear proteins, occupying a central position in the catalytic core of the spliceosome. Its C-terminal domain exhibits a JAB1/MPN-like core similar to deubiquitinating enzymes, but does not show catalytic isopeptidase activity, possibly because the putative isopeptidase center is covered by insertions and terminal appendices that are grafted onto this core, thus impairing the metal binding site. It is proposed that this domain is a protein interaction domain instead of a Zn(2+)-dependent metalloenzyme as proposed for some MPN proteins. The DEAD-box protein Brr2 and t

>cd08073 MPN_NLPC_P60 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains

Probab=90.00  E-value=1.5  Score=35.33  Aligned_cols=71  Identities=13%  Similarity=0.039  Sum_probs=43.0

Q ss_pred             HhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccc-cc-cchhhhH-HHHHHHHHHHHHhCCCCceeEE
Q psy401           46 IMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNI-IE-DEMIINR-DYYTLKEEQFKQVFCDLDFLGW  122 (326)
Q Consensus        46 ll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e-~~-~~~~iD~-~y~~~m~~l~k~V~p~~~iVGW  122 (326)
                      +-.|.+|..+.     .+...||.|+|...     ++..|++.... +. ..+.+|. ++++.+        ....|||.
T Consensus         3 ~~~i~~ha~~~-----~P~E~CGll~g~~~-----~~~~~p~~N~~~~p~~~F~idp~e~~~a~--------~~~~ivgi   64 (108)
T cd08073           3 EDAILAHAKAE-----YPREACGLVVRKGR-----KLRYIPCRNIAADPEEHFEISPEDYAAAE--------DEGEIVAV   64 (108)
T ss_pred             HHHHHHHHhHC-----CCCcceEEEEecCC-----ceEEEECccCCCCccceEEeCHHHHHHHh--------cCCCEEEE
Confidence            34677888664     36789999999662     23335554221 11 3466775 343322        22389999


Q ss_pred             EecCC----CCChhhH
Q psy401          123 YTTGD----TVNELDI  134 (326)
Q Consensus       123 Y~tg~----~~~~~d~  134 (326)
                      |++.+    .++..|.
T Consensus        65 ~HSHP~~~a~PS~~D~   80 (108)
T cd08073          65 VHSHPDGSPAPSEADR   80 (108)
T ss_pred             EEcCCCCCCCCCHHHH
Confidence            99986    3566665

This family contains bacterial MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains at the N-terminus of NlpC/P60 phage tail protein 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.

>cd08061 MPN_NPL4 Mov34/MPN/PAD-1 family: nuclear protein localization-4 (Npl4) domain

Probab=82.76  E-value=12  Score=35.39  Aligned_cols=105  Identities=14%  Similarity=0.091  Sum_probs=67.4

Q ss_pred             CceEEEEEeeEEeC-------CEEEEEEEEeecccccccchhhhHHHHHHHHHHHHHhCCCCceeEEEecCC--------
Q psy401           63 PVQVIGALIGIQVG-------RKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGD--------  127 (326)
Q Consensus        63 ~~~viG~LLG~~~~-------~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p~~~iVGWY~tg~--------  127 (326)
                      ...-+|.|.|+...       .++.|.--||=|...+.+.+.+..+-.+...+... ..-.+..|||=-|..        
T Consensus        33 ~~QR~G~LyG~y~~~~~~plgika~VeaIYEPPQ~~~~d~~~~l~d~~~~~vd~iA-~~lGL~~VG~IfT~l~~~~~d~~  111 (274)
T cd08061          33 GQQRIGFLYGRYDEDEDVPLGIKAVVEAIYEPPQEGTPDGFELLEDPNADTVDAIA-AALGLERVGWIFTDLPREDKDGY  111 (274)
T ss_pred             cceeEEEEEEEeecccCCCCceEEEEEEEECCCccCCCCCeEEccchhhhHHHHHH-HHcCCeEEEEEEecCCCCCCCce
Confidence            35789999999863       47899999998887666655544433333333332 335799999988864        


Q ss_pred             CCChhhHHHHHHHHh-----hCCCc-eEEEEcCCCCCCCCCeeeeeee
Q psy401          128 TVNELDIKVHKQICE-----INESP-IFLKLNPHPIHSNLPVSVYESI  169 (326)
Q Consensus       128 ~~~~~d~~ih~~~~~-----~~~~p-I~L~vD~~~~~~~lpi~ay~~~  169 (326)
                      .++..++.....++.     ..++. +-+++.+..+ +...+.+|..+
T Consensus       112 ~LSs~Evi~aA~~Q~~~~~g~~gskFvT~vvs~~~~-g~i~~~ayQvS  158 (274)
T cd08061         112 FLSAEEVILAAKFQLKHPTGKFGSKFVTVVVTGDKD-GQIHFEAYQVS  158 (274)
T ss_pred             eECHHHHHHHHHHhhhcccCCcCCeEEEEEEecCCC-Cceeeeeeeec
Confidence            234555555555652     23343 4466666543 66888899865

Npl4p (nuclear protein localization-4) is identical to Hmg-CoA reductase degradation 4 (HRD4) protein and contains a domain that is part of the pfam clan MPN/Mov34-like. Npl4 plays an intermediate role between endoplasmic reticulum-associated degradation (ERAD) substrate ubiquitylation and proteasomal degradation. Npl4p associates with Cdc48p (Cdc48 in yeast and p97 or valosin-containing protein (VCP) in higher eukaryotes), the highly conserved ATPase of the AAA family, via ubiquitin fusion degradation-1 protein (Ufd1p) to form a Cdc48p-Ufd1p-Npl4p complex which then functions in the recognition of several polyubiquitin-tagged proteins and facilitates their presentation to the 26S proteasome for processive degradation. This family of eukaryotic MPN-like domains lacks the key residues that coordinate a metal ion and therefore does not show catalytic isopeptidase activity.

>cd08059 MPN_prok_mb Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); prokaryotic

Probab=82.20  E-value=6.8  Score=30.63  Aligned_cols=70  Identities=14%  Similarity=0.153  Sum_probs=43.2

Q ss_pred             hHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccchhhhHHHHHHHHHHHHHhCCCCceeEEEecCC
Q psy401           48 NISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGD  127 (326)
Q Consensus        48 ~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p~~~iVGWY~tg~  127 (326)
                      .|.+|+.+.     .+...+|+|+|...+   .+.+..++|...    ...+..+      ......-+..+||.|++.+
T Consensus         5 ~i~~~~~~~-----~p~E~~gll~~~~~~---~~~~~~~~~~~~----~~~~~~~------~~~a~~~~~~~v~i~HsHP   66 (101)
T cd08059           5 TILVHAKDA-----HPDEFCGFLSGSKDN---VMDELIFLPFVS----GSVSAVI------DLAALEIGMKVVGLVHSHP   66 (101)
T ss_pred             HHHHHHHhc-----CChhhheeeecCCCC---eEEEEEeCCCcC----CccChHH------HHHHhhCCCcEEEEEecCc
Confidence            345555443     256799999997654   567777777432    2233332      2222334678999999976


Q ss_pred             ----CCChhhHH
Q psy401          128 ----TVNELDIK  135 (326)
Q Consensus       128 ----~~~~~d~~  135 (326)
                          .++..|..
T Consensus        67 ~g~~~PS~~D~~   78 (101)
T cd08059          67 SGSCRPSEADLS   78 (101)
T ss_pred             CCCCCCCHHHHH
Confidence                46677764

This family contains bacterial and archaeal MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These catalytically active 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.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	326
4e0q_A	141	Crystal Structure Of Mpn Domain From Cop9 Signaloso		3e-43
4b4t_U	338	Near-Atomic Resolution Structural Model Of The Yeas		3e-16
2o95_A	187	Crystal Structure Of The Metal-Free Dimeric Human M		8e-08
2o96_A	178	Crystal Structure Of The Metal-Free Dimeric Human M		9e-08

>pdb|4E0Q|A Chain A, Crystal Structure Of Mpn Domain From Cop9 Signalosome Length = 141

Iteration: 1
 Score =  171 bits (434), Expect = 3e-43,   Method: Compositional matrix adjust.
 Identities = 84/141 (59%), Positives = 104/141 (73%), Gaps = 1/141 (0%)
Query: 32  GVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNI 91
           G   S+ +SLHPLVI NISEH+TR RAQ G+P QV GALIG Q GR +EI NSFEL  ++
Sbjct: 1   GSHXSVTISLHPLVIXNISEHWTRFRAQHGEPRQVYGALIGKQKGRNIEIXNSFELKTDV 60
Query: 92  IEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLK 151
           I DE +IN+DYY  KE+Q+KQVF DLDF+GWYTTGD     DIK+ +QI  INE PI L+
Sbjct: 61  IGDETVINKDYYNKKEQQYKQVFSDLDFIGWYTTGDNPTADDIKIQRQIAAINECPIXLQ 120
Query: 152 LNPHPIH-SNLPVSVYESIID 171
           LNP      +LP+ ++ES+ID
Sbjct: 121 LNPLSRSVDHLPLKLFESLID 141

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

Iteration: 1
 Score = 82.8 bits (203), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 68/240 (28%), Positives = 124/240 (51%), Gaps = 12/240 (5%)
Query: 39  VSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIE---DE 95
           V++ PLV+++  +HY R + +E K  + +G ++G      + + NSF L +   E   D 
Sbjct: 8   VTIAPLVLLSALDHYERTQTKENK--RCVGVILGDANSSTIRVTNSFALPFEEDEKNSDV 65
Query: 96  MIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINES-PIFLKLNP 154
             ++ +Y     E  K++      +GWY +G  +   D+K+++   +  ++ P+ L ++ 
Sbjct: 66  WFLDHNYIENMNEMCKKINAKEKLIGWYHSGPKLRASDLKINELFKKYTQNNPLLLIVDV 125
Query: 155 HPIHSNLPVSVYESI--IDLVGGEATMLFIELPYTIITEEAERMGVDHVAR-MSNNDSGE 211
                 LP   Y +I  +   G      F+ LP TI  EEAE +GV+H+ R + +  +G 
Sbjct: 126 KQQGVGLPTDAYVAIEQVKDDGTSTEKTFLHLPCTIEAEEAEEIGVEHLLRDVRDQAAGG 185
Query: 212 SSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVLDNP 271
            S+    LT Q  ++K L  ++K +++YL +V +  LP+NH IL +L  + + LP L  P
Sbjct: 186 LSI---RLTNQLKSLKGLQSKLKDVVEYLDKVINKELPINHTILGKLQDVFNLLPNLGTP 242

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

Iteration: 1
 Score = 54.3 bits (129), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 35/136 (25%), Positives = 70/136 (51%), Gaps = 8/136 (5%)
Query: 39  VSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDE--- 95
           V +HPLV++++ +H+ R   + G   +V+G L+G    + L++ NSF + ++  ED+   
Sbjct: 10  VVVHPLVLLSVVDHFNRI-GKVGNQKRVVGVLLGSWQKKVLDVSNSFAVPFD--EDDKDD 66
Query: 96  --MIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLN 153
               ++ DY       FK+V      +GWY TG  +++ DI +++ +     + + + ++
Sbjct: 67  SVWFLDHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELMKRYCPNSVLVIID 126
Query: 154 PHPIHSNLPVSVYESI 169
             P    LP   Y S+
Sbjct: 127 VKPKDLGLPTEAYISV 142

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

Iteration: 1
 Score = 54.3 bits (129), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 35/136 (25%), Positives = 70/136 (51%), Gaps = 8/136 (5%)
Query: 39  VSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDE--- 95
           V +HPLV++++ +H+ R   + G   +V+G L+G    + L++ NSF + ++  ED+   
Sbjct: 10  VVVHPLVLLSVVDHFNRI-GKVGNQKRVVGVLLGSWQKKVLDVSNSFAVPFD--EDDKDD 66
Query: 96  --MIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLN 153
               ++ DY       FK+V      +GWY TG  +++ DI +++ +     + + + ++
Sbjct: 67  SVWFLDHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELMKRYCPNSVLVIID 126
Query: 154 PHPIHSNLPVSVYESI 169
             P    LP   Y S+
Sbjct: 127 VKPKDLGLPTEAYISV 142

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	326
2o95_A	187	26S proteasome non-ATPase regulatory subunit 7; PS	1e-48
4e0q_A	141	COP9 signalosome complex subunit 6; MPN (MPR1P and	7e-48
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-08

>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 =  160 bits (405), Expect = 1e-48
 Identities = 44/184 (23%), Positives = 90/184 (48%), Gaps = 6/184 (3%)

Query: 34  TGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIE 93
                V +HPLV++++ +H+ R   + G   +V+G L+G    + L++ NSF + ++  +
Sbjct: 5   LAVQKVVVHPLVLLSVVDHFNRI-GKVGNQKRVVGVLLGSWQKKVLDVSNSFAVPFDEDD 63

Query: 94  DEM---IINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFL 150
            +     ++ DY       FK+V      +GWY TG  +++ DI +++ +     + + +
Sbjct: 64  KDDSVWFLDHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELMKRYCPNSVLV 123

Query: 151 KLNPHPIHSNLPVSVYESIIDLV--GGEATMLFIELPYTIITEEAERMGVDHVARMSNND 208
            ++  P    LP   Y S+ ++   G   +  F  +   I  EEAE +GV+H+ R   + 
Sbjct: 124 IIDVKPKDLGLPTEAYISVEEVHDDGTPTSKTFEHVTSEIGAEEAEEVGVEHLLRDIKDT 183

Query: 209 SGES 212
           +  +
Sbjct: 184 TVGT 187

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

 Score =  156 bits (397), Expect = 7e-48
 Identities = 85/141 (60%), Positives = 105/141 (74%), Gaps = 1/141 (0%)

Query: 32  GVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNI 91
           G   S+ +SLHPLVIMNISEH+TR RAQ G+P QV GALIG Q GR +EI NSFEL  ++
Sbjct: 1   GSHMSVTISLHPLVIMNISEHWTRFRAQHGEPRQVYGALIGKQKGRNIEIMNSFELKTDV 60

Query: 92  IEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLK 151
           I DE +IN+DYY  KE+Q+KQVF DLDF+GWYTTGD     DIK+ +QI  INE PI L+
Sbjct: 61  IGDETVINKDYYNKKEQQYKQVFSDLDFIGWYTTGDNPTADDIKIQRQIAAINECPIMLQ 120

Query: 152 LNPHPIHSN-LPVSVYESIID 171
           LNP     + LP+ ++ES+ID
Sbjct: 121 LNPLSRSVDHLPLKLFESLID 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 = 56.4 bits (135), Expect = 6e-09
 Identities = 40/320 (12%), Positives = 96/320 (30%), Gaps = 90/320 (28%)

Query: 10  TATSSEVMDVDDTPAGKSV----MAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKP-- 63
           T    +V D         +     +  +T     SL    + +       R      P  
Sbjct: 271 TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL-DCRPQDLPREVLTTNPRR 329

Query: 64  VQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWY 123
           + +I   I   +       N      N  +   II      L+  +++++F  L      
Sbjct: 330 LSIIAESIRDGLAT---WDNW--KHVNCDKLTTIIESSLNVLEPAEYRKMFDRL------ 378

Query: 124 TTGDTVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIE 183
                                   +F      P  +++P  +             +++ +
Sbjct: 379 -----------------------SVF------PPSAHIPTILLS-----------LIWFD 398

Query: 184 LPYTIITEEAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEV 243
           +       +   + V+ + +         SLV +       +I  +++ +K+ L+    +
Sbjct: 399 VIK----SDVMVV-VNKLHK--------YSLVEKQPKESTISIPSIYLELKVKLENEYAL 445

Query: 244 ESGTLPVNHDILRELNALRHRLP-VLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQ 302
                   H  + +     + +P   D+     D      D    +++G   K   +  +
Sbjct: 446 --------HRSIVD----HYNIPKTFDS----DDLIPPYLDQYFYSHIGHHLKNI-EHPE 488

Query: 303 FVNKFNVLF-DKQMLGRKLR 321
            +  F ++F D + L +K+R
Sbjct: 489 RMTLFRMVFLDFRFLEQKIR 508

>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 = 53.7 bits (128), Expect = 4e-08
 Identities = 43/221 (19%), Positives = 71/221 (32%), Gaps = 72/221 (32%)

Query: 12  TSSEVMDVDDTPAGKSVMAKGV---TGSIH-------------VSLHPLVIMNISEHYTR 55
             S+VM V +     S++ K     T SI               +LH  ++    +HY  
Sbjct: 400 IKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIV----DHYNI 455

Query: 56  RRAQEGKPVQVIGALIGIQVGRKLEIKNSF--ELVYNIIEDEMIINRDYYTLKEEQFKQV 113
            +  +   +                +   F   + +++   E          +   F+ V
Sbjct: 456 PKTFDSDDLI------------PPYLDQYFYSHIGHHLKNIEH-------PERMTLFRMV 496

Query: 114 FCDLDFLG---------WYTTGDTVNEL-DIKVHKQ-ICE--------INESPIFLKLNP 154
           F D  FL          W  +G  +N L  +K +K  IC+        +N    FL    
Sbjct: 497 FLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFL---- 552

Query: 155 HPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIITEEAER 195
             I  NL  S Y  ++ +    A M         I EEA +
Sbjct: 553 PKIEENLICSKYTDLLRI----ALM----AEDEAIFEEAHK 585

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	326
4b4t_U	338	RPN8, 26S proteasome regulatory subunit RPN8; hydr	100.0
4e0q_A	141	COP9 signalosome complex subunit 6; MPN (MPR1P and	100.0
2o95_A	187	26S proteasome non-ATPase regulatory subunit 7; PS	100.0
4b4t_V	306	26S proteasome regulatory subunit RPN11; hydrolase	99.97
2znr_A	178	AMSH-like protease; metal binding protein, alterna	99.22
3rzv_A	211	STAM-binding protein; ubiquitin hydrolase, endosom	99.05
2kks_A	146	Uncharacterized protein; NESG, structural genomics	98.76
2kcq_A	153	MOV34/MPN/PAD-1 family; NESG, structure, structura	98.51
1oi0_A	124	AF2198, hypothetical protein AF2198; proteasome, d	97.59
2p8r_A	273	PRP8, PRE-mRNA-splicing factor PRP8; alpha-beta, t	93.85
2og4_A	254	PRE-mRNA-splicing factor 8; isopeptidase, JAB1/MPN	91.49
3sbg_A	565	PRE-mRNA-splicing factor 8; PRP8P, rnaseh domain,	88.67

>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=5.4e-66  Score=494.77  Aligned_cols=269  Identities=24%  Similarity=0.475  Sum_probs=182.1

Q ss_pred             CceEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeeccccccc---chhhhHHHHHHHHHHHH
Q psy401           35 GSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIED---EMIINRDYYTLKEEQFK  111 (326)
Q Consensus        35 ~~~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~---~~~iD~~y~~~m~~l~k  111 (326)
                      ...+|.|||||||+|+|||+|.+.+  .+.||+|+|||.++|+.|||+|||++|++++++   .|++|.+|+++|+++||
T Consensus         4 ~~~~V~vhPlVll~I~dH~~R~~~~--~~~rViG~LLG~~~~~~veV~nsF~~p~~e~~~~~~~~~~D~~y~~~m~~~~k   81 (338)
T 4b4t_U            4 QHEKVTIAPLVLLSALDHYERTQTK--ENKRCVGVILGDANSSTIRVTNSFALPFEEDEKNSDVWFLDHNYIENMNEMCK   81 (338)
T ss_dssp             CCSEEEECHHHHHHHHHHHHHHTTT--CCSCCEEEEEEEECSSEEEEEEEEECCEEECSSSTTCEEECHHHHHHHHHHHH
T ss_pred             CCCEEEEecHHHHHHHHHHHHhhcC--CCCeEEEEEEeEEcCCEEEEEEEEEeccccCCCCCccccccHHHHHHHHHHHh
Confidence            3468999999999999999996543  357999999999999999999999999988653   46899999999999999


Q ss_pred             HhCCCCceeEEEecCCCCChhhHHHHHHHHhhCC-CceEEEEcCCCCCCCCCeeeeeeeeeccC--CcccceeEEeeEEE
Q psy401          112 QVFCDLDFLGWYTTGDTVNELDIKVHKQICEINE-SPIFLKLNPHPIHSNLPVSVYESIIDLVG--GEATMLFIELPYTI  188 (326)
Q Consensus       112 ~V~p~~~iVGWY~tg~~~~~~d~~ih~~~~~~~~-~pI~L~vD~~~~~~~lpi~ay~~~~~~~~--~~~~~~f~~i~~~i  188 (326)
                      +|||++.+||||+||+.+++.|+.||++|+++++ +|++|++|+...++++|+++|++.....+  ...+..|.++|++|
T Consensus        82 kV~~~e~iVGWY~tg~~~~~~d~~Ih~~~~~~~~~~pi~l~~d~~~~~~~lpi~aY~s~~~~~~~~~~~~~~F~~lp~~i  161 (338)
T 4b4t_U           82 KINAKEKLIGWYHSGPKLRASDLKINELFKKYTQNNPLLLIVDVKQQGVGLPTDAYVAIEQVKDDGTSTEKTFLHLPCTI  161 (338)
T ss_dssp             HHCCSCEEEEEEECCSSCCSTHHHHHHHHGGGCCSCCCEEEECSCCCSSSCSEEEEEEEEECSSCSTTCEEEEEEECEEE
T ss_pred             hcCccCCEEEEEecCCCCCccHHHHHHHHHhccCCCcEEEEecCCCCCCCcceEEEEeehhccCCCcccccEEEEeeeEe
Confidence            9999999999999999999999999999999985 89999999999989999999998765432  23567899999999


Q ss_pred             ecChHHHHHHHHHhhccCCCCCCchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhcCCCC
Q psy401          189 ITEEAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVL  268 (326)
Q Consensus       189 ~~~eaErI~vd~l~~~~~~~~~~~~~l~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~d~~ilR~i~~lv~~lP~~  268 (326)
                      +++|+|||||+++++.....+  .+.+..++..+.+++++|..||+.|++||++|.+|++++|++|||+|+++|+++|.+
T Consensus       162 ~~~eaE~Igv~~l~r~~~~~~--~~~l~~~l~~~~~al~~L~~~l~~i~~Yl~~V~~g~~~~n~~ilr~l~~~~~~lP~l  239 (338)
T 4b4t_U          162 EAEEAEEIGVEHLLRDVRDQA--AGGLSIRLTNQLKSLKGLQSKLKDVVEYLDKVINKELPINHTILGKLQDVFNLLPNL  239 (338)
T ss_dssp             CSCHHHHHHHHHHHHHHSSCC-----CHHHHHHHHHHHHHHHHHHHHHHHHHHHC-------------------------
T ss_pred             ecCcHHHHHHHHHHhccccCc--ccccchhHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCHHHHHHHHHHHhhCCcC
Confidence            999999999999999875432  345677899999999999999999999999999999999999999999999999998


Q ss_pred             Ch-----------------hHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHh
Q psy401          269 DN-----------------PAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKF  307 (326)
Q Consensus       269 ~~-----------------~~f~~~~~~~~~D~lmv~yLa~ltk~~~~l~~~~~k~  307 (326)
                      +.                 ++|+++|+.+.||+|||+|||+|+|+|++|+++++..
T Consensus       240 ~~~~~~~~~~~~~~~~~~~~~f~~~f~~~~nD~Lmv~YLs~L~rs~~al~eli~nk  295 (338)
T 4b4t_U          240 GTPDDDEIDVENHDRINISNNLQKALTVKTNDELMVIYISNLVRSIIAFDDLIENK  295 (338)
T ss_dssp             --------------------------------------------------------
T ss_pred             CcccccccccccccccchhHHHHHHHHhhcccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            64                 4589999999999999999999999999999999754

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

Probab=100.00  E-value=2.2e-42  Score=292.12  Aligned_cols=139  Identities=60%  Similarity=0.981  Sum_probs=115.6

Q ss_pred             CCCCceEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccchhhhHHHHHHHHHHHH
Q psy401           32 GVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFK  111 (326)
Q Consensus        32 ~~~~~~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k  111 (326)
                      |++++.+|+|||||||+|+|||+|.+.+.+.+.+|+|+|||.++|++|||+|||++|++++++++.+|.+|+++|+++||
T Consensus         1 ~~~~~~~V~ihplvll~I~dH~~R~~~~~g~~~~V~G~LLG~~~~~~veV~nsF~~p~~~~~~~~~~d~~y~~~m~~~~k   80 (141)
T 4e0q_A            1 GSHMSVTISLHPLVIMNISEHWTRFRAQHGEPRQVYGALIGKQKGRNIEIMNSFELKTDVIGDETVINKDYYNKKEQQYK   80 (141)
T ss_dssp             ----CEEEEECHHHHHHHHHHHHCC------CCEEEEEEEEEEETTEEEEEEEEECCEEEETTEEEECHHHHHHHHHHHH
T ss_pred             CCCCcEEEEEecHHHHHHHHHHhhhcccCCCCcEEEEEEEEEEeCCEEEEEEEEEecccCCCCceeecHHHHHHHHHHHH
Confidence            35778999999999999999999976554557899999999999999999999999999888889999999999999999


Q ss_pred             HhCCCCceeEEEecCCCCChhhHHHHHHHHhhCCCceEEEEcCCCCC-CCCCeeeeeeee
Q psy401          112 QVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLNPHPIH-SNLPVSVYESII  170 (326)
Q Consensus       112 ~V~p~~~iVGWY~tg~~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~-~~lpi~ay~~~~  170 (326)
                      +|||++.+||||++|+.++..|+.||++|++++++||+|++||.++. ++||++||+++.
T Consensus        81 ~v~~~e~iVGWY~s~~~~~~~d~~i~~~~~~~~~~pV~L~~Dp~~~~~g~Lp~~ay~sv~  140 (141)
T 4e0q_A           81 QVFSDLDFIGWYTTGDNPTADDIKIQRQIAAINECPIMLQLNPLSRSVDHLPLKLFESLI  140 (141)
T ss_dssp             HHSTTCEEEEEEEEEC-------CHHHHHHHTTCCCEEEEESCSCCCCTTHHHHHHCC--
T ss_pred             HhCCCccEEEEEeCCCCCCcchHHHHHHHHHHCCCCEEEEECCCccCCCeEEEEEEEEEc
Confidence            99999999999999999999999999999999999999999999876 469999999753

>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=100.00  E-value=3.3e-40  Score=291.42  Aligned_cols=174  Identities=25%  Similarity=0.478  Sum_probs=153.0

Q ss_pred             CCceEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeeccccccc---chhhhHHHHHHHHHHH
Q psy401           34 TGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIED---EMIINRDYYTLKEEQF  110 (326)
Q Consensus        34 ~~~~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~---~~~iD~~y~~~m~~l~  110 (326)
                      .+..+|+|||+|+++|+|||+|.+.+ +.+.+|+|+|||.+.++.++|+|||++|+.++++   .+.+|.+|+++|++++
T Consensus         5 ~~~~~V~i~plvllkI~~H~~r~~~~-~~~~~V~G~LLG~~~~~~v~V~~~f~lp~~~~~~~~~~~~~d~ey~~~m~~~~   83 (187)
T 2o95_A            5 LAVQKVVVHPLVLLSVVDHFNRIGKV-GNQKRVVGVLLGSWQKKVLDVSNSFAVPFDEDDKDDSVWFLDHDYLENMYGMF   83 (187)
T ss_dssp             CSCSEEEECHHHHHHHHHHHHHHHHT-TCCSCCEEEEEEEESSSEEEEEEEEEECEEECSSCTTSEEECHHHHHHHHHHH
T ss_pred             CCCCEEEEchHHHHHHHHHHhhhccc-CCCcEEEEEEEEEEcCCEEEEEEEEEeCCcccCCCcchhhcCHHHHHHHHHHH
Confidence            44578999999999999999998431 2468999999999999999999999999987654   3589999999999999


Q ss_pred             HHhCCCCceeEEEecCCCCChhhHHHHHHHHhhCCCceEEEEcCCCCCCCCCeeeeeeeeeccC-C-cccceeEEeeEEE
Q psy401          111 KQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVG-G-EATMLFIELPYTI  188 (326)
Q Consensus       111 k~V~p~~~iVGWY~tg~~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~lpi~ay~~~~~~~~-~-~~~~~f~~i~~~i  188 (326)
                      ++++|++.+||||++++..+..|..||++|++++++|++|++||....+++|+++|++.....+ + .....|.++|++|
T Consensus        84 ~~v~~~~~iVGWY~s~~~~s~~d~~i~~~~~~~~~~~v~Livd~~~~~~~l~i~ay~~~~~~~~~~~~~~~~F~~ip~~I  163 (187)
T 2o95_A           84 KKVNARERIVGWYHTGPKLHKNDIAINELMKRYCPNSVLVIIDVKPKDLGLPTEAYISVEEVHDDGTPTSKTFEHVTSEI  163 (187)
T ss_dssp             HTTSSSCEEEEEEECCSSCCTTHHHHHHHHTTTCTTCEEEEECCCTTC-CCSEEEEEEEEECC----CCEEEEEEEEEEE
T ss_pred             HHhCCCCCEEEEEcCCCcCCcccHHHHHHHHhcCCCCEEEEECCCCCCCCcCeEEEEEechhcCCCCcccCEEEEeeEEE
Confidence            9999999999999999999999999999999999999999999988766799999999765432 2 3467899999999


Q ss_pred             ecChHHHHHHHHHhhccCCC
Q psy401          189 ITEEAERMGVDHVARMSNND  208 (326)
Q Consensus       189 ~~~eaErI~vd~l~~~~~~~  208 (326)
                      +++|||||||+|+++.....
T Consensus       164 ~~~eaE~i~v~~l~~~~~~~  183 (187)
T 2o95_A          164 GAEEAEEVGVEHLLRDIKDT  183 (187)
T ss_dssp             CCCHHHHHHHHHHHHHCCSC
T ss_pred             ecCcHHHHHHHHHHhcCCCc
Confidence            99999999999999988653

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

Probab=99.97  E-value=6.2e-31  Score=248.38  Aligned_cols=238  Identities=12%  Similarity=0.172  Sum_probs=183.0

Q ss_pred             CCceEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEE-eCCEEEEEEEEeecccccccch-hhhHHHHHHHHHHHH
Q psy401           34 TGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQ-VGRKLEIKNSFELVYNIIEDEM-IINRDYYTLKEEQFK  111 (326)
Q Consensus        34 ~~~~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~-~~~~veI~nsF~vp~~e~~~~~-~iD~~y~~~m~~l~k  111 (326)
                      .+..+|+|+|+|||+|++|+.+.     .+..|+|+|||.. +++.++|+|||++|+.++++++ .+|.+|+.+|+++++
T Consensus        22 ~~~~~V~is~lallkm~~Ha~~~-----~~~eV~GlLlG~~~~~~~v~Vt~~f~~P~~~~~~~v~~~d~~y~~~m~~~~~   96 (306)
T 4b4t_V           22 DTKETVYISSIALLKMLKHGRAG-----VPMEVMGLMLGEFVDDYTVNVVDVFAMPQSGTGVSVEAVDDVFQAKMMDMLK   96 (306)
T ss_dssp             SSCCEEEECHHHHHHHHHHTCSC-----SSSCCEEEEEEEEETTTEEEEEEEECCCCEESSSCEECCCHHHHHHHHHHHH
T ss_pred             CCCCEEEEeHHHHHHHHHHhcCC-----CCceEEEEEeeEEcCCeEEEEEEEEeCCcCCCCCchhcCCHHHHHHHHHHHH
Confidence            45688999999999999999542     4679999999985 4678999999999998877665 689999999999999


Q ss_pred             HhCCCCceeEEEecCCC----CChhhHHHHHHHHhhCCCceEEEEcCCCC-CCCCCeeeeeeeeecc---C---------
Q psy401          112 QVFCDLDFLGWYTTGDT----VNELDIKVHKQICEINESPIFLKLNPHPI-HSNLPVSVYESIIDLV---G---------  174 (326)
Q Consensus       112 ~V~p~~~iVGWY~tg~~----~~~~d~~ih~~~~~~~~~pI~L~vD~~~~-~~~lpi~ay~~~~~~~---~---------  174 (326)
                      ++++++.+||||++++.    ++..|+..|..|+..++++|+|++||..+ .|+++++||++.....   +         
T Consensus        97 ~v~~~~~vVGWYhShP~~~~~~S~~Di~tq~~yQ~~~~~~V~lV~Dp~~t~~G~~~i~Afr~~~~~~~~~~~~~~~~~s~  176 (306)
T 4b4t_V           97 QTGRDQMVVGWYHSHPGFGCWLSSVDVNTQKSFEQLNSRAVAVVVDPIQSVKGKVVIDAFRLIDTGALINNLEPRQTTSN  176 (306)
T ss_dssp             HHSCCCCCSEEEEECCSSSCCCCHHHHHHHHHHHHHCSSCEEEEECSSSSSSCSSCEEEEECCHHHHHHCCCCCSCC---
T ss_pred             HhCCCcceeeEEecCCCCCCcCCHHHHHHHHHHHhcCCCcEEEEECCCcCCCCceeeeEEEecCccccccccCccccccc
Confidence            99999999999999864    57889999999999999999999999765 4789999999863210   0         


Q ss_pred             -C------------cccceeEEeeEEEecChHHHHHHHHHhhccCCCCCCchhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q psy401          175 -G------------EATMLFIELPYTIITEEAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLK  241 (326)
Q Consensus       175 -~------------~~~~~f~~i~~~i~~~eaErI~vd~l~~~~~~~~~~~~~l~~~l~~~~~ai~~L~~~i~~i~~Yl~  241 (326)
                       +            .....|.++++++..++.|+..++.+.+..-.   ..-.+...........+.+.++++.+.+|.+
T Consensus       177 ~~~~~~~~~~~~~~~~~~~yy~l~i~~~ks~le~~~L~~L~~~~w~---~~l~~~~~~~~~~~~~~~i~~m~~~~~~y~k  253 (306)
T 4b4t_V          177 TGLLNKANIQALIHGLNRHYYSLNIDYHKTAKETKMLMNLHKEQWQ---SGLKMYDYEEKEESNLAATKSMVKIAEQYSK  253 (306)
T ss_dssp             -------------------CEEECSCCCCCSSCTHHHHHHHHC-------------CHHHHHHHHHHHHHHSSCHHHHHH
T ss_pred             ccccCchhhhhhhccccceEEEeeeEEEeCcHHHHHHHHHHhcccc---cccccCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             0            01245999999999999999999999875421   1111223344566778889999999999999


Q ss_pred             HhhcCCCCCCHHHHHHHHHHHhcCCCCCh-----hHHHHHHHhhhhhHH
Q psy401          242 EVESGTLPVNHDILRELNALRHRLPVLDN-----PAFKTDFYTQCNDVA  285 (326)
Q Consensus       242 ~V~~G~~~~d~~ilR~i~~lv~~lP~~~~-----~~f~~~~~~~~~D~l  285 (326)
                      .|.+++...+.++.      ...++++++     +.++..+++++.++|
T Consensus       254 ~v~~e~~~~~~~l~------~~~vgk~dp~~~l~~~~~~l~~~ni~~~l  296 (306)
T 4b4t_V          254 RIEEEKELTEEELK------TRYVGRQDPKKHLSETADETLENNIVSVL  296 (306)
T ss_dssp             HHHHHHHHHHHHHH------HTCSCSSCCSSSSHHHHHHHHHHHHHHHH
T ss_pred             HHHccccCCHHHHH------hhccCccChHHHHHHHHHHHHHHHHHHHH
Confidence            99988755555543      566788876     555666666555543

>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=99.22  E-value=1.4e-10  Score=101.00  Aligned_cols=123  Identities=15%  Similarity=0.091  Sum_probs=94.5

Q ss_pred             ceEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccchh-hhHHHHHHHHHHHHHhC
Q psy401           36 SIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMI-INRDYYTLKEEQFKQVF  114 (326)
Q Consensus        36 ~~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~~-iD~~y~~~m~~l~k~V~  114 (326)
                      -..|.|-..++.+|+.|+.++..   .+..++|.|+|...++..+|+++|++|...+++.+. .|.+-   .++.  ...
T Consensus         8 ~~~v~i~~~~l~k~l~hA~~~~~---~~~EvcGlL~G~~~~~~~~V~~v~~~pq~~t~~~~~~~~~~e---~~~~--~~~   79 (178)
T 2znr_A            8 LRCVVLPEDLCHKFLQLAESNTV---RGIETCGILCGKLTHNEFTITHVIVPKQSAGPDYCDMENVEE---LFNV--QDQ   79 (178)
T ss_dssp             CCCEEEETTHHHHHHHHHHHHHT---TTCCCEEEEEEEEETTEEEEEEEEECCEEEETTEEEECCHHH---HHHH--HHH
T ss_pred             cEEEEECHHHHHHHHHHHHhCCC---CCceEEEEEeeEecCCCeEEEEEEeCCcCCCCCeeccCCHHH---HHHH--HHh
Confidence            45689999999999999987631   135799999999998899999999999876544443 22221   1111  344


Q ss_pred             CCCceeEEEecCC----CCChhhHHHHHHHHhhCCCceEEEEcCCCCCCCCCeeeeeeee
Q psy401          115 CDLDFLGWYTTGD----TVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESII  170 (326)
Q Consensus       115 p~~~iVGWY~tg~----~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~lpi~ay~~~~  170 (326)
                      .++.+||||+|.+    .++..|+..|..|+...+..|+++++|...    .+++|+...
T Consensus        80 ~~l~~vGwyHSHP~~~~~pS~~Dv~tq~~yq~~~~~~v~iIvsp~~~----~~~afrl~~  135 (178)
T 2znr_A           80 HDLLTLGWIHTHPTQTAFLSSVDLHTHCSYQLMLPEAIAIVCSPKHK----DTGIFRLTN  135 (178)
T ss_dssp             HTCEEEEEEEECSSSCSCCCHHHHHHHHHHHHHCTTCEEEEEEGGGT----EEEEEEECH
T ss_pred             CCCEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhcCCEEEEEEcCCCC----cceEEEEEC
Confidence            6899999999975    578899998988888878889999999863    379998763

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

Probab=99.05  E-value=3.7e-09  Score=94.20  Aligned_cols=123  Identities=15%  Similarity=0.186  Sum_probs=93.0

Q ss_pred             CceEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccchhh-h-HHHHHHHHHHHHH
Q psy401           35 GSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMII-N-RDYYTLKEEQFKQ  112 (326)
Q Consensus        35 ~~~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~~i-D-~~y~~~m~~l~k~  112 (326)
                      +-..|.|-.-++-+|+.|...+-.   .+..++|.|+|...++.++|+++|..|...+++.+.. + .+.++-+.+    
T Consensus        40 ~lr~v~Ipk~ll~kfL~~A~~~tp---~~~EvcGlL~Gk~~~~~~~I~~v~~ppq~gt~~~v~~~~~~e~~~~~~~----  112 (211)
T 3rzv_A           40 GLRHVVVPGRLCPQFLQLASANTA---RGVATCGILCGKLMRNEFTITHVLIPKQSAGSDYCNTENEEELFLIQDQ----  112 (211)
T ss_dssp             TBCCEEEETTHHHHHHHHHHHHHH---TTCCCEEEEEEEEETTEEEEEEEEECCEEECSSCEEECCHHHHHHHHHH----
T ss_pred             ccEEEEECHHHHHHHHHHHHhCCC---CCceEEEEEEeEcCCCCEEEEEEEeCCccCCCCceeccChHHHHHHHhh----
Confidence            346788999999999999977521   1357999999999999999999998887655443322 1 222221111    


Q ss_pred             hCCCCceeEEEecCC----CCChhhHHHHHHHHhhCCCceEEEEcCCCCCCCCCeeeeeeee
Q psy401          113 VFCDLDFLGWYTTGD----TVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESII  170 (326)
Q Consensus       113 V~p~~~iVGWY~tg~----~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~lpi~ay~~~~  170 (326)
                        .++.+||||++.+    .++..|+..|..|+...+.-|++++||...    +++||+...
T Consensus       113 --~~l~~vGWyHSHP~~~~~pS~~Dl~tq~~~q~~~~~~I~IVvsP~~~----~lgaFrLtp  168 (211)
T 3rzv_A          113 --QGLITLGWIHTHPTQTAFLSSVDLHTHCSYQMMLPESVAIVCSPKFQ----ETGFFKLTD  168 (211)
T ss_dssp             --HTCEEEEEEEECTTSCSCCCHHHHHHHHHHHHHCTTCEEEEEETTTT----EEEEEEECH
T ss_pred             --CCCEEEEEEeCCCCCCCCCCHHHHHHHHHHHhcCCCeEEEEEcCCCC----eeeEEEecc
Confidence              4899999999974    578899999988888777789999998743    699999864

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

Probab=98.76  E-value=1.7e-07  Score=78.60  Aligned_cols=131  Identities=11%  Similarity=0.036  Sum_probs=92.9

Q ss_pred             EEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeeccccc-ccchhhhHHHHHHHHHHHHHhCCCC
Q psy401           39 VSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNII-EDEMIINRDYYTLKEEQFKQVFCDL  117 (326)
Q Consensus        39 V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~-~~~~~iD~~y~~~m~~l~k~V~p~~  117 (326)
                      +.|...++..|..|..+.     .+..++|.|+|...++...|+..|++|.... .+.+.+|.+.+.+..+...+  .++
T Consensus         2 l~i~~~~l~~i~~ha~~~-----~p~E~cGlL~G~~~~~~~~v~~~~p~~n~~~~~~~f~~dp~~~~~~~~~~~~--~g~   74 (146)
T 2kks_A            2 ITLTKKQMEEMLAHARQA-----LPNEACGLLGGRRDGDDRWVERVYPLNNLDQSPEHFSMDPREQLTAVKDMRK--NGW   74 (146)
T ss_dssp             EEEEHHHHHHHHHHHHHH-----TTSCEEEEEEEEEETTEEEEEEEECCCCCSCCSSSCCCCHHHHHHHHHHHHH--HTC
T ss_pred             EEECHHHHHHHHHHHHhc-----CCcceEEEEEEEEcCCCcEEEEEEECCCcCCCCceEEECHHHHHHHHHHHHH--CCC
Confidence            568889999999998775     2678999999999988899999999995432 24467887666555544443  358


Q ss_pred             ceeEEEecCC----CCChhhHHHHHHHHhhCCCceEEEEcCCCCCCCCCeeeeeeeeeccCCcccceeEEeeEEEec
Q psy401          118 DFLGWYTTGD----TVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVGGEATMLFIELPYTIIT  190 (326)
Q Consensus       118 ~iVGWY~tg~----~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~lpi~ay~~~~~~~~~~~~~~f~~i~~~i~~  190 (326)
                      .+||||++.+    .++..|..  .  +.. +..+++++.+.. .+...+++|...        ...|.++++.+..
T Consensus        75 ~ivG~~HSHP~~~~~PS~~D~~--~--~~~-~~~~~lIvs~~~-~~~~~~~af~~~--------~~~~~e~~i~~~~  137 (146)
T 2kks_A           75 VMLGNFHSHPATPARPSAEDKR--L--AFD-PSLSYLIISLAE-PQKPVCKSFLIK--------KDGVDEEEIILKE  137 (146)
T ss_dssp             EEEEEEEEESSSCSSCCHHHHT--T--CCS-SSCEEEEEECSC-SSSCEEEEEEEC--------SSCEEEECEEEES
T ss_pred             EEEEEEeCCCcCCCCCCHHHHH--h--hhc-CCCeEEEEEccC-CCceEEEEEEEe--------CCeEEEEEEEEeh
Confidence            9999999976    35666653  1  111 334788887653 224568999862        2368899888754

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

Probab=98.51  E-value=2.3e-07  Score=78.49  Aligned_cols=131  Identities=11%  Similarity=0.114  Sum_probs=88.7

Q ss_pred             EEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEe-CCEEEEEEEEeeccc--cc-ccchhhhHHHHHHHHHHHHHhCC
Q psy401           40 SLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQV-GRKLEIKNSFELVYN--II-EDEMIINRDYYTLKEEQFKQVFC  115 (326)
Q Consensus        40 ~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~-~~~veI~nsF~vp~~--e~-~~~~~iD~~y~~~m~~l~k~V~p  115 (326)
                      .|.+.++..|..|..+.     .+..++|.|+|... ++.+.|+..|++|..  .+ ...+.+|.+.+.+..+..++-  
T Consensus         2 ~i~~~~l~~i~~ha~~~-----~p~E~cGlL~G~~~~~~~~~v~~~~p~~n~~~~~~~~~f~~dp~~~~~~~~~~~~~--   74 (153)
T 2kcq_A            2 KTTPDILDQIRVHGADA-----YPEEGCGFLLGTVTDDGDNRVAALHRATNRRSEQRTRRYELTADDYRAADAAAQEQ--   74 (153)
T ss_dssp             BCCHHHHHHHHHHHHHH-----TTSCCCEEEEEEECTTSCEEEEEEEESSCCCCCCCSCCSSCCCCSHHHHHHHHHHH--
T ss_pred             EeCHHHHHHHHHHHHhc-----CCcceEEEEEEeeccCCCeEEEEEEECCCCCCCCCCcEEEECHHHHHHHHHHHHHC--
Confidence            46678899999999875     26789999999997 788899999999875  32 234567754444444444333  


Q ss_pred             CCceeEEEecCC----CCChhhHHHHHHHHhhCCCceEEEEcCCCCCCC-CCeeeeeeeeeccCCcccceeEEeeEEEec
Q psy401          116 DLDFLGWYTTGD----TVNELDIKVHKQICEINESPIFLKLNPHPIHSN-LPVSVYESIIDLVGGEATMLFIELPYTIIT  190 (326)
Q Consensus       116 ~~~iVGWY~tg~----~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~-lpi~ay~~~~~~~~~~~~~~f~~i~~~i~~  190 (326)
                      ++.+||||++.+    .++..|+.  .  + .....+++++.+..  ++ ..+++|....      ....|.+.++.|..
T Consensus        75 g~~ivG~yHSHP~~~~~PS~~D~~--~--~-~~~~~~~lIvs~~~--~~~~~~~af~~~~------~~g~~~e~~i~v~~  141 (153)
T 2kcq_A           75 GLDVVGVYHSHPDHPARPSATDLE--E--A-TFPGFTYVIVSVRD--GAPEALTAWALAP------DRSEFHREDIVRPD  141 (153)
T ss_dssp             TCEEEEEEEECSSSSSSCCHHHHH--T--C-CCTTSEEEEEEEET--TEEEEEEEEEECT------TCSCEEEECCBCCC
T ss_pred             CCeEEEEEeCCCCCCCCCCHHHHH--h--h-hcCCCeEEEEECCC--CCccEEEEEEEeC------CCCcEEEEEEEEec
Confidence            589999999986    35666642  1  1 12345788886532  22 3588888631      12468888887754

>1oi0_A AF2198, hypothetical protein AF2198; proteasome, deubiquitination, archaea, hydrolase; 1.5A {Archaeoglobus fulgidus} SCOP: c.97.3.1 PDB: 1r5x_A

Probab=97.59  E-value=0.00028  Score=57.15  Aligned_cols=104  Identities=11%  Similarity=0.036  Sum_probs=65.6

Q ss_pred             EEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccchhhhHHHHHHHHHHHHHhCCCCc
Q psy401           39 VSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLD  118 (326)
Q Consensus        39 V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p~~~  118 (326)
                      +.|...++..|..|..+.     .+..++|.|+|...    .|+..|++| ...+.   ....|...|..      .++.
T Consensus         4 v~i~~~~l~~i~~ha~~~-----~P~E~cGlL~g~~~----~v~~~~~~p-~~~~~---~~~~f~~~~~~------~~~~   64 (124)
T 1oi0_A            4 MKISRGLLKTILEAAKSA-----HPDEFIALLSGSKD----VMDELIFLP-FVSGS---VSAVIHLDMLP------IGMK   64 (124)
T ss_dssp             CEECHHHHHHHHHHHHHH-----TTSCCEEEEEESTT----EECEEEECC-CCC----------------------CCCE
T ss_pred             EEEcHHHHHHHHHHHHhc-----CCCeeEEEEecccC----EEEEEEECC-CCCCC---cCceeeeeecc------CCCE
Confidence            678889999999999875     26789999999863    788999999 43221   11122212211      5699


Q ss_pred             eeEEEecCC----CCChhhHHHHHHHHhhCCCceEEEEcCCCCCCCCCeeeeee
Q psy401          119 FLGWYTTGD----TVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYES  168 (326)
Q Consensus       119 iVGWY~tg~----~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~lpi~ay~~  168 (326)
                      +||||++.+    .++..|....    .. ...+++++.+..  +...+++|..
T Consensus        65 ivG~~HSHP~~~~~PS~~D~~~~----~~-~~~~~lIvs~~~--~~~~~~~f~~  111 (124)
T 1oi0_A           65 VFGTVHSHPSPSCRPSEEDLSLF----TR-FGKYHIIVCYPY--DENSWKCYNR  111 (124)
T ss_dssp             EEEEEEEESSSCCSCCHHHHHHH----HH-SCSEEEEEETTC--CTTCEEEEET
T ss_pred             EEEEEEECcCCCCccCHHHHHhh----hc-CCCEEEEEEccC--CCceEEEEec
Confidence            999999976    3566665321    12 334788876533  2245777764

>2p8r_A PRP8, PRE-mRNA-splicing factor PRP8; alpha-beta, translation; 2.10A {Caenorhabditis elegans} PDB: 2p87_A

Probab=93.85  E-value=0.15  Score=46.49  Aligned_cols=107  Identities=16%  Similarity=0.303  Sum_probs=69.4

Q ss_pred             hHHHHHhHhcccCCCCceEEEEEeeEEe---CCEEEEEEEEeecccccccchhh-----hHHHHHHHHHHHHHhCCCCce
Q psy401           48 NISEHYTRRRAQEGKPVQVIGALIGIQV---GRKLEIKNSFELVYNIIEDEMII-----NRDYYTLKEEQFKQVFCDLDF  119 (326)
Q Consensus        48 ~I~dH~~R~~~~~~~~~~viG~LLG~~~---~~~veI~nsF~vp~~e~~~~~~i-----D~~y~~~m~~l~k~V~p~~~i  119 (326)
                      ||++-+.....   .+..++|.|.|...   .+..||+.---+|...+.+.+..     ..+|+           -++..
T Consensus        46 nllkkFi~IAD---lrTq~~G~LyG~s~~d~~~vkeI~~ivipPQ~gt~~sv~~~~~~p~~~~l-----------~dLe~  111 (273)
T 2p8r_A           46 NILKKFITISD---LRTQIAGFMYGVSPPDNPQVKEIRCIVLVPQTGSHQQVNLPTQLPDHELL-----------RDFEP  111 (273)
T ss_dssp             HHHHHHHHTSC---SSSCCEEEEEEECCTTCTTEEEEEEEECCSBEECSSCEECCSSCCCCTTT-----------TTSEE
T ss_pred             HHHHHHHHHhh---ccceEEEEEeccCCCCCCCeEEEEEEEECCccCCCceEECCCcCcchhhh-----------ccccc
Confidence            55666665432   24679999999974   35778875555554433322211     11332           78999


Q ss_pred             eEEEecCC----CCChhhHHHHHHHHhh----C-CCceEEEEcCCCCCCCCCeeeeeeee
Q psy401          120 LGWYTTGD----TVNELDIKVHKQICEI----N-ESPIFLKLNPHPIHSNLPVSVYESII  170 (326)
Q Consensus       120 VGWY~tg~----~~~~~d~~ih~~~~~~----~-~~pI~L~vD~~~~~~~lpi~ay~~~~  170 (326)
                      +||=+|.+    .+++.|+..|..|+..    . +..|.+++-+.+  |...+.+|+.+.
T Consensus       112 LGWIHTqp~e~~~LSs~Dl~tH~~~~~~~~~~~~~e~I~Ivcsftp--gs~sl~af~LT~  169 (273)
T 2p8r_A          112 LGWMHTQPNELPQLSPQDVTTHAKLLTDNISWDGEKTVMITCSFTP--GSVSLTAYKLTP  169 (273)
T ss_dssp             EEEEEEESSCCSSCCHHHHHHHHHHHHHCTTCCTTTCEEEEEEEET--TEEEEEEEEECH
T ss_pred             cceEeeCCCCCCCcCHHHHHHHHHHHhcccccCCCceEEEEEecCC--CCceeEEEEcCh
Confidence            99999964    5788999999888764    2 366887775443  345678888763

>2og4_A PRE-mRNA-splicing factor 8; isopeptidase, JAB1/MPN domain, protein-PR interaction, PRP8P, pseudoenzyme, spliceosome activation; 2.00A {Saccharomyces cerevisiae}

Probab=91.49  E-value=0.42  Score=43.12  Aligned_cols=109  Identities=17%  Similarity=0.230  Sum_probs=69.1

Q ss_pred             hHHHHHhHhcccCCCCceEEEEEeeEEe---CCEEEEEEEEeecccccccchhh-----hHHHHHHHHHHHHHhCCCCce
Q psy401           48 NISEHYTRRRAQEGKPVQVIGALIGIQV---GRKLEIKNSFELVYNIIEDEMII-----NRDYYTLKEEQFKQVFCDLDF  119 (326)
Q Consensus        48 ~I~dH~~R~~~~~~~~~~viG~LLG~~~---~~~veI~nsF~vp~~e~~~~~~i-----D~~y~~~m~~l~k~V~p~~~i  119 (326)
                      ||++-+.....   .+..++|.|.|.-.   .+..||+.---+|...+.+.+..     ..+|..         --++..
T Consensus        45 nLlkkFi~IAD---~~Tq~cG~LyG~~~~d~~~v~eI~~ivippQ~gt~~s~~~~~~~p~~~~~~---------l~dLe~  112 (254)
T 2og4_A           45 NLLKKFIEISD---VKIQVAAFIYGMSAKDHPKVKEIKTVVLVPQLGHVGSVQISNIPDIGDLPD---------TEGLEL  112 (254)
T ss_dssp             HHHHHHHHTSC---SSSCCEEEEEEEECSSCTTEEEEEEEECCCEEEETTEEEECCCCCCTTSTT---------CTTCEE
T ss_pred             HHHHHHHHHhh---ccceEEEEEEccCCCCCCCeEEEEEEEECCccCCCceEECCCcCccccchh---------hcCCEe
Confidence            55555655432   24579999999984   35677875555554333222110     011211         268899


Q ss_pred             eEEEecCC----CCChhhHHHHHHHHh-hCCCceEEEEcCCCCCCCCCeeeeeeee
Q psy401          120 LGWYTTGD----TVNELDIKVHKQICE-INESPIFLKLNPHPIHSNLPVSVYESII  170 (326)
Q Consensus       120 VGWY~tg~----~~~~~d~~ih~~~~~-~~~~pI~L~vD~~~~~~~lpi~ay~~~~  170 (326)
                      +||=+|.+    .+++.|+..|..|+. ..+..|.+++-+.+  |...+.+|+.+.
T Consensus       113 LGWIHTqptq~~fLSs~Dl~tH~~~~~~~~~eaIaIvcsftp--gs~sl~af~LT~  166 (254)
T 2og4_A          113 LGWIHTQTEELKFMAASEVATHSKLFADKKRDCIDISIFSTP--GSVSLSAYNLTD  166 (254)
T ss_dssp             EEEEEEESSCCSSCCHHHHHHHHHHHTTTCTTCEEEEEEEET--TEEEEEEEEECH
T ss_pred             cceEeeCCCCCcccCHHHHHHHHHHHHhcCCCeEEEEEecCC--CCceeEEEEcCh
Confidence            99999964    578899999988876 44677888775543  334578888763

>3sbg_A PRE-mRNA-splicing factor 8; PRP8P, rnaseh domain, JAB1/MPN domain; 3.28A {Saccharomyces cerevisiae}

Probab=88.67  E-value=0.52  Score=46.48  Aligned_cols=95  Identities=17%  Similarity=0.201  Sum_probs=62.0

Q ss_pred             CceEEEEEeeEEe-C--CEEEEEEEEeecccccccchhhh----HH---HHHHHHHHHHHhCCCCceeEEEecCC----C
Q psy401           63 PVQVIGALIGIQV-G--RKLEIKNSFELVYNIIEDEMIIN----RD---YYTLKEEQFKQVFCDLDFLGWYTTGD----T  128 (326)
Q Consensus        63 ~~~viG~LLG~~~-~--~~veI~nsF~vp~~e~~~~~~iD----~~---y~~~m~~l~k~V~p~~~iVGWY~tg~----~  128 (326)
                      ..+++|.|.|... +  +..||+----+|...+.+.+.+-    .+   |           -.++.++||-+|.+    .
T Consensus       368 rTQicGyLyG~sp~dn~nVkEI~cIVipPQ~Gt~~sv~lp~lp~he~~~~-----------l~dLe~LGWIHTqp~et~f  436 (565)
T 3sbg_A          368 KIQVAAFIYGMSAKDHPKVKEIKTVVLVPQLGHVGSVQISNIPDIGDLPD-----------TEGLELLGWIHTQTEELKF  436 (565)
T ss_dssp             SSCCEEEEEEEEETTEEEEEEEEEEECCCEEECSSCEEECCCCCCTTSTT-----------CTTCEEEEEEEEESSCCSS
T ss_pred             cceeEEEEecCCCCCCCCeEEEEEEEECCccCCCceEECCCCCccccccc-----------cccCEecceeeecCCcccc
Confidence            3579999999986 3  45677655444554443333221    11   2           26799999999864    5


Q ss_pred             CChhhHHHHHHHHhhC-CCceEEEEcCCCCCCCCCeeeeeeee
Q psy401          129 VNELDIKVHKQICEIN-ESPIFLKLNPHPIHSNLPVSVYESII  170 (326)
Q Consensus       129 ~~~~d~~ih~~~~~~~-~~pI~L~vD~~~~~~~lpi~ay~~~~  170 (326)
                      +++.|+..|..+...+ ++.|.+++--  ..|.+.+.||....
T Consensus       437 LSs~Dl~THakl~~~n~~~~I~itvsf--tPGS~SLsAy~LT~  477 (565)
T 3sbg_A          437 MAASEVATHSKLFADKKRDCIDISIFS--TPGSVSLSAYNLTD  477 (565)
T ss_dssp             CCHHHHHHHHHHHSSSCTTCEEEEEEE--ETTEEEEEEEEECH
T ss_pred             cCHHHHHHHHHHHHhCCCCeEEEEEEe--cCCceEEEEEecCH
Confidence            7899999998777653 3445555443  34567888888764

---

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	326
d1oi0a_	121	Hypothetical protein AF2198 {Archaeon Archaeoglobu	96.8

>d1oi0a_ c.97.3.1 (A:) Hypothetical protein AF2198 {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: Cytidine deaminase-like
superfamily: JAB1/MPN domain
family: JAB1/MPN domain
domain: Hypothetical protein AF2198
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.80  E-value=0.00062  Score=53.18  Aligned_cols=106  Identities=10%  Similarity=-0.002  Sum_probs=64.2

Q ss_pred             eEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccchhhhHHHHHHHHHHHHHhCCC
Q psy401           37 IHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCD  116 (326)
Q Consensus        37 ~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p~  116 (326)
                      .+++|..-++-.|.+|+.+..     +...||.|+|..  +  .|+..+.+|....+ ....+   ...|.      -.+
T Consensus         2 ~~l~I~~~~l~~i~~hA~~~~-----P~E~cGlL~G~~--~--~i~~~~~~~n~~~~-~~~~~---~~~~~------~~~   62 (121)
T d1oi0a_           2 SSMKISRGLLKTILEAAKSAH-----PDEFIALLSGSK--D--VMDELIFLPFVSGS-VSAVI---HLDML------PIG   62 (121)
T ss_dssp             CSCEECHHHHHHHHHHHHHHT-----TSCCEEEEEEST--T--EECEEEECCCCC-----------------------CC
T ss_pred             CeEEECHHHHHHHHHHHHhcC-----CceeEEEEEecC--C--cEEEEEEcCCCCCC-ccccc---ccchh------hcC
Confidence            457888889999999998863     678999999953  3  35566777754321 11111   11111      147


Q ss_pred             CceeEEEecCC----CCChhhHHHHHHHHhhCCCceEEEEcCCCCCCCCCeeeeee
Q psy401          117 LDFLGWYTTGD----TVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYES  168 (326)
Q Consensus       117 ~~iVGWY~tg~----~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~lpi~ay~~  168 (326)
                      +.+||||++.+    .++..|+....    . ..-+++++-+-...  -.+++|..
T Consensus        63 ~~ivgi~HSHP~~~a~PS~~D~~~~~----~-~g~~~~Ivs~p~~~--~~~~~~~~  111 (121)
T d1oi0a_          63 MKVFGTVHSHPSPSCRPSEEDLSLFT----R-FGKYHIIVCYPYDE--NSWKCYNR  111 (121)
T ss_dssp             CEEEEEEEEESSSCCSCCHHHHHHHH----H-SCSEEEEEETTCCT--TCEEEEET
T ss_pred             CeEEEEEEecCCCCCCcCHHHHHhhh----c-cCCEEEEEeCCCCC--CCEEEEeC
Confidence            89999999976    46777764322    2 22367777653222  25888874