Citrus Sinensis ID: 023397

---

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---
Protein Sequence
MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPCENSLLRQVSSLLRRLPAIESEKFQDDFLMVSLFSSFLNIFTIFYH
Secondary Structure (PSIPRED)
cccccccccEEEEEccEEEEEEHHHHHHHcccccccccccccccccccccccEEEEEEcEEEccEEEEEEEEEEccccccccccHHHHHHHHHHHHHHccccEEEEEEccccccccccHHHHHHHHHHccccEEEEEccccccccccccEEEEEcccccccccccEEEEEEcEEEEcccccHHHHHHHHHccccccccccHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccccccccEEEEEcEEEEEEEHHHHHHHHcccccccccccccccccccccEEEEEEEEEccccEEEEEEcEEEccccccHHHcHHHHHHHHHHHHHcccccEEEEEEcccccccHHHHHHHHHHHHHccccEEEEEEccccccccccccEEEEEEEEccccccEEEEEEccEEEEEHcHHHHcHHHHHEcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHccccccHHccHHHHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
masssssgltfklhpLVIVNISDHYTRVKsqmnhsssatttnddnnngaqprvyGCVIGIQRGRTVEIFNSfellydpsthsLDRAFLEKKQELYKKVFPHFYIlgwystgsdaqesdMHIHKALMdinespvyvllnpsinpaqkdlpvtiFESELHVIEGIPQLIFVRSSYTIETVEAerisvdhvahlkpsdggsaATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMqkgeipcenSLLRQVSSLLRrlpaiesekfqddFLMVSLFSSFLNIFTIFYH
Flexible Loop (DISEMBL)
masssssgltfklhPLVIVNISDHYTRVKSQMNHSssatttnddnnngaQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPCENSLLRQVSSLLRRLPAIESEKFQDDFLMVSLFSSFLNIFTIFYH
Low Complexity Region (SEG)
MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSAtttnddnnnGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPCENsllrqvssllrrlPAIESEKFQDDFLMVSLFSSFLNIFTIFYH
Disordered region (IsUnstruct)
********LTFKLHPLVIVNISDHYTR************************RVYGCVIGIQRGRTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDA**SDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETVEAERISVDHVAHLK******AATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPCENSLLRQVSSLLRRLPAIESEKFQDDFLMVSLFSSFLNIFTIFY*
Disordered Region (DISOPRED)
**********FKLHPLVIVNISDHYTRVKSQMNHSS*********NNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETVEAERISVDHVA********************IHSAIKMLNSRIRVLHHYLVAMQKGEIPCENSLLRQVSSLLRRLPAIESEKFQDDFLMVSLFSSFLNIFTIFYH
Disordered Region (DISEMBL)
*********TFKLHPLVIVNISDHYTRV**************DDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPCENSLLRQVSSLLRRLPAIESEKFQDDFLMVSLFSSFLNIFTIFYH
Disordered Region (DISPRO)
*******GLTFKLHPLVIVNISDHYTRVKSQ******************QPRVYGCVIGIQRGRTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPCENSLLRQVSSLLRRLPAIESEKFQDDFLMVSLFSSFLNIFTIFYH
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHi
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHi
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPCENSLLRQVSSLLRRLPAIESEKFQDDFLMVSLFSSFLNIFTIFYH
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	283	2.2.26 [Sep-21-2011]
Q8W206	317	COP9 signalosome complex	yes	no	0.943	0.842	0.827	1e-131
Q8W1P0	317	COP9 signalosome complex	no	no	0.985	0.880	0.766	1e-127
Q54C92	309	COP9 signalosome complex	yes	no	0.865	0.792	0.439	9e-59
A7TX81	323	COP9 signalosome complex	yes	no	0.932	0.817	0.378	4e-52
Q6NUC2	318	COP9 signalosome complex	N/A	no	0.932	0.830	0.378	4e-52
Q5REY0	328	COP9 signalosome complex	yes	no	0.932	0.804	0.378	4e-52
O88545	324	COP9 signalosome complex	yes	no	0.932	0.814	0.378	5e-52
A6QQ21	324	COP9 signalosome complex	yes	no	0.932	0.814	0.378	7e-52
Q07G98	319	COP9 signalosome complex	yes	no	0.932	0.827	0.378	8e-52
Q7L5N1	327	COP9 signalosome complex	yes	no	0.932	0.807	0.375	1e-51

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

 Score =  466 bits (1199), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 225/272 (82%), Positives = 245/272 (90%), Gaps = 5/272 (1%)

Query: 1   MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNG-----AQPRVYG 55
           MA SSSSGLTFKLHPLVIVNISDHYTRVK+Q+N  +S   +   +NNG       PRVYG
Sbjct: 1   MAPSSSSGLTFKLHPLVIVNISDHYTRVKTQLNPPASICASGHGSNNGEAMFQQNPRVYG 60

Query: 56  CVIGIQRGRTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQ 115
           CVIG+QRGRTVEIFNSFELLYDPST +LDR+FLEKKQELYKKVFP FYILGWYSTGSDA+
Sbjct: 61  CVIGVQRGRTVEIFNSFELLYDPSTQTLDRSFLEKKQELYKKVFPDFYILGWYSTGSDAE 120

Query: 116 ESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTI 175
           ESDMHIHKALMDINESPVYVLLNP+IN  QKDLPVTI+ESELHVI+GIPQLIF  +SYTI
Sbjct: 121 ESDMHIHKALMDINESPVYVLLNPAINHTQKDLPVTIYESELHVIDGIPQLIFAHTSYTI 180

Query: 176 ETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGE 235
           ETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVL+  L AMQKG+
Sbjct: 181 ETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLYQNLAAMQKGD 240

Query: 236 IPCENSLLRQVSSLLRRLPAIESEKFQDDFLM 267
             C+NS+LRQVSSLLRRLPA+ESE+FQD+FLM
Sbjct: 241 KSCDNSVLRQVSSLLRRLPAMESERFQDNFLM 272

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)

>sp|Q8W1P0|CSN6B_ARATH COP9 signalosome complex subunit 6b OS=Arabidopsis thaliana GN=CSN6B PE=1 SV=2

 Score =  453 bits (1166), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 220/287 (76%), Positives = 250/287 (87%), Gaps = 8/287 (2%)

Query: 1   MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNG-----AQPRVYG 55
           MA SSSSGLTFKLHPLV++NISDH+TRVK+Q+N  +++  T + +NN        PRVYG
Sbjct: 1   MAPSSSSGLTFKLHPLVMLNISDHFTRVKTQLNPPAASCATGNGSNNADAMLLQNPRVYG 60

Query: 56  CVIGIQRGRTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQ 115
           CVIG+QRGRTVEIFNSFEL++DP+  +LDR+FLEKKQELYKKVFP FY+LGWYSTGSDA 
Sbjct: 61  CVIGLQRGRTVEIFNSFELIFDPALDTLDRSFLEKKQELYKKVFPDFYVLGWYSTGSDAT 120

Query: 116 ESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTI 175
           ESDMHIHKALMDINESPVYVLLNP+IN AQKDLPVTI+ESE HVI+GIPQ IFV +SYTI
Sbjct: 121 ESDMHIHKALMDINESPVYVLLNPAINHAQKDLPVTIYESEFHVIDGIPQSIFVHTSYTI 180

Query: 176 ETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGE 235
           ETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVL+ ++VAMQKG+
Sbjct: 181 ETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLYQHIVAMQKGD 240

Query: 236 IPCENSLLRQVSSLLRRLPAIESEKFQDDFLMV---SLFSSFLNIFT 279
            PCENS+LRQVSSLLR LPA ESEKF ++FLM     L  S+L + T
Sbjct: 241 KPCENSVLRQVSSLLRSLPAAESEKFNENFLMEYNDKLLMSYLAMIT 287

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)

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

 Score =  227 bits (578), Expect = 9e-59,   Method: Compositional matrix adjust.
 Identities = 117/266 (43%), Positives = 172/266 (64%), Gaps = 21/266 (7%)

Query: 3   SSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQR 62
           S++SSGL   LHPLV++NISDH+TR K Q N+  +              RV G ++G+Q 
Sbjct: 20  SANSSGLEVDLHPLVLINISDHFTRTKVQSNYQDNC-------------RVIGVILGVQN 66

Query: 63  GRTVEIFNSFELLYDPSTHSL--DRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMH 120
           GR VEI NSFE++Y      L  D  +L KK   Y+++FP + +LGWYSTGS   + D+ 
Sbjct: 67  GRNVEICNSFEMVYATVDKQLVLDIEYLRKK---YEQLFPLYDLLGWYSTGSQVSKDDIL 123

Query: 121 IHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETVEA 180
           +HK + + NESP+Y++L+   +P  KDLPV I+ESELH++   P  IFV++ Y I+T EA
Sbjct: 124 LHKQISEHNESPLYLMLDTD-SPKSKDLPVIIYESELHIVNDEPTTIFVKTPYKIQTGEA 182

Query: 181 ERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPCEN 240
           ERI V+H+A + PS  GS  + L +HL  +H+AI MLN R++ L  YL A+++  +P E 
Sbjct: 183 ERIGVNHIAKVTPS--GSEGSGLTSHLFTMHNAISMLNIRVKALSDYLQAVKEKRLPYEQ 240

Query: 241 SLLRQVSSLLRRLPAIESEKFQDDFL 266
           ++LR+ SSL  +LP I++  F+  +L
Sbjct: 241 NILRKASSLCNQLPTIDTHDFKKSYL 266

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

 Score =  204 bits (520), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 114/301 (37%), Positives = 170/301 (56%), Gaps = 37/301 (12%)

Query: 1   MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGI 60
           MAS  +  ++  LHPLVI+NISDH+ R++SQ                G   +V G +IG 
Sbjct: 27  MASGVTGSVSVALHPLVILNISDHWIRMRSQ---------------EGRPMQVIGALIGK 71

Query: 61  QRGRTVEIFNSFELLYDPSTHSL--DRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESD 118
           Q GR +E+ NSFELL       +  D+ +   K+E +K+VF     LGWY+TG     SD
Sbjct: 72  QEGRNIEVMNSFELLSHTVEEKIIIDKEYYYTKEEQFKQVFKELEFLGWYTTGGPPDPSD 131

Query: 119 MHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETV 178
           +H+HK + +I ESP+++ LNP       DLPV++FES + +I G   ++F   +YT+ T 
Sbjct: 132 IHVHKQVCEIIESPLFLKLNPMTK--HTDLPVSVFESVIDIINGEATMLFAELTYTLATE 189

Query: 179 EAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPC 238
           EAERI VDHVA +  +  G  +T +A HL   HSAIKML+SR++++  Y+ A + GE+P 
Sbjct: 190 EAERIGVDHVARMTATGSGENST-VAEHLIAQHSAIKMLHSRVKLILEYVKASEAGEVPF 248

Query: 239 ENSLLRQVSSLLRRLPAIESEKFQDDF--------LMVSL---------FSSFLNIFTIF 281
            + +LR+  +L   LP + ++KF+ DF        LM  L          + F+N F + 
Sbjct: 249 NHEILREAYALCHCLPVLSTDKFKTDFYDQCNDVGLMAYLGTITKTCNTMNQFVNKFNVL 308

Query: 282 Y 282
           Y
Sbjct: 309 Y 309

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

 Score =  204 bits (520), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 114/301 (37%), Positives = 171/301 (56%), Gaps = 37/301 (12%)

Query: 1   MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGI 60
           MA   +  +T  LHPLVI+NISDH+ R++SQ                G   +V G +IG 
Sbjct: 22  MAQGVTGSVTVALHPLVILNISDHWIRMRSQ---------------EGRPMQVIGALIGK 66

Query: 61  QRGRTVEIFNSFELL--YDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESD 118
           Q GR +E+ NSFELL   +    ++++ +   K+E +K+VF     LGWY+TG     SD
Sbjct: 67  QEGRNIEVMNSFELLSQINDEKITINKEYYYTKEEQFKQVFKDMEFLGWYTTGGTPDPSD 126

Query: 119 MHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETV 178
           +H+HK + +I ESP+++ LNP       DLPV+++ES + ++ G   ++    SYT+ T 
Sbjct: 127 IHVHKQVCEIIESPLFLKLNPMTK--HTDLPVSVYESVIDIVNGEATMLLAELSYTLATE 184

Query: 179 EAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPC 238
           EAERI VDHVA +  +  G  +T +A HL   HSAIKML+SR+R++  Y+ A + GE+P 
Sbjct: 185 EAERIGVDHVARMTATGSGENST-VAEHLIAQHSAIKMLHSRVRLILEYVRAAEGGEVPF 243

Query: 239 ENSLLRQVSSLLRRLPAIESEKFQDDF--------LMVSL---------FSSFLNIFTIF 281
            + +LR+ S+L   LP + ++KF+ DF        LM  L          + F+N F I 
Sbjct: 244 NHEILREASALCHCLPVLSTDKFKTDFYDQCNDVGLMSYLGTITKTCNTMNQFVNKFNIL 303

Query: 282 Y 282
           Y
Sbjct: 304 Y 304

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

 Score =  204 bits (520), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 114/301 (37%), Positives = 170/301 (56%), Gaps = 37/301 (12%)

Query: 1   MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGI 60
           MAS  +  ++  LHPLVI+NISDH+ R++SQ                G   +V G +IG 
Sbjct: 32  MASGVTGSVSVALHPLVILNISDHWIRMRSQ---------------EGRPVQVIGALIGK 76

Query: 61  QRGRTVEIFNSFELLYDPSTHSL--DRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESD 118
           Q GR +E+ NSFELL       +  D+ +   K+E +K+VF     LGWY+TG     SD
Sbjct: 77  QEGRNIEVMNSFELLSHTVEEKIIIDKEYYYTKEEQFKQVFKELEFLGWYTTGGPPDPSD 136

Query: 119 MHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETV 178
           +H+HK + +I ESP+++ LNP       DLPV++FES + +I G   ++F   +YT+ T 
Sbjct: 137 IHVHKQVCEIIESPLFLKLNPMTK--HTDLPVSVFESVIDIINGEATMLFAELTYTLATE 194

Query: 179 EAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPC 238
           EAERI VDHVA +  +  G  +T +A HL   HSAIKML+SR++++  Y+ A + GE+P 
Sbjct: 195 EAERIGVDHVARMTATGSGENST-VAEHLIAQHSAIKMLHSRVKLILEYVKASEAGEVPF 253

Query: 239 ENSLLRQVSSLLRRLPAIESEKFQDDF--------LMVSL---------FSSFLNIFTIF 281
            + +LR+  +L   LP + ++KF+ DF        LM  L          + F+N F + 
Sbjct: 254 NHEILREAYALCHCLPVLSTDKFKTDFYDQCNDVGLMAYLGTITKTCNTMNQFVNKFNVL 313

Query: 282 Y 282
           Y
Sbjct: 314 Y 314

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 =  204 bits (520), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 114/301 (37%), Positives = 170/301 (56%), Gaps = 37/301 (12%)

Query: 1   MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGI 60
           MAS  +  ++  LHPLVI+NISDH+ R++SQ                G   +V G +IG 
Sbjct: 28  MASGVTGSVSVALHPLVILNISDHWIRMRSQ---------------EGRPMQVIGALIGK 72

Query: 61  QRGRTVEIFNSFELLYDPSTHSL--DRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESD 118
           Q GR +E+ NSFELL       +  D+ +   K+E +K+VF     LGWY+TG     SD
Sbjct: 73  QEGRNIEVMNSFELLSHTVEEKIIIDKEYYYTKEEQFKQVFKELEFLGWYTTGGPPDPSD 132

Query: 119 MHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETV 178
           +H+HK + +I ESP+++ LNP       DLPV++FES + +I G   ++F   +YT+ T 
Sbjct: 133 IHVHKQVCEIIESPLFLKLNPMTK--HTDLPVSVFESVIDIINGEATMLFAELTYTLATE 190

Query: 179 EAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPC 238
           EAERI VDHVA +  +  G  +T +A HL   HSAIKML+SR++++  Y+ A + GE+P 
Sbjct: 191 EAERIGVDHVARMTATGSGENST-VAEHLIAQHSAIKMLHSRVKLILEYVKASEAGEVPF 249

Query: 239 ENSLLRQVSSLLRRLPAIESEKFQDDF--------LMVSL---------FSSFLNIFTIF 281
            + +LR+  +L   LP + ++KF+ DF        LM  L          + F+N F + 
Sbjct: 250 NHEILREAYALCHCLPVLSTDKFKTDFYDQCNDVGLMAYLGTITKTCNTMNQFVNKFNVL 309

Query: 282 Y 282
           Y
Sbjct: 310 Y 310

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

 Score =  204 bits (519), Expect = 7e-52,   Method: Compositional matrix adjust.
 Identities = 114/301 (37%), Positives = 170/301 (56%), Gaps = 37/301 (12%)

Query: 1   MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGI 60
           MAS  +  ++  LHPLVI+NISDH+ R++SQ                G   +V G +IG 
Sbjct: 28  MASGVTGSVSVALHPLVILNISDHWIRMRSQ---------------EGRPMQVIGALIGK 72

Query: 61  QRGRTVEIFNSFELLYDPSTHSL--DRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESD 118
           Q GR +E+ NSFELL       +  D+ +   K+E +K+VF     LGWY+TG     SD
Sbjct: 73  QEGRNIEVMNSFELLSHTVEEKIIIDKEYYYTKEEQFKQVFKELDFLGWYTTGGPPDPSD 132

Query: 119 MHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETV 178
           +H+HK + +I ESP+++ LNP       DLPV++FES + +I G   ++F   +YT+ T 
Sbjct: 133 IHVHKQVCEIIESPLFLKLNPMTK--HTDLPVSVFESVIDIINGEATMLFAELTYTLATE 190

Query: 179 EAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPC 238
           EAERI VDHVA +  +  G  +T +A HL   HSAIKML+SR++++  Y+ A + GE+P 
Sbjct: 191 EAERIGVDHVARMTATGSGENST-VAEHLIAQHSAIKMLHSRVKLILEYVKASEAGEVPF 249

Query: 239 ENSLLRQVSSLLRRLPAIESEKFQDDF--------LMVSL---------FSSFLNIFTIF 281
            + +LR+  +L   LP + ++KF+ DF        LM  L          + F+N F + 
Sbjct: 250 NHEILREAYALCHCLPVLSTDKFKTDFYDQCNDVGLMAYLGTITKTCNTMNQFVNKFNVL 309

Query: 282 Y 282
           Y
Sbjct: 310 Y 310

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

 Score =  204 bits (518), Expect = 8e-52,   Method: Compositional matrix adjust.
 Identities = 114/301 (37%), Positives = 171/301 (56%), Gaps = 37/301 (12%)

Query: 1   MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGI 60
           MA   +  +T  LHPLVI+NISDH+ R++SQ                G   +V G +IG 
Sbjct: 23  MAQGVTGSVTVALHPLVILNISDHWIRMRSQ---------------EGRPVQVIGALIGK 67

Query: 61  QRGRTVEIFNSFELL--YDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESD 118
           Q GR +E+ NSFELL   +    ++++ +   K+E +K+VF     LGWY+TG     SD
Sbjct: 68  QEGRNIEVMNSFELLSQINEEKITINKEYYYTKEEQFKQVFKDMEFLGWYTTGGTPDPSD 127

Query: 119 MHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETV 178
           +H+HK + +I ESP+++ LNP       DLPV+++ES + ++ G   ++    SYT+ T 
Sbjct: 128 IHVHKQVCEIIESPLFLKLNPMTK--HTDLPVSVYESVIDIVNGEATMLLAELSYTLATE 185

Query: 179 EAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPC 238
           EAERI VDHVA +  +  G  +T +A HL   HSAIKML+SR+R++  Y+ A + GE+P 
Sbjct: 186 EAERIGVDHVARMTATGSGENST-VAEHLIAQHSAIKMLHSRVRLILEYVRAAEAGEVPF 244

Query: 239 ENSLLRQVSSLLRRLPAIESEKFQDDF--------LMVSL---------FSSFLNIFTIF 281
            + +LR+ S+L   LP + ++KF+ DF        LM  L          + F+N F I 
Sbjct: 245 NHEILREASALCHCLPVLSTDKFKMDFYDQCNDVGLMSYLGTITKTCNTMNQFVNKFNIL 304

Query: 282 Y 282
           Y
Sbjct: 305 Y 305

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

 Score =  203 bits (517), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 113/301 (37%), Positives = 169/301 (56%), Gaps = 37/301 (12%)

Query: 1   MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGI 60
           MA   +  ++  LHPLVI+NISDH+ R++SQ                G   +V G +IG 
Sbjct: 31  MACGVTGSVSVALHPLVILNISDHWIRMRSQ---------------EGRPVQVIGALIGK 75

Query: 61  QRGRTVEIFNSFELLYDPSTHSL--DRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESD 118
           Q GR +E+ NSFELL       +  D+ +   K+E +K+VF     LGWY+TG     SD
Sbjct: 76  QEGRNIEVMNSFELLSHTVEEKIIIDKEYYYTKEEQFKQVFKELEFLGWYTTGGPPDPSD 135

Query: 119 MHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETV 178
           +H+HK + +I ESP+++ LNP       DLPV++FES + +I G   ++F   +YT+ T 
Sbjct: 136 IHVHKQVCEIIESPLFLKLNPMTK--HTDLPVSVFESVIDIINGEATMLFAELTYTLATE 193

Query: 179 EAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPC 238
           EAERI VDHVA +  +  G  +T +A HL   HSAIKML+SR++++  Y+ A + GE+P 
Sbjct: 194 EAERIGVDHVARMTATGSGENST-VAEHLIAQHSAIKMLHSRVKLILEYVKASEAGEVPF 252

Query: 239 ENSLLRQVSSLLRRLPAIESEKFQDDF--------LMVSL---------FSSFLNIFTIF 281
            + +LR+  +L   LP + ++KF+ DF        LM  L          + F+N F + 
Sbjct: 253 NHEILREAYALCHCLPVLSTDKFKTDFYDQCNDVGLMAYLGTITKTCNTMNQFVNKFNVL 312

Query: 282 Y 282
           Y
Sbjct: 313 Y 313

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)

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	283
255576641	318	signalosome subunit, putative [Ricinus c	0.985	0.877	0.871	1e-142
224122056	306	predicted protein [Populus trichocarpa]	0.964	0.892	0.879	1e-140
388496238	317	unknown [Lotus japonicus]	0.985	0.880	0.836	1e-135
356508182	318	PREDICTED: COP9 signalosome complex subu	0.985	0.877	0.836	1e-134
388516353	318	unknown [Medicago truncatula]	0.978	0.871	0.827	1e-134
225463552	317	PREDICTED: COP9 signalosome complex subu	0.985	0.880	0.839	1e-133
356517784	322	PREDICTED: COP9 signalosome complex subu	0.943	0.829	0.877	1e-133
297796501	317	hypothetical protein ARALYDRAFT_495718 [	0.943	0.842	0.838	1e-131
449443994	326	PREDICTED: COP9 signalosome complex subu	0.936	0.812	0.817	1e-129
18423847	317	COP9 signalosome complex subunit 6a [Ara	0.943	0.842	0.827	1e-129

>gi|255576641|ref|XP_002529210.1| signalosome subunit, putative [Ricinus communis] gi|223531328|gb|EEF33166.1| signalosome subunit, putative [Ricinus communis]

 Score =  509 bits (1310), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 251/288 (87%), Positives = 261/288 (90%), Gaps = 9/288 (3%)

Query: 1   MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNG------AQPRVY 54
           MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMN   + TT    +  G      A PRVY
Sbjct: 1   MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNPPVTTTTNGGSDGGGENTVSLAPPRVY 60

Query: 55  GCVIGIQRGRTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDA 114
           GCVIG+QRGRTVEIFNSFELLYDP THSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDA
Sbjct: 61  GCVIGVQRGRTVEIFNSFELLYDPITHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDA 120

Query: 115 QESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYT 174
           +ESDMHIHKALMDINESPVYVLLNPSINPAQKDLPV I+ESELHVI+GIPQLIFVRSSYT
Sbjct: 121 EESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVIIYESELHVIDGIPQLIFVRSSYT 180

Query: 175 IETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKG 234
           IETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYL AMQKG
Sbjct: 181 IETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLAAMQKG 240

Query: 235 EIPCENSLLRQVSSLLRRLPAIESEKFQDDFLMV---SLFSSFLNIFT 279
           EIPCENSLLRQVSSLLRRLPAIESEKFQDDFLM    +L  ++L +FT
Sbjct: 241 EIPCENSLLRQVSSLLRRLPAIESEKFQDDFLMEYNDTLLITYLAMFT 288

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224122056|ref|XP_002330530.1| predicted protein [Populus trichocarpa] gi|222872088|gb|EEF09219.1| predicted protein [Populus trichocarpa]

 Score =  502 bits (1292), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 248/282 (87%), Positives = 258/282 (91%), Gaps = 9/282 (3%)

Query: 1   MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGI 60
           MASSSSSGLTFKLHPLVIVNISDHYTRVKSQ N  S      D  +    PRVYGCVIG+
Sbjct: 1   MASSSSSGLTFKLHPLVIVNISDHYTRVKSQTNGCS------DGGSASPPPRVYGCVIGV 54

Query: 61  QRGRTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMH 120
           QRGRTVEIFNSFELLYDP THSLDRAF+EKKQELYKKVFPHFYILGWYSTGSDA+ESDMH
Sbjct: 55  QRGRTVEIFNSFELLYDPVTHSLDRAFIEKKQELYKKVFPHFYILGWYSTGSDAEESDMH 114

Query: 121 IHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETVEA 180
           IHKALMDINESPVYVLLNPSINPAQKDLPVTI+ESELHVI+GIPQLIFV SSYTIETVEA
Sbjct: 115 IHKALMDINESPVYVLLNPSINPAQKDLPVTIYESELHVIDGIPQLIFVCSSYTIETVEA 174

Query: 181 ERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPCEN 240
           ERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPCEN
Sbjct: 175 ERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPCEN 234

Query: 241 SLLRQVSSLLRRLPAIESEKFQDDFLMV---SLFSSFLNIFT 279
           SLLRQVSSLLRRLPAIESEKFQDDFLM    +L  ++L +FT
Sbjct: 235 SLLRQVSSLLRRLPAIESEKFQDDFLMEYNDTLLIAYLAMFT 276

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388496238|gb|AFK36185.1| unknown [Lotus japonicus]

 Score =  485 bits (1248), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 240/287 (83%), Positives = 259/287 (90%), Gaps = 8/287 (2%)

Query: 1   MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMN-----HSSSATTTNDDNNNGAQPRVYG 55
           MAS SSSGLTFKLHPLVIVNISDHYTRVKSQMN     H+S  +   D   +   PRVYG
Sbjct: 1   MASPSSSGLTFKLHPLVIVNISDHYTRVKSQMNPTLAPHNSVPSNGADGVVSSVPPRVYG 60

Query: 56  CVIGIQRGRTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQ 115
           CVIG+Q+GRTVEIFNSFELLYDPSTHSLDR FLEKKQELYKKVFPHFYILGWYSTGSDA+
Sbjct: 61  CVIGVQKGRTVEIFNSFELLYDPSTHSLDRPFLEKKQELYKKVFPHFYILGWYSTGSDAE 120

Query: 116 ESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTI 175
           ESDM+IH+ALMDINESPVYVLLNPSIN +QKDLPV+IFESELHVI+GIPQLIFVRSSYTI
Sbjct: 121 ESDMNIHRALMDINESPVYVLLNPSINHSQKDLPVSIFESELHVIDGIPQLIFVRSSYTI 180

Query: 176 ETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGE 235
           ETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKML+SRI+VLHHYL+AMQKG+
Sbjct: 181 ETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLHSRIKVLHHYLLAMQKGD 240

Query: 236 IPCENSLLRQVSSLLRRLPAIESEKFQDDFLMV---SLFSSFLNIFT 279
           +PCENSLLRQVSSLLRRLPAIES KFQDDFLM    +L  S+L + T
Sbjct: 241 VPCENSLLRQVSSLLRRLPAIESGKFQDDFLMGYNDTLLISYLTMLT 287

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356508182|ref|XP_003522838.1| PREDICTED: COP9 signalosome complex subunit 6a-like [Glycine max]

 Score =  484 bits (1246), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 241/288 (83%), Positives = 259/288 (89%), Gaps = 9/288 (3%)

Query: 1   MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTN------DDNNNGAQPRVY 54
           MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMN + +    N      D   +   PRVY
Sbjct: 1   MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNPTHAPPHNNNNANGGDGVVSPLSPRVY 60

Query: 55  GCVIGIQRGRTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDA 114
           GCVIG+Q+GRTVEIFNSFELLYDPS+HSLDR FLEKKQELYKKVFPHFYILGWYSTGSDA
Sbjct: 61  GCVIGVQKGRTVEIFNSFELLYDPSSHSLDRTFLEKKQELYKKVFPHFYILGWYSTGSDA 120

Query: 115 QESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYT 174
           +ESDMHIHKALMDINESPVYVLLNPSIN +QKDLPV+IFESELHVI+GIPQLIFVRSSYT
Sbjct: 121 EESDMHIHKALMDINESPVYVLLNPSINHSQKDLPVSIFESELHVIDGIPQLIFVRSSYT 180

Query: 175 IETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKG 234
           IETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKML+SRI+VLHHYL+AMQKG
Sbjct: 181 IETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLHSRIKVLHHYLLAMQKG 240

Query: 235 EIPCENSLLRQVSSLLRRLPAIESEKFQDDFLMV---SLFSSFLNIFT 279
           ++PCENSLLRQVSSLLRRLPAIES KFQDDFLM    +L  S+L + T
Sbjct: 241 DVPCENSLLRQVSSLLRRLPAIESGKFQDDFLMEYNDTLLISYLAMLT 288

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388516353|gb|AFK46238.1| unknown [Medicago truncatula]

 Score =  484 bits (1246), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 240/290 (82%), Positives = 260/290 (89%), Gaps = 13/290 (4%)

Query: 1   MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQ--------PR 52
           MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMN   +    N+  NNG          PR
Sbjct: 1   MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMN--PTLAPHNNATNNGGDGVVSSLPPPR 58

Query: 53  VYGCVIGIQRGRTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGS 112
           V+GCVIG+Q+GRTVEIFNSFELLYDPSTHSLDR FLEKKQELYKKVFPHFYILGWYSTGS
Sbjct: 59  VFGCVIGVQKGRTVEIFNSFELLYDPSTHSLDRPFLEKKQELYKKVFPHFYILGWYSTGS 118

Query: 113 DAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSS 172
           DA+ESDMHIHKALMDINESPVYVLLNP+IN +QKDLPV+IFESELHVI+GIPQLIFVRSS
Sbjct: 119 DAEESDMHIHKALMDINESPVYVLLNPAINHSQKDLPVSIFESELHVIDGIPQLIFVRSS 178

Query: 173 YTIETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQ 232
           YTIETVEAERISVDHVAHLKPSDGGSAATQLAA+LTGIHSAIKML+SRI+VLHHYL+AM+
Sbjct: 179 YTIETVEAERISVDHVAHLKPSDGGSAATQLAANLTGIHSAIKMLHSRIKVLHHYLLAME 238

Query: 233 KGEIPCENSLLRQVSSLLRRLPAIESEKFQDDFLMV---SLFSSFLNIFT 279
           KG++PCENSLLRQVSSLLRRLPAIES KFQDDFLM    +L  S+L + T
Sbjct: 239 KGDVPCENSLLRQVSSLLRRLPAIESGKFQDDFLMEYNDTLLISYLAMLT 288

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225463552|ref|XP_002267156.1| PREDICTED: COP9 signalosome complex subunit 6a [Vitis vinifera] gi|296090054|emb|CBI39873.3| unnamed protein product [Vitis vinifera]

 Score =  481 bits (1239), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 241/287 (83%), Positives = 258/287 (89%), Gaps = 8/287 (2%)

Query: 1   MASSSSSGLTFKLHPLVIVNISDHYTRVKSQ-----MNHSSSATTTNDDNNNGAQPRVYG 55
           MASSSSSGLTFKLHPLVIVNISDHYTRVKSQ     ++ +         +     PRV+G
Sbjct: 1   MASSSSSGLTFKLHPLVIVNISDHYTRVKSQTQPPHLSSNGGEGAAAAASPPPPPPRVFG 60

Query: 56  CVIGIQRGRTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQ 115
           CVIG+QRGRTVEIFNSFELLYDPSTHSLDR+FLEKKQELYKKVFP+FYILGWYSTGSDAQ
Sbjct: 61  CVIGVQRGRTVEIFNSFELLYDPSTHSLDRSFLEKKQELYKKVFPNFYILGWYSTGSDAQ 120

Query: 116 ESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTI 175
           ESDMHIHKALMDINESPVYVLLNPSIN AQKDLPVTI+ESELHVI+GIPQLIFVR++YTI
Sbjct: 121 ESDMHIHKALMDINESPVYVLLNPSINHAQKDLPVTIYESELHVIDGIPQLIFVRANYTI 180

Query: 176 ETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGE 235
           ETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYL+AMQKG+
Sbjct: 181 ETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLLAMQKGD 240

Query: 236 IPCENSLLRQVSSLLRRLPAIESEKFQDDFLMV---SLFSSFLNIFT 279
           IPCENSLLRQVSSLLRRLPAIES KFQDDFLM    +L  S+L +FT
Sbjct: 241 IPCENSLLRQVSSLLRRLPAIESGKFQDDFLMEYNDTLLISYLAMFT 287

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356517784|ref|XP_003527566.1| PREDICTED: COP9 signalosome complex subunit 6a-like [Glycine max]

 Score =  481 bits (1237), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 243/277 (87%), Positives = 257/277 (92%), Gaps = 10/277 (3%)

Query: 1   MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMN--HSSSATTTNDDNNNGA--------Q 50
           MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMN  H+   TTTN++N NG          
Sbjct: 1   MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNPTHAPPHTTTNNNNANGGDGVVSPPLH 60

Query: 51  PRVYGCVIGIQRGRTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYST 110
           PRVYGCVIG+Q+GRTVEIFNSFELLYDPSTHSLDR FLEKKQELYKKVFPHFYILGWYST
Sbjct: 61  PRVYGCVIGVQKGRTVEIFNSFELLYDPSTHSLDRTFLEKKQELYKKVFPHFYILGWYST 120

Query: 111 GSDAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVR 170
           GSDA+ESDMHIHKALMDINESPVYVLLNPSIN +QKDLPV+IFESELHVI+GIPQLIFVR
Sbjct: 121 GSDAEESDMHIHKALMDINESPVYVLLNPSINHSQKDLPVSIFESELHVIDGIPQLIFVR 180

Query: 171 SSYTIETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVA 230
           SSYTIETVEAERISVDHVAHLKPSDGGSAATQLAAHLTG HSAIKML+SRI+VLHHYL+A
Sbjct: 181 SSYTIETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGTHSAIKMLHSRIKVLHHYLLA 240

Query: 231 MQKGEIPCENSLLRQVSSLLRRLPAIESEKFQDDFLM 267
           MQKG++PCENSLLRQVSSLLRRLPAIES KFQDDFLM
Sbjct: 241 MQKGDVPCENSLLRQVSSLLRRLPAIESGKFQDDFLM 277

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297796501|ref|XP_002866135.1| hypothetical protein ARALYDRAFT_495718 [Arabidopsis lyrata subsp. lyrata] gi|297311970|gb|EFH42394.1| hypothetical protein ARALYDRAFT_495718 [Arabidopsis lyrata subsp. lyrata]

 Score =  473 bits (1217), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 228/272 (83%), Positives = 248/272 (91%), Gaps = 5/272 (1%)

Query: 1   MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNG-----AQPRVYG 55
           MA SSSSGLTFKLHPLVIVNISDHYTRVK+Q+N  +S   +   +NNG       PRVYG
Sbjct: 1   MAPSSSSGLTFKLHPLVIVNISDHYTRVKTQLNPPASICASGHGSNNGEAMIQQNPRVYG 60

Query: 56  CVIGIQRGRTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQ 115
           CVIG+QRGRTVEIFNSFELLYDPST +LDR+FLEKKQELYKKVFP FYILGWYSTGSDA 
Sbjct: 61  CVIGVQRGRTVEIFNSFELLYDPSTQTLDRSFLEKKQELYKKVFPDFYILGWYSTGSDAD 120

Query: 116 ESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTI 175
           ESDMHIHKALMDINESPVYVLLNP+IN AQKDLPVTI+ESELHVI+GIPQLIFV +SYTI
Sbjct: 121 ESDMHIHKALMDINESPVYVLLNPAINHAQKDLPVTIYESELHVIDGIPQLIFVHTSYTI 180

Query: 176 ETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGE 235
           ETVEAERISVDHVAHL+PSDGGSAATQLAAHLTGIHSAIKMLNSRIRVL+ YL AMQK +
Sbjct: 181 ETVEAERISVDHVAHLQPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLYQYLAAMQKDD 240

Query: 236 IPCENSLLRQVSSLLRRLPAIESEKFQDDFLM 267
           IPC+NSLLRQVSSLLRRLPA+ESE+F+D+FLM
Sbjct: 241 IPCDNSLLRQVSSLLRRLPAMESERFKDNFLM 272

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449443994|ref|XP_004139760.1| PREDICTED: COP9 signalosome complex subunit 6a-like [Cucumis sativus] gi|449482625|ref|XP_004156353.1| PREDICTED: COP9 signalosome complex subunit 6a-like [Cucumis sativus]

 Score =  468 bits (1203), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 229/280 (81%), Positives = 243/280 (86%), Gaps = 15/280 (5%)

Query: 3   SSSSSGLTFKLHPLVIVNISDHYTRVKSQMN---------------HSSSATTTNDDNNN 47
           +SS SGLTFKLHPLVIVNISDHYTRVKSQMN               + + A  + D + +
Sbjct: 2   ASSGSGLTFKLHPLVIVNISDHYTRVKSQMNPPSLSCSAASPCALSNGADAPDSTDPSTS 61

Query: 48  GAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGW 107
              PRV+GCV+G+QRGRTVEIFNSFELLYDP THSLDR FLEKKQELYKKVFPHFYILGW
Sbjct: 62  PPAPRVFGCVVGVQRGRTVEIFNSFELLYDPKTHSLDRTFLEKKQELYKKVFPHFYILGW 121

Query: 108 YSTGSDAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLI 167
           YSTGSDA ESDMHIHKALMDINESPVYVLLNPSIN AQKDLPVTI+ESELHVIEGIPQLI
Sbjct: 122 YSTGSDALESDMHIHKALMDINESPVYVLLNPSINHAQKDLPVTIYESELHVIEGIPQLI 181

Query: 168 FVRSSYTIETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHY 227
           FVRSSYTIETVEAERISVDHVAHLKPSDGGSAATQLAAHL GIHSAIKMLNSRIR+LH Y
Sbjct: 182 FVRSSYTIETVEAERISVDHVAHLKPSDGGSAATQLAAHLAGIHSAIKMLNSRIRILHSY 241

Query: 228 LVAMQKGEIPCENSLLRQVSSLLRRLPAIESEKFQDDFLM 267
           L+AMQ G+IP ENSLLRQVSSL+RRLP  ES KFQDDFLM
Sbjct: 242 LLAMQNGDIPLENSLLRQVSSLIRRLPVTESGKFQDDFLM 281

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18423847|ref|NP_568839.1| COP9 signalosome complex subunit 6a [Arabidopsis thaliana] gi|55976550|sp|Q8W206.2|CSN6A_ARATH RecName: Full=COP9 signalosome complex subunit 6a; Short=AtCSN6a; Short=Signalosome subunit 6a gi|15809663|gb|AAL07275.1| COP9 complex subunit 6 [Arabidopsis thaliana] gi|108385379|gb|ABF85779.1| At5g56280 [Arabidopsis thaliana] gi|332009361|gb|AED96744.1| COP9 signalosome complex subunit 6a [Arabidopsis thaliana]

 Score =  466 bits (1199), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 225/272 (82%), Positives = 245/272 (90%), Gaps = 5/272 (1%)

Query: 1   MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNG-----AQPRVYG 55
           MA SSSSGLTFKLHPLVIVNISDHYTRVK+Q+N  +S   +   +NNG       PRVYG
Sbjct: 1   MAPSSSSGLTFKLHPLVIVNISDHYTRVKTQLNPPASICASGHGSNNGEAMFQQNPRVYG 60

Query: 56  CVIGIQRGRTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQ 115
           CVIG+QRGRTVEIFNSFELLYDPST +LDR+FLEKKQELYKKVFP FYILGWYSTGSDA+
Sbjct: 61  CVIGVQRGRTVEIFNSFELLYDPSTQTLDRSFLEKKQELYKKVFPDFYILGWYSTGSDAE 120

Query: 116 ESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTI 175
           ESDMHIHKALMDINESPVYVLLNP+IN  QKDLPVTI+ESELHVI+GIPQLIF  +SYTI
Sbjct: 121 ESDMHIHKALMDINESPVYVLLNPAINHTQKDLPVTIYESELHVIDGIPQLIFAHTSYTI 180

Query: 176 ETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGE 235
           ETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVL+  L AMQKG+
Sbjct: 181 ETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLYQNLAAMQKGD 240

Query: 236 IPCENSLLRQVSSLLRRLPAIESEKFQDDFLM 267
             C+NS+LRQVSSLLRRLPA+ESE+FQD+FLM
Sbjct: 241 KSCDNSVLRQVSSLLRRLPAMESERFQDNFLM 272

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	283
TAIR|locus:2177601	317	CSN6A "AT5G56280" [Arabidopsis	0.943	0.842	0.775	1.3e-107
TAIR|locus:2131493	317	CSN6B "AT4G26430" [Arabidopsis	0.985	0.880	0.724	4.6e-105
DICTYBASE|DDB_G0293180	309	csn6 "Mov34/MPN/PAD-1 family p	0.865	0.792	0.417	7.4e-50
ZFIN|ZDB-GENE-050417-289	297	cops6 "COP9 constitutive photo	0.869	0.828	0.399	1.1e-46
UNIPROTKB|F1MG10	324	COPS6 "COP9 signalosome comple	0.872	0.762	0.385	3.4e-45
UNIPROTKB|A7TX81	323	COPS6 "COP9 signalosome comple	0.872	0.764	0.385	3.4e-45
MGI|MGI:1349439	324	Cops6 "COP9 (constitutive phot	0.872	0.762	0.385	3.4e-45
UNIPROTKB|A6QQ21	324	COPS6 "COP9 signalosome comple	0.872	0.762	0.385	4.4e-45
RGD|1309919	344	Cops6 "COP9 signalosome subuni	0.872	0.718	0.385	4.4e-45
UNIPROTKB|E7EM64	326	COPS6 "COP9 signalosome comple	0.872	0.757	0.382	1.2e-44

TAIR|locus:2177601 CSN6A "AT5G56280" [Arabidopsis thaliana (taxid:3702)]

 Score = 1064 (379.6 bits), Expect = 1.3e-107, P = 1.3e-107
 Identities = 211/272 (77%), Positives = 228/272 (83%)

Query:     1 MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSAXXXXXXXXXGA-----QPRVYG 55
             MA SSSSGLTFKLHPLVIVNISDHYTRVK+Q+N  +S          G       PRVYG
Sbjct:     1 MAPSSSSGLTFKLHPLVIVNISDHYTRVKTQLNPPASICASGHGSNNGEAMFQQNPRVYG 60

Query:    56 CVIGIQRGRTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQ 115
             CVIG+QRGRTVEIFNSFELLYDPST +LDR+FLEKKQELYKKVFP FYILGWYSTGSDA+
Sbjct:    61 CVIGVQRGRTVEIFNSFELLYDPSTQTLDRSFLEKKQELYKKVFPDFYILGWYSTGSDAE 120

Query:   116 ESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTI 175
             ESDMHIHKALMDINESPVYVLLNP+IN  QKDLPVTI+ESELHVI+GIPQLIF  +SYTI
Sbjct:   121 ESDMHIHKALMDINESPVYVLLNPAINHTQKDLPVTIYESELHVIDGIPQLIFAHTSYTI 180

Query:   176 ETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGE 235
             ETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVL+  L AMQKG+
Sbjct:   181 ETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLYQNLAAMQKGD 240

Query:   236 IPCENXXXXXXXXXXXXXPAIESEKFQDDFLM 267
               C+N             PA+ESE+FQD+FLM
Sbjct:   241 KSCDNSVLRQVSSLLRRLPAMESERFQDNFLM 272

GO:0005634 "nucleus" evidence=TAS

GO:0030163 "protein catabolic process" evidence=TAS

GO:0008180 "signalosome" evidence=TAS;IPI

GO:0009640 "photomorphogenesis" evidence=RCA;TAS

GO:0005515 "protein binding" evidence=IPI

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

GO:0007275 "multicellular organismal development" evidence=IMP

GO:0010387 "signalosome assembly" evidence=IMP

GO:0009165 "nucleotide biosynthetic process" evidence=RCA

GO:0010388 "cullin deneddylation" evidence=RCA

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

GO:0043248 "proteasome assembly" evidence=RCA

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

TAIR|locus:2131493 CSN6B "AT4G26430" [Arabidopsis thaliana (taxid:3702)]

 Score = 1040 (371.2 bits), Expect = 4.6e-105, P = 4.6e-105
 Identities = 208/287 (72%), Positives = 234/287 (81%)

Query:     1 MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNH-SSSAXXXXXXXXXGAQ----PRVYG 55
             MA SSSSGLTFKLHPLV++NISDH+TRVK+Q+N  ++S           A     PRVYG
Sbjct:     1 MAPSSSSGLTFKLHPLVMLNISDHFTRVKTQLNPPAASCATGNGSNNADAMLLQNPRVYG 60

Query:    56 CVIGIQRGRTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQ 115
             CVIG+QRGRTVEIFNSFEL++DP+  +LDR+FLEKKQELYKKVFP FY+LGWYSTGSDA 
Sbjct:    61 CVIGLQRGRTVEIFNSFELIFDPALDTLDRSFLEKKQELYKKVFPDFYVLGWYSTGSDAT 120

Query:   116 ESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTI 175
             ESDMHIHKALMDINESPVYVLLNP+IN AQKDLPVTI+ESE HVI+GIPQ IFV +SYTI
Sbjct:   121 ESDMHIHKALMDINESPVYVLLNPAINHAQKDLPVTIYESEFHVIDGIPQSIFVHTSYTI 180

Query:   176 ETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGE 235
             ETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVL+ ++VAMQKG+
Sbjct:   181 ETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLYQHIVAMQKGD 240

Query:   236 IPCENXXXXXXXXXXXXXPAIESEKFQDDFLMV---SLFSSFLNIFT 279
              PCEN             PA ESEKF ++FLM     L  S+L + T
Sbjct:   241 KPCENSVLRQVSSLLRSLPAAESEKFNENFLMEYNDKLLMSYLAMIT 287

GO:0003674 "molecular_function" evidence=ND

GO:0005576 "extracellular region" evidence=ISM

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

GO:0007275 "multicellular organismal development" evidence=ISS

GO:0010387 "signalosome assembly" evidence=IMP

GO:0009640 "photomorphogenesis" evidence=RCA

GO:0010388 "cullin deneddylation" evidence=RCA

GO:0000338 "protein deneddylation" evidence=TAS

GO:0008180 "signalosome" evidence=IPI

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

 Score = 519 (187.8 bits), Expect = 7.4e-50, P = 7.4e-50
 Identities = 111/266 (41%), Positives = 162/266 (60%)

Query:     3 SSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSAXXXXXXXXXGAQPRVYGCVIGIQR 62
             S++SSGL   LHPLV++NISDH+TR K Q N+  +              RV G ++G+Q 
Sbjct:    20 SANSSGLEVDLHPLVLINISDHFTRTKVQSNYQDNC-------------RVIGVILGVQN 66

Query:    63 GRTVEIFNSFELLYDPSTHSL--DRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMH 120
             GR VEI NSFE++Y      L  D  +L KK   Y+++FP + +LGWYSTGS   + D+ 
Sbjct:    67 GRNVEICNSFEMVYATVDKQLVLDIEYLRKK---YEQLFPLYDLLGWYSTGSQVSKDDIL 123

Query:   121 IHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETVEA 180
             +HK + + NESP+Y++L+   +P  KDLPV I+ESELH++   P  IFV++ Y I+T EA
Sbjct:   124 LHKQISEHNESPLYLMLDTD-SPKSKDLPVIIYESELHIVNDEPTTIFVKTPYKIQTGEA 182

Query:   181 ERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPCEN 240
             ERI V+H+A + PS  GS  + L +HL  +H+AI MLN R++ L  YL A+++  +P E 
Sbjct:   183 ERIGVNHIAKVTPS--GSEGSGLTSHLFTMHNAISMLNIRVKALSDYLQAVKEKRLPYEQ 240

Query:   241 XXXXXXXXXXXXXPAIESEKFQDDFL 266
                          P I++  F+  +L
Sbjct:   241 NILRKASSLCNQLPTIDTHDFKKSYL 266

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

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

 Score = 489 (177.2 bits), Expect = 1.1e-46, P = 1.1e-46
 Identities = 107/268 (39%), Positives = 156/268 (58%)

Query:     1 MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSAXXXXXXXXXGAQPRVYGCVIGI 60
             MAS  +  ++  LHPLVI+NISDH+ R++SQ                G   +V G +IG 
Sbjct:     1 MASGVTGSVSVALHPLVILNISDHWIRIRSQ---------------EGRAVQVVGALIGK 45

Query:    61 QRGRTVEIFNSFELLY---DPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQES 117
             Q GR +E+ NSFELL+   +   H +D+ +   K+E +K+VF     LGWY+TG    +S
Sbjct:    46 QEGRNIEVMNSFELLFHTVEDQIH-IDKEYYYTKEEQFKQVFKEMEFLGWYTTGGSPDQS 104

Query:   118 DMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIET 177
             D+HIHK + +I ESP+++ LNP       DLPV++FES + +I G   ++F    YT+ T
Sbjct:   105 DIHIHKQVCEIIESPLFLKLNPMTK--HTDLPVSVFESVIDIISGEATMLFAELPYTLAT 162

Query:   178 VEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIP 237
              EAERI VDHVA +  +  G  +T +A HL   HSAIKML+SR++V+  Y+ A+Q GE+P
Sbjct:   163 EEAERIGVDHVARMTATGTGENST-VAEHLIAQHSAIKMLHSRVKVILEYVKAVQAGEVP 221

Query:   238 CENXXXXXXXXXXXXXPAIESEKFQDDF 265
               +             P + + KF+ DF
Sbjct:   222 FNHEILREANALCHRLPVLNTLKFKTDF 249

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

 Score = 475 (172.3 bits), Expect = 3.4e-45, P = 3.4e-45
 Identities = 103/267 (38%), Positives = 153/267 (57%)

Query:     1 MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSAXXXXXXXXXGAQPRVYGCVIGI 60
             MAS  +  ++  LHPLVI+NISDH+ R++SQ                G   +V G +IG 
Sbjct:    28 MASGVTGSVSVALHPLVILNISDHWIRMRSQ---------------EGRPMQVIGALIGK 72

Query:    61 QRGRTVEIFNSFELLYDPSTHSL--DRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESD 118
             Q GR +E+ NSFELL       +  D+ +   K+E +K+VF     LGWY+TG     SD
Sbjct:    73 QEGRNIEVMNSFELLSHTVEEKIIIDKEYYYTKEEQFKQVFKELEFLGWYTTGGPPDPSD 132

Query:   119 MHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETV 178
             +H+HK + +I ESP+++ LNP       DLPV++FES + +I G   ++F   +YT+ T 
Sbjct:   133 IHVHKQVCEIIESPLFLKLNPMTK--HTDLPVSVFESVIDIINGEATMLFAELTYTLATE 190

Query:   179 EAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPC 238
             EAERI VDHVA +  +  G  +T +A HL   HSAIKML+SR++++  Y+ A + GE+P 
Sbjct:   191 EAERIGVDHVARMTATGSGENST-VAEHLIAQHSAIKMLHSRVKLILEYVKASEAGEVPF 249

Query:   239 ENXXXXXXXXXXXXXPAIESEKFQDDF 265
              +             P + ++KF+ DF
Sbjct:   250 NHEILREAYALCHCLPVLSTDKFKTDF 276

GO:0010388 "cullin deneddylation" evidence=IEA

GO:0008180 "signalosome" evidence=IEA

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

 Score = 475 (172.3 bits), Expect = 3.4e-45, P = 3.4e-45
 Identities = 103/267 (38%), Positives = 153/267 (57%)

Query:     1 MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSAXXXXXXXXXGAQPRVYGCVIGI 60
             MAS  +  ++  LHPLVI+NISDH+ R++SQ                G   +V G +IG 
Sbjct:    27 MASGVTGSVSVALHPLVILNISDHWIRMRSQ---------------EGRPMQVIGALIGK 71

Query:    61 QRGRTVEIFNSFELLYDPSTHSL--DRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESD 118
             Q GR +E+ NSFELL       +  D+ +   K+E +K+VF     LGWY+TG     SD
Sbjct:    72 QEGRNIEVMNSFELLSHTVEEKIIIDKEYYYTKEEQFKQVFKELEFLGWYTTGGPPDPSD 131

Query:   119 MHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETV 178
             +H+HK + +I ESP+++ LNP       DLPV++FES + +I G   ++F   +YT+ T 
Sbjct:   132 IHVHKQVCEIIESPLFLKLNPMTK--HTDLPVSVFESVIDIINGEATMLFAELTYTLATE 189

Query:   179 EAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPC 238
             EAERI VDHVA +  +  G  +T +A HL   HSAIKML+SR++++  Y+ A + GE+P 
Sbjct:   190 EAERIGVDHVARMTATGSGENST-VAEHLIAQHSAIKMLHSRVKLILEYVKASEAGEVPF 248

Query:   239 ENXXXXXXXXXXXXXPAIESEKFQDDF 265
              +             P + ++KF+ DF
Sbjct:   249 NHEILREAYALCHCLPVLSTDKFKTDF 275

GO:0005737 "cytoplasm" evidence=IEA

GO:0008180 "signalosome" evidence=IEA

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

 Score = 475 (172.3 bits), Expect = 3.4e-45, P = 3.4e-45
 Identities = 103/267 (38%), Positives = 153/267 (57%)

Query:     1 MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSAXXXXXXXXXGAQPRVYGCVIGI 60
             MAS  +  ++  LHPLVI+NISDH+ R++SQ                G   +V G +IG 
Sbjct:    28 MASGVTGSVSVALHPLVILNISDHWIRMRSQ---------------EGRPMQVIGALIGK 72

Query:    61 QRGRTVEIFNSFELLYDPSTHSL--DRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESD 118
             Q GR +E+ NSFELL       +  D+ +   K+E +K+VF     LGWY+TG     SD
Sbjct:    73 QEGRNIEVMNSFELLSHTVEEKIIIDKEYYYTKEEQFKQVFKELEFLGWYTTGGPPDPSD 132

Query:   119 MHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETV 178
             +H+HK + +I ESP+++ LNP       DLPV++FES + +I G   ++F   +YT+ T 
Sbjct:   133 IHVHKQVCEIIESPLFLKLNPMTK--HTDLPVSVFESVIDIINGEATMLFAELTYTLATE 190

Query:   179 EAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPC 238
             EAERI VDHVA +  +  G  +T +A HL   HSAIKML+SR++++  Y+ A + GE+P 
Sbjct:   191 EAERIGVDHVARMTATGSGENST-VAEHLIAQHSAIKMLHSRVKLILEYVKASEAGEVPF 249

Query:   239 ENXXXXXXXXXXXXXPAIESEKFQDDF 265
              +             P + ++KF+ DF
Sbjct:   250 NHEILREAYALCHCLPVLSTDKFKTDF 276

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

 Score = 474 (171.9 bits), Expect = 4.4e-45, P = 4.4e-45
 Identities = 103/267 (38%), Positives = 153/267 (57%)

Query:     1 MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSAXXXXXXXXXGAQPRVYGCVIGI 60
             MAS  +  ++  LHPLVI+NISDH+ R++SQ                G   +V G +IG 
Sbjct:    28 MASGVTGSVSVALHPLVILNISDHWIRMRSQ---------------EGRPMQVIGALIGK 72

Query:    61 QRGRTVEIFNSFELLYDPSTHSL--DRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESD 118
             Q GR +E+ NSFELL       +  D+ +   K+E +K+VF     LGWY+TG     SD
Sbjct:    73 QEGRNIEVMNSFELLSHTVEEKIIIDKEYYYTKEEQFKQVFKELDFLGWYTTGGPPDPSD 132

Query:   119 MHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETV 178
             +H+HK + +I ESP+++ LNP       DLPV++FES + +I G   ++F   +YT+ T 
Sbjct:   133 IHVHKQVCEIIESPLFLKLNPMTK--HTDLPVSVFESVIDIINGEATMLFAELTYTLATE 190

Query:   179 EAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPC 238
             EAERI VDHVA +  +  G  +T +A HL   HSAIKML+SR++++  Y+ A + GE+P 
Sbjct:   191 EAERIGVDHVARMTATGSGENST-VAEHLIAQHSAIKMLHSRVKLILEYVKASEAGEVPF 249

Query:   239 ENXXXXXXXXXXXXXPAIESEKFQDDF 265
              +             P + ++KF+ DF
Sbjct:   250 NHEILREAYALCHCLPVLSTDKFKTDF 276

GO:0005737 "cytoplasm" evidence=IEA

GO:0008180 "signalosome" evidence=IEA

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

 Score = 474 (171.9 bits), Expect = 4.4e-45, P = 4.4e-45
 Identities = 103/267 (38%), Positives = 153/267 (57%)

Query:     1 MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSAXXXXXXXXXGAQPRVYGCVIGI 60
             MAS  +  ++  LHPLVI+NISDH+ R++SQ                G   +V G +IG 
Sbjct:    48 MASGVTGSVSVALHPLVILNISDHWIRMRSQ---------------EGRPMQVIGALIGK 92

Query:    61 QRGRTVEIFNSFELLYDPSTHSL--DRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESD 118
             Q GR +E+ NSFELL       +  D+ +   K+E +K+VF     LGWY+TG     SD
Sbjct:    93 QEGRNIEVMNSFELLSHTVEKKIIIDKEYYYTKEEQFKQVFKELEFLGWYTTGGPPDPSD 152

Query:   119 MHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETV 178
             +H+HK + +I ESP+++ LNP       DLPV++FES + +I G   ++F   +YT+ T 
Sbjct:   153 IHVHKQVCEIIESPLFLKLNPMTK--HTDLPVSVFESVIDIINGEATMLFAELTYTLATE 210

Query:   179 EAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPC 238
             EAERI VDHVA +  +  G  +T +A HL   HSAIKML+SR++++  Y+ A + GE+P 
Sbjct:   211 EAERIGVDHVARMTATGSGENST-VAEHLIAQHSAIKMLHSRVKLILEYVKASEAGEVPF 269

Query:   239 ENXXXXXXXXXXXXXPAIESEKFQDDF 265
              +             P + ++KF+ DF
Sbjct:   270 NHEILREAYALCHCLPVLSTDKFKTDF 296

GO:0005634 "nucleus" evidence=ISO

GO:0008180 "signalosome" evidence=IEA;ISO

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

GO:0005730 "nucleolus" evidence=ISO

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

 Score = 470 (170.5 bits), Expect = 1.2e-44, P = 1.2e-44
 Identities = 102/267 (38%), Positives = 152/267 (56%)

Query:     1 MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSAXXXXXXXXXGAQPRVYGCVIGI 60
             MA   +  ++  LHPLVI+NISDH+ R++SQ                G   +V G +IG 
Sbjct:    30 MACGVTGSVSVALHPLVILNISDHWIRMRSQ---------------EGRPVQVIGALIGK 74

Query:    61 QRGRTVEIFNSFELLYDPSTHSL--DRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESD 118
             Q GR +E+ NSFELL       +  D+ +   K+E +K+VF     LGWY+TG     SD
Sbjct:    75 QEGRNIEVMNSFELLSHTVEEKIIIDKEYYYTKEEQFKQVFKELEFLGWYTTGGPPDPSD 134

Query:   119 MHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETV 178
             +H+HK + +I ESP+++ LNP       DLPV++FES + +I G   ++F   +YT+ T 
Sbjct:   135 IHVHKQVCEIIESPLFLKLNPMTK--HTDLPVSVFESVIDIINGEATMLFAELTYTLATE 192

Query:   179 EAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPC 238
             EAERI VDHVA +  +  G  +T +A HL   HSAIKML+SR++++  Y+ A + GE+P 
Sbjct:   193 EAERIGVDHVARMTATGSGENST-VAEHLIAQHSAIKMLHSRVKLILEYVKASEAGEVPF 251

Query:   239 ENXXXXXXXXXXXXXPAIESEKFQDDF 265
              +             P + ++KF+ DF
Sbjct:   252 NHEILREAYALCHCLPVLSTDKFKTDF 278

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q7L5N1	CSN6_HUMAN	No assigned EC number	0.3754	0.9328	0.8073	yes	no
Q8W1P0	CSN6B_ARATH	No assigned EC number	0.7665	0.9858	0.8801	no	no
A7TX81	CSN6_PIG	No assigned EC number	0.3787	0.9328	0.8173	yes	no
Q8W206	CSN6A_ARATH	No assigned EC number	0.8272	0.9434	0.8422	yes	no
O88545	CSN6_MOUSE	No assigned EC number	0.3787	0.9328	0.8148	yes	no
Q07G98	CSN6_XENTR	No assigned EC number	0.3787	0.9328	0.8275	yes	no
Q5REY0	CSN6_PONAB	No assigned EC number	0.3787	0.9328	0.8048	yes	no
A6QQ21	CSN6_BOVIN	No assigned EC number	0.3787	0.9328	0.8148	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

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

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	283
cd08063	288	cd08063, MPN_CSN6, Mpr1p, Pad1p N-terminal (MPN) d	1e-118
cd08057	157	cd08057, MPN_euk_non_mb, Mpr1p, Pad1p N-terminal (	2e-30
cd08062	280	cd08062, MPN_RPN7_8, Mpr1p, Pad1p N-terminal (MPN)	5e-29
PLN03246	303	PLN03246, PLN03246, 26S proteasome regulatory subu	1e-25
cd08064	265	cd08064, MPN_eIF3f, Mpr1p, Pad1p N-terminal (MPN)	1e-22
pfam13012	115	pfam13012, MitMem_reg, Maintenance of mitochondria	2e-19
pfam01398	117	pfam01398, JAB, JAB1/Mov34/MPN/PAD-1 ubiquitin pro	5e-17
smart00232	135	smart00232, JAB_MPN, JAB/MPN domain	1e-08

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

 Score =  339 bits (873), Expect = e-118
 Identities = 128/278 (46%), Positives = 174/278 (62%), Gaps = 22/278 (7%)

Query: 9   LTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEI 68
           L+ KLHPLVI+NISDH TR ++Q              +    PRV G ++G Q GR +EI
Sbjct: 1   LSVKLHPLVILNISDHITRHRAQ--------------SQSEPPRVVGALLGQQDGREIEI 46

Query: 69  FNSFELLYDPSTH---SLDRAFLEKKQELYKKVFPHFYILGWYSTGSD-AQESDMHIHKA 124
            NSFEL YD +      LD+ FLE + E +K+VF     +GWY+TG     ESD+ IHK 
Sbjct: 47  ENSFELKYDTNEDGEIVLDKEFLETRLEQFKQVFKDLDFVGWYTTGPGGPTESDLPIHKQ 106

Query: 125 LMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETVEAERIS 184
           +++INESPV +LL+P  N + KDLPVTI+ES L +++G   L F    YTIET EAERI 
Sbjct: 107 ILEINESPVLLLLDPEANASGKDLPVTIYESVLELVDGEATLRFRELPYTIETGEAERIG 166

Query: 185 VDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPCENSLLR 244
           VDHVA    S G S  + +AAHL   H+AIKMLNSR+ ++  YL A+  GE+P ++S+LR
Sbjct: 167 VDHVARGGAS-GSSEKSTVAAHLQAQHNAIKMLNSRVELILEYLKAVPVGEVPPDHSILR 225

Query: 245 QVSSLLRRLPAIESEKFQDDFLMVS---LFSSFLNIFT 279
            +S+L  RLP ++SE F+++ L      L  ++L   T
Sbjct: 226 SISALCSRLPVLKSEAFREELLAEYNDVLLVAYLATLT 263

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

 Score =  111 bits (280), Expect = 2e-30
 Identities = 63/179 (35%), Positives = 91/179 (50%), Gaps = 31/179 (17%)

Query: 12  KLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNS 71
           +LHPLV++NISDHYTR K                      RV G ++G   G  +E+ NS
Sbjct: 2   QLHPLVLLNISDHYTRRKYG------------------IKRVIGVLLGYVDGDKIEVTNS 43

Query: 72  FELLYDPSTHS--LDRAFLEKKQELYKKVFPHFYILGWYSTGSDA----QESDMHIHKAL 125
           FEL +D    S  +D  +LEK+  L+KKV+P   I+GWYS GS+      +SD  +H   
Sbjct: 44  FELPFDEEEESIFIDTEYLEKRYNLHKKVYPQEKIVGWYSIGSNNSNEISKSDNSLHSQF 103

Query: 126 MDINE-SPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETVEAERI 183
             I+E +P+ ++L+PS+    + L ++ F S      G         +Y I T E ERI
Sbjct: 104 SLISEENPLILILDPSLQSDSEKLEISTFTSAQREENGAE------ITYEIGTEETERI 156

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

 Score =  111 bits (279), Expect = 5e-29
 Identities = 66/261 (25%), Positives = 118/261 (45%), Gaps = 31/261 (11%)

Query: 13  LHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSF 72
           +HPLV++++ DHY RV                   G   RV G ++G  +   +++ NSF
Sbjct: 5   VHPLVLLSVVDHYNRVAK-----------------GTSKRVVGVLLGSWKKGVLDVTNSF 47

Query: 73  -----ELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMHIHKALMD 127
                E   DPS   LD  +LE    ++KKV     I+GWYSTG   + +D+ I++    
Sbjct: 48  AVPFEEDEKDPSVWFLDHNYLENMYGMFKKVNAKEKIVGWYSTGPKLRPNDLDINELFRR 107

Query: 128 INESPVYVLLNPSINPAQKDLPVTIFES--ELHVIEGIPQLIFVRSSYTIETVEAERISV 185
              +PV V+++  + P    LP   + +  E+H         FV     I   EAE + V
Sbjct: 108 YCPNPVLVIID--VRPKDLGLPTEAYIAVEEVHDDGTPTSKTFVHVPSEIGAEEAEEVGV 165

Query: 186 DHVAH-LKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPCENSLLR 244
           +H+   +K     + +T++   L      +K L S+++ +  YL  + +G++P  + ++ 
Sbjct: 166 EHLLRDIKDVTVSTLSTRVTNKLNS----LKGLQSKLKEIKDYLQLVVEGKLPINHQIIY 221

Query: 245 QVSSLLRRLPAIESEKFQDDF 265
            +  +   LP +   +    F
Sbjct: 222 NLQDIFNLLPNLNLPELVKAF 242

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|215645 PLN03246, PLN03246, 26S proteasome regulatory subunit; Provisional

 Score =  102 bits (257), Expect = 1e-25
 Identities = 76/277 (27%), Positives = 134/277 (48%), Gaps = 39/277 (14%)

Query: 13  LHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSF 72
           +HPLV+++I DHY RV                     + RV G ++G      V++ NSF
Sbjct: 10  VHPLVLLSIVDHYNRVA-----------------KDTRKRVVGVLLGSSFRGRVDVTNSF 52

Query: 73  ELLY-----DPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMHIHKALMD 127
            + +     DPS   LD  +LE    ++K++    +++GWYSTG   +E+D+ IH+   D
Sbjct: 53  AVPFEEDDKDPSIWFLDHNYLESMFGMFKRINAKEHVVGWYSTGPKLRENDLDIHELFND 112

Query: 128 INESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQL---IFVRSSYTIETVEAERIS 184
              +PV V+++  + P +  +P   + +   V E   Q    +FV     I   EAE I 
Sbjct: 113 YVPNPVLVIID--VQPKELGIPTKAYYAVEEVKENATQKSQKVFVHVPSEIGAHEAEEIG 170

Query: 185 VDHVAH-LKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPCENSLL 243
           V+H+   +K +   + AT++   LT    A+K L++R+R +  YL  + +G++P  + +L
Sbjct: 171 VEHLLRDVKDTTVSTLATEVTGKLT----ALKGLDARLREIRSYLDLVVEGKLPLNHEIL 226

Query: 244 RQVSSLLRRLPAIESEKF-------QDDFLMVSLFSS 273
             +  +   LP +  E+         +D ++V   SS
Sbjct: 227 YHLQDVFNLLPNLNVEELVKAFAVKTNDMMLVIYLSS 263

Length = 303

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

 Score = 93.8 bits (234), Expect = 1e-22
 Identities = 68/277 (24%), Positives = 123/277 (44%), Gaps = 40/277 (14%)

Query: 12  KLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNS 71
           ++HP+V+ +I D Y R              N+      Q RV G ++G +    VEI N 
Sbjct: 2   RVHPVVLFSILDSYER-------------RNEG-----QERVIGTLLGTRSEGEVEITNC 43

Query: 72  FELLYDPSTHS-----LDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMHIHKALM 126
           F     P   S     +D  +     EL++KV P   I+GWY+TGS+  E    IH    
Sbjct: 44  FA---VPHNESEDQVAVDMEYHRTMYELHQKVNPKEVIVGWYATGSEITEHSALIHDYYS 100

Query: 127 DINES--PVYVLLNPSINPAQKDLPVTIFES-ELHVIEGIPQLIFVRSSYTIETVEAERI 183
               S  P+++ ++ S+      + +  + S  L V       +FV     +   EAER+
Sbjct: 101 RECTSYNPIHLTVDTSL--DDGKMSIKAYVSSPLGVPGKTLGSMFVPIPLELLYSEAERV 158

Query: 184 SVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPCENSLL 243
           ++D +A  K     S +  L + L  + ++++ L   +  +  Y+  +  G++  +N++ 
Sbjct: 159 ALDLLA--KTLASPSRSAPLTSDLEQLEASLEKLQEMLDRVLRYVEDVLAGKVKADNAIG 216

Query: 244 RQVSSLLRRLPAIESEKFQDDF-------LMVSLFSS 273
           R +   L  +P ++ E+F+  F       LMV+  S+
Sbjct: 217 RYLMDALTSVPKLDPEEFEKMFNSSLQDLLMVTYLSN 253

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 = 81.1 bits (201), Expect = 2e-19
 Identities = 25/89 (28%), Positives = 49/89 (55%), Gaps = 3/89 (3%)

Query: 179 EAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPC 238
           EAE+I V+H+            + L+  L     A+K L+ R+  +  YL  +  G++P 
Sbjct: 2   EAEQIGVEHLLR---GLNRHYYSTLSRKLELEQKALKNLHKRLWTIGLYLEDVIDGKLPP 58

Query: 239 ENSLLRQVSSLLRRLPAIESEKFQDDFLM 267
            + +LR++ SLL  LP  ++++F+++F +
Sbjct: 59  NHEILRKLQSLLNLLPNYDNKEFEEEFNV 87

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

 Score = 74.7 bits (184), Expect = 5e-17
 Identities = 34/135 (25%), Positives = 50/135 (37%), Gaps = 28/135 (20%)

Query: 7   SGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRG-RT 65
           S  T  +HPLV++ I DH  R                         V G ++G   G R 
Sbjct: 1   SVRTVVIHPLVLLKIVDHARRGGKS------------------GEEVMGVLLGTLEGDRV 42

Query: 66  VEIFNSFELL-----YDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQ----E 116
           +E+ NSF L       D     LD  ++EK  E+ KKV     ++GWY +          
Sbjct: 43  IEVTNSFALPQSETEDDVEAVELDHEYMEKMLEMLKKVNRDEEVVGWYHSHPGYGCWLSS 102

Query: 117 SDMHIHKALMDINES 131
            D+H  +    +   
Sbjct: 103 VDVHTQELYQRMIPE 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|214573 smart00232, JAB_MPN, JAB/MPN domain

 Score = 52.4 bits (126), Expect = 1e-08
 Identities = 35/153 (22%), Positives = 53/153 (34%), Gaps = 28/153 (18%)

Query: 10  TFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIF 69
             K+HPLV +NI  H  R                         V G ++G       E+ 
Sbjct: 1   EVKVHPLVPLNILKHAIR--------------------DGPEEVCGVLLGKSNKDRPEVK 40

Query: 70  NSFELLYDP---STHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQ----ESDMHIH 122
             F +  +P   S    D  +     E  KKV     I+GWY +  D      E D+  H
Sbjct: 41  EVFAVPNEPQDDSVQEYDEDYSHLMDEELKKVNKDLEIVGWYHSHPDESPFPSEVDVATH 100

Query: 123 KALMDINESPVYVLLNPSINPAQKDLPVTIFES 155
           ++        V ++++P I   Q  L +  F  
Sbjct: 101 ESYQAPWPISVVLIVDP-IKSFQGRLSLRAFRL 132

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	283
PLN03246	303	26S proteasome regulatory subunit; Provisional	100.0
cd08062	280	MPN_RPN7_8 Mpr1p, Pad1p N-terminal (MPN) domains w	100.0
cd08063	288	MPN_CSN6 Mpr1p, Pad1p N-terminal (MPN) domains wit	100.0
KOG2975	288	consensus Translation initiation factor 3, subunit	100.0
cd08064	265	MPN_eIF3f Mpr1p, Pad1p N-terminal (MPN) domains wi	100.0
KOG3050	299	consensus COP9 signalosome, subunit CSN6 [Posttran	100.0
KOG1556	309	consensus 26S proteasome regulatory complex, subun	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	99.97
PF01398	114	JAB: JAB1/Mov34/MPN/PAD-1 ubiquitin protease; Inte	99.94
cd08069	268	MPN_RPN11_CSN5 Mov34/MPN/PAD-1 family: proteasomal	99.94
KOG1560	339	consensus Translation initiation factor 3, subunit	99.86
smart00232	135	JAB_MPN JAB/MPN domain. Domain in Jun kinase activ	99.86
PF13012	115	MitMem_reg: Maintenance of mitochondrial structure	99.79
cd07767	116	MPN Mpr1p, Pad1p N-terminal (MPN) domains. MPN (al	99.63
KOG1554	347	consensus COP9 signalosome, subunit CSN5 [Posttran	99.52
cd08067	187	MPN_2A_DUB Mov34/MPN/PAD-1 family: Histone H2A deu	99.42
cd08058	119	MPN_euk_mb Mpr1p, Pad1p N-terminal (MPN) domains w	99.39
cd08068	244	MPN_BRCC36 Mov34/MPN/PAD-1 family: BRCC36, a subun	99.11
cd08066	173	MPN_AMSH_like Mov34/MPN/PAD-1 family. AMSH (associ	98.62
KOG1555	316	consensus 26S proteasome regulatory complex, subun	98.59
PF03665	196	UPF0172: Uncharacterised protein family (UPF0172);	98.32
cd08060	182	MPN_UPF0172 Mov34/MPN/PAD-1 family: UPF0172 family	98.32
cd08070	128	MPN_like Mpr1p, Pad1p N-terminal (MPN) domains wit	98.04
COG1310	134	Predicted metal-dependent protease of the PAD1/JAB	97.89
KOG3289	199	consensus Uncharacterized conserved protein encode	97.07
TIGR02256	131	ICE_VC0181 integrative and conjugative element pro	96.69
PF14464	104	Prok-JAB: Prokaryotic homologs of the JAB domain;	95.1
cd08072	117	MPN_archaeal Mov34/MPN/PAD-1 family: archaeal JAB1	95.08
cd08056	252	MPN_PRP8 Mpr1p, Pad1p N-terminal (MPN) domains wit	94.3
cd08073	108	MPN_NLPC_P60 Mpr1p, Pad1p N-terminal (MPN) domains	86.09

>PLN03246 26S proteasome regulatory subunit; Provisional

Probab=100.00  E-value=5e-66  Score=473.96  Aligned_cols=254  Identities=27%  Similarity=0.486  Sum_probs=229.4

Q ss_pred             CCCCceEEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCEEEEEEeEeeccCCCcc---
Q 023397            5 SSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTH---   81 (283)
Q Consensus         5 ~~~~~~V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~~---   81 (283)
                      ..+..+|.|||+|||+|+|||+|+..+                 .+.||+|+|||++.++.+||+|||++|++++++   
T Consensus         2 ~~~~~~V~vhPlVll~I~dh~~R~~~~-----------------~~~rviG~LLG~~~~~~ieItnsF~~p~~e~~~~~~   64 (303)
T PLN03246          2 PRGIEKVVVHPLVLLSIVDHYNRVAKD-----------------TRKRVVGVLLGSSFRGRVDVTNSFAVPFEEDDKDPS   64 (303)
T ss_pred             CCCCcEEEECcHHHHHHHHHHHhccCC-----------------CCCeeEEEEEeeecCCEEEEEeccccCcccCCCCcc
Confidence            456678999999999999999998643                 147999999999999999999999999987543   


Q ss_pred             --cccHHHHHHHHHHHHHhCCCcceEEEEecCCCCCcchHHHHHHHhhhCCCcEEEEEcCCCCCCCCCcceEEEEeeecc
Q 023397           82 --SLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHV  159 (283)
Q Consensus        82 --~iD~~~~~~m~~l~k~V~p~~~iVGWY~tg~~~~~~d~~ih~~~~~~~~~pi~L~~D~~~~~~~~~lpi~~y~~~~~~  159 (283)
                        ++|++|+++|+++||+|||++.+||||++|++++++|+.||++|++++++||||++|+.+  ..++||+++|++....
T Consensus        65 ~~~~D~~y~~~m~~~~k~V~~~~~vVGWY~tg~~i~~~d~~IH~~~~~~~~~Pv~L~vD~~~--~~~~lpi~aY~s~~~~  142 (303)
T PLN03246         65 IWFLDHNYLESMFGMFKRINAKEHVVGWYSTGPKLRENDLDIHELFNDYVPNPVLVIIDVQP--KELGIPTKAYYAVEEV  142 (303)
T ss_pred             ceeecHHHHHHHHHHHHHhCCCCcEEeeecCCCCCCcchHHHHHHHHhhCCCCeEEEEecCC--CCCCCceEEEEEEEec
Confidence              399999999999999999999999999999999999999999999999999999999986  3578999999986544


Q ss_pred             cc-CC--ceeeEEEeeeeeecchhhHHHHHHHhccCCCCCCChhhhhhhcHHHHHHHHHHHHHHHHHHHHHHHHhhcCCC
Q 023397          160 IE-GI--PQLIFVRSSYTIETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEI  236 (283)
Q Consensus       160 ~~-g~--~~~~f~~v~~~i~~~e~ErI~v~~l~~~~~~~~~~~~~~~~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~  236 (283)
                      .+ |.  .+..|+++|++|+++|||||||+|++|...   +.+.+.+..++..+.+|+++|..||+.|++||++|.+|+.
T Consensus       143 ~~~~~~~~~~~F~~vp~~i~~~EaE~Igve~l~r~~~---~~~~s~l~~~l~~~~~al~~L~~rl~~i~~Yl~~V~~g~~  219 (303)
T PLN03246        143 KENATQKSQKVFVHVPSEIGAHEAEEIGVEHLLRDVK---DTTVSTLATEVTGKLTALKGLDARLREIRSYLDLVVEGKL  219 (303)
T ss_pred             cCCCCcccccEEEECCeeeeecCHHHHHHHHHHhccc---CCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            33 33  457899999999999999999999998643   2334567789999999999999999999999999999999


Q ss_pred             CCChHHHHHHHHHHhcCCCCChHHHHHHHH---HHHHHHHHHHHhhc
Q 023397          237 PCENSLLRQVSSLLRRLPAIESEKFQDDFL---MVSLFSSFLNIFTI  280 (283)
Q Consensus       237 ~~d~~ilR~i~~l~~~lP~~~~~~f~~~~~---~~~lmv~yLs~lt~  280 (283)
                      ++|++|||+|+++|+++|.+++++|+++|+   +|+||++|||+||+
T Consensus       220 ~~d~~IlR~l~~l~~~lP~l~~~~f~~~f~~~~nD~lmv~YLa~l~k  266 (303)
T PLN03246        220 PLNHEILYHLQDVFNLLPNLNVEELVKAFAVKTNDMMLVIYLSSLIR  266 (303)
T ss_pred             CCCHHHHHHHHHHHhhCCCCCHHHHHHHHHhhccHHHHHHHHHHHHH
Confidence            999999999999999999999999999995   68999999999997

>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=3.4e-65  Score=465.03  Aligned_cols=249  Identities=24%  Similarity=0.462  Sum_probs=227.4

Q ss_pred             eEEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCEEEEEEeEeeccCCCcc-----ccc
Q 023397           10 TFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTH-----SLD   84 (283)
Q Consensus        10 ~V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~~-----~iD   84 (283)
                      +|.|||+|||+|+|||+|+..+                 .+.+|+|+|||++.++.+||+|||++|++++++     ++|
T Consensus         2 ~V~ihplVLl~I~dh~~R~~~~-----------------~~~~ViG~LLG~~~~~~veItnsF~~p~~~~~~~~~~~~~d   64 (280)
T cd08062           2 KVVVHPLVLLSVVDHYNRVAKG-----------------TSKRVVGVLLGSWKKGVLDVTNSFAVPFEEDEKDPSVWFLD   64 (280)
T ss_pred             eEEEehHHHHHHHHHHhhhcCC-----------------CCceEEEEEEEEEeCCEEEEEEeeecCccCCCCCcchhhhh
Confidence            6999999999999999998743                 247999999999999999999999999987654     389


Q ss_pred             HHHHHHHHHHHHHhCCCcceEEEEecCCCCCcchHHHHHHHhhhCCCcEEEEEcCCCCCCCCCcceEEEEeeeccc-cCC
Q 023397           85 RAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVI-EGI  163 (283)
Q Consensus        85 ~~~~~~m~~l~k~V~p~~~iVGWY~tg~~~~~~d~~ih~~~~~~~~~pi~L~~D~~~~~~~~~lpi~~y~~~~~~~-~g~  163 (283)
                      ++|+++|+++||+|||++.+||||++|+.+++.|+.||++|++++++||+|++||...  .++||+++|++..... +|.
T Consensus        65 ~~y~~~m~~~~kkv~~~e~vVGWY~tg~~~~~~d~~ih~~~~~~~~~pv~l~vd~~~~--~~~lpi~aY~s~~~~~~~g~  142 (280)
T cd08062          65 HNYLENMYGMFKKVNAKEKIVGWYSTGPKLRPNDLDINELFRRYCPNPVLVIIDVRPK--DLGLPTEAYIAVEEVHDDGT  142 (280)
T ss_pred             HHHHHHHHHHHHHhCCCCCeEEEecCCCCCCcchHHHHHHHHHhCCCCEEEEEecCCC--CCCCceEEEEEeeeccCCCC
Confidence            9999999999999999999999999999999999999999999999999999999863  5789999999865443 565


Q ss_pred             -ceeeEEEeeeeeecchhhHHHHHHHhccCCCCCCChhhhhhhcHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCChHH
Q 023397          164 -PQLIFVRSSYTIETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPCENSL  242 (283)
Q Consensus       164 -~~~~f~~v~~~i~~~e~ErI~v~~l~~~~~~~~~~~~~~~~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~d~~i  242 (283)
                       .+..|+++|++|+++|||||||+|++|...   +.+.+.+..++..+.+|+++|+.||+.|++||++|.+|+.|+|++|
T Consensus       143 ~~~~~F~~vp~~i~~~eaE~igve~l~r~~~---~~~~~~l~~~l~~~~~al~~L~~~l~~i~~Yl~~V~~g~~~~d~~I  219 (280)
T cd08062         143 PTSKTFVHVPSEIGAEEAEEVGVEHLLRDIK---DVTVSTLSTRVTNKLNSLKGLQSKLKEIKDYLQLVVEGKLPINHQI  219 (280)
T ss_pred             cceeEEEEcceEeeccchHHHHHHHHHhhcc---CcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHH
Confidence             678999999999999999999999998533   2234567779999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCCChHHHHHHHH---HHHHHHHHHHHhhc
Q 023397          243 LRQVSSLLRRLPAIESEKFQDDFL---MVSLFSSFLNIFTI  280 (283)
Q Consensus       243 lR~i~~l~~~lP~~~~~~f~~~~~---~~~lmv~yLs~lt~  280 (283)
                      ||+|+++|+++|.+++++|+++|+   +|++|++|||+||+
T Consensus       220 lR~l~~~~~~lP~l~~~~f~~~~~~~~nD~lmv~yLs~l~k  260 (280)
T cd08062         220 IYNLQDIFNLLPNLNLPELVKAFAVKTNDQMLVIYLSSLIR  260 (280)
T ss_pred             HHHHHHHHHhCCCCCHHHHHHHHHhhccHHHHHHHHHHHHH
Confidence            999999999999999999999995   68999999999987

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.

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

Probab=100.00  E-value=1.7e-65  Score=470.05  Aligned_cols=257  Identities=49%  Similarity=0.793  Sum_probs=233.4

Q ss_pred             ceEEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCEEEEEEeEeeccCCCc-c--cccH
Q 023397            9 LTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPST-H--SLDR   85 (283)
Q Consensus         9 ~~V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~-~--~iD~   85 (283)
                      ++|.|||+|||+|+|||+|+..+..              ..+.+|+|+|||+++|++|||+|||++|+++++ +  .+|+
T Consensus         1 ~~V~lHPlVll~I~dH~~R~~~~~~--------------~~~~~v~G~LLG~~~~~~veItnsF~~p~~~~~~~~~~id~   66 (288)
T cd08063           1 LSVKLHPLVILNISDHITRHRAQSQ--------------SEPPRVVGALLGQQDGREIEIENSFELKYDTNEDGEIVLDK   66 (288)
T ss_pred             CeEEEecceeeeHHhhHhHHhccCC--------------CCCCcEEEEEEEEEcCCEEEEEEEEecccccCCCCceeeCH
Confidence            4799999999999999999986510              014799999999999999999999999998775 3  6999


Q ss_pred             HHHHHHHHHHHHhCCCcceEEEEecCCC-CCcchHHHHHHHhhhCCCcEEEEEcCCCCCCCCCcceEEEEeeeccccCCc
Q 023397           86 AFLEKKQELYKKVFPHFYILGWYSTGSD-AQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIP  164 (283)
Q Consensus        86 ~~~~~m~~l~k~V~p~~~iVGWY~tg~~-~~~~d~~ih~~~~~~~~~pi~L~~D~~~~~~~~~lpi~~y~~~~~~~~g~~  164 (283)
                      +|+++|+++||+|||++.+||||++|+. ++..|+.||++|++++++||+|++||.....+++||++||++.....+|..
T Consensus        67 ~y~~~m~~~~kkV~~~~~vVGWY~tg~~~~~~~~~~Ih~~~~~~~~~pv~L~~D~~~~~~~~~lpi~ay~s~~~~~~~~~  146 (288)
T cd08063          67 EFLETRLEQFKQVFKDLDFVGWYTTGPGGPTESDLPIHKQILEINESPVLLLLDPEANASGKDLPVTIYESVLELVDGEA  146 (288)
T ss_pred             HHHHHHHHHHHHhccCCceEEEEecCCCCCCHHHHHHHHHHHhhCCCcEEEEEccccccCCCCCceeEEEEEEeccCCcc
Confidence            9999999999999999999999999998 999999999999999999999999998743578899999999766666667


Q ss_pred             eeeEEEeeeeeecchhhHHHHHHHhccCCCCCCChhhhhhhcHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCChHHHH
Q 023397          165 QLIFVRSSYTIETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPCENSLLR  244 (283)
Q Consensus       165 ~~~f~~v~~~i~~~e~ErI~v~~l~~~~~~~~~~~~~~~~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~d~~ilR  244 (283)
                      ...|+++||+|+++|+||||++|+++..+.. +.+.+.+..+++.+.+|+++|++||+.|++||++|.+|++++|++|||
T Consensus       147 ~~~F~~i~~~i~~~eaErIgv~~l~~~~~~~-~~~~~~~~~~l~~~~~al~~L~~rl~~i~~Yl~~V~~g~~~~d~~ilR  225 (288)
T cd08063         147 TLRFRELPYTIETGEAERIGVDHVARGGASG-SSEKSTVAAHLQAQHNAIKMLNSRVELILEYLKAVPVGEVPPDHSILR  225 (288)
T ss_pred             ccEEEeeeeEEEeccCceeeHHHHHhcCCCC-CCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHH
Confidence            7889999999999999999999999976432 344566788999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCCCChHHHHHHHH---HHHHHHHHHHHhhc
Q 023397          245 QVSSLLRRLPAIESEKFQDDFL---MVSLFSSFLNIFTI  280 (283)
Q Consensus       245 ~i~~l~~~lP~~~~~~f~~~~~---~~~lmv~yLs~lt~  280 (283)
                      +|+++|+++|.++.++|+++|+   +|++|++|||+||+
T Consensus       226 ~l~~~~~~lP~~~~~~~~~~~~~~~~D~lmv~yLs~lt~  264 (288)
T cd08063         226 SISALCSRLPVLKSEAFREELLAEYNDVLLVAYLATLTK  264 (288)
T ss_pred             HHHHHHHhCccCChHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            9999999999999999999995   67999999999997

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

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

Probab=100.00  E-value=2.5e-65  Score=446.86  Aligned_cols=257  Identities=26%  Similarity=0.402  Sum_probs=238.2

Q ss_pred             CCCCCCCceEEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCEEEEEEeEeeccCCCcc
Q 023397            2 ASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTH   81 (283)
Q Consensus         2 ~~~~~~~~~V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~~   81 (283)
                      +++.++.++|.|||+|+|||+|||.||..+                  ..||||+|||+.++|.|||||||++||.|+++
T Consensus        14 ~~~~ss~ltv~ihP~Vlf~ivD~~~RR~~~------------------~~rviGTLLG~~~~g~ieitNCFaVPhnEssd   75 (288)
T KOG2975|consen   14 PSPFSSNLTVRLHPVVLFSIVDAYERRNKG------------------AERVIGTLLGTVDKGSVEVTNCFAVPHNESSD   75 (288)
T ss_pred             CCCCCCCceEEEcceEEeEeehhhhcCCcc------------------chhhhhheeecccCCeEEEEEeeeccCccccc
Confidence            567888999999999999999999999865                  47999999999999999999999999999877


Q ss_pred             --cccHHHHHHHHHHHHHhCCCcceEEEEecCCCCCcchHHHHHHHhhhCCCcEEEEEcCCCCCCCCCcceEEEEee-ec
Q 023397           82 --SLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESE-LH  158 (283)
Q Consensus        82 --~iD~~~~~~m~~l~k~V~p~~~iVGWY~tg~~~~~~d~~ih~~~~~~~~~pi~L~~D~~~~~~~~~lpi~~y~~~-~~  158 (283)
                        -+|++|.+.|+++++|+||+|.+||||+||++++.++..||++|.+.+++||||++|++..  ++.+++++|.+. ++
T Consensus        76 qvevdm~y~~~M~~l~~k~npnE~vvGWyaTg~dvt~~sslihdyYare~~~pvhLtVDT~~~--n~rm~ikaYvss~~G  153 (288)
T KOG2975|consen   76 QVEVDMEYAKNMYELHKKVNPNELVVGWYATGHDVTEHSSLIHDYYAREAPNPVHLTVDTSLQ--NGRMSIKAYVSSLMG  153 (288)
T ss_pred             cceeeHHHHHHHHHHhcccCCCceeEEEEecCCCcccchhHHHHHhhccCCCCeEEEEecccc--CCccceeEEEEeccC
Confidence              4999999999999999999999999999999999999999999999999999999999974  688999999874 55


Q ss_pred             cccCCceeeEEEeeeeeecchhhHHHHHHHhccCCCCCCChhhhhhhcHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 023397          159 VIEGIPQLIFVRSSYTIETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPC  238 (283)
Q Consensus       159 ~~~g~~~~~f~~v~~~i~~~e~ErI~v~~l~~~~~~~~~~~~~~~~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~  238 (283)
                      ..++....+|.|+|+++...|+||+|++.+.+.+.+  .+....+..+|+++..|...|+++|+++++|+++|.+|+.++
T Consensus       154 vpg~~~~~mF~plpvel~~~~~ervgl~li~kt~~s--p~r~~~l~~dLqQv~~at~~l~~~L~~Vl~YVedVl~gk~~p  231 (288)
T KOG2975|consen  154 VPGRTMGVMFTPLPVELAYYDAERVGLDLIEKTSFS--PSRVAGLSSDLQQVEGATARLQSLLERVLKYVEDVLAGKVKP  231 (288)
T ss_pred             CCCcccceeeeeeeeEEeecchhhhHHHHHHHhccC--hhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCC
Confidence            555556779999999999999999999999998633  345667889999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHhcCCCCChHHHHHHHH---HHHHHHHHHHHhhc
Q 023397          239 ENSLLRQVSSLLRRLPAIESEKFQDDFL---MVSLFSSFLNIFTI  280 (283)
Q Consensus       239 d~~ilR~i~~l~~~lP~~~~~~f~~~~~---~~~lmv~yLs~lt~  280 (283)
                      |..|||+|+++++++|++.+++|+.+|+   +|+||+.|||++|+
T Consensus       232 dn~VGR~Lmd~v~~vP~l~p~~Fe~mfn~nLrD~Lmv~yLa~ltq  276 (288)
T KOG2975|consen  232 DNAVGRFLMDLVTAVPKLVPDDFETMFNSNLRDLLMVIYLANLTQ  276 (288)
T ss_pred             cchHHHHHHHHHHhcCCCCHHHHHHHHhhhHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999996   68999999999986

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

Probab=100.00  E-value=1.5e-63  Score=452.23  Aligned_cols=248  Identities=25%  Similarity=0.419  Sum_probs=225.0

Q ss_pred             EEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCEEEEEEeEeeccCCCcc--cccHHHH
Q 023397           11 FKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTH--SLDRAFL   88 (283)
Q Consensus        11 V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~~--~iD~~~~   88 (283)
                      |.|||+|||+|+|||+|+..+                  +.+|+|+|||++.++.+||+|||++|++++++  .+|.+|+
T Consensus         1 v~ihPlVll~I~dH~~R~~~~------------------~~~V~G~LLG~~~~~~veItnsF~~p~~~~~~~~~~d~~y~   62 (265)
T cd08064           1 VRVHPVVLFSILDSYERRNEG------------------QERVIGTLLGTRSEGEVEITNCFAVPHNESEDQVAVDMEYH   62 (265)
T ss_pred             CEEccHHHHhHHHHHhhhcCC------------------CcEEEEEEEEEEeCCEEEEEeCeecceeCCCCeEEEcHHHH
Confidence            689999999999999998744                  47999999999999999999999999987665  5999999


Q ss_pred             HHHHHHHHHhCCCcceEEEEecCCCCCcchHHHHHHHhhhCC--CcEEEEEcCCCCCCCCCcceEEEEeee-ccccCCce
Q 023397           89 EKKQELYKKVFPHFYILGWYSTGSDAQESDMHIHKALMDINE--SPVYVLLNPSINPAQKDLPVTIFESEL-HVIEGIPQ  165 (283)
Q Consensus        89 ~~m~~l~k~V~p~~~iVGWY~tg~~~~~~d~~ih~~~~~~~~--~pi~L~~D~~~~~~~~~lpi~~y~~~~-~~~~g~~~  165 (283)
                      ++|+++||+|||++.+||||++|+.++..+..||++|++.++  +||+|++||...  .+++|++||++.. ...++..+
T Consensus        63 ~~m~~~~kkv~~~~~vVGWY~tg~~~~~~~~~Ih~~~~~~~~~~~pI~L~~D~~~~--~~~l~i~ay~~~~~~~~~~~~~  140 (265)
T cd08064          63 RTMYELHQKVNPKEVIVGWYATGSEITEHSALIHDYYSRECTSYNPIHLTVDTSLD--DGKMSIKAYVSSPLGVPGKTLG  140 (265)
T ss_pred             HHHHHHHHHhCCCCcEEeeeeCCCCCCccHHHHHHHHHhhCCCCCCEEEEEeCCCC--CCCcceEEEEEEecccCCCCcc
Confidence            999999999999999999999999999999999999999988  999999999864  3489999999753 33344567


Q ss_pred             eeEEEeeeeeecchhhHHHHHHHhccCCCCCCChhhhhhhcHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCChHHHHH
Q 023397          166 LIFVRSSYTIETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPCENSLLRQ  245 (283)
Q Consensus       166 ~~f~~v~~~i~~~e~ErI~v~~l~~~~~~~~~~~~~~~~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~d~~ilR~  245 (283)
                      .+|.++|++|.++|+||||++++++......  ....+.++++.+.+|+++|..||+.|++||++|.+|+.++|++|||+
T Consensus       141 ~~F~~ip~~i~~~eaE~i~v~~l~~~~~~~~--~~~~~~~~l~~~~~al~~L~~~l~~i~~Yl~~V~~g~~~~d~~i~r~  218 (265)
T cd08064         141 SMFVPIPLELLYSEAERVALDLLAKTLASPS--RSAPLTSDLEQLEASLEKLQEMLDRVLRYVEDVLAGKVKADNAIGRY  218 (265)
T ss_pred             eEEEEcceeeecCcHHHHHHHHHHhhccCCc--ccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHH
Confidence            8999999999999999999999999755422  23345689999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCCCChHHHHHHHH---HHHHHHHHHHHhhc
Q 023397          246 VSSLLRRLPAIESEKFQDDFL---MVSLFSSFLNIFTI  280 (283)
Q Consensus       246 i~~l~~~lP~~~~~~f~~~~~---~~~lmv~yLs~lt~  280 (283)
                      |+++++++|.+++++|+++|+   +|+||++|||+||+
T Consensus       219 l~~~~~~lp~~~~~~f~~~~~~~~~D~lmv~YLs~l~k  256 (265)
T cd08064         219 LMDALTSVPKLDPEEFEKMFNSSLQDLLMVTYLSNLTK  256 (265)
T ss_pred             HHHHHhhCCCCCHHHHHHHHHhhcchHHHHHHHHHHHH
Confidence            999999999999999999996   57999999999997

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

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

Probab=100.00  E-value=1.2e-63  Score=431.59  Aligned_cols=265  Identities=54%  Similarity=0.875  Sum_probs=243.5

Q ss_pred             CCCCCCCCceEEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCEEEEEEeEeeccCCCc
Q 023397            1 MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPST   80 (283)
Q Consensus         1 ~~~~~~~~~~V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~   80 (283)
                      |+.|++++.+|.+|||||+||+|||+|.+.+.              +++.++|+|+|+|.|.|+.|||.|||++..+..+
T Consensus         1 ~Aps~S~s~tv~LHPLVImniSdH~tR~k~Q~--------------gpp~~~VyGaliG~Q~GR~vEi~NSFeL~~d~~~   66 (299)
T KOG3050|consen    1 MAPSSSGSVTVKLHPLVIMNISDHYTRVKTQL--------------GPPVKQVYGALIGKQRGRNVEIMNSFELKMDTEE   66 (299)
T ss_pred             CCCCCCCceeEEeccEEEEehhHHHHHHHhhc--------------CCcHHHhhhhheecccCceEEEeeeeEEEecchh
Confidence            57788889999999999999999999999762              1223589999999999999999999999998766


Q ss_pred             c--cccHHHHHHHHHHHHHhCCCcceEEEEecCCCCCcchHHHHHHHhhhCCCcEEEEEcCCCCCCCCCcceEEEEeeec
Q 023397           81 H--SLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELH  158 (283)
Q Consensus        81 ~--~iD~~~~~~m~~l~k~V~p~~~iVGWY~tg~~~~~~d~~ih~~~~~~~~~pi~L~~D~~~~~~~~~lpi~~y~~~~~  158 (283)
                      +  .+|.+|+.++.+|||+|||++.++|||++|+++++.|+.||++++..+++|++|.++|..+. ....|+.+|++..+
T Consensus        67 ~~~~~dke~l~kk~eqykqVFpdl~vlGwYttG~d~t~sd~~i~k~l~~i~esplflkLNp~t~~-t~~~pv~lfese~d  145 (299)
T KOG3050|consen   67 DTETIDKEYLEKKEEQYKQVFPDLYVLGWYTTGSDPTPSDIHIHKQLMDINESPLFLKLNPATNH-TDKDPVTLFESEID  145 (299)
T ss_pred             hhhhccHHHHHHHHHHHHHhcccceEEEEeecCCCCChhhhHHHHHHHhhhcCceEEEecchhcc-ccCCCceeeeeehe
Confidence            5  69999999999999999999999999999999999999999999999999999999998653 34559999999988


Q ss_pred             cccCCceeeEEEeeeeeecchhhHHHHHHHhccCCCCCCChhhhhhhcHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 023397          159 VIEGIPQLIFVRSSYTIETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPC  238 (283)
Q Consensus       159 ~~~g~~~~~f~~v~~~i~~~e~ErI~v~~l~~~~~~~~~~~~~~~~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~  238 (283)
                      +.||.+...|+|+.|+++++|||||||||+++-+++.++ ..+.+..++..+..|++||+.|++.|++||++|.+|++++
T Consensus       146 vidg~~q~~f~~~tytl~teEaERIgVdHVA~lt~~~gg-e~s~VaeHl~AQdsA~~ml~~Rvklil~Y~k~~e~G~l~~  224 (299)
T KOG3050|consen  146 VIDGEAQMLFVPLTYTLATEEAERIGVDHVARLTPSDGG-EGSSVAEHLEAQDSAIKMLDNRVKLILAYLKKVEAGTLQP  224 (299)
T ss_pred             eecCcceeeeeeeEEEEeehhhhhccchhheeeccCCCC-CcchHHHHHhhHHHHHHHHhhHHHHHHHHHhhhhcCCcCc
Confidence            999999999999999999999999999999999887653 3456789999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHhcCCCCChHHHHHHHHH---HHHHHHHHHHhhcc
Q 023397          239 ENSLLRQVSSLLRRLPAIESEKFQDDFLM---VSLFSSFLNIFTIF  281 (283)
Q Consensus       239 d~~ilR~i~~l~~~lP~~~~~~f~~~~~~---~~lmv~yLs~lt~~  281 (283)
                      |.+|||+...+|++||.++.++|.+.|..   |+.+++||+.||..
T Consensus       225 N~eILrea~~L~~~Lp~~~~~~F~d~F~~e~nd~~l~syl~~iT~~  270 (299)
T KOG3050|consen  225 NFEILREAYALCHRLPVMESEKFQDNFYMECNDVGLISYLGTITKC  270 (299)
T ss_pred             cHHHHHHHHHHHhhccccchHHHhHHHHHhcchhhHHHHHHHHHHh
Confidence            99999999999999999999999999964   59999999999864

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

Probab=100.00  E-value=3.7e-59  Score=404.28  Aligned_cols=257  Identities=26%  Similarity=0.457  Sum_probs=235.7

Q ss_pred             CCCCCCCceEEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCEEEEEEeEeeccCCCcc
Q 023397            2 ASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTH   81 (283)
Q Consensus         2 ~~~~~~~~~V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~~   81 (283)
                      ..++-...+|.|||||||++.|||.|....                 .++||+|+|||..+++.+.|+|||++||+|++.
T Consensus         2 ~~~~~~~~kViVhPLVLLS~VDhynR~~k~-----------------~~KRvvGvLLG~~~~~~i~vtnSfAvpFeEDdk   64 (309)
T KOG1556|consen    2 PISELTVEKVIVHPLVLLSAVDHYNRVGKD-----------------TNKRVVGVLLGSWNGDVIDVTNSFAVPFEEDDK   64 (309)
T ss_pred             CccccccceeeeehhHHHHHHHHHhhhccC-----------------cCceEEEEEEecCCCCeEEeecceeccccccCC
Confidence            345566679999999999999999998753                 248999999999999999999999999998765


Q ss_pred             -----cccHHHHHHHHHHHHHhCCCcceEEEEecCCCCCcchHHHHHHHhhhCCCcEEEEEcCCCCCCCCCcceEEEEee
Q 023397           82 -----SLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESE  156 (283)
Q Consensus        82 -----~iD~~~~~~m~~l~k~V~p~~~iVGWY~tg~~~~~~d~~ih~~~~~~~~~pi~L~~D~~~~~~~~~lpi~~y~~~  156 (283)
                           |+|++|++.|+++|+|||.++.+||||+||+.+.++|+.|++.+.++|++|+.+++|..+  ..-+||..||.+.
T Consensus        65 ~~svWFlDh~Y~esM~~mfkKvNakekivGWYhTGPkl~~nDl~In~l~k~y~pnpvLvIIdvkp--k~~gLPT~AY~aV  142 (309)
T KOG1556|consen   65 DKSVWFLDHNYIESMFGMFKKVNAKEKVVGWYHTGPKLRENDLDINELLKRYVPNPVLVIIDVKP--KELGLPTEAYIAV  142 (309)
T ss_pred             CCceEEeccHHHHHHHHHHHHhcchhheeeeeccCCccccchhhHHHHHhhcCCCceEEEEeccc--ccCCCCchheeee
Confidence                 699999999999999999999999999999999999999999999999999999999986  4578999999886


Q ss_pred             eccc-cCC-ceeeEEEeeeeeecchhhHHHHHHHhccCCCCCCChhhhhhhcHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q 023397          157 LHVI-EGI-PQLIFVRSSYTIETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKG  234 (283)
Q Consensus       157 ~~~~-~g~-~~~~f~~v~~~i~~~e~ErI~v~~l~~~~~~~~~~~~~~~~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G  234 (283)
                      .+.. ||. ++.+|.++|++|+++|||+|||+|+.|.   .++.+.+++...+.++..+++.|+.++..|.+||++|.+|
T Consensus       143 eev~dDgt~t~ktF~Hvps~I~AeEAEEvGVEHLlRD---ikd~t~gtla~rit~ql~sLkgl~~~L~eI~~YL~~Vi~g  219 (309)
T KOG1556|consen  143 EEVKDDGTPTSKTFVHVPSEIEAEEAEEVGVEHLLRD---IKDTTVGTLATRITNQLMSLKGLQSRLREIRSYLDKVIDG  219 (309)
T ss_pred             eeeecCCCCccceeEecCcccchhHHHHhhHHHHHHH---HHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            5554 454 4678999999999999999999999997   4456778999999999999999999999999999999999


Q ss_pred             CCCCChHHHHHHHHHHhcCCCCChHHHHHHHH---HHHHHHHHHHHhhc
Q 023397          235 EIPCENSLLRQVSSLLRRLPAIESEKFQDDFL---MVSLFSSFLNIFTI  280 (283)
Q Consensus       235 ~~~~d~~ilR~i~~l~~~lP~~~~~~f~~~~~---~~~lmv~yLs~lt~  280 (283)
                      ++|.|++|+.+++++++.||.+...+|.+.|+   +|.||+.|+|+|.|
T Consensus       220 ~lpiNh~Il~~lQdvfNllP~l~~~~~~~a~~vktndql~~iY~sslvr  268 (309)
T KOG1556|consen  220 KLPINHEILYQLQDVFNLLPNLTRNELVKAFNVKTNDQLMVIYLSSLVR  268 (309)
T ss_pred             CCCCcHHHHHHHHHHHhhCccccchhhhhhhccccCceeeeeeHHHHHH
Confidence            99999999999999999999999999999995   57999999999987

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

Probab=100.00  E-value=1.4e-39  Score=273.85  Aligned_cols=150  Identities=41%  Similarity=0.682  Sum_probs=134.0

Q ss_pred             EEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCEEEEEEeEeeccCCCcc--cccHHHH
Q 023397           11 FKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTH--SLDRAFL   88 (283)
Q Consensus        11 V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~~--~iD~~~~   88 (283)
                      |.|||+|||+|+|||+|+..+                  +.+|+|+|||++.++.++|+|||++|++++++  .+|.+|+
T Consensus         1 V~ihplvll~I~dh~~R~~~~------------------~~~v~G~LlG~~~~~~veV~nsF~lp~~~~~~~~~~d~~y~   62 (157)
T cd08057           1 VQLHPLVLLNISDHYTRRKYG------------------IKRVIGVLLGYVDGDKIEVTNSFELPFDEEEESIFIDTEYL   62 (157)
T ss_pred             CEEccHHHhhHHHHHHhccCC------------------CCeEEEEEEeEEeCCEEEEEEeEEccccCCCcchhhhHHHH
Confidence            689999999999999998743                  47999999999999999999999999987665  6999999


Q ss_pred             HHHHHHHHHhCCCcceEEEEecCCC----CCcchHHHHHHHhhh-CCCcEEEEEcCCCCCCCCCcceEEEEeeeccccCC
Q 023397           89 EKKQELYKKVFPHFYILGWYSTGSD----AQESDMHIHKALMDI-NESPVYVLLNPSINPAQKDLPVTIFESELHVIEGI  163 (283)
Q Consensus        89 ~~m~~l~k~V~p~~~iVGWY~tg~~----~~~~d~~ih~~~~~~-~~~pi~L~~D~~~~~~~~~lpi~~y~~~~~~~~g~  163 (283)
                      ++|++++++|||++.+||||++++.    +...+..||++|+.. +++||+|++||.....++++|++||++......  
T Consensus        63 ~~m~~~~~~v~~~~~vVGWY~~~~~~~~~~~~~~~~i~~~~~~~~~~~~v~L~~D~~~~~~~~~l~i~ay~~~~~~~~--  140 (157)
T cd08057          63 EKRYNLHKKVYPQEKIVGWYSIGSNNSNEISKSDNSLHSQFSLISEENPLILILDPSLQSDSEKLEISTFTSAQREEN--  140 (157)
T ss_pred             HHHHHHHHHhCCCCCEEEEEeecCCCCCCCChhHHHHHHHHHhccCCCCEEEEEcCCcccCCCcccEEEEEEecCCCC--
Confidence            9999999999999999999999987    899999999999987 889999999998643568999999998643222  


Q ss_pred             ceeeEEEeeeeeecchhhHHH
Q 023397          164 PQLIFVRSSYTIETVEAERIS  184 (283)
Q Consensus       164 ~~~~f~~v~~~i~~~e~ErI~  184 (283)
                          +.++|+++.++|+||||
T Consensus       141 ----~~~~~~~i~~~e~E~I~  157 (157)
T cd08057         141 ----GAEITYEIGTEETERIA  157 (157)
T ss_pred             ----CceeeeEEecccccccC
Confidence                33999999999999986

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=99.97  E-value=2.6e-30  Score=234.71  Aligned_cols=201  Identities=17%  Similarity=0.221  Sum_probs=151.1

Q ss_pred             eEEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCEEEEEEeEeeccCCCcc-----ccc
Q 023397           10 TFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTH-----SLD   84 (283)
Q Consensus        10 ~V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~~-----~iD   84 (283)
                      +|.|||+|+++|+|||.|+.                    +.+|+|+|||...++.+||+|||++|+.++++     ..|
T Consensus         2 ~V~I~~~vllkIv~H~~~~~--------------------p~~v~G~LLG~~~~~~leVtn~Fp~P~~~~~~~~~~~~~~   61 (266)
T cd08065           2 SVQIDGLVVLKIIKHCKEEL--------------------PELVQGQLLGLDVGGTLEVTNCFPFPKSEEDDSDRADEDI   61 (266)
T ss_pred             EEEEeHHHHHHHHHHHhcCC--------------------CcEEEEEEeeeEcCCEEEEEeccCCCCCCCCCcchhhhhH
Confidence            69999999999999999875                    47999999999999999999999999976543     366


Q ss_pred             HHHHHHHHHHHHHhCCCcceEEEEecCC-CCCcchHHHHHHHhhh--CCCcEEEEEcCCCCCCCCCcceEEEEeeecccc
Q 023397           85 RAFLEKKQELYKKVFPHFYILGWYSTGS-DAQESDMHIHKALMDI--NESPVYVLLNPSINPAQKDLPVTIFESELHVIE  161 (283)
Q Consensus        85 ~~~~~~m~~l~k~V~p~~~iVGWY~tg~-~~~~~d~~ih~~~~~~--~~~pi~L~~D~~~~~~~~~lpi~~y~~~~~~~~  161 (283)
                      .+|+.+|+++++++++++.+||||++++ ........|+.++...  .+.+|+|++||... .++.++++||+.......
T Consensus        62 ~~yq~~m~~~~r~v~~~e~iVGWY~S~p~~~~~~~s~id~~~~~q~~~~~~v~Li~D~~~s-~~g~l~lkAyrl~~~~~~  140 (266)
T cd08065          62 ADYQLEMMRLLREVNVDHNHVGWYQSTYLGSFFTRDLIETQYNYQEAIEESVVLVYDPSKT-SQGSLSLKAYRLSEKFME  140 (266)
T ss_pred             HHHHHHHHHHHHHhCCCCcEEEeEeecCCCCcCCHHHHHHHHHHhccCCCCEEEEECCCcc-cccceeeEEEEEcHHHHH
Confidence            7999999999999999999999999998 3232345667666554  47799999999863 467899999997532211


Q ss_pred             ----------------CCceeeEEEeeeeeecchhhHHHHHHHhccCCCC-CC------ChhhhhhhcHHHHHHHHHHHH
Q 023397          162 ----------------GIPQLIFVRSSYTIETVEAERISVDHVAHLKPSD-GG------SAATQLAAHLTGIHSAIKMLN  218 (283)
Q Consensus       162 ----------------g~~~~~f~~v~~~i~~~e~ErI~v~~l~~~~~~~-~~------~~~~~~~~~l~~~~~ai~~L~  218 (283)
                                      ...+.+|.+||++|..+..+.+.+..+....+.. .+      +....+..++..+..++..|.
T Consensus       141 ~~~~~~~~~~~l~~~~~~~~~if~eiPv~i~n~~l~~~~L~~l~~~~~~~~~~~~~l~l~~~~~le~~l~~l~~~id~l~  220 (266)
T cd08065         141 LYKEGKFSTESLREANLTFSNIFEEIPVVIRNSHLVNALLSELEEDSPSSQSDFDRLDLSTNSFLEKNLELLMESVDELS  220 (266)
T ss_pred             HhhcCCcCHHHHHHhcCchhcEEEEEEEEEEchHHHHHHHHhcccCCCcccCCcccccccCchhHHHHHHHHHHHHHHHH
Confidence                            1347889999999999999999999996654331 10      112233444555555555555


Q ss_pred             HHHHHHHHHHHHh
Q 023397          219 SRIRVLHHYLVAM  231 (283)
Q Consensus       219 ~~i~~i~~Yl~~V  231 (283)
                      .....+..|-+.+
T Consensus       221 ~e~~~~~~y~r~~  233 (266)
T cd08065         221 QEQGKFNYYQRNL  233 (266)
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555555544

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

>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=1.6e-26  Score=183.99  Aligned_cols=105  Identities=38%  Similarity=0.573  Sum_probs=93.3

Q ss_pred             CCceEEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCC-EEEEEEeEeeccCCCcc---c
Q 023397            7 SGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGR-TVEIFNSFELLYDPSTH---S   82 (283)
Q Consensus         7 ~~~~V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~-~veI~nsF~vp~~~~~~---~   82 (283)
                      +..+|.|||+|+++|+||++|+..                    .+|+|+|+|+++++ .++|+|||++|+.++++   .
T Consensus         2 s~~~V~i~p~vll~i~~h~~r~~~--------------------~~v~G~LlG~~~~~~~v~I~~~f~~p~~~~~~~~~~   61 (114)
T PF01398_consen    2 SVQTVQIHPLVLLKIIDHATRSSP--------------------NEVIGLLLGTQDGDNTVEITNSFPVPHSESEDDCDM   61 (114)
T ss_dssp             SCEEEEEEHHHHHHHHHHHHHHHC--------------------TEEEEEEEEEEETT-EEEEEEEEEESEEEESSEEEE
T ss_pred             CcEEEEECHHHHHHHHHHHhcCCC--------------------CEEEEEEEEEecCceEEEEEEEEEeeEecCcccccc
Confidence            567999999999999999999872                    48999999999999 99999999999976554   3


Q ss_pred             ccHHHHHHHHHHHHHhCCCcceEEEEecCCCC----CcchHHHHHHHhhhCCC
Q 023397           83 LDRAFLEKKQELYKKVFPHFYILGWYSTGSDA----QESDMHIHKALMDINES  131 (283)
Q Consensus        83 iD~~~~~~m~~l~k~V~p~~~iVGWY~tg~~~----~~~d~~ih~~~~~~~~~  131 (283)
                      .+.++..+|++++++++|++.+||||++++..    +..|+.+|++|++.+++
T Consensus        62 ~~~~~~~~~~~~~~~~~~~~~iVGWY~s~p~~~~~~S~~di~~q~~~q~~~~~  114 (114)
T PF01398_consen   62 DDEDFQKKMIELLKKVNPNLEIVGWYHSHPNISCFPSPTDIETQKQYQRMNPN  114 (114)
T ss_dssp             ECCHHHHHHHHHHHHCSTTSEEEEEEEEESSS-SS--HHHHHHHHHHHHHTTT
T ss_pred             chhhHHHHHHhhhccccccceEEEEEEccCCccccCCHHHHHHHHHHHHhCCC
Confidence            66777799999999999999999999998866    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.

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

Probab=99.94  E-value=7.9e-25  Score=198.83  Aligned_cols=166  Identities=13%  Similarity=0.151  Sum_probs=142.3

Q ss_pred             CCCceEEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCEEEEEEeEeeccCCCcc--cc
Q 023397            6 SSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTH--SL   83 (283)
Q Consensus         6 ~~~~~V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~~--~i   83 (283)
                      ....+|.|+|+|+++|++|+.|..                    +..|+|+|||..+++.++|++||++|..+.+.  ..
T Consensus         7 ~~~~~V~Is~~allkil~Ha~~~~--------------------p~Ev~GlLlG~~~~~~v~Vt~~fp~p~~~t~~~v~~   66 (268)
T cd08069           7 DYFEKVYISSLALLKMLKHARAGG--------------------PIEVMGLMLGKVDDYTIIVVDVFALPVEGTETRVNA   66 (268)
T ss_pred             CcccEEEECHHHHHHHHHHHhccC--------------------CceEEEEEEeeecCCeEEEEEEEECCcCCCCCceec
Confidence            445689999999999999998843                    46899999999999999999999999876555  25


Q ss_pred             cHHHHHHHHH--HHHHhCCCcceEEEEecCCC----CCcchHHHHHHHhhhCCCcEEEEEcCCCCCCCCCcceEEEEeee
Q 023397           84 DRAFLEKKQE--LYKKVFPHFYILGWYSTGSD----AQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESEL  157 (283)
Q Consensus        84 D~~~~~~m~~--l~k~V~p~~~iVGWY~tg~~----~~~~d~~ih~~~~~~~~~pi~L~~D~~~~~~~~~lpi~~y~~~~  157 (283)
                      +.+|++.|.+  +++++++++.+||||++++.    ++..|+.+|..|++.++++|+|++||..+...+++.++||++..
T Consensus        67 ~~e~~~~m~~~~~~~~~~~~~~vVGWYHSHP~~g~~~S~~Dv~tq~~yq~~~~~~V~lViDP~~t~~~g~~~i~Afr~~~  146 (268)
T cd08069          67 QDEFQEYMVQYEMLKQTGRPENVVGWYHSHPGYGCWLSGIDVNTQQLNQQLQDPFVAVVVDPIRSLVKGKVVIGAFRTIP  146 (268)
T ss_pred             cHHHHHHHHHHHHHHHhCCCceeEeeeccCCCcCCcCCHHHHHHHHHHHhcCCCcEEEEEeCCccccCCcceeeEEEEEC
Confidence            5699999999  99999999999999999986    89999999999999989999999999765357889999999742


Q ss_pred             cc-c-----c----------------CCceeeEEEeeeeeecchhhHHHHHHHhcc
Q 023397          158 HV-I-----E----------------GIPQLIFVRSSYTIETVEAERISVDHVAHL  191 (283)
Q Consensus       158 ~~-~-----~----------------g~~~~~f~~v~~~i~~~e~ErI~v~~l~~~  191 (283)
                      .. .     +                +.....|.++|+++..++.|+..++.+.+.
T Consensus       147 ~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~y~~l~i~~~~s~l~~~~L~~l~~~  202 (268)
T cd08069         147 PGYKPLEPRQTTSNIGHLPKPKIEDFGGHNKQYYSLPIEYFKSSLDRKLLLNLWNK  202 (268)
T ss_pred             ccccccCcccCccccCccCcHHHHHhCchhcEEEEeeeEEecCHHHHHHHHHHHHH
Confidence            21 1     1                114578999999999999999999988874

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

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

Probab=99.86  E-value=1.5e-20  Score=166.48  Aligned_cols=238  Identities=16%  Similarity=0.216  Sum_probs=175.4

Q ss_pred             CCCCceEEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCEEEEEEeEeeccCC--Ccc-
Q 023397            5 SSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDP--STH-   81 (283)
Q Consensus         5 ~~~~~~V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~veI~nsF~vp~~~--~~~-   81 (283)
                      +.+-..|.+..||+++|++||.....+                  ..-++|+|+|..-++.+|||||||.|-..  +++ 
T Consensus         9 ~p~vk~v~ldsLvVMkiiKHc~ee~~n------------------~d~~~GvL~Glvvd~~LeITncFp~p~~~~~edda   70 (339)
T KOG1560|consen    9 SPPVKRVELDSLVVMKIIKHCREEFPN------------------GDGTQGVLLGLVVDGRLEITNCFPFPSVLENEDDA   70 (339)
T ss_pred             CCccceeeehhHHHHHHHHHHHhhcCC------------------cchhhheeeeeeecceeEeecccCCCccCCCccch
Confidence            344458999999999999999876533                  36799999999999999999999999843  222 


Q ss_pred             ----cccH---HHHHHHHHHHHHhCCCcceEEEEec---CCCCCcchHHHHHHHhhhCCCcEEEEEcCCCCCCCCCcceE
Q 023397           82 ----SLDR---AFLEKKQELYKKVFPHFYILGWYST---GSDAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVT  151 (283)
Q Consensus        82 ----~iD~---~~~~~m~~l~k~V~p~~~iVGWY~t---g~~~~~~d~~ih~~~~~~~~~pi~L~~D~~~~~~~~~lpi~  151 (283)
                          ..|.   .|+..|++.++.||-+..+||||.+   |+.++..-+.-+..|++-++..|.|++||..+ ++|.|.++
T Consensus        71 ~~~~~~de~rq~~~l~mlrrlr~vnid~~hVGwYqs~~vgs~lS~~lveSqy~YQ~a~pesVvliYD~~ks-sqG~L~lr  149 (339)
T KOG1560|consen   71 VNKSVSDEARQAYQLAMLRRLRYVNIDHLHVGWYQSAYVGSFLSPALVESQYAYQKAIPESVVLIYDPIKS-SQGTLSLR  149 (339)
T ss_pred             hhhhhhHHHHHHHHHHHHHHhhhcCccceeeeeeeeehhccccCHHHHHHHHHHHhcCCccEEEEeccccc-cCceEEee
Confidence                2443   6999999999999999999999987   56787666666777888888899999999974 68999999


Q ss_pred             EEEeeecc----ccC------------CceeeEEEeeeeeecchhhHHHHHHHh--ccCCCCCC-------Chhhhhhhc
Q 023397          152 IFESELHV----IEG------------IPQLIFVRSSYTIETVEAERISVDHVA--HLKPSDGG-------SAATQLAAH  206 (283)
Q Consensus       152 ~y~~~~~~----~~g------------~~~~~f~~v~~~i~~~e~ErI~v~~l~--~~~~~~~~-------~~~~~~~~~  206 (283)
                      ||+.....    .++            .+..+|.++|+.|..+---.+-+..+.  +..++...       +....+.++
T Consensus       150 AyrLTp~am~~~kekdwtpealk~~nltyenmfeElPIVIknS~L~nvlmseLs~~e~c~sdk~~~~~fdlgs~t~lekn  229 (339)
T KOG1560|consen  150 AYRLTPEAMAAHKEKDWTPEALKSANLTYENMFEELPIVIKNSHLANVLMSELSEPEDCESDKPLHSNFDLGSGTRLEKN  229 (339)
T ss_pred             hhhcCHHHHHHHhcCCCCHHHHHhcCCCHHHHHhhcCeeeeccHHHHHHHHhccccccccccccccccccccchhhHHHH
Confidence            99975322    222            146789999999999876666666665  32222111       123456667


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCChHHHHHHHH--------HHhcCCCCChHHHHHHH
Q 023397          207 LTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPCENSLLRQVSS--------LLRRLPAIESEKFQDDF  265 (283)
Q Consensus       207 l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~d~~ilR~i~~--------l~~~lP~~~~~~f~~~~  265 (283)
                      +..+...+..|+..+..+-+|-+.+...    |..+-+.++.        .-.-.|.++.++..+.|
T Consensus       230 ir~lme~vDEl~qe~~~l~kyqr~~~rq----q~~~~q~~aKrqaENa~R~argep~lP~dd~kr~f  292 (339)
T KOG1560|consen  230 IRLLMERVDELHQEIVNLNKYQRQLARQ----QAKKHQWIAKRQAENANRAARGEPPLPEDDWKRIF  292 (339)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHhhhhhhcCCCCCChHHHHHHh
Confidence            7777777888888888888888776532    3333333322        34457778888888777

>smart00232 JAB_MPN JAB/MPN domain

Probab=99.86  E-value=1.2e-20  Score=153.26  Aligned_cols=125  Identities=26%  Similarity=0.387  Sum_probs=110.5

Q ss_pred             eEEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCEEEEEEeEeeccCCCcc---cccHH
Q 023397           10 TFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTH---SLDRA   86 (283)
Q Consensus        10 ~V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~~---~iD~~   86 (283)
                      .|.|||+|+++|++|+.|..                    +..++|+|+|...++.++|+++|++|.....+   .++.+
T Consensus         1 ~v~i~~~v~~~i~~h~~~~~--------------------p~e~~G~L~G~~~~~~~~i~~~~~~p~~~~~~~~~~~~~~   60 (135)
T smart00232        1 EVKVHPLVPLNILKHAIRDG--------------------PEEVCGVLLGKSNKDRPEVKEVFAVPNEPQDDSVQEYDED   60 (135)
T ss_pred             CEEEcHHHHHHHHHHHhcCC--------------------CcEEEEEEEEEEcCCEEEEEEEEecCcCCCCcchhhhhhh
Confidence            47899999999999998753                    46899999999999999999999999875443   47889


Q ss_pred             HHHHHHHHHHHhCCCcceEEEEecCC----CCCcchHHHHHHHhhhCCCcEEEEEcCCCCCCCCCcceEEEEe
Q 023397           87 FLEKKQELYKKVFPHFYILGWYSTGS----DAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFES  155 (283)
Q Consensus        87 ~~~~m~~l~k~V~p~~~iVGWY~tg~----~~~~~d~~ih~~~~~~~~~pi~L~~D~~~~~~~~~lpi~~y~~  155 (283)
                      |.+.|.++++++++++.+||||++++    .++..|+.+|..++.....++++.+|+... ..+.++++||+.
T Consensus        61 ~~~~~~~~~~~~~~~~~~vGwyhshp~~~~~pS~~D~~~~~~~~~~~~~~~~~~v~~~~s-~~g~~~~~af~~  132 (135)
T smart00232       61 YSHLMDEELKKVNKDLEIVGWYHSHPDESPFPSEVDVATHESYQAPWPISVVLIVDPIKS-FQGRLSLRAFRL  132 (135)
T ss_pred             HHHHHHHHHHhhCCCceEEEEEEcCCCCCCCcCHHHHHHHHHHHhcCCceEEEEECCCcc-ccCcEEEEEEEe
Confidence            99999999999999999999999986    577789999999998888899999999874 458899999986

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=99.79  E-value=2.2e-20  Score=149.06  Aligned_cols=100  Identities=36%  Similarity=0.543  Sum_probs=13.1

Q ss_pred             chhhHHHHHHHhccCCCCCCChhhhhhhcHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCChHHHHHHHHHHhcCCCCC
Q 023397          178 VEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPCENSLLRQVSSLLRRLPAIE  257 (283)
Q Consensus       178 ~e~ErI~v~~l~~~~~~~~~~~~~~~~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~d~~ilR~i~~l~~~lP~~~  257 (283)
                      +|||||||+|+++....   ...+.+..+++.+.+|+.+|.+|++.+..||++|.+|+.++|++++|+|+++|+++|.++
T Consensus         1 eEaErigv~~l~~~~~~---~~~s~~~~~l~~~~~al~~L~~~l~~i~~Yl~~v~~g~~~~d~~i~r~l~~l~~~lp~~~   77 (115)
T PF13012_consen    1 EEAERIGVDHLARGLGD---HYYSSLSSQLENEQNALKMLHKRLWQILDYLEDVISGEIPPDHEILRQLQDLLSSLPKYD   77 (115)
T ss_dssp             SHHHHHHHHHHHHH--S---------------------------------------------------------------
T ss_pred             CchHHHHHHHHHccCCC---ccccHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHcCcCCCchhHHHHHHHHHHhccccc
Confidence            58999999999995322   223477799999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHH---HHHHHHHHHHHhhc
Q 023397          258 SEKFQDDFL---MVSLFSSFLNIFTI  280 (283)
Q Consensus       258 ~~~f~~~~~---~~~lmv~yLs~lt~  280 (283)
                      +++|+++|.   +|.+|+.||++||+
T Consensus        78 ~~~~~~~~~~~~~D~l~v~yL~~l~k  103 (115)
T PF13012_consen   78 PEEFEEEFNSEINDVLMVSYLAKLTK  103 (115)
T ss_dssp             --------------------------
T ss_pred             HHHHHHHHHhhchHHHHHHHHHHHhH
Confidence            999999996   57999999999986

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

Probab=99.63  E-value=5.4e-15  Score=117.10  Aligned_cols=100  Identities=15%  Similarity=0.261  Sum_probs=80.7

Q ss_pred             CCceEEEEeeEEeCCEEEEEEeEeeccCCCcccccHHHHHHHHHHHHHhCCCcceEEEEecCCC----CCcchHHHHHHH
Q 023397           50 QPRVYGCVIGIQRGRTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSD----AQESDMHIHKAL  125 (283)
Q Consensus        50 ~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~~~iD~~~~~~m~~l~k~V~p~~~iVGWY~tg~~----~~~~d~~ih~~~  125 (283)
                      +..++|+|+|...++.++|+++|++|........+..+  -|......+..++.+||||++++.    ++..|+..|..|
T Consensus        13 ~~ev~G~L~G~~~~~~~~i~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~iVGwyhshp~~~~~~s~~dv~~~~~~   90 (116)
T cd07767          13 GKEVIGLLYGSKTKKVLDVDEVIAVPFDEGDKDDNVWF--LMYLDFKKLNAGLRIVGWYHTHPKPSCFLSPNDLATHELF   90 (116)
T ss_pred             CcEEEEEeEEEEcCCEEEEEEEEecccCCCCCccHHHH--HHHHHHHHhcCCCeEEEEEEcCCCCCCccCHHHHHHHHHH
Confidence            46899999999998899999999999865443233222  266667788899999999999764    788999999999


Q ss_pred             hhhCCCcEEEEEcCCCCCCCCCcceEEE
Q 023397          126 MDINESPVYVLLNPSINPAQKDLPVTIF  153 (283)
Q Consensus       126 ~~~~~~pi~L~~D~~~~~~~~~lpi~~y  153 (283)
                      ++..+++++|++|+...  +.+++++||
T Consensus        91 q~~~~~~v~li~~~~~~--~~~~~~~~~  116 (116)
T cd07767          91 QRYFPEKVMIIVDVKPK--DLGNSWKCY  116 (116)
T ss_pred             HHhCCCCEEEEEECCCc--cCCCCcccC
Confidence            98888899999999862  346788876

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

Probab=99.52  E-value=1.7e-13  Score=122.18  Aligned_cols=200  Identities=14%  Similarity=0.174  Sum_probs=139.3

Q ss_pred             eEEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCEEEEEEeEeeccCCCccc-----cc
Q 023397           10 TFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTHS-----LD   84 (283)
Q Consensus        10 ~V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~~~-----iD   84 (283)
                      .|.|..|++|+|.-|..|..                    +-.|+|.++|+.+|+.+-|.+||++|.+..+.-     --
T Consensus        54 ~vkISalAllKm~~hA~~Gg--------------------nlEiMGlm~Gkv~g~t~IvmD~FaLPVeGTETRVNAq~~A  113 (347)
T KOG1554|consen   54 HVKISALALLKMVMHARSGG--------------------NLEIMGLMQGKVDGDTIIVMDSFALPVEGTETRVNAQAEA  113 (347)
T ss_pred             hhhhHHHHHHHHHHHHhcCC--------------------CeEEEeeecccccCCeEEEEeccccccccccceechHHHH
Confidence            68899999999988776532                    468999999999999999999999999876541     44


Q ss_pred             HHHHHHHHHHHHHhCCCcceEEEEecCCC----CCcchHHHHHHHhhhCCCcEEEEEcCCCCCCCCCcceEEEEeeecc-
Q 023397           85 RAFLEKKQELYKKVFPHFYILGWYSTGSD----AQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHV-  159 (283)
Q Consensus        85 ~~~~~~m~~l~k~V~p~~~iVGWY~tg~~----~~~~d~~ih~~~~~~~~~pi~L~~D~~~~~~~~~lpi~~y~~~~~~-  159 (283)
                      .+|+-...+..+.+...+.+||||++.+.    ++..|+..+..-+++-++=+++++||..+.+.+++.+.||++-... 
T Consensus       114 yEYmv~Y~e~~k~~gr~envVGWyHSHPgYgCWLSgIDVsTQ~lNQ~fQePfvAvViDP~Rtlsagkv~iGAFRTyp~gy  193 (347)
T KOG1554|consen  114 YEYMVQYIEEAKNVGRLENVVGWYHSHPGYGCWLSGIDVSTQMLNQRFQEPFVAVVIDPTRTLSAGKVNIGAFRTYPKGY  193 (347)
T ss_pred             HHHHHHHHHHHHHhhhhhceeeeeecCCCCCccccCcchhHHHHhhhhcCCeEEEEecCccccccCceeeceeecccCCC
Confidence            78999999999999999999999999764    6777777777777777777899999998777899999999974211 


Q ss_pred             c--c-----------------CCceeeEEEeeeeeecchhhHHHHHHHhccCCCCCCChhhhhhhcHHHHHHHHHHHHHH
Q 023397          160 I--E-----------------GIPQLIFVRSSYTIETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSR  220 (283)
Q Consensus       160 ~--~-----------------g~~~~~f~~v~~~i~~~e~ErI~v~~l~~~~~~~~~~~~~~~~~~l~~~~~ai~~L~~~  220 (283)
                      +  +                 |..+..+..+++..--+-.++--++.+-. +.....-..+.+..+.+.+...+.-|..+
T Consensus       194 k~~d~~~seyqtipl~kied~gvHck~yysl~isyfks~ld~kll~~Lwn-kywv~Tlsss~ll~N~dy~~~qi~d~~ek  272 (347)
T KOG1554|consen  194 KPPDEPPSEYQTIPLNKIEDFGVHCKQYYSLEISYFKSSLDMKLLELLWN-KYWVRTLSSSPLLKNIDYLNGQIRDLSEK  272 (347)
T ss_pred             CCCCCCchhhhccchhhhhhcccceEEeeccchhhhhhhhhHHHHHHHHh-hhhhcccccccccccchhhcchhhhHHHH
Confidence            1  0                 01111122222222222233333333322 11111122345666677777777777777


Q ss_pred             HHHHHHHHHH
Q 023397          221 IRVLHHYLVA  230 (283)
Q Consensus       221 i~~i~~Yl~~  230 (283)
                      +...-+.+..
T Consensus       273 l~q~~~~l~~  282 (347)
T KOG1554|consen  273 LEQREDSLET  282 (347)
T ss_pred             HHhhhhhccc
Confidence            7777777643

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

Probab=99.42  E-value=7.5e-12  Score=108.13  Aligned_cols=127  Identities=13%  Similarity=0.156  Sum_probs=100.2

Q ss_pred             CCceEEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEe--CCEEEEEEeEeeccCCCcc--c
Q 023397            7 SGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQR--GRTVEIFNSFELLYDPSTH--S   82 (283)
Q Consensus         7 ~~~~V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~--~~~veI~nsF~vp~~~~~~--~   82 (283)
                      .+.+|.|.++|+|.|..|+....                     ..++|.|+|..+  ++.++|+++|++|......  -
T Consensus         3 ~pf~V~Is~~all~m~~Ha~~~~---------------------~EvcGlL~G~~d~~~~~l~Vt~~~p~~~~~~~~~~e   61 (187)
T cd08067           3 QPFKVTVSSNALLLMDFHCHLTT---------------------SEVIGYLGGTWDPNTQNLTILQAFPCRSRLTGLDCE   61 (187)
T ss_pred             CCEEEEECHHHHHHHHHHhcCCC---------------------cEEEEEEEeEEcCCCCeEEEEEEEecCCCCCCcccc
Confidence            57899999999999999997532                     469999999975  5789999999999754323  3


Q ss_pred             ccHHHHHHHHHHHHHhCCCcceEEEEecCC----CCCcchHHHHHHHhhhCC-------CcEEEEEcCCCCCC-CCCcce
Q 023397           83 LDRAFLEKKQELYKKVFPHFYILGWYSTGS----DAQESDMHIHKALMDINE-------SPVYVLLNPSINPA-QKDLPV  150 (283)
Q Consensus        83 iD~~~~~~m~~l~k~V~p~~~iVGWY~tg~----~~~~~d~~ih~~~~~~~~-------~pi~L~~D~~~~~~-~~~lpi  150 (283)
                      +|..++.+|.+..++.+  +.+||||++.+    .++..|+.-|..|+....       .-|.++++|..... ..+..+
T Consensus        62 ~dp~~q~e~~~~l~~~g--l~vVGwYHSHP~~~~~pS~~Di~tQ~~yQ~~~~~~~~~~~p~v~~I~~P~~~~~~~~~s~i  139 (187)
T cd08067          62 MDPVSETEIRESLESRG--LSVVGWYHSHPTFPPNPSLRDIDTQLDYQIMFKGSDSGYEPCVGLICSPYDRRNSTPESQI  139 (187)
T ss_pred             cCHHHHHHHHHHHHHcC--CEEEEEEecCCCCCcCCCHHHHHHHHHHHhhccccccCCCCeEEEEEccccCCCCCCCCcE
Confidence            78899999999998876  59999999975    467778888888887542       45999999975321 234578


Q ss_pred             EEEEee
Q 023397          151 TIFESE  156 (283)
Q Consensus       151 ~~y~~~  156 (283)
                      ++|...
T Consensus       140 ~~f~~~  145 (187)
T cd08067         140 TCFWVM  145 (187)
T ss_pred             EEEEEE
Confidence            999864

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=99.39  E-value=5.5e-12  Score=101.22  Aligned_cols=108  Identities=12%  Similarity=0.178  Sum_probs=84.7

Q ss_pred             hhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEe-----CCEEEEEEeEeeccCCCcccccHHHHHHH
Q 023397           17 VIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQR-----GRTVEIFNSFELLYDPSTHSLDRAFLEKK   91 (283)
Q Consensus        17 Vll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~-----~~~veI~nsF~vp~~~~~~~iD~~~~~~m   91 (283)
                      |+++|++|+.+..                    +..++|.|+|...     ...++|+++|+.|...+.       .+.|
T Consensus         2 ~~~~i~~ha~~~~--------------------p~E~cGlL~G~~~~~~~~~~~~~v~~~~p~~~~~~~-------~~~~   54 (119)
T cd08058           2 ALLKMLQHAESNT--------------------GIEVMGLLCGELTHNEFTDKHVIVPKQSAGPDSCTG-------ENVE   54 (119)
T ss_pred             HHHHHHHHhcCCC--------------------CeEEEEEeeeEEecCccceeEEEEeecCCCCCCchh-------HHHH
Confidence            7899999998743                    4579999999875     456899999999874321       2245


Q ss_pred             HHHHHHhCCCcceEEEEecCC----CCCcchHHHHHHHhhhCCCcEEEEEcCCCCCCCCCcceEEEEe
Q 023397           92 QELYKKVFPHFYILGWYSTGS----DAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFES  155 (283)
Q Consensus        92 ~~l~k~V~p~~~iVGWY~tg~----~~~~~d~~ih~~~~~~~~~pi~L~~D~~~~~~~~~lpi~~y~~  155 (283)
                      ..+.+...-++.+||||++.+    .++..|+..|.+|+...+..++|++||..    ..+.+++|+.
T Consensus        55 ~~~~~~~~~g~~~vG~YHSHP~~~~~pS~~Di~~~~~~q~~~p~~~~lI~s~~~----~~~~~~a~rl  118 (119)
T cd08058          55 ELFNVQTGRPLLVVGWYHSHPTFTAWLSSVDIHTQASYQLMLPEAIAIVVSPKH----RNKDTGIFRL  118 (119)
T ss_pred             HHHHHHhCCCCeEEEEEecCCCCCCccCHHHHHHHHHHhccCCCeEEEEECcCC----CCcccceEEe
Confidence            555667889999999999976    47888888888788777778999999973    3678899874

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=99.11  E-value=4.4e-09  Score=94.10  Aligned_cols=147  Identities=15%  Similarity=0.123  Sum_probs=101.0

Q ss_pred             ceEEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEe-------CCEEEEEEeEeeccCC-Cc
Q 023397            9 LTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQR-------GRTVEIFNSFELLYDP-ST   80 (283)
Q Consensus         9 ~~V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~-------~~~veI~nsF~vp~~~-~~   80 (283)
                      .+|.|.+.++..|..|..+..                    +..+||.|+|..+       ++.+.|..-++.+..+ ..
T Consensus         2 ~~V~Is~~~l~~il~HA~~~~--------------------P~EvCGLL~G~~~~~~~~~~~~~v~i~~~~~~~~~~~s~   61 (244)
T cd08068           2 SKVHLSADVYLVCLTHALSTE--------------------KEEVMGLLIGEIEVSKKGEEVAIVHISAVIILRRSDKRK   61 (244)
T ss_pred             cEEEECHHHHHHHHHHHHhCC--------------------CcceeEEEEeecccccccccceeEEEeeeccccccCCCC
Confidence            368999999999999997653                    4689999999875       3445555544443322 11


Q ss_pred             c-c-ccHH----HHHHHHHHHHHhCCCcceEEEEecCC----CCCcchHHHHHHHhhhCCCcEEEEEcCCC---CCCCCC
Q 023397           81 H-S-LDRA----FLEKKQELYKKVFPHFYILGWYSTGS----DAQESDMHIHKALMDINESPVYVLLNPSI---NPAQKD  147 (283)
Q Consensus        81 ~-~-iD~~----~~~~m~~l~k~V~p~~~iVGWY~tg~----~~~~~d~~ih~~~~~~~~~pi~L~~D~~~---~~~~~~  147 (283)
                      + + +|.+    ..+.+.++.+.+..++.+||||++.+    .|+..|...+..|+...+.-+++++++..   +...++
T Consensus        62 ~r~eidPee~~~a~~ea~~~~~~~~rgl~vVGwYHSHP~~~a~PS~~Dv~tq~~~q~~~p~~v~lIvS~~~~~~~~~~~~  141 (244)
T cd08068          62 DRVEISPEQLSAASTEAERLTEETGRPMRVVGWYHSHPHITVWPSHVDVRTQAMYQMMDSGFVGLIFSCFNEDKSTKMGE  141 (244)
T ss_pred             ceEEeCHHHHHHHHHHHHHHHhhccCCceEEEEEecCCCCCCCCCHhHHHHHHHHHhhCCCcEEEEEEecCCccccccCC
Confidence            2 3 6653    34566677778889999999999976    37777877767777666667899987542   222356


Q ss_pred             cceEEEEeeeccccCCceeeEEEeeeeeec
Q 023397          148 LPVTIFESELHVIEGIPQLIFVRSSYTIET  177 (283)
Q Consensus       148 lpi~~y~~~~~~~~g~~~~~f~~v~~~i~~  177 (283)
                      ..+++|+...+..  .+.....++|+.|..
T Consensus       142 ~~i~aFr~~~g~~--~~~~~~~e~pl~i~~  169 (244)
T cd08068         142 VQVTCFQSVQGNK--AGQYERIEVPLEIVP  169 (244)
T ss_pred             EEEEEEEecCCCC--CCcceEEEeeeEEec
Confidence            7899999743211  124557788888854

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=98.62  E-value=9.6e-07  Score=75.51  Aligned_cols=116  Identities=14%  Similarity=0.128  Sum_probs=82.6

Q ss_pred             EEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCEEEEEEeEeeccCCCccc---ccHHH
Q 023397           11 FKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTHS---LDRAF   87 (283)
Q Consensus        11 V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~~~---iD~~~   87 (283)
                      +.|-.-.+-.|+.|..++...                  +..++|.|+|...++..+|++.|-.|.......   .|.. 
T Consensus         4 l~Ipk~il~~~l~~A~~~~~~------------------p~E~cGlL~G~~~~~~~~I~~i~~~~q~~~~~~~~~~~~~-   64 (173)
T cd08066           4 VVVPADLMDKFLQLAEPNTSR------------------NLETCGILCGKLSNNAFFITHLIIPKQSGTSDSCQTTNEE-   64 (173)
T ss_pred             EEECHHHHHHHHHHHHhCCCC------------------CCeEEEEEEeEcCCCeEEEEEEEeccccCCCceecCCCHH-
Confidence            445555677778877765311                  357999999998888889998877666544432   3321 


Q ss_pred             HHHHHHHHHH-hCCCcceEEEEecCC----CCCcchHHHHHHHhhhCCCcEEEEEcCCCCCCCCCcceEEEEee
Q 023397           88 LEKKQELYKK-VFPHFYILGWYSTGS----DAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESE  156 (283)
Q Consensus        88 ~~~m~~l~k~-V~p~~~iVGWY~tg~----~~~~~d~~ih~~~~~~~~~pi~L~~D~~~~~~~~~lpi~~y~~~  156 (283)
                        +   .++. --.++.+||||+|.+    .++..|+..|..|+...+..++|+++|.      ...+++|+..
T Consensus        65 --e---~~~~~~~~gle~vGwyHSHP~~~~~pS~~Dv~t~~~~~~~~p~~~~lIvSp~------~~~l~afrl~  127 (173)
T cd08066          65 --E---LFDFQDQHDLITLGWIHTHPTQTCFLSSVDLHTHCSYQLMLPEAIAIVCAPK------YNEFGIFRLT  127 (173)
T ss_pred             --H---HHHHHHhCCCeeEEEEeccCCCCCccCHHHHHHHHHHHhcCCCeEEEEECCC------CcEEeEEEee
Confidence              1   2222 235789999999965    4788999999998887788899999974      3478999864

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

Probab=98.59  E-value=2.1e-06  Score=79.00  Aligned_cols=131  Identities=19%  Similarity=0.309  Sum_probs=103.3

Q ss_pred             CCCCceEEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEE-ee---E-EeCCEEEEEEeEeeccCCC
Q 023397            5 SSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCV-IG---I-QRGRTVEIFNSFELLYDPS   79 (283)
Q Consensus         5 ~~~~~~V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~L-LG---~-~~~~~veI~nsF~vp~~~~   79 (283)
                      +..+.+|.++-++++..++|-. ....                  ...++|.+ +|   . .+...+.|..-|+.|....
T Consensus        27 ~~~~e~v~i~slall~m~rh~r-~~~p------------------~e~v~Glm~lg~~~~fv~~~Tv~vv~v~am~~sg~   87 (316)
T KOG1555|consen   27 SDEKETVYISSLALLKMLRHDR-AGSP------------------EETVMGLMSLGRLPEFVDDYTVRVVDVFAMPQSGT   87 (316)
T ss_pred             ccCcceeeeehhhhhhcccccc-cCCc------------------hhhccceeecccccceeeecceeeeeeeccccccc
Confidence            4567799999999999999753 2211                  13489999 99   3 3677888899999998754


Q ss_pred             cc-----cccHHHHHHHHHHHHHhCCCcceEEEEecCC----CCCcchHHHHHHHhhhCCCcEEEEEcCCCCCCCCCcce
Q 023397           80 TH-----SLDRAFLEKKQELYKKVFPHFYILGWYSTGS----DAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPV  150 (283)
Q Consensus        80 ~~-----~iD~~~~~~m~~l~k~V~p~~~iVGWY~tg~----~~~~~d~~ih~~~~~~~~~pi~L~~D~~~~~~~~~lpi  150 (283)
                      +-     ..|.-|..+|.++.++....+.+||||++.+    .++..|+..|+.|+..++..+..++||..+.. ++.-+
T Consensus        88 ~is~~~e~~d~V~q~q~~~~l~~tGrp~~VVGWYHSHP~f~~wpS~vDi~tQ~syq~~~~r~~a~~v~~i~S~~-g~vv~  166 (316)
T KOG1555|consen   88 GISKFVEAVDPVFQTQMMDLLKQTGRPELVVGWYHSHPGFGCWPSLVDIDTQQSYQALSSRAVAVVVDPIQSPY-GKVVP  166 (316)
T ss_pred             eecccchhccHHHHHHHHHHHHhcCCcceEEeeccCCCCCCCCccccchhHHHHHhhhccCCcceeeecccCCC-CCccC
Confidence            32     4899999999999999888899999999975    46778999999999998999999999987544 34344


Q ss_pred             EEEEe
Q 023397          151 TIFES  155 (283)
Q Consensus       151 ~~y~~  155 (283)
                      .+|.+
T Consensus       167 d~f~~  171 (316)
T KOG1555|consen  167 DAFSS  171 (316)
T ss_pred             Chhhh
Confidence            47765

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

Probab=98.32  E-value=1.4e-05  Score=69.76  Aligned_cols=124  Identities=13%  Similarity=0.207  Sum_probs=84.7

Q ss_pred             eEEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCE--EEEEEeEeeccCCCcccccHHH
Q 023397           10 TFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRT--VEIFNSFELLYDPSTHSLDRAF   87 (283)
Q Consensus        10 ~V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~--veI~nsF~vp~~~~~~~iD~~~   87 (283)
                      +|.+.+.+..+|.=|..+-.                    ...|.|+|||...++.  |+|++|.|+=|..-.=.--.+-
T Consensus         3 ~v~is~~AY~K~~LHaaKyP--------------------~~aVnGvLlg~~~~~~~~v~i~DaVPLfH~~~~L~PmlEv   62 (196)
T PF03665_consen    3 SVEISSRAYAKMILHAAKYP--------------------HCAVNGVLLGKSSKSSSEVEIVDAVPLFHHWLSLSPMLEV   62 (196)
T ss_pred             eEEEcHHHHHHHHHHhccCC--------------------CCceeeEEEeccCCCCceEEEeeceeccccccCcchHHHH
Confidence            68899999999999998765                    2579999999986443  9999999998843211111122


Q ss_pred             HHHHHHHHHHhCCCcceEEEEecCCC-----CCcchHHHHHHHhhhCCCcEEEEEcCCCCCC-CCCcceEEEE
Q 023397           88 LEKKQELYKKVFPHFYILGWYSTGSD-----AQESDMHIHKALMDINESPVYVLLNPSINPA-QKDLPVTIFE  154 (283)
Q Consensus        88 ~~~m~~l~k~V~p~~~iVGWY~tg~~-----~~~~d~~ih~~~~~~~~~pi~L~~D~~~~~~-~~~lpi~~y~  154 (283)
                      --.+.+.|-+. .++.|||+|+....     +++.-..|=+.+.+.++.++++++|-..-.. .+..++.+|.
T Consensus        63 AL~qvd~~~~~-~gl~IvGyY~Ane~~~d~~~~~~a~kiad~I~~~~~~a~ll~idn~kl~~~~~~~~~~~~~  134 (196)
T PF03665_consen   63 ALAQVDAYAKS-NGLVIVGYYQANERLDDNSPSPVAEKIADKIAENFSDACLLMIDNKKLSSDCKAPAISVYQ  134 (196)
T ss_pred             HHHHHHHHHhh-CCCEEEEEEEeccccccCCCCHHHHHHHHHHHhhCCCcEEEEEECcccccccCCCcceeee
Confidence            23344445443 56999999999753     4444445556667778899999999654222 2333456776

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

Probab=98.32  E-value=1.1e-05  Score=69.55  Aligned_cols=104  Identities=17%  Similarity=0.261  Sum_probs=73.2

Q ss_pred             hhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEe-CCEEEEEEeEeeccCCCcccccHHH--HHHH
Q 023397           15 PLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQR-GRTVEIFNSFELLYDPSTHSLDRAF--LEKK   91 (283)
Q Consensus        15 PlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~-~~~veI~nsF~vp~~~~~~~iD~~~--~~~m   91 (283)
                      +.....|..|..+..                    +..|+|+|+|... ++.+.|++++|+.+..-  .++..-  ...+
T Consensus         3 ~~ay~ki~~HA~k~p--------------------~~evcGlLlG~~~~~~~~~V~d~vPl~h~~~--~l~P~~Eval~~   60 (182)
T cd08060           3 TLAYVKMLLHAAKYP--------------------HCAVNGLLLGKKSSGGSVEITDAVPLFHSCL--ALAPMLEVALAL   60 (182)
T ss_pred             HHHHHHHHHHHHHcC--------------------CchheEEEEeeecCCCCEEEEEEEEcCCCcc--ccCHHHHHHHHH
Confidence            456778999998743                    3589999999997 77899999999998521  244432  1222


Q ss_pred             HHHHHHhCCCcceEEEEecCCC-----CCcchHHHHHHHhhhCCCcEEEEEcCCC
Q 023397           92 QELYKKVFPHFYILGWYSTGSD-----AQESDMHIHKALMDINESPVYVLLNPSI  141 (283)
Q Consensus        92 ~~l~k~V~p~~~iVGWY~tg~~-----~~~~d~~ih~~~~~~~~~pi~L~~D~~~  141 (283)
                      .+.+-+- .++.|||+|++.+.     +...-..|-+.+.+.++++++|++|-..
T Consensus        61 ve~~~~~-~gl~IvG~Yhsh~~~~d~~~~~~a~kIadki~~~~~~a~ll~vdn~~  114 (182)
T cd08060          61 VDAYCKS-SGLVIVGYYQANERLDDSSPSPVAKKIADKIAENFSNACLLMVDNEK  114 (182)
T ss_pred             HHHHHHH-CCCEEEEEEecCCcccCCCCcHHHHHHHHHHHHhCCCCEEEEEeCcc
Confidence            3333333 37899999999874     3334445666677778899999999664

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.

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

Probab=98.04  E-value=9.2e-05  Score=59.92  Aligned_cols=108  Identities=14%  Similarity=0.179  Sum_probs=73.7

Q ss_pred             hhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCEEEEEEeEeeccCCCc--c--cccHHHHHHHH
Q 023397           17 VIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPST--H--SLDRAFLEKKQ   92 (283)
Q Consensus        17 Vll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~--~--~iD~~~~~~m~   92 (283)
                      ++-+|++|..+..                    +..++|.|+|..++....|+..|++|....+  .  .+|...+.+..
T Consensus         3 ~~~~il~ha~~~~--------------------P~E~cGlL~G~~~~~~~~i~~~~p~~n~~~~~~~~f~~d~~~~~~~~   62 (128)
T cd08070           3 LLEAILAHAEAEY--------------------PEECCGLLLGKGGGVTAIVTEVYPVRNVAESPRRRFEIDPAEQLAAQ   62 (128)
T ss_pred             HHHHHHHHHHhCC--------------------CCceEEEEEeecCCCCceEEEEEEccCCCCCCCceEEECHHHHHHHH
Confidence            4557778776643                    4689999999998766677889999875432  2  37877666666


Q ss_pred             HHHHHhCCCcceEEEEecCCC----CCcchHHHHHHHhhhCCCcEEEEEcCCCCCCCCCcceEEEEe
Q 023397           93 ELYKKVFPHFYILGWYSTGSD----AQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFES  155 (283)
Q Consensus        93 ~l~k~V~p~~~iVGWY~tg~~----~~~~d~~ih~~~~~~~~~pi~L~~D~~~~~~~~~lpi~~y~~  155 (283)
                      +..++.  ++.+||||++.+.    ++..|.....    . ...+++++....    +...+++|..
T Consensus        63 ~~~~~~--g~~~vG~~HSHP~~~~~PS~~D~~~~~----~-~~~~~lIv~~~~----~~~~~~~~~~  118 (128)
T cd08070          63 REARER--GLEVVGIYHSHPDGPARPSETDLRLAW----P-PGVSYLIVSLAG----GAPELRAWRL  118 (128)
T ss_pred             HHHHHC--CCeEEEEEeCCCCCCCCCCHHHHHhcc----C-CCCeEEEEECCC----CCcEEEEEEE
Confidence            666555  5899999999764    4444542211    1 245788888652    2446888875

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=97.89  E-value=0.00014  Score=59.30  Aligned_cols=98  Identities=18%  Similarity=0.256  Sum_probs=62.3

Q ss_pred             EEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCEEEEEEeEeeccCCCc--c--cccHHH
Q 023397           12 KLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPST--H--SLDRAF   87 (283)
Q Consensus        12 ~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~--~--~iD~~~   87 (283)
                      .+-..++-.|+.|..|..                    +..++|.|+|+..+     ...|+++....+  .  .++.++
T Consensus         3 ~i~~~~l~~il~~a~~~~--------------------p~E~~g~l~~~~~~-----~~~~~~~n~~~~~~~~~~~~~~~   57 (134)
T COG1310           3 VIPKEVLGAILEHARREH--------------------PREVCGLLAGTREG-----ERYFPLKNVSVEPVEYFEIDPEY   57 (134)
T ss_pred             eecHHHHHHHHHHHHhcC--------------------ChheEEEEEeeccc-----ceeeccccccCCcceeEeeCHHH
Confidence            455677888999988764                    36899999999887     444555443222  1  255555


Q ss_pred             HHHHHHHHHHhCCCcceEEEEecCCC--CCcchHHHHHHHhhhCCCcEEEEEcC
Q 023397           88 LEKKQELYKKVFPHFYILGWYSTGSD--AQESDMHIHKALMDINESPVYVLLNP  139 (283)
Q Consensus        88 ~~~m~~l~k~V~p~~~iVGWY~tg~~--~~~~d~~ih~~~~~~~~~pi~L~~D~  139 (283)
                      .. +....+..  ++.+||||++++.  +..++..+.  +++..+.|.+++..+
T Consensus        58 ~~-~~~~~~~~--g~~vvg~yHSHP~~~~~pS~~D~~--~~~~~~~~~~iv~~~  106 (134)
T COG1310          58 SL-FYLAAEDA--GEVVVGWYHSHPGGPPYPSEADRR--LSKLGPLPWLIVSVP  106 (134)
T ss_pred             HH-HHHHHhhC--CCEEEEEEcCCCCCCCCcCHHHHh--hccccCCCEEEEEcC
Confidence            44 33333333  3999999999873  444454455  676656555665553

>KOG3289 consensus Uncharacterized conserved protein encoded by sequence overlapping the COX4 gene [General function prediction only]

Probab=97.07  E-value=0.017  Score=49.08  Aligned_cols=124  Identities=15%  Similarity=0.254  Sum_probs=81.9

Q ss_pred             eEEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEee--EEeCCEEEEEEeEeeccCCCcccccHHH
Q 023397           10 TFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIG--IQRGRTVEIFNSFELLYDPSTHSLDRAF   87 (283)
Q Consensus        10 ~V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG--~~~~~~veI~nsF~vp~~~~~~~iD~~~   87 (283)
                      .|.+..++..+|+=|+.|-+-                    .-|-|.|+|  +..|+.|+|++|.|+=|+.-.=.--.+-
T Consensus         3 ~veis~~aY~kmiLH~akyph--------------------~aVnGLLla~~~~kg~~v~itdcVPLfH~~laLaPmlEv   62 (199)
T KOG3289|consen    3 EVEISALAYVKMILHAAKYPH--------------------AAVNGLLLAPATGKGECVEITDCVPLFHSHLALAPMLEV   62 (199)
T ss_pred             ceeehhhHHHHHHHHhccCcc--------------------cceeeEEEeccCCCCCeEEEEecchhhccccccccHHHH
Confidence            467888899999999988752                    479999999  4568999999999997753210111122


Q ss_pred             HHHHHHHHHHhCCCcceEEEEecCCCCCc-----chHHHHHHHhhhCCCcEEEEEcCCCC-CCCCCcceEEEE
Q 023397           88 LEKKQELYKKVFPHFYILGWYSTGSDAQE-----SDMHIHKALMDINESPVYVLLNPSIN-PAQKDLPVTIFE  154 (283)
Q Consensus        88 ~~~m~~l~k~V~p~~~iVGWY~tg~~~~~-----~d~~ih~~~~~~~~~pi~L~~D~~~~-~~~~~lpi~~y~  154 (283)
                      .-.|++-+- +--.+.|+|.|+....++.     .-..|-.-+++++++..+|++|-..- ..-..-|+-+|+
T Consensus        63 Al~lId~~~-~~~GlviaGyy~Ane~~~D~s~~~~A~kiadrIse~f~~A~ilv~dn~~l~~~~e~~~v~v~e  134 (199)
T KOG3289|consen   63 ALNLIDVWG-AQAGLVIAGYYHANERVNDQSLNPVALKIADRISEFFPDAAILVLDNKKLVPQCERPPVIVLE  134 (199)
T ss_pred             HHHHHHHHH-HhcCeEEEEEeecCCCccccCccHHHHHHHHHHHhhCCCCeEEEEeccccccccCCCCEEEee
Confidence            223333322 2347899999999864333     23456667778888777777775432 222335788887

>TIGR02256 ICE_VC0181 integrative and conjugative element protein, VC0181 family

Probab=96.69  E-value=0.036  Score=45.29  Aligned_cols=87  Identities=14%  Similarity=0.107  Sum_probs=53.7

Q ss_pred             CCceEEEEeeEEeCCEEEEEEeEeeccCCCcc----c-ccHHHHHHHHH-HHHHhCCCcceEEEEecCCC----CCcchH
Q 023397           50 QPRVYGCVIGIQRGRTVEIFNSFELLYDPSTH----S-LDRAFLEKKQE-LYKKVFPHFYILGWYSTGSD----AQESDM  119 (283)
Q Consensus        50 ~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~~----~-iD~~~~~~m~~-l~k~V~p~~~iVGWY~tg~~----~~~~d~  119 (283)
                      +....|+|+|.+.+..+.|+..- .|...+-.    | -+.+.+++.++ .+++.+-....||=++|.+.    ++..|.
T Consensus        16 ~~EtGGiLiG~~~~~~~ii~~~t-~P~p~d~~tr~~F~r~~~~~q~~i~~~~~~s~g~~~ylGeWHtHP~~~p~PS~~D~   94 (131)
T TIGR02256        16 STETGGVLIGERRGAHAVITKIS-EPGSGDIRTRKRFSRDGEHHQSEVDEHFEVSGGVDTYLGEWHTHPEDQPEPSWTDR   94 (131)
T ss_pred             CCccceEEEEEEcCCcEEEEEEE-cCCCCcccCceEEEeCcHHHHHHHHHHHHHhCCceEEEEecCcCCCCCCCCCHHHH
Confidence            46789999999987777777744 44333221    2 45666665555 45555566999999999763    444454


Q ss_pred             HHHHHHhhhCCCcEEEEE
Q 023397          120 HIHKALMDINESPVYVLL  137 (283)
Q Consensus       120 ~ih~~~~~~~~~pi~L~~  137 (283)
                      .--+.+.+..+..+++++
T Consensus        95 ~~~~~~~~~~~~~l~iIv  112 (131)
T TIGR02256        95 RSWRTIIRSPEAMLLLIV  112 (131)
T ss_pred             HHHHHHHhCCCeeEEEEE
Confidence            433444444444444544

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=95.10  E-value=0.32  Score=37.15  Aligned_cols=60  Identities=8%  Similarity=0.188  Sum_probs=35.0

Q ss_pred             CCceEEEEeeEEeCCEEEEEEeEeeccCCCcccccHHHHHHHHHHHHHhCCCcceEEEEecCCC----CCcchH
Q 023397           50 QPRVYGCVIGIQRGRTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSD----AQESDM  119 (283)
Q Consensus        50 ~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~~~iD~~~~~~m~~l~k~V~p~~~iVGWY~tg~~----~~~~d~  119 (283)
                      +...+|.|+|...+..+.++......-.+        ++....  ++....+..+||+|+|.+.    ++..|.
T Consensus        17 p~E~~G~L~g~~~~~~~~~~~~~~~~p~~--------~~~~~~--~~~~~~~~~~vg~~HSHP~~~a~pS~~D~   80 (104)
T PF14464_consen   17 PNEACGLLLGRRDDQRFIVVPNVNPDPRD--------SFRRER--FEARERGLEIVGIWHSHPSGPAFPSSTDI   80 (104)
T ss_dssp             TS-EEEEEEEEEECCEEEEEEEEE--HHC--------HHHHHH---HHHHHT-EEEEEEEEESSSSSS--HHHH
T ss_pred             CCeEEEEEEEEecCCEEEEEeCCCCCcHH--------HHHHHh--hhhhcccceeeEEEEcCCCCCCCCCHHHH
Confidence            46899999999987787777766511110        111111  0455668899999999653    444553

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

Probab=95.08  E-value=0.46  Score=37.85  Aligned_cols=83  Identities=11%  Similarity=0.066  Sum_probs=52.2

Q ss_pred             CCceEEEEeeEEeCCEEEEEEeEeeccCCCcc---cccHHHHHHHHHHHHHhCCCcceEEEEecCCC----CCcchHHHH
Q 023397           50 QPRVYGCVIGIQRGRTVEIFNSFELLYDPSTH---SLDRAFLEKKQELYKKVFPHFYILGWYSTGSD----AQESDMHIH  122 (283)
Q Consensus        50 ~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~~---~iD~~~~~~m~~l~k~V~p~~~iVGWY~tg~~----~~~~d~~ih  122 (283)
                      +..+||.|+|+..    .|++.+++|.....+   ..+.+    |.      -.++.+||-|++.++    ++..|..  
T Consensus        18 P~E~CGlL~G~~~----~v~~~~~~~n~~~~~~~~~f~~~----~~------~~g~~ivgi~HSHP~~~~~PS~~D~~--   81 (117)
T cd08072          18 PNEFAALLRGKDG----VITELLILPGTESGEVSAVFPLL----ML------PLDMSIVGSVHSHPSGSPRPSDADLS--   81 (117)
T ss_pred             CceEEEEEEeecc----EEEEEEECCCCCCCCcceeechH----Hh------cCCCeEEEEEEcCCCCCCCCCHHHHH--
Confidence            5689999999764    588889998654332   12332    11      247899999999763    5666642  


Q ss_pred             HHHhhhCCCcEEEEEcCCCCCCCCCcceEEEEe
Q 023397          123 KALMDINESPVYVLLNPSINPAQKDLPVTIFES  155 (283)
Q Consensus       123 ~~~~~~~~~pi~L~~D~~~~~~~~~lpi~~y~~  155 (283)
                        ++.. ....++++....    +.=.+++|..
T Consensus        82 --~~~~-~~~~~lIvs~~~----~~~~~~a~~~  107 (117)
T cd08072          82 --FFSK-TGLVHIIVGYPY----DEDDWRAYDS  107 (117)
T ss_pred             --hhhc-CCCEEEEEECcC----CCCCEEEEec
Confidence              2322 234677776431    1226889974

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=94.30  E-value=0.51  Score=42.73  Aligned_cols=98  Identities=13%  Similarity=0.153  Sum_probs=64.6

Q ss_pred             CceEEEEeeEEeC---CEEEEEEeEeeccCCCcccccHHHHHHHHHHHHHhCCCcceEEEEecCC----CCCcchHHHHH
Q 023397           51 PRVYGCVIGIQRG---RTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGS----DAQESDMHIHK  123 (283)
Q Consensus        51 ~~v~G~LLG~~~~---~~veI~nsF~vp~~~~~~~iD~~~~~~m~~l~k~V~p~~~iVGWY~tg~----~~~~~d~~ih~  123 (283)
                      ..++|.|.|....   +.-||+.-..+|...+.+.++..-  . .-.+ +---++..|||=+|.+    .+++.|+..|.
T Consensus        56 tQ~~GyLyG~~~~d~~~vkeI~cIvipPQ~gt~~sv~l~~--~-~~~~-~~l~~Le~LGWIHTqp~e~~~Lss~Dv~tha  131 (252)
T cd08056          56 TQIAGYLYGKSPPDNPQVKEIRCIVLVPQLGTHQTVTLPQ--Q-LPQH-EYLEDLEPLGWIHTQPNELPQLSPQDVTTHA  131 (252)
T ss_pred             ceEEEEEeccCCCCCCCeEEEEEEEECCEeCCcCcEECCc--c-Cccc-hhhCCCEeeEEEEcCCCCccccCHHHHHHHH
Confidence            4699999999743   667888777777765443111100  0 0111 1123689999999964    47889999999


Q ss_pred             HHhhhCC-----CcEEEEEcCCCCCCCCCcceEEEEee
Q 023397          124 ALMDINE-----SPVYVLLNPSINPAQKDLPVTIFESE  156 (283)
Q Consensus       124 ~~~~~~~-----~pi~L~~D~~~~~~~~~lpi~~y~~~  156 (283)
                      .++..++     +.|.+++-..    .|...+.||...
T Consensus       132 ~~~~~~~~w~~~~~V~it~Sft----pGs~sl~ay~LT  165 (252)
T cd08056         132 KILADNPSWDGEKTVILTCSFT----PGSCSLTAYKLT  165 (252)
T ss_pred             HHHHhccccCCCcEEEEEEcCC----CCceEEEEEecC
Confidence            9988765     4555555443    366789999864

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=86.09  E-value=2.8  Score=32.84  Aligned_cols=57  Identities=11%  Similarity=0.054  Sum_probs=33.0

Q ss_pred             CCceEEEEeeEEeCCEEEEEEeEeeccCC-Cc-c-c-ccH-HHHHHHHHHHHHhCCCcceEEEEecCC----CCCcchH
Q 023397           50 QPRVYGCVIGIQRGRTVEIFNSFELLYDP-ST-H-S-LDR-AFLEKKQELYKKVFPHFYILGWYSTGS----DAQESDM  119 (283)
Q Consensus        50 ~~~v~G~LLG~~~~~~veI~nsF~vp~~~-~~-~-~-iD~-~~~~~m~~l~k~V~p~~~iVGWY~tg~----~~~~~d~  119 (283)
                      +...||.|+|...     ++..|++.... +. . | +|. ++++.+        ....+||.|++.+    .++..|.
T Consensus        15 P~E~CGll~g~~~-----~~~~~p~~N~~~~p~~~F~idp~e~~~a~--------~~~~ivgi~HSHP~~~a~PS~~D~   80 (108)
T cd08073          15 PREACGLVVRKGR-----KLRYIPCRNIAADPEEHFEISPEDYAAAE--------DEGEIVAVVHSHPDGSPAPSEADR   80 (108)
T ss_pred             CCcceEEEEecCC-----ceEEEECccCCCCccceEEeCHHHHHHHh--------cCCCEEEEEEcCCCCCCCCCHHHH
Confidence            5689999999661     23345555322 11 1 3 664 444322        1338999999975    3555554

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.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	283
4e0q_A	141	Crystal Structure Of Mpn Domain From Cop9 Signaloso		3e-23
2o95_A	187	Crystal Structure Of The Metal-Free Dimeric Human M		6e-10
2o96_A	178	Crystal Structure Of The Metal-Free Dimeric Human M		7e-10
4b4t_U	338	Near-Atomic Resolution Structural Model Of The Yeas		1e-07

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

Iteration: 1
 Score =  105 bits (261), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 58/155 (37%), Positives = 87/155 (56%), Gaps = 20/155 (12%)
Query: 4   SSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSAXXXXXXXXXGAQPR-VYGCVIGIQR 62
            S   +T  LHPLVI NIS+H+TR ++Q                  +PR VYG +IG Q+
Sbjct: 1   GSHXSVTISLHPLVIXNISEHWTRFRAQH----------------GEPRQVYGALIGKQK 44
Query: 63  GRTVEIFNSFELLYD--PSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMH 120
           GR +EI NSFEL  D       +++ +  KK++ YK+VF     +GWY+TG +    D+ 
Sbjct: 45  GRNIEIXNSFELKTDVIGDETVINKDYYNKKEQQYKQVFSDLDFIGWYTTGDNPTADDIK 104
Query: 121 IHKALMDINESPVYVLLNPSINPAQKDLPVTIFES 155
           I + +  INE P+ + LNP ++ +   LP+ +FES
Sbjct: 105 IQRQIAAINECPIXLQLNP-LSRSVDHLPLKLFES 138

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

Iteration: 1
 Score = 61.2 bits (147), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 48/176 (27%), Positives = 84/176 (47%), Gaps = 32/176 (18%)
Query: 13  LHPLVIVNISDHYTRVKSQMNHSSSAXXXXXXXXXGAQPRVYGCVIGIQRGRTVEIFNSF 72
           +HPLV++++ DH+ R+                   G Q RV G ++G  + + +++ NSF
Sbjct: 12  VHPLVLLSVVDHFNRIGK----------------VGNQKRVVGVLLGSWQKKVLDVSNSF 55
Query: 73  ELLYD-----PSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMHIHKALMD 127
            + +D      S   LD  +LE    ++KKV     I+GWY TG    ++D+ I++ +  
Sbjct: 56  AVPFDEDDKDDSVWFLDHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELMKR 115
Query: 128 INESPVYVLLNPSINPAQKDLPVTIFES--ELHVIEGIPQLIFVRSSYTIETVEAE 181
              + V V+++  + P    LP   + S  E+H  +G P      +S T E V +E
Sbjct: 116 YCPNSVLVIID--VKPKDLGLPTEAYISVEEVH-DDGTP------TSKTFEHVTSE 162

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

Iteration: 1
 Score = 61.2 bits (147), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 48/176 (27%), Positives = 84/176 (47%), Gaps = 32/176 (18%)
Query: 13  LHPLVIVNISDHYTRVKSQMNHSSSAXXXXXXXXXGAQPRVYGCVIGIQRGRTVEIFNSF 72
           +HPLV++++ DH+ R+                   G Q RV G ++G  + + +++ NSF
Sbjct: 12  VHPLVLLSVVDHFNRIGK----------------VGNQKRVVGVLLGSWQKKVLDVSNSF 55
Query: 73  ELLYD-----PSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMHIHKALMD 127
            + +D      S   LD  +LE    ++KKV     I+GWY TG    ++D+ I++ +  
Sbjct: 56  AVPFDEDDKDDSVWFLDHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELMKR 115
Query: 128 INESPVYVLLNPSINPAQKDLPVTIFES--ELHVIEGIPQLIFVRSSYTIETVEAE 181
              + V V+++  + P    LP   + S  E+H  +G P      +S T E V +E
Sbjct: 116 YCPNSVLVIID--VKPKDLGLPTEAYISVEEVH-DDGTP------TSKTFEHVTSE 162

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

Iteration: 1
 Score = 53.5 bits (127), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 56/246 (22%), Positives = 98/246 (39%), Gaps = 60/246 (24%)
Query: 15  PLVIVNISDHYTRVKSQMNHSSSAXXXXXXXXXGAQPRVYGCVIGIQRGRTVEIFNSFEL 74
           PLV+++  DHY R +++ N                  R  G ++G     T+ + NSF L
Sbjct: 12  PLVLLSALDHYERTQTKENK-----------------RCVGVILGDANSSTIRVTNSFAL 54
Query: 75  LYDPSTHS-----LDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMHIHKALMDIN 129
            ++    +     LD  ++E   E+ KK+     ++GWY +G   + SD+ I++      
Sbjct: 55  PFEEDEKNSDVWFLDHNYIENMNEMCKKINAKEKLIGWYHSGPKLRASDLKINELF---- 110
Query: 130 ESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETVEAERISVDH-- 187
               Y   NP +      L V + +  +    G+P   +V     IE V+ +  S +   
Sbjct: 111 --KKYTQNNPLL------LIVDVKQQGV----GLPTDAYV----AIEQVKDDGTSTEKTF 154
Query: 188 ----------------VAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAM 231
                           V HL       AA  L+  LT    ++K L S+++ +  YL  +
Sbjct: 155 LHLPCTIEAEEAEEIGVEHLLRDVRDQAAGGLSIRLTNQLKSLKGLQSKLKDVVEYLDKV 214
Query: 232 QKGEIP 237
              E+P
Sbjct: 215 INKELP 220

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	283
4e0q_A	141	COP9 signalosome complex subunit 6; MPN (MPR1P and	5e-41
2o95_A	187	26S proteasome non-ATPase regulatory subunit 7; PS	1e-40
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-04

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

 Score =  137 bits (347), Expect = 5e-41
 Identities = 57/159 (35%), Positives = 89/159 (55%), Gaps = 21/159 (13%)

Query: 5   SSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGR 64
           S   +T  LHPLVI+NIS+H+TR ++Q               +G   +VYG +IG Q+GR
Sbjct: 2   SHMSVTISLHPLVIMNISEHWTRFRAQ---------------HGEPRQVYGALIGKQKGR 46

Query: 65  TVEIFNSFELLY--DPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMHIH 122
            +EI NSFEL          +++ +  KK++ YK+VF     +GWY+TG +    D+ I 
Sbjct: 47  NIEIMNSFELKTDVIGDETVINKDYYNKKEQQYKQVFSDLDFIGWYTTGDNPTADDIKIQ 106

Query: 123 KALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIE 161
           + +  INE P+ + LNP  + +   LP+ +FES   +I+
Sbjct: 107 RQIAAINECPIMLQLNPL-SRSVDHLPLKLFES---LID 141

>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 =  138 bits (349), Expect = 1e-40
 Identities = 49/205 (23%), Positives = 88/205 (42%), Gaps = 27/205 (13%)

Query: 4   SSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRG 63
              +     +HPLV++++ DH+ R+                   G Q RV G ++G  + 
Sbjct: 3   PELAVQKVVVHPLVLLSVVDHFNRIGKV----------------GNQKRVVGVLLGSWQK 46

Query: 64  RTVEIFNSFELLY-----DPSTHSLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESD 118
           + +++ NSF + +     D S   LD  +LE    ++KKV     I+GWY TG    ++D
Sbjct: 47  KVLDVSNSFAVPFDEDDKDDSVWFLDHDYLENMYGMFKKVNARERIVGWYHTGPKLHKND 106

Query: 119 MHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFES--ELHVIEGIPQLIFVRSSYTIE 176
           + I++ +     + V V+++    P    LP   + S  E+H         F   +  I 
Sbjct: 107 IAINELMKRYCPNSVLVIIDVK--PKDLGLPTEAYISVEEVHDDGTPTSKTFEHVTSEIG 164

Query: 177 TVEAERISVDHVAHLKPSDGGSAAT 201
             EAE + V+H+   +     +  T
Sbjct: 165 AEEAEEVGVEHLL--RDIKDTTVGT 187

>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 = 40.2 bits (93), Expect = 6e-04
 Identities = 23/183 (12%), Positives = 54/183 (29%), Gaps = 36/183 (19%)

Query: 91  KQELYKKVFPHFYILGWYSTGSDAQESDMHIHKALMDINESPVYVLLNPSINP------- 143
           K  L K+   H  +        DA    + +   L+   E  V   +   +         
Sbjct: 43  KSILSKEEIDHIIMSK------DAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMS 96

Query: 144 ------AQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETVEAERISVDHVAHLKPSD-- 195
                  Q  +   ++  +   +    Q+    +   ++     R     +  L+P+   
Sbjct: 97  PIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLR---QALLELRPAKNV 153

Query: 196 -----GGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPCENSLLRQVSSLL 250
                 GS  T +A  +   +     ++ +I     +L            ++L  +  LL
Sbjct: 154 LIDGVLGSGKTWVALDVCLSYKVQCKMDFKI----FWLNL---KNCNSPETVLEMLQKLL 206

Query: 251 RRL 253
            ++
Sbjct: 207 YQI 209

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	283
4b4t_U	338	RPN8, 26S proteasome regulatory subunit RPN8; hydr	100.0
2o95_A	187	26S proteasome non-ATPase regulatory subunit 7; PS	100.0
4e0q_A	141	COP9 signalosome complex subunit 6; MPN (MPR1P and	100.0
4b4t_V	306	26S proteasome regulatory subunit RPN11; hydrolase	99.96
2znr_A	178	AMSH-like protease; metal binding protein, alterna	99.21
3rzv_A	211	STAM-binding protein; ubiquitin hydrolase, endosom	99.05
2kks_A	146	Uncharacterized protein; NESG, structural genomics	98.68
2kcq_A	153	MOV34/MPN/PAD-1 family; NESG, structure, structura	98.41
1oi0_A	124	AF2198, hypothetical protein AF2198; proteasome, d	97.52
2p8r_A	273	PRP8, PRE-mRNA-splicing factor PRP8; alpha-beta, t	93.31
2og4_A	254	PRE-mRNA-splicing factor 8; isopeptidase, JAB1/MPN	90.74
3sbg_A	565	PRE-mRNA-splicing factor 8; PRP8P, rnaseh domain,	87.07

>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=3.3e-63  Score=462.76  Aligned_cols=252  Identities=24%  Similarity=0.446  Sum_probs=177.8

Q ss_pred             CCceEEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCEEEEEEeEeeccCCCcc-----
Q 023397            7 SGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTH-----   81 (283)
Q Consensus         7 ~~~~V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~~-----   81 (283)
                      +..+|.|||||||+|+|||+|.+.+                 .+.||+|+|||.++|+.|||+|||++|++++++     
T Consensus         4 ~~~~V~vhPlVll~I~dH~~R~~~~-----------------~~~rViG~LLG~~~~~~veV~nsF~~p~~e~~~~~~~~   66 (338)
T 4b4t_U            4 QHEKVTIAPLVLLSALDHYERTQTK-----------------ENKRCVGVILGDANSSTIRVTNSFALPFEEDEKNSDVW   66 (338)
T ss_dssp             CCSEEEECHHHHHHHHHHHHHHTTT-----------------CCSCCEEEEEEEECSSEEEEEEEEECCEEECSSSTTCE
T ss_pred             CCCEEEEecHHHHHHHHHHHHhhcC-----------------CCCeEEEEEEeEEcCCEEEEEEEEEeccccCCCCCccc
Confidence            4578999999999999999997543                 247999999999999999999999999976543     


Q ss_pred             cccHHHHHHHHHHHHHhCCCcceEEEEecCCCCCcchHHHHHHHhhhCC-CcEEEEEcCCCCCCCCCcceEEEEeeeccc
Q 023397           82 SLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMHIHKALMDINE-SPVYVLLNPSINPAQKDLPVTIFESELHVI  160 (283)
Q Consensus        82 ~iD~~~~~~m~~l~k~V~p~~~iVGWY~tg~~~~~~d~~ih~~~~~~~~-~pi~L~~D~~~~~~~~~lpi~~y~~~~~~~  160 (283)
                      ++|++|+++|+++||+|||++.+||||+||+.++..|+.||++|+++++ +|++|++|+..  ..++||++||++.....
T Consensus        67 ~~D~~y~~~m~~~~kkV~~~e~iVGWY~tg~~~~~~d~~Ih~~~~~~~~~~pi~l~~d~~~--~~~~lpi~aY~s~~~~~  144 (338)
T 4b4t_U           67 FLDHNYIENMNEMCKKINAKEKLIGWYHSGPKLRASDLKINELFKKYTQNNPLLLIVDVKQ--QGVGLPTDAYVAIEQVK  144 (338)
T ss_dssp             EECHHHHHHHHHHHHHHCCSCEEEEEEECCSSCCSTHHHHHHHHGGGCCSCCCEEEECSCC--CSSSCSEEEEEEEEECS
T ss_pred             cccHHHHHHHHHHHhhcCccCCEEEEEecCCCCCccHHHHHHHHHhccCCCcEEEEecCCC--CCCCcceEEEEeehhcc
Confidence            4899999999999999999999999999999999999999999999985 89999999986  45889999999865443


Q ss_pred             c-C-CceeeEEEeeeeeecchhhHHHHHHHhccCCCCCCChhhhhhhcHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 023397          161 E-G-IPQLIFVRSSYTIETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLNSRIRVLHHYLVAMQKGEIPC  238 (283)
Q Consensus       161 ~-g-~~~~~f~~v~~~i~~~e~ErI~v~~l~~~~~~~~~~~~~~~~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~  238 (283)
                      + | ..+..|+++|++|+++|+|||||+|++|....   .+...+..++..+.+|+++|+.||+.|++||++|.+|++|+
T Consensus       145 ~~~~~~~~~F~~lp~~i~~~eaE~Igv~~l~r~~~~---~~~~~l~~~l~~~~~al~~L~~~l~~i~~Yl~~V~~g~~~~  221 (338)
T 4b4t_U          145 DDGTSTEKTFLHLPCTIEAEEAEEIGVEHLLRDVRD---QAAGGLSIRLTNQLKSLKGLQSKLKDVVEYLDKVINKELPI  221 (338)
T ss_dssp             SCSTTCEEEEEEECEEECSCHHHHHHHHHHHHHHSS---CC---CHHHHHHHHHHHHHHHHHHHHHHHHHHHC-------
T ss_pred             CCCcccccEEEEeeeEeecCcHHHHHHHHHHhcccc---CcccccchhHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCC
Confidence            3 3 34688999999999999999999999997433   23456778899999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHhcCCCCCh-----------------HHHHHHHH---HHHHHHHHHHHhhc
Q 023397          239 ENSLLRQVSSLLRRLPAIES-----------------EKFQDDFL---MVSLFSSFLNIFTI  280 (283)
Q Consensus       239 d~~ilR~i~~l~~~lP~~~~-----------------~~f~~~~~---~~~lmv~yLs~lt~  280 (283)
                      |++|||+|+++|+++|.++.                 ++|+++|+   +|+|||+|||+|||
T Consensus       222 n~~ilr~l~~~~~~lP~l~~~~~~~~~~~~~~~~~~~~~f~~~f~~~~nD~Lmv~YLs~L~r  283 (338)
T 4b4t_U          222 NHTILGKLQDVFNLLPNLGTPDDDEIDVENHDRINISNNLQKALTVKTNDELMVIYISNLVR  283 (338)
T ss_dssp             --------------------------------------------------------------
T ss_pred             CHHHHHHHHHHHhhCCcCCcccccccccccccccchhHHHHHHHHhhcccHHHHHHHHHHHH
Confidence            99999999999999999864                 45888884   68999999999997

>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=1.8e-39  Score=279.13  Aligned_cols=172  Identities=27%  Similarity=0.467  Sum_probs=149.0

Q ss_pred             CCCCCceEEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCEEEEEEeEeeccCCCcc--
Q 023397            4 SSSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTH--   81 (283)
Q Consensus         4 ~~~~~~~V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~~--   81 (283)
                      |+.+..+|.|||+|+++|+|||+|...+                +.+.+|+|+|||.+.++.++|+|||++|+.+++.  
T Consensus         3 ~~~~~~~V~i~plvllkI~~H~~r~~~~----------------~~~~~V~G~LLG~~~~~~v~V~~~f~lp~~~~~~~~   66 (187)
T 2o95_A            3 PELAVQKVVVHPLVLLSVVDHFNRIGKV----------------GNQKRVVGVLLGSWQKKVLDVSNSFAVPFDEDDKDD   66 (187)
T ss_dssp             CCCSCSEEEECHHHHHHHHHHHHHHHHT----------------TCCSCCEEEEEEEESSSEEEEEEEEEECEEECSSCT
T ss_pred             CCCCCCEEEEchHHHHHHHHHHhhhccc----------------CCCcEEEEEEEEEEcCCEEEEEEEEEeCCcccCCCc
Confidence            4566679999999999999999998631                0257999999999999999999999999976533  


Q ss_pred             ---cccHHHHHHHHHHHHHhCCCcceEEEEecCCCCCcchHHHHHHHhhhCCCcEEEEEcCCCCCCCCCcceEEEEeeec
Q 023397           82 ---SLDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELH  158 (283)
Q Consensus        82 ---~iD~~~~~~m~~l~k~V~p~~~iVGWY~tg~~~~~~d~~ih~~~~~~~~~pi~L~~D~~~~~~~~~lpi~~y~~~~~  158 (283)
                         .+|.+|+++|++++++++|++.+||||++++..+..|..||++|++++++|++|++||...  .+++|++||++...
T Consensus        67 ~~~~~d~ey~~~m~~~~~~v~~~~~iVGWY~s~~~~s~~d~~i~~~~~~~~~~~v~Livd~~~~--~~~l~i~ay~~~~~  144 (187)
T 2o95_A           67 SVWFLDHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELMKRYCPNSVLVIIDVKPK--DLGLPTEAYISVEE  144 (187)
T ss_dssp             TSEEECHHHHHHHHHHHHTTSSSCEEEEEEECCSSCCTTHHHHHHHHTTTCTTCEEEEECCCTT--C-CCSEEEEEEEEE
T ss_pred             chhhcCHHHHHHHHHHHHHhCCCCCEEEEEcCCCcCCcccHHHHHHHHhcCCCCEEEEECCCCC--CCCcCeEEEEEech
Confidence               5899999999999999999999999999999999999999999999999999999999853  34599999998644


Q ss_pred             cc-cC-CceeeEEEeeeeeecchhhHHHHHHHhccCC
Q 023397          159 VI-EG-IPQLIFVRSSYTIETVEAERISVDHVAHLKP  193 (283)
Q Consensus       159 ~~-~g-~~~~~f~~v~~~i~~~e~ErI~v~~l~~~~~  193 (283)
                      .. +| .....|+++|++|.++|+|||||+|++|...
T Consensus       145 ~~~~~~~~~~~F~~ip~~I~~~eaE~i~v~~l~~~~~  181 (187)
T 2o95_A          145 VHDDGTPTSKTFEHVTSEIGAEEAEEVGVEHLLRDIK  181 (187)
T ss_dssp             CC----CCEEEEEEEEEEECCCHHHHHHHHHHHHHCC
T ss_pred             hcCCCCcccCEEEEeeEEEecCcHHHHHHHHHHhcCC
Confidence            43 33 2478899999999999999999999999754

>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=4.7e-41  Score=276.64  Aligned_cols=136  Identities=42%  Similarity=0.790  Sum_probs=112.0

Q ss_pred             CCCCceEEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCEEEEEEeEeeccCCCcc--c
Q 023397            5 SSSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTH--S   82 (283)
Q Consensus         5 ~~~~~~V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~~--~   82 (283)
                      ++++.+|+|||||||+|+|||+|++.+.               +.+.+|+|+|||.++++.+||+|||++|++++++  .
T Consensus         2 ~~~~~~V~ihplvll~I~dH~~R~~~~~---------------g~~~~V~G~LLG~~~~~~veV~nsF~~p~~~~~~~~~   66 (141)
T 4e0q_A            2 SHMSVTISLHPLVIMNISEHWTRFRAQH---------------GEPRQVYGALIGKQKGRNIEIMNSFELKTDVIGDETV   66 (141)
T ss_dssp             ---CEEEEECHHHHHHHHHHHHCC---------------------CCEEEEEEEEEEETTEEEEEEEEECCEEEETTEEE
T ss_pred             CCCcEEEEEecHHHHHHHHHHhhhcccC---------------CCCcEEEEEEEEEEeCCEEEEEEEEEecccCCCCcee
Confidence            4567899999999999999999975430               1257999999999999999999999999987555  6


Q ss_pred             ccHHHHHHHHHHHHHhCCCcceEEEEecCCCCCcchHHHHHHHhhhCCCcEEEEEcCCCCCCCCCcceEEEEee
Q 023397           83 LDRAFLEKKQELYKKVFPHFYILGWYSTGSDAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESE  156 (283)
Q Consensus        83 iD~~~~~~m~~l~k~V~p~~~iVGWY~tg~~~~~~d~~ih~~~~~~~~~pi~L~~D~~~~~~~~~lpi~~y~~~  156 (283)
                      +|.+|+++|++++|+|||++.+||||++|+.++..|+.||++|++++++||+|++||..+ .+++||++||++.
T Consensus        67 ~d~~y~~~m~~~~k~v~~~e~iVGWY~s~~~~~~~d~~i~~~~~~~~~~pV~L~~Dp~~~-~~g~Lp~~ay~sv  139 (141)
T 4e0q_A           67 INKDYYNKKEQQYKQVFSDLDFIGWYTTGDNPTADDIKIQRQIAAINECPIMLQLNPLSR-SVDHLPLKLFESL  139 (141)
T ss_dssp             ECHHHHHHHHHHHHHHSTTCEEEEEEEEEC-------CHHHHHHHTTCCCEEEEESCSCC-CCTTHHHHHHCC-
T ss_pred             ecHHHHHHHHHHHHHhCCCccEEEEEeCCCCCCcchHHHHHHHHHHCCCCEEEEECCCcc-CCCeEEEEEEEEE
Confidence            999999999999999999999999999999999999999999999999999999999974 4568999999975

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

Probab=99.96  E-value=2.2e-29  Score=231.41  Aligned_cols=230  Identities=14%  Similarity=0.208  Sum_probs=177.8

Q ss_pred             CCCceEEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEE-eCCEEEEEEeEeeccCCCcc---
Q 023397            6 SSGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQ-RGRTVEIFNSFELLYDPSTH---   81 (283)
Q Consensus         6 ~~~~~V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~-~~~~veI~nsF~vp~~~~~~---   81 (283)
                      ....+|.|+|+|+|+|++|+.+.                    .+..|+|+|||.. +++.++|+|||++|..+++.   
T Consensus        22 ~~~~~V~is~lallkm~~Ha~~~--------------------~~~eV~GlLlG~~~~~~~v~Vt~~f~~P~~~~~~~v~   81 (306)
T 4b4t_V           22 DTKETVYISSIALLKMLKHGRAG--------------------VPMEVMGLMLGEFVDDYTVNVVDVFAMPQSGTGVSVE   81 (306)
T ss_dssp             SSCCEEEECHHHHHHHHHHTCSC--------------------SSSCCEEEEEEEEETTTEEEEEEEECCCCEESSSCEE
T ss_pred             CCCCEEEEeHHHHHHHHHHhcCC--------------------CCceEEEEEeeEEcCCeEEEEEEEEeCCcCCCCCchh
Confidence            45779999999999999998532                    1468999999986 56689999999999976554   


Q ss_pred             cccHHHHHHHHHHHHHhCCCcceEEEEecCCC----CCcchHHHHHHHhhhCCCcEEEEEcCCCCCCCCCcceEEEEeee
Q 023397           82 SLDRAFLEKKQELYKKVFPHFYILGWYSTGSD----AQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESEL  157 (283)
Q Consensus        82 ~iD~~~~~~m~~l~k~V~p~~~iVGWY~tg~~----~~~~d~~ih~~~~~~~~~pi~L~~D~~~~~~~~~lpi~~y~~~~  157 (283)
                      .+|.+|+.+|.++++++++++.+||||++++.    ++..|+..|..|+..++++|+|++||..+ .+|+++++||++..
T Consensus        82 ~~d~~y~~~m~~~~~~v~~~~~vVGWYhShP~~~~~~S~~Di~tq~~yQ~~~~~~V~lV~Dp~~t-~~G~~~i~Afr~~~  160 (306)
T 4b4t_V           82 AVDDVFQAKMMDMLKQTGRDQMVVGWYHSHPGFGCWLSSVDVNTQKSFEQLNSRAVAVVVDPIQS-VKGKVVIDAFRLID  160 (306)
T ss_dssp             CCCHHHHHHHHHHHHHHSCCCCCSEEEEECCSSSCCCCHHHHHHHHHHHHHCSSCEEEEECSSSS-SSCSSCEEEEECCH
T ss_pred             cCCHHHHHHHHHHHHHhCCCcceeeEEecCCCCCCcCCHHHHHHHHHHHhcCCCcEEEEECCCcC-CCCceeeeEEEecC
Confidence            48999999999999999999999999999764    67789999999999999999999999864 56899999999742


Q ss_pred             cc--cc-----------CC------------ceeeEEEeeeeeecchhhHHHHHHHhccCCCCCCChhhhhhhcHHHHHH
Q 023397          158 HV--IE-----------GI------------PQLIFVRSSYTIETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHS  212 (283)
Q Consensus       158 ~~--~~-----------g~------------~~~~f~~v~~~i~~~e~ErI~v~~l~~~~~~~~~~~~~~~~~~l~~~~~  212 (283)
                      ..  ..           |.            ....|.++++++..++.|+..++.+.+....    ..-....-......
T Consensus       161 ~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~yy~l~i~~~ks~le~~~L~~L~~~~w~----~~l~~~~~~~~~~~  236 (306)
T 4b4t_V          161 TGALINNLEPRQTTSNTGLLNKANIQALIHGLNRHYYSLNIDYHKTAKETKMLMNLHKEQWQ----SGLKMYDYEEKEES  236 (306)
T ss_dssp             HHHHHCCCCCSCC----------------------CEEECSCCCCCSSCTHHHHHHHHC--------------CHHHHHH
T ss_pred             ccccccccCcccccccccccCchhhhhhhccccceEEEeeeEEEeCcHHHHHHHHHHhcccc----cccccCcHHHHHHH
Confidence            11  00           00            1245899999999999999999999875221    11122333456677


Q ss_pred             HHHHHHHHHHHHHHHHHHhhcCCCCCChHHHHHHHHHHhcCCCCCh-----HHHHHHHH
Q 023397          213 AIKMLNSRIRVLHHYLVAMQKGEIPCENSLLRQVSSLLRRLPAIES-----EKFQDDFL  266 (283)
Q Consensus       213 ai~~L~~~i~~i~~Yl~~V~~G~~~~d~~ilR~i~~l~~~lP~~~~-----~~f~~~~~  266 (283)
                      +.+.+.++++.+.+|.+.|.+++...+.++.      ...+|++++     +.++..++
T Consensus       237 ~~~~i~~m~~~~~~y~k~v~~e~~~~~~~l~------~~~vgk~dp~~~l~~~~~~l~~  289 (306)
T 4b4t_V          237 NLAATKSMVKIAEQYSKRIEEEKELTEEELK------TRYVGRQDPKKHLSETADETLE  289 (306)
T ss_dssp             HHHHHHHHSSCHHHHHHHHHHHHHHHHHHHH------HTCSCSSCCSSSSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHccccCCHHHHH------hhccCccChHHHHHHHHHHHHH
Confidence            7888999999999999999988665555553      567888877     66666654

>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=99.21  E-value=1e-10  Score=99.21  Aligned_cols=121  Identities=12%  Similarity=0.063  Sum_probs=93.1

Q ss_pred             CCceEEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCEEEEEEeEeeccCCCcc-c--c
Q 023397            7 SGLTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTH-S--L   83 (283)
Q Consensus         7 ~~~~V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~~-~--i   83 (283)
                      .-..|.|-..++..|+.|+.++...                  +..++|.|+|...++..+|+++|++|.....+ +  .
T Consensus         7 ~~~~v~i~~~~l~k~l~hA~~~~~~------------------~~EvcGlL~G~~~~~~~~V~~v~~~pq~~t~~~~~~~   68 (178)
T 2znr_A            7 GLRCVVLPEDLCHKFLQLAESNTVR------------------GIETCGILCGKLTHNEFTITHVIVPKQSAGPDYCDME   68 (178)
T ss_dssp             SCCCEEEETTHHHHHHHHHHHHHTT------------------TCCCEEEEEEEEETTEEEEEEEEECCEEEETTEEEEC
T ss_pred             CcEEEEECHHHHHHHHHHHHhCCCC------------------CceEEEEEeeEecCCCeEEEEEEeCCcCCCCCeeccC
Confidence            3457899999999999999887522                  25799999999998899999999999764333 1  3


Q ss_pred             cHHHHHHHHHHHHHhCCCcceEEEEecCC----CCCcchHHHHHHHhhhCCCcEEEEEcCCCCCCCCCcceEEEEee
Q 023397           84 DRAFLEKKQELYKKVFPHFYILGWYSTGS----DAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESE  156 (283)
Q Consensus        84 D~~~~~~m~~l~k~V~p~~~iVGWY~tg~----~~~~~d~~ih~~~~~~~~~pi~L~~D~~~~~~~~~lpi~~y~~~  156 (283)
                      +.+-   .++.  ....++.+||||+|.+    .++..|+..|..|+...+..++++++|...      .+++|+..
T Consensus        69 ~~~e---~~~~--~~~~~l~~vGwyHSHP~~~~~pS~~Dv~tq~~yq~~~~~~v~iIvsp~~~------~~~afrl~  134 (178)
T 2znr_A           69 NVEE---LFNV--QDQHDLLTLGWIHTHPTQTAFLSSVDLHTHCSYQLMLPEAIAIVCSPKHK------DTGIFRLT  134 (178)
T ss_dssp             CHHH---HHHH--HHHHTCEEEEEEEECSSSCSCCCHHHHHHHHHHHHHCTTCEEEEEEGGGT------EEEEEEEC
T ss_pred             CHHH---HHHH--HHhCCCEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhcCCEEEEEEcCCCC------cceEEEEE
Confidence            3321   1111  3346899999999974    588889999988988888889999999842      37999864

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

Probab=99.05  E-value=1.8e-09  Score=93.63  Aligned_cols=118  Identities=11%  Similarity=0.133  Sum_probs=89.9

Q ss_pred             ceEEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCEEEEEEeEeeccCCCcc---cccH
Q 023397            9 LTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTH---SLDR   85 (283)
Q Consensus         9 ~~V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~~---~iD~   85 (283)
                      ..|.|-.-++-.|+.|...+..+                  +..++|.|+|...++..+|+++|..|....++   ..+.
T Consensus        42 r~v~Ipk~ll~kfL~~A~~~tp~------------------~~EvcGlL~Gk~~~~~~~I~~v~~ppq~gt~~~v~~~~~  103 (211)
T 3rzv_A           42 RHVVVPGRLCPQFLQLASANTAR------------------GVATCGILCGKLMRNEFTITHVLIPKQSAGSDYCNTENE  103 (211)
T ss_dssp             CCEEEETTHHHHHHHHHHHHHHT------------------TCCCEEEEEEEEETTEEEEEEEEECCEEECSSCEEECCH
T ss_pred             EEEEECHHHHHHHHHHHHhCCCC------------------CceEEEEEEeEcCCCCEEEEEEEeCCccCCCCceeccCh
Confidence            47888888999999998876422                  25799999999999999999999888754443   2332


Q ss_pred             -HHHHHHHHHHHHhCCCcceEEEEecCC----CCCcchHHHHHHHhhhCCCcEEEEEcCCCCCCCCCcceEEEEee
Q 023397           86 -AFLEKKQELYKKVFPHFYILGWYSTGS----DAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESE  156 (283)
Q Consensus        86 -~~~~~m~~l~k~V~p~~~iVGWY~tg~----~~~~~d~~ih~~~~~~~~~pi~L~~D~~~~~~~~~lpi~~y~~~  156 (283)
                       +.++-+.+      .++.+||||++.+    .++..|+..|..|+...+..|++++||...      ++.||+..
T Consensus       104 ~e~~~~~~~------~~l~~vGWyHSHP~~~~~pS~~Dl~tq~~~q~~~~~~I~IVvsP~~~------~lgaFrLt  167 (211)
T 3rzv_A          104 EELFLIQDQ------QGLITLGWIHTHPTQTAFLSSVDLHTHCSYQMMLPESVAIVCSPKFQ------ETGFFKLT  167 (211)
T ss_dssp             HHHHHHHHH------HTCEEEEEEEECTTSCSCCCHHHHHHHHHHHHHCTTCEEEEEETTTT------EEEEEEEC
T ss_pred             HHHHHHHhh------CCCEEEEEEeCCCCCCCCCCHHHHHHHHHHHhcCCCeEEEEEcCCCC------eeeEEEec
Confidence             22211111      4899999999964    588899999988888888889999998731      79999975

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

Probab=98.68  E-value=1e-06  Score=71.95  Aligned_cols=128  Identities=11%  Similarity=0.053  Sum_probs=88.5

Q ss_pred             EEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCEEEEEEeEeeccCCCcc--c-ccHHH
Q 023397           11 FKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTH--S-LDRAF   87 (283)
Q Consensus        11 V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~~--~-iD~~~   87 (283)
                      +.+...++..|..|..+..                    +..++|.|+|..+++...|+..|++|....+.  + +|...
T Consensus         2 l~i~~~~l~~i~~ha~~~~--------------------p~E~cGlL~G~~~~~~~~v~~~~p~~n~~~~~~~f~~dp~~   61 (146)
T 2kks_A            2 ITLTKKQMEEMLAHARQAL--------------------PNEACGLLGGRRDGDDRWVERVYPLNNLDQSPEHFSMDPRE   61 (146)
T ss_dssp             EEEEHHHHHHHHHHHHHHT--------------------TSCEEEEEEEEEETTEEEEEEEECCCCCSCCSSSCCCCHHH
T ss_pred             EEECHHHHHHHHHHHHhcC--------------------CcceEEEEEEEEcCCCcEEEEEEECCCcCCCCceEEECHHH
Confidence            5678889999999987643                    46899999999998889999999999543322  3 77666


Q ss_pred             HHHHHHHHHHhCCCcceEEEEecCC----CCCcchHHHHHHHhhhCCCcEEEEEcCCCCCCCCCcceEEEEeeeccccCC
Q 023397           88 LEKKQELYKKVFPHFYILGWYSTGS----DAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGI  163 (283)
Q Consensus        88 ~~~m~~l~k~V~p~~~iVGWY~tg~----~~~~~d~~ih~~~~~~~~~pi~L~~D~~~~~~~~~lpi~~y~~~~~~~~g~  163 (283)
                      +.+..+...+  .++.+||||++.+    .++..|..  .  +.. ...+++++.+..   .+...+++|..    .+|.
T Consensus        62 ~~~~~~~~~~--~g~~ivG~~HSHP~~~~~PS~~D~~--~--~~~-~~~~~lIvs~~~---~~~~~~~af~~----~~~~  127 (146)
T 2kks_A           62 QLTAVKDMRK--NGWVMLGNFHSHPATPARPSAEDKR--L--AFD-PSLSYLIISLAE---PQKPVCKSFLI----KKDG  127 (146)
T ss_dssp             HHHHHHHHHH--HTCEEEEEEEEESSSCSSCCHHHHT--T--CCS-SSCEEEEEECSC---SSSCEEEEEEE----CSSC
T ss_pred             HHHHHHHHHH--CCCEEEEEEeCCCcCCCCCCHHHHH--h--hhc-CCCeEEEEEccC---CCceEEEEEEE----eCCe
Confidence            5555544443  2579999999965    35555542  1  222 344788887652   23457899986    2333


Q ss_pred             ceeeEEEeeeeee
Q 023397          164 PQLIFVRSSYTIE  176 (283)
Q Consensus       164 ~~~~f~~v~~~i~  176 (283)
                          |.++++.+.
T Consensus       128 ----~~e~~i~~~  136 (146)
T 2kks_A          128 ----VDEEEIILK  136 (146)
T ss_dssp             ----EEEECEEEE
T ss_pred             ----EEEEEEEEe
Confidence                888888774

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

Probab=98.41  E-value=1.1e-06  Score=72.23  Aligned_cols=129  Identities=12%  Similarity=0.118  Sum_probs=84.2

Q ss_pred             EEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEe-CCEEEEEEeEeeccC--CCc-c-c-ccH
Q 023397           12 KLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQR-GRTVEIFNSFELLYD--PST-H-S-LDR   85 (283)
Q Consensus        12 ~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~-~~~veI~nsF~vp~~--~~~-~-~-iD~   85 (283)
                      .|.+.++..|..|..+..                    +..++|.|+|..+ ++.+.|+..|++|..  .+. . + +|.
T Consensus         2 ~i~~~~l~~i~~ha~~~~--------------------p~E~cGlL~G~~~~~~~~~v~~~~p~~n~~~~~~~~~f~~dp   61 (153)
T 2kcq_A            2 KTTPDILDQIRVHGADAY--------------------PEEGCGFLLGTVTDDGDNRVAALHRATNRRSEQRTRRYELTA   61 (153)
T ss_dssp             BCCHHHHHHHHHHHHHHT--------------------TSCCCEEEEEEECTTSCEEEEEEEESSCCCCCCCSCCSSCCC
T ss_pred             EeCHHHHHHHHHHHHhcC--------------------CcceEEEEEEeeccCCCeEEEEEEECCCCCCCCCCcEEEECH
Confidence            456778899999988753                    4679999999997 788899999999875  222 2 2 554


Q ss_pred             HHHHHHHHHHHHhCCCcceEEEEecCCC----CCcchHHHHHHHhhhCCCcEEEEEcCCCCCCCCC-cceEEEEeeeccc
Q 023397           86 AFLEKKQELYKKVFPHFYILGWYSTGSD----AQESDMHIHKALMDINESPVYVLLNPSINPAQKD-LPVTIFESELHVI  160 (283)
Q Consensus        86 ~~~~~m~~l~k~V~p~~~iVGWY~tg~~----~~~~d~~ih~~~~~~~~~pi~L~~D~~~~~~~~~-lpi~~y~~~~~~~  160 (283)
                      ..+.+..+..++.  ++.+||||++.+.    ++..|..  .  + .....+++++.+..    ++ ..+++|+..    
T Consensus        62 ~~~~~~~~~~~~~--g~~ivG~yHSHP~~~~~PS~~D~~--~--~-~~~~~~~lIvs~~~----~~~~~~~af~~~----  126 (153)
T 2kcq_A           62 DDYRAADAAAQEQ--GLDVVGVYHSHPDHPARPSATDLE--E--A-TFPGFTYVIVSVRD----GAPEALTAWALA----  126 (153)
T ss_dssp             CSHHHHHHHHHHH--TCEEEEEEEECSSSSSSCCHHHHH--T--C-CCTTSEEEEEEEET----TEEEEEEEEEEC----
T ss_pred             HHHHHHHHHHHHC--CCeEEEEEeCCCCCCCCCCHHHHH--h--h-hcCCCeEEEEECCC----CCccEEEEEEEe----
Confidence            3333333333333  5899999999763    5555642  2  1 22345788887531    22 358899852    


Q ss_pred             cCCceeeEEEeeeeeec
Q 023397          161 EGIPQLIFVRSSYTIET  177 (283)
Q Consensus       161 ~g~~~~~f~~v~~~i~~  177 (283)
                      ++  ...|.+.++.|..
T Consensus       127 ~~--~g~~~e~~i~v~~  141 (153)
T 2kcq_A          127 PD--RSEFHREDIVRPD  141 (153)
T ss_dssp             TT--CSCEEEECCBCCC
T ss_pred             CC--CCcEEEEEEEEec
Confidence            11  1238888887754

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

Probab=97.52  E-value=0.00057  Score=53.81  Aligned_cols=104  Identities=8%  Similarity=0.032  Sum_probs=64.8

Q ss_pred             EEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCEEEEEEeEeeccCCCcccccHHHHHH
Q 023397           11 FKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTHSLDRAFLEK   90 (283)
Q Consensus        11 V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~~~iD~~~~~~   90 (283)
                      +.+...++..|.+|..+..                    +..++|.|+|...    .|+..|++| ...+. ....|...
T Consensus         4 v~i~~~~l~~i~~ha~~~~--------------------P~E~cGlL~g~~~----~v~~~~~~p-~~~~~-~~~~f~~~   57 (124)
T 1oi0_A            4 MKISRGLLKTILEAAKSAH--------------------PDEFIALLSGSKD----VMDELIFLP-FVSGS-VSAVIHLD   57 (124)
T ss_dssp             CEECHHHHHHHHHHHHHHT--------------------TSCCEEEEEESTT----EECEEEECC-CCC-----------
T ss_pred             EEEcHHHHHHHHHHHHhcC--------------------CCeeEEEEecccC----EEEEEEECC-CCCCC-cCceeeee
Confidence            6788889999999998753                    4689999999863    788999999 43321 11122222


Q ss_pred             HHHHHHHhCCCcceEEEEecCC----CCCcchHHHHHHHhhhCCCcEEEEEcCCCCCCCCCcceEEEEe
Q 023397           91 KQELYKKVFPHFYILGWYSTGS----DAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFES  155 (283)
Q Consensus        91 m~~l~k~V~p~~~iVGWY~tg~----~~~~~d~~ih~~~~~~~~~pi~L~~D~~~~~~~~~lpi~~y~~  155 (283)
                      |..      .++.+||||++.+    .++..|...    +.. ...+++++.+..    +.-.+++|..
T Consensus        58 ~~~------~~~~ivG~~HSHP~~~~~PS~~D~~~----~~~-~~~~~lIvs~~~----~~~~~~~f~~  111 (124)
T 1oi0_A           58 MLP------IGMKVFGTVHSHPSPSCRPSEEDLSL----FTR-FGKYHIIVCYPY----DENSWKCYNR  111 (124)
T ss_dssp             ---------CCCEEEEEEEEESSSCCSCCHHHHHH----HHH-SCSEEEEEETTC----CTTCEEEEET
T ss_pred             ecc------CCCEEEEEEEECcCCCCccCHHHHHh----hhc-CCCEEEEEEccC----CCceEEEEec
Confidence            221      5689999999965    355566432    222 345788887542    2235788873

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

Probab=93.31  E-value=0.25  Score=43.87  Aligned_cols=91  Identities=20%  Similarity=0.304  Sum_probs=61.6

Q ss_pred             CceEEEEeeEEe---CCEEEEEEeEeeccCCCcccc-------cHHHHHHHHHHHHHhCCCcceEEEEecCC----CCCc
Q 023397           51 PRVYGCVIGIQR---GRTVEIFNSFELLYDPSTHSL-------DRAFLEKKQELYKKVFPHFYILGWYSTGS----DAQE  116 (283)
Q Consensus        51 ~~v~G~LLG~~~---~~~veI~nsF~vp~~~~~~~i-------D~~~~~~m~~l~k~V~p~~~iVGWY~tg~----~~~~  116 (283)
                      ..++|.|.|.-.   .+..||+.---+|...+.+.+       ..+|+           -++..+||=+|.+    .+++
T Consensus        59 Tq~~G~LyG~s~~d~~~vkeI~~ivipPQ~gt~~sv~~~~~~p~~~~l-----------~dLe~LGWIHTqp~e~~~LSs  127 (273)
T 2p8r_A           59 TQIAGFMYGVSPPDNPQVKEIRCIVLVPQTGSHQQVNLPTQLPDHELL-----------RDFEPLGWMHTQPNELPQLSP  127 (273)
T ss_dssp             SCCEEEEEEECCTTCTTEEEEEEEECCSBEECSSCEECCSSCCCCTTT-----------TTSEEEEEEEEESSCCSSCCH
T ss_pred             ceEEEEEeccCCCCCCCeEEEEEEEECCccCCCceEECCCcCcchhhh-----------ccccccceEeeCCCCCCCcCH
Confidence            579999999973   356778655444543222211       12332           7999999999954    5888


Q ss_pred             chHHHHHHHhhh----C-CCcEEEEEcCCCCCCCCCcceEEEEee
Q 023397          117 SDMHIHKALMDI----N-ESPVYVLLNPSINPAQKDLPVTIFESE  156 (283)
Q Consensus       117 ~d~~ih~~~~~~----~-~~pi~L~~D~~~~~~~~~lpi~~y~~~  156 (283)
                      .|+..|..|+..    . +..|.+++-+.+    +...+.||+..
T Consensus       128 ~Dl~tH~~~~~~~~~~~~~e~I~Ivcsftp----gs~sl~af~LT  168 (273)
T 2p8r_A          128 QDVTTHAKLLTDNISWDGEKTVMITCSFTP----GSVSLTAYKLT  168 (273)
T ss_dssp             HHHHHHHHHHHHCTTCCTTTCEEEEEEEET----TEEEEEEEEEC
T ss_pred             HHHHHHHHHHhcccccCCCceEEEEEecCC----CCceeEEEEcC
Confidence            999999888764    2 367888776543    44568899864

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

Probab=90.74  E-value=0.62  Score=40.89  Aligned_cols=93  Identities=13%  Similarity=0.158  Sum_probs=61.7

Q ss_pred             CceEEEEeeEEe---CCEEEEEEeEeeccCCCcccc-------cHHHHHHHHHHHHHhCCCcceEEEEecCC----CCCc
Q 023397           51 PRVYGCVIGIQR---GRTVEIFNSFELLYDPSTHSL-------DRAFLEKKQELYKKVFPHFYILGWYSTGS----DAQE  116 (283)
Q Consensus        51 ~~v~G~LLG~~~---~~~veI~nsF~vp~~~~~~~i-------D~~~~~~m~~l~k~V~p~~~iVGWY~tg~----~~~~  116 (283)
                      ..++|.|.|.-.   .+..||+.---+|...+.+.+       ..+|.+         --++..+||=+|.+    .+++
T Consensus        58 Tq~cG~LyG~~~~d~~~v~eI~~ivippQ~gt~~s~~~~~~~p~~~~~~---------l~dLe~LGWIHTqptq~~fLSs  128 (254)
T 2og4_A           58 IQVAAFIYGMSAKDHPKVKEIKTVVLVPQLGHVGSVQISNIPDIGDLPD---------TEGLELLGWIHTQTEELKFMAA  128 (254)
T ss_dssp             SCCEEEEEEEECSSCTTEEEEEEEECCCEEEETTEEEECCCCCCTTSTT---------CTTCEEEEEEEEESSCCSSCCH
T ss_pred             ceEEEEEEccCCCCCCCeEEEEEEEECCccCCCceEECCCcCccccchh---------hcCCEecceEeeCCCCCcccCH
Confidence            579999999983   356777644444432221111       112211         26899999999963    5888


Q ss_pred             chHHHHHHHhh-hCCCcEEEEEcCCCCCCCCCcceEEEEee
Q 023397          117 SDMHIHKALMD-INESPVYVLLNPSINPAQKDLPVTIFESE  156 (283)
Q Consensus       117 ~d~~ih~~~~~-~~~~pi~L~~D~~~~~~~~~lpi~~y~~~  156 (283)
                      .|+..|..|+. ..+..|.+++-+.+    +...+.+|+..
T Consensus       129 ~Dl~tH~~~~~~~~~eaIaIvcsftp----gs~sl~af~LT  165 (254)
T 2og4_A          129 SEVATHSKLFADKKRDCIDISIFSTP----GSVSLSAYNLT  165 (254)
T ss_dssp             HHHHHHHHHHTTTCTTCEEEEEEEET----TEEEEEEEEEC
T ss_pred             HHHHHHHHHHHhcCCCeEEEEEecCC----CCceeEEEEcC
Confidence            99999988887 44678888886553    44568899864

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

Probab=87.07  E-value=1.3  Score=42.53  Aligned_cols=97  Identities=12%  Similarity=0.120  Sum_probs=60.8

Q ss_pred             CceEEEEeeEEe-C--CEEEEEEeEeeccCCCcccccHHHHHHHHHHHHH---hCCCcceEEEEecCC----CCCcchHH
Q 023397           51 PRVYGCVIGIQR-G--RTVEIFNSFELLYDPSTHSLDRAFLEKKQELYKK---VFPHFYILGWYSTGS----DAQESDMH  120 (283)
Q Consensus        51 ~~v~G~LLG~~~-~--~~veI~nsF~vp~~~~~~~iD~~~~~~m~~l~k~---V~p~~~iVGWY~tg~----~~~~~d~~  120 (283)
                      ..++|.|.|... +  +..||+.---+|.-.+.+.++.. .   ...+ +   .-.++.++||=+|.+    .+++.|+.
T Consensus       369 TQicGyLyG~sp~dn~nVkEI~cIVipPQ~Gt~~sv~lp-~---lp~h-e~~~~l~dLe~LGWIHTqp~et~fLSs~Dl~  443 (565)
T 3sbg_A          369 IQVAAFIYGMSAKDHPKVKEIKTVVLVPQLGHVGSVQIS-N---IPDI-GDLPDTEGLELLGWIHTQTEELKFMAASEVA  443 (565)
T ss_dssp             SCCEEEEEEEEETTEEEEEEEEEEECCCEEECSSCEEEC-C---CCCC-TTSTTCTTCEEEEEEEEESSCCSSCCHHHHH
T ss_pred             ceeEEEEecCCCCCCCCeEEEEEEEECCccCCCceEECC-C---CCcc-ccccccccCEecceeeecCCcccccCHHHHH
Confidence            579999999985 2  45677544444443322222111 0   0000 0   126899999999853    58999999


Q ss_pred             HHHHHhhhC-CCcEEEEEcCCCCCCCCCcceEEEEee
Q 023397          121 IHKALMDIN-ESPVYVLLNPSINPAQKDLPVTIFESE  156 (283)
Q Consensus       121 ih~~~~~~~-~~pi~L~~D~~~~~~~~~lpi~~y~~~  156 (283)
                      .|..+...+ +..|.+.+-..    .|...+.||...
T Consensus       444 THakl~~~n~~~~I~itvsft----PGS~SLsAy~LT  476 (565)
T 3sbg_A          444 THSKLFADKKRDCIDISIFST----PGSVSLSAYNLT  476 (565)
T ss_dssp             HHHHHHSSSCTTCEEEEEEEE----TTEEEEEEEEEC
T ss_pred             HHHHHHHhCCCCeEEEEEEec----CCceEEEEEecC
Confidence            998887654 35577766554    366789999865

---

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	283
d1oi0a_	121	Hypothetical protein AF2198 {Archaeon Archaeoglobu	97.21

>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=97.21  E-value=0.0012  Score=50.06  Aligned_cols=104  Identities=8%  Similarity=0.042  Sum_probs=62.9

Q ss_pred             ceEEEehhhhhhHHHHHHhhhccccCCCCCcccCCCCCCCCCCceEEEEeeEEeCCEEEEEEeEeeccCCCccc-ccHHH
Q 023397            9 LTFKLHPLVIVNISDHYTRVKSQMNHSSSATTTNDDNNNGAQPRVYGCVIGIQRGRTVEIFNSFELLYDPSTHS-LDRAF   87 (283)
Q Consensus         9 ~~V~vHPlVll~I~dh~~R~~~~~~~~~~~~~~~~~~~~~~~~~v~G~LLG~~~~~~veI~nsF~vp~~~~~~~-iD~~~   87 (283)
                      .+++|-.-++-.|.+|+.+..                    +..+||.|+|..  +  .|+..+.+|....+.+ .+.  
T Consensus         2 ~~l~I~~~~l~~i~~hA~~~~--------------------P~E~cGlL~G~~--~--~i~~~~~~~n~~~~~~~~~~--   55 (121)
T d1oi0a_           2 SSMKISRGLLKTILEAAKSAH--------------------PDEFIALLSGSK--D--VMDELIFLPFVSGSVSAVIH--   55 (121)
T ss_dssp             CSCEECHHHHHHHHHHHHHHT--------------------TSCCEEEEEEST--T--EECEEEECCCCC----------
T ss_pred             CeEEECHHHHHHHHHHHHhcC--------------------CceeEEEEEecC--C--cEEEEEEcCCCCCCcccccc--
Confidence            456788888999999998765                    468999999963  2  3566677775432221 111  


Q ss_pred             HHHHHHHHHHhCCCcceEEEEecCC----CCCcchHHHHHHHhhhCCCcEEEEEcCCCCCCCCCcceEEEE
Q 023397           88 LEKKQELYKKVFPHFYILGWYSTGS----DAQESDMHIHKALMDINESPVYVLLNPSINPAQKDLPVTIFE  154 (283)
Q Consensus        88 ~~~m~~l~k~V~p~~~iVGWY~tg~----~~~~~d~~ih~~~~~~~~~pi~L~~D~~~~~~~~~lpi~~y~  154 (283)
                       ..|.      -.++.++|||++.+    .++..|+...    ... .-+++++-+-.    +.-.+++|.
T Consensus        56 -~~~~------~~~~~ivgi~HSHP~~~a~PS~~D~~~~----~~~-g~~~~Ivs~p~----~~~~~~~~~  110 (121)
T d1oi0a_          56 -LDML------PIGMKVFGTVHSHPSPSCRPSEEDLSLF----TRF-GKYHIIVCYPY----DENSWKCYN  110 (121)
T ss_dssp             ------------CCCEEEEEEEEESSSCCSCCHHHHHHH----HHS-CSEEEEEETTC----CTTCEEEEE
T ss_pred             -cchh------hcCCeEEEEEEecCCCCCCcCHHHHHhh----hcc-CCEEEEEeCCC----CCCCEEEEe
Confidence             1111      14789999999965    3666665332    222 23677776531    222688997