Citrus Sinensis ID: 039881

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-----
Protein Sequence
MAASFLQAAASTEKVNAPPALQVVQIEGLVLLKIIKHCKDLSPSWLRQENDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNISWADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDDLSTEQKKLKFYFKDVTRQQAWVQERRDENEARKAAGEDPLPEGDSSNPFFKPIPEPSRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKALHDD
Secondary Structure (PSIPRED)
cccHHHHHHHccccccccccccEEEEHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHHHHHcccccccEEEEEccccccccccHHHHHHHHHHHHHcccEEEEEEcccccccccccEEEEEEEccHHHHHHHHcccccccccccccccccccEEEEEEEEEccHHHHHHHHHccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHcccccccccccccEEEEHHHHHHHHHHHcHccccccccccccccccccccHHHHHHHHHHHHHHccccccEEEEEEEcccccccccHHHHHHHHHHHHHcccEEEEEEccccccccccEEEEEEEEccHHHHHHHHcccccHHHHHHccccHHHHHEEccEEEEcHHHHHHHHHHcccccccccccHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
MAASFLQAAAstekvnappalqvVQIEGLVLLKIIKHCkdlspswlrqendidqetddiGANYQLDMMSClrdanvdsnvvgwyqstppgdcfqsVEFIETFMNYKenigkcvciicdpsrsniqgGLAGLKALKLSDTFLELYrngnfsgeslrdkniswADVFEEITIRVSNSALVSAFMstlepdrvtdqsdhdrlqisskplleSNVEFLIRCMDDLSTEQKKLKFYFKDVTRQQAWVQERRDENEarkaagedplpegdssnpffkpipepsrleSLLITNRIADYCNQIHRVAGHSFSRLSLIKALHDD
Flexible Loop (DISEMBL)
MAASFLQAAastekvnappalQVVQIEGLVLLKIIKHCKDLSPSWLRQENDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNgnfsgeslrdknISWADVFEEITIRVSNSALVSAFMSTLepdrvtdqsdhdrlqisskpllesnvEFLIRCMDDLSTEQKKLKFYFKDvtrqqawvqerrdenearkaagedplpegdssnpfFKPIPEPSRLESLLITNRIADYCNQIHRvaghsfsrlslikalhdd
Low Complexity Region (SEG)
MAASFLQAAASTEKVNAPPALQVVQIEGLVLLKIIKHCKDLSPSWLRQENDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQgglaglkalklSDTFLELYRNGNFSGESLRDKNISWADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDDLSTEQKKLKFYFKDVTRQQAWVQERRDENEARKAAGEDPLPEGDSSNPFFKPIPEPSRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKALHDD
Disordered region (IsUnstruct)
*******************ALQVVQIEGLVLLKIIKHCKDLSPSWLRQENDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNISWADVFEEITIRVSNSALVSAFMS**********************LLESNVEFLIRCMDDLSTEQKKLKFYFKDVTRQQAWV*************************************ESLLITNRIADYCNQIHRVAGHSFSRLSLIK*****
Disordered Region (DISOPRED)
********************LQVVQIEGLVLLKIIKHCKDLSP**********QETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLE*****************SWADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDDLSTEQKKLKFYFKD*****************************************PSRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKAL***
Disordered Region (DISEMBL)
************EKVNAPPALQVVQIEGLVLLKIIKHCKDLSPSWLRQENDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNISWADVFEEITIRVSNSALVSAFMSTLEPD*********RLQISSKPLLESNVEFLIRCMDDLSTEQKKLKFYFKDVTRQQAWV*********************DSSNPFFKPIPEPSRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKALHDD
Disordered Region (DISPRO)
*****************PPALQVVQIEGLVLLKIIKHCKDLSPSWLRQE******TDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNISWADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDDLSTEQKKLKFYFKDVTRQQAWVQERRDENEARKAAGEDPLPEGDSSNPFFKPIPEPSRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKALHD*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAASFLQAAASTEKVNAPPALQVVQIEGLVLLKIIKHCKDLSPSWLRQENDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNISWADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDDLSTEQKKLKFYFKDVTRQQAWVQERRDENEARKAAGEDPLPEGDSSNPFFKPIPEPSRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKALHDD
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	315	2.2.26 [Sep-21-2011]
Q9C5Z2	337	Eukaryotic translation in	yes	no	0.984	0.919	0.592	1e-109
A7SA47	332	Eukaryotic translation in	N/A	no	0.933	0.885	0.346	2e-46
Q54UD0	319	Eukaryotic translation in	yes	no	0.892	0.880	0.358	1e-43
Q9GV27	337	Eukaryotic translation in	N/A	no	0.920	0.860	0.330	9e-38
B5RI54	344	Eukaryotic translation in	N/A	no	0.901	0.825	0.328	2e-36
Q6P381	335	Eukaryotic translation in	yes	no	0.914	0.859	0.323	3e-36
Q5PPY6	334	Eukaryotic translation in	N/A	no	0.939	0.886	0.326	4e-36
Q5ZLE6	348	Eukaryotic translation in	yes	no	0.911	0.824	0.325	3e-35
B5FY35	348	Eukaryotic translation in	yes	no	0.911	0.824	0.325	7e-35
Q6P9U8	352	Eukaryotic translation in	yes	no	0.917	0.821	0.330	1e-34

>sp|Q9C5Z2|EIF3H_ARATH Eukaryotic translation initiation factor 3 subunit H OS=Arabidopsis thaliana GN=TIF3H1 PE=2 SV=2

 Score =  395 bits (1016), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 201/339 (59%), Positives = 254/339 (74%), Gaps = 29/339 (8%)

Query: 1   MAASFLQAAASTEKVNAPPALQVVQIEGLVLLKIIKHCKDLSPSWLRQE----------- 49
           MA SFLQA +  E V APP L+VVQIEGL +LKIIKHCK+ SP+ +  +           
Sbjct: 4   MARSFLQAISKDEAV-APP-LRVVQIEGLAVLKIIKHCKEFSPTLVTGQLLGLDVGSVLE 61

Query: 50  ---------NDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIE 100
                     D D+E +  GANYQL+MM CLR+ NVD+N VGWYQST  G  +Q+VE IE
Sbjct: 62  VTNCFPFPVRDDDEEIEADGANYQLEMMRCLREVNVDNNTVGWYQSTVLGS-YQTVELIE 120

Query: 101 TFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNIS 160
           TFMNY+ENI +CVCII DPS++++  G+  LKALKLSD+F+ELYR GNF+GE LR+KN S
Sbjct: 121 TFMNYQENIKRCVCIIYDPSKADL--GVLALKALKLSDSFMELYRGGNFTGEKLREKNFS 178

Query: 161 WADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDD 220
           W D+FEEI I+VSNSALVSAFM+ LE D    Q D+DRL  S+ P LE+N+EFLI+CMDD
Sbjct: 179 WMDIFEEIPIKVSNSALVSAFMTELETDTPVSQGDYDRLHSSTTPFLENNMEFLIKCMDD 238

Query: 221 LSTEQKKLKFYFKDVTR----QQAWVQERRDENEARKAAGEDPLPEGDSSNPFFKPIPEP 276
           LS EQ+K ++Y+++++R    QQAW+Q+RR EN ARK+AGE+PLPE D SNP FK IPEP
Sbjct: 239 LSMEQQKFQYYYRNLSRQQAQQQAWLQKRRTENMARKSAGEEPLPEEDPSNPIFKAIPEP 298

Query: 277 SRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKALHDD 315
           SRLES LITN+++++C QI+ VAG +FSRL L KALHD+
Sbjct: 299 SRLESFLITNQVSNFCGQINGVAGQNFSRLYLTKALHDN 337

Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is involved in protein synthesis and, together with other initiation factors, stimulates binding of mRNA and methionyl-tRNAi to the 40S ribosome.
Arabidopsis thaliana (taxid: 3702)

>sp|A7SA47|EIF3H_NEMVE Eukaryotic translation initiation factor 3 subunit H OS=Nematostella vectensis GN=v1g168210 PE=3 SV=1

 Score =  186 bits (473), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 113/326 (34%), Positives = 184/326 (56%), Gaps = 32/326 (9%)

Query: 16  NAPPA-LQVVQIEGLVLLKIIKHCKDLSPSW---------LRQENDID------------ 53
           N+P   + +VQ++GL +LKIIKHC++   S          L Q+N ++            
Sbjct: 9   NSPSGQIDIVQVDGLTVLKIIKHCEEEGSSGDLVQGVLLGLIQDNRLEITNCFPFPSNKA 68

Query: 54  -QETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKC 112
             + DD   NYQ+++M  LR  N+D   VGWYQST  G        +++  +Y+++I + 
Sbjct: 69  GDDEDDDDVNYQMEVMRRLRAVNIDHLHVGWYQSTYLGSYINRT-LLDSQYSYQKSIEES 127

Query: 113 VCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNISWADVFEEITIRV 172
           V +I DP R++   G+  LKA +LSD  ++LY++G FS + L    IS+  +F+EI + +
Sbjct: 128 VVLIYDPLRTS--QGMLTLKAFRLSDEMMKLYKDGEFSADKLSKAGISFHSMFQEIPLVI 185

Query: 173 SNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDDLSTEQKKLKFYF 232
            NS+L++  +  L+ +  T  +D   L +S+   LE NV  L+  +D+L  +  K   Y 
Sbjct: 186 KNSSLMNVLLCELDENTPTPSADQ-FLTLSTGSYLEKNVRVLMESVDELCQDSNKYHNYQ 244

Query: 233 KDVTRQQA----WVQERRDENEARKAAGEDPLPEGDSSNPFFKPIPEPSRLESLLITNRI 288
           + V RQQ     ++Q R+ EN++R   GEDPLP+ D S   FKP+P PSRL++LL++ ++
Sbjct: 245 RSVIRQQQQKENYLQRRQQENQSRIQRGEDPLPDEDLSK-MFKPLPVPSRLDNLLLSEQV 303

Query: 289 ADYCNQIHRVAGHSFSRLSLIKALHD 314
             YC  +H+ +  SF +  L +AL D
Sbjct: 304 NTYCQHVHQFSTQSFGKFFLAQALQD 329

Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is involved in protein synthesis and, together with other initiation factors, stimulates binding of mRNA and methionyl-tRNAi to the 40S ribosome.

Nematostella vectensis (taxid: 45351)

>sp|Q54UD0|EIF3H_DICDI Eukaryotic translation initiation factor 3 subunit H OS=Dictyostelium discoideum GN=eif3H PE=3 SV=1

 Score =  177 bits (448), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 113/315 (35%), Positives = 175/315 (55%), Gaps = 34/315 (10%)

Query: 21  LQVVQIEGLVLLKIIKHCKDLSPSWLRQE--------------------NDIDQETDDIG 60
           L VVQI+GLV+LKIIK CK+  P  +  +                     D + E  +  
Sbjct: 16  LDVVQIDGLVVLKIIKQCKEYLPELVPGQLLGLDIGTSLEVSNCFPFPPRDQEDENSESI 75

Query: 61  ANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIG-KCVCIICDP 119
           A+YQL+MM  LR+ N+DSN VGWY  T     F     IET  NY+  I  KCV I+ DP
Sbjct: 76  ADYQLEMMRFLREVNIDSNTVGWYTPTYLNSFFNE-SVIETQYNYQATINQKCVVIVYDP 134

Query: 120 SRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNISWADVFEEITIRVSNSALVS 179
            +++ QG L+ LK  +L+ +F+EL+++ +FS E L   N+S+ D+FE+I I++ NS L++
Sbjct: 135 IKTS-QGTLS-LKCYRLTQSFMELFKDQSFSRERLDQANLSFNDIFEQIPIKIHNSQLIN 192

Query: 180 AFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDDLSTEQKKLKFYFKDVTRQQ 239
           A +   +       +  DRL IS+   LE  VE +  C++ L+ E  K+    +++  Q+
Sbjct: 193 ALLYEFDGASNNLTNSFDRLNISNNIYLEKVVEGMTDCLESLNQELNKVYINQRNIQTQK 252

Query: 240 A-WVQERRDENEARKAAGEDPLPEGDSSNPFFKPIPEPSRLESLLITNRIADYCNQIHRV 298
             ++Q++  E +      ED L          KP+  PS+L SLL+TN+I +Y +QIH  
Sbjct: 253 TNYIQQKFLEGQ---KVDEDELAS------MIKPLNPPSKLTSLLLTNQINNYTDQIHSF 303

Query: 299 AGHSFSRLSLIKALH 313
           +G+S ++LSL+K L 
Sbjct: 304 SGNSLTKLSLLKDLQ 318

Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is involved in protein synthesis and, together with other initiation factors, stimulates binding of mRNA and methionyl-tRNAi to the 40S ribosome.

Dictyostelium discoideum (taxid: 44689)

>sp|Q9GV27|EIF3H_BOMMO Eukaryotic translation initiation factor 3 subunit H OS=Bombyx mori PE=2 SV=1

 Score =  157 bits (397), Expect = 9e-38,   Method: Compositional matrix adjust.
 Identities = 105/318 (33%), Positives = 165/318 (51%), Gaps = 28/318 (8%)

Query: 20  ALQVVQIEGLVLLKIIKHCKDLSPS----------WLRQENDID-------QETDDI--G 60
            +Q VQ +GL ++KI+KHC + S S           L  EN ++        + DD    
Sbjct: 17  TIQYVQCDGLAVMKIVKHCHEESCSNMEVAQGALLGLVVENRLEITNCFPFPKHDDTMDE 76

Query: 61  ANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPS 120
             YQLDMM  LR  NVD   VGWYQS   G+ F S+  +E+  +Y+ +I + V +I D  
Sbjct: 77  EEYQLDMMRRLRRVNVDHFHVGWYQSADVGN-FLSLSLLESQYHYQTSIEESVVVIYDTK 135

Query: 121 RSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNISWADVFEEITIRVSNSALVSA 180
           +S    G   LKA +L+   + +Y+ G+++ E+LR+  I + ++F E+ I + NS L + 
Sbjct: 136 KS--ARGFLTLKAYRLTPQAIAMYKEGDYTPEALRNLKIGYENLFIEVPIVIRNSPLTNI 193

Query: 181 FMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDDLSTEQKKLKFYFKDVTRQQA 240
            +S L  + + ++     L + +  +LE  +  L+  +D+L+ E  K   Y + V RQQ 
Sbjct: 194 MISEL-TEMIPEEEGSKFLDLGTASVLEGQLRSLMERVDELNQEAIKFNRYQQLVVRQQQ 252

Query: 241 ----WVQERRDENEARKAAGEDPLPEGDSSNPFFKPIPEPSRLESLLITNRIADYCNQIH 296
               W+ +R  EN AR A  E PLPE D  N  FKP P P RL  +++  +I  Y   I 
Sbjct: 253 DKHRWMVKRAQENAARAAKDETPLPEED-VNKLFKPHPVPPRLNPMIVAGQIDTYSQHIS 311

Query: 297 RVAGHSFSRLSLIKALHD 314
           +    S ++L L +AL +
Sbjct: 312 QFCSQSLAKLYLTQALQN 329

Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is involved in protein synthesis and, together with other initiation factors, stimulates binding of mRNA and methionyl-tRNAi to the 40S ribosome.

Bombyx mori (taxid: 7091)

>sp|B5RI54|EIF3H_SALSA Eukaryotic translation initiation factor 3 subunit H OS=Salmo salar GN=eif3h PE=2 SV=1

 Score =  152 bits (385), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 103/314 (32%), Positives = 168/314 (53%), Gaps = 30/314 (9%)

Query: 24  VQIEGLVLLKIIKHCKDLSPS---------WLRQENDID--------QETDDIG----AN 62
           +QIEGLV+LK+IKH ++              L  E+ ++        Q T+D        
Sbjct: 31  IQIEGLVVLKMIKHYQEEGQGSEVVQGVLLGLVVEDRLEITNCFPFPQHTEDDADFDEVQ 90

Query: 63  YQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRS 122
           YQ++MM  LR  N+D   VGWYQST  G  F S   +++  +Y+  I + V +I DP ++
Sbjct: 91  YQMEMMRSLRHVNIDHLHVGWYQSTYYG-SFVSRALLDSQFSYQHAIEESVVLIYDPIKT 149

Query: 123 NIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNISWADVFEEITIRVSNSALVSAFM 182
             QG L+ LKA +L+   +E+ +  +FS E L+   I +  +FEE+ I + NS L++  M
Sbjct: 150 -AQGSLS-LKAYRLTPKLMEICKEKDFSAEGLKKAMIGFEHMFEEVPIVIKNSHLINVLM 207

Query: 183 STLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDDLSTEQKKLKFYFKDVTR----Q 238
             LE ++ T    H+ L +SS   LE +++ L+  +DD+S +  K   Y +++++    +
Sbjct: 208 WELE-EKCTVADKHELLNLSSSNHLEKSLQLLMDRVDDMSQDIVKYNTYSRNLSKQQQQK 266

Query: 239 QAWVQERRDENEARKAAGEDPLPEGDSSNPFFKPIPEPSRLESLLITNRIADYCNQIHRV 298
             + Q R+ EN  R+  GE PLPE D S   FKP   P R+++LLI  +I +YC  +   
Sbjct: 267 HQYTQRRQQENAQRQTRGETPLPEEDVSK-MFKPPQPPPRMDTLLIAGQINNYCQNVKEF 325

Query: 299 AGHSFSRLSLIKAL 312
              +  +L + +AL
Sbjct: 326 TSQNLGKLFMAEAL 339

Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is involved in protein synthesis and, together with other initiation factors, stimulates binding of mRNA and methionyl-tRNAi to the 40S ribosome.

Salmo salar (taxid: 8030)

>sp|Q6P381|EIF3H_XENTR Eukaryotic translation initiation factor 3 subunit H OS=Xenopus tropicalis GN=eif3h PE=2 SV=1

 Score =  152 bits (385), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 106/328 (32%), Positives = 176/328 (53%), Gaps = 40/328 (12%)

Query: 17  APPALQVVQIEGLVLLKIIKHCKDLS-------------------------PSWLRQEND 51
           A  A++ VQI+G+V+LKIIKH ++                           P     E+D
Sbjct: 15  AETAVKQVQIDGMVVLKIIKHYQEEGHGSEVVQGVLLGLVVDDRLEITNCFPFPQHTEDD 74

Query: 52  IDQETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGK 111
           +D   D++   YQ++MM  LR  N+D   VGWYQST  G  F S   +++  +Y+  I +
Sbjct: 75  VD--FDEV--QYQMEMMRSLRHVNIDHLHVGWYQSTFYG-TFVSRALLDSQFSYQHAIEE 129

Query: 112 CVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNISWADVFEEITIR 171
            V +I DP ++  QG L+ LKA +L+   +E+ +  +FS E L+  NI++ D+FEE+ I 
Sbjct: 130 SVVLIYDPIKTG-QGSLS-LKAYRLTPKLMEVCKEKDFSAEGLKKANIAFEDMFEEVPII 187

Query: 172 VSNSALVSAFMSTLEPDR-VTDQSDHDRLQISSKPLLESNVEFLIRCMDDLSTEQKKLKF 230
           + NS L++     L+    VT++  H+ L +SS   LE +++ L+  +D+LS +  K   
Sbjct: 188 IKNSHLINVLAWELDKKAPVTEK--HELLNLSSSNHLEKSLQLLMDRVDELSQDIVKYNT 245

Query: 231 YFKDVTR----QQAWVQERRDENEARKAAGEDPLPEGDSSNPFFKPIPEPSRLESLLITN 286
           Y +++++    +  + Q R+ EN  R++ GE  LPE D +  F  P+P PSR++SLLI  
Sbjct: 246 YLRNISKQQQQKHQYTQRRQQENLQRQSRGETSLPEEDVNKLFKPPVP-PSRMDSLLIAG 304

Query: 287 RIADYCNQIHRVAGHSFSRLSLIKALHD 314
           +I  Y   I      +  +L + +A+ D
Sbjct: 305 QINTYIQHIKEFTSQNLGKLFMAEAMQD 332

Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is involved in protein synthesis and, together with other initiation factors, stimulates binding of mRNA and methionyl-tRNAi to the 40S ribosome.

Xenopus tropicalis (taxid: 8364)

>sp|Q5PPY6|EIF3H_XENLA Eukaryotic translation initiation factor 3 subunit H OS=Xenopus laevis GN=eif3h PE=2 SV=1

 Score =  152 bits (384), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 111/340 (32%), Positives = 179/340 (52%), Gaps = 44/340 (12%)

Query: 9   AASTEKVNAPP----ALQVVQIEGLVLLKIIKHCKDLS---------------------- 42
           AA  E  N  P    A++ VQI+GLV+LKIIKH ++                        
Sbjct: 2   AARKETGNTAPIAETAVKQVQIDGLVVLKIIKHYQEEGHGSEVVQGVLLGLVVDDRLEIT 61

Query: 43  ---PSWLRQENDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFI 99
              P     E+D+D   D++   YQ++MM  LR  N+D   VGWYQST  G  F S   +
Sbjct: 62  NCFPFPQHTEDDVD--FDEV--QYQMEMMRSLRHVNIDHLHVGWYQSTFYG-TFVSRALL 116

Query: 100 ETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNI 159
           ++  +Y+  I + V +I DP +++ QG L+ LKA +L+   +E+ +  +FS E L+  N+
Sbjct: 117 DSQFSYQHAIEESVVLIYDPIKTS-QGSLS-LKAYRLTPKLMEICKEKDFSAEGLKKANV 174

Query: 160 SWADVFEEITIRVSNSALVSAFMSTLEPDR-VTDQSDHDRLQISSKPLLESNVEFLIRCM 218
           ++ D+FEE+ I + NS L++  +  L+    VT++  H+ L +SS   LE +++ L+  +
Sbjct: 175 AYEDMFEEVPIVIKNSHLINVLVWELDKKAPVTEK--HELLNLSSSNHLEKSLQLLMDRV 232

Query: 219 DDLSTEQKKLKFYFKDVTR----QQAWVQERRDENEARKAAGEDPLPEGDSSNPFFKPIP 274
           D++S +  K   Y ++V +    +  + Q ++ EN  R + GE PLPE D  N  FKP  
Sbjct: 233 DEMSQDIVKYNTYQRNVGKQQQQKHQYTQRKQQENLQRLSRGETPLPEED-VNKMFKPPV 291

Query: 275 EPSRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKALHD 314
            PSR++ LLI  +I  Y   I      +  +L + +AL D
Sbjct: 292 TPSRMDPLLIAGQINTYIQHIKGFTSQNLGKLFMAEALQD 331

Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is involved in protein synthesis and, together with other initiation factors, stimulates binding of mRNA and methionyl-tRNAi to the 40S ribosome.

Xenopus laevis (taxid: 8355)

>sp|Q5ZLE6|EIF3H_CHICK Eukaryotic translation initiation factor 3 subunit H OS=Gallus gallus GN=EIF3H PE=2 SV=1

 Score =  149 bits (375), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 105/323 (32%), Positives = 174/323 (53%), Gaps = 36/323 (11%)

Query: 20  ALQVVQIEGLVLLKIIKHCKDLSPSW-----------------------LRQENDIDQET 56
           A++ VQI+GLV+LKIIKH ++                              Q  + D + 
Sbjct: 31  AVKQVQIDGLVVLKIIKHYQEEGQGNEVVQGVLLGLVVDDRLEITNCFPFPQHTEDDADF 90

Query: 57  DDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCII 116
           D++   YQ++MM  LR  N+D   VGWYQST  G  F +   +++  +Y+  I + V +I
Sbjct: 91  DEV--QYQMEMMRSLRHVNIDHLHVGWYQSTYYG-SFVTRALLDSQFSYQHAIEESVVLI 147

Query: 117 CDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNISWADVFEEITIRVSNSA 176
            DP ++  QG L+ LKA +L+   +E+ +  +FS E+L+  NI++ ++FEE+ I + NS 
Sbjct: 148 YDPIKT-AQGSLS-LKAYRLTPKLMEVCKEKDFSPEALKKANIAYENMFEEVPIVIKNSY 205

Query: 177 LVSAFMSTLEPDR-VTDQSDHDRLQISSKPLLESNVEFLIRCMDDLSTEQKKLKFYFKDV 235
           L++  +  LE    V D+  H+ L ++S   L  +++ L+  +D++S +  K   Y ++V
Sbjct: 206 LINVMLWELEKKSAVADR--HELLSLASSNHLGKSLQLLMDRVDEMSQDIVKYNTYLRNV 263

Query: 236 T----RQQAWVQERRDENEARKAAGEDPLPEGDSSNPFFKPIPEPSRLESLLITNRIADY 291
           +    ++  + Q R+ EN  R++ GE PLPE D  N  FKP   P+R+ESLLI  +I  Y
Sbjct: 264 SKQQQQKHQYQQRRQQENLQRQSRGEAPLPEED-INKLFKPPQPPARMESLLIAGQINTY 322

Query: 292 CNQIHRVAGHSFSRLSLIKALHD 314
           C  I      +  +L + +AL D
Sbjct: 323 CQNIKEFNAQNLGKLFMAQALQD 345

Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is involved in protein synthesis and, together with other initiation factors, stimulates binding of mRNA and methionyl-tRNAi to the 40S ribosome.

Gallus gallus (taxid: 9031)

>sp|B5FY35|EIF3H_TAEGU Eukaryotic translation initiation factor 3 subunit H OS=Taeniopygia guttata GN=EIF3H PE=2 SV=1

 Score =  147 bits (372), Expect = 7e-35,   Method: Compositional matrix adjust.
 Identities = 105/323 (32%), Positives = 172/323 (53%), Gaps = 36/323 (11%)

Query: 20  ALQVVQIEGLVLLKIIKHCKDLSPS-----------------------WLRQENDIDQET 56
           A++ VQI+GLV+LKIIKH ++                              Q  + D + 
Sbjct: 31  AVKQVQIDGLVVLKIIKHYQEEGQGNEVVQGVLLGLVVDDRLEITNCFPFPQHTEDDADF 90

Query: 57  DDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCII 116
           D++   YQ++MM  LR  N+D   VGWYQST  G  F +   +++  +Y+  I + V +I
Sbjct: 91  DEV--QYQMEMMRSLRHVNIDHLHVGWYQSTYYG-SFVTRALLDSQFSYQHAIEESVVLI 147

Query: 117 CDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNISWADVFEEITIRVSNSA 176
            DP ++  QG L+ LKA +L+   +E+ +  +FS E+L+  NI++ ++FEE+ I + NS 
Sbjct: 148 YDPIKT-AQGSLS-LKAYRLTPKLMEVCKEKDFSPEALKKANIAYENMFEEVPIVIKNSY 205

Query: 177 LVSAFMSTLEPDR-VTDQSDHDRLQISSKPLLESNVEFLIRCMDDLSTEQKKLKFYFKDV 235
           L++  +  LE    V D+  H+ L ++S   L  +++ L+  +D++S +  K   Y ++V
Sbjct: 206 LINVMLWELEKKSAVADR--HELLSLASSNHLGKSLQLLMDRVDEMSQDIVKYNTYLRNV 263

Query: 236 TRQQAWVQERRD----ENEARKAAGEDPLPEGDSSNPFFKPIPEPSRLESLLITNRIADY 291
           ++QQ    + +     EN  R++ GE PLPE D  N  FKP   P R+ESLLI  +I  Y
Sbjct: 264 SKQQQQKHQYQQRRQQENIQRQSRGEPPLPEEDI-NKLFKPPQPPPRMESLLIAGQINTY 322

Query: 292 CNQIHRVAGHSFSRLSLIKALHD 314
           C  I      +  +L + +AL D
Sbjct: 323 CQNIKEFNAQNLGKLFMAQALQD 345

Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is involved in protein synthesis and, together with other initiation factors, stimulates binding of mRNA and methionyl-tRNAi to the 40S ribosome.

Taeniopygia guttata (taxid: 59729)

>sp|Q6P9U8|EIF3H_RAT Eukaryotic translation initiation factor 3 subunit H OS=Rattus norvegicus GN=Eif3h PE=2 SV=1

 Score =  147 bits (371), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 106/321 (33%), Positives = 174/321 (54%), Gaps = 32/321 (9%)

Query: 20  ALQVVQIEGLVLLKIIKHCKDLSPS---------WLRQENDID--------QETDDIG-- 60
           A++ VQI+GLV+LKIIKH ++              L  E+ ++        Q T+D    
Sbjct: 35  AVKQVQIDGLVVLKIIKHYQEEGQGTEVVQGVLLGLVVEDRLEITNCFPFPQHTEDDADF 94

Query: 61  --ANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICD 118
               YQ++MM  LR  N+D   VGWYQST  G  F +   +++  +Y+  I + V +I D
Sbjct: 95  DEVQYQMEMMRSLRHVNIDHLHVGWYQSTYYG-SFVTRALLDSQFSYQHAIEESVVLIYD 153

Query: 119 PSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNISWADVFEEITIRVSNSALV 178
           P ++  QG L+ LKA +L+   +E+ +  +FS E+L+  NI++  +FEE+ I + NS L+
Sbjct: 154 PIKT-AQGSLS-LKAYRLTPKLMEVCKEKDFSPEALKKANITFEHMFEEVPIVIKNSHLI 211

Query: 179 SAFMSTLEPDR-VTDQSDHDRLQISSKPLLESNVEFLIRCMDDLSTEQKKLKFYFKDVT- 236
           +  M  LE    V D+  H+ L ++S   L  N++ L+  +D++S +  K   Y ++ + 
Sbjct: 212 NVLMWELEKKSAVADK--HELLSLASSNHLGKNLQLLMDRVDEMSQDIIKYNTYMRNSSK 269

Query: 237 ---RQQAWVQERRDENEARKAAGEDPLPEGDSSNPFFKPIPEPSRLESLLITNRIADYCN 293
              ++  + Q R+ EN  R++ GE PLPE D S   FKP   P+R++SLLI  +I  YC 
Sbjct: 270 QQQQKHQYQQRRQQENMQRQSRGEPPLPEEDLSK-LFKPHQAPARMDSLLIAGQINTYCQ 328

Query: 294 QIHRVAGHSFSRLSLIKALHD 314
            I      +  +L + +AL +
Sbjct: 329 NIKEFTAQNLGKLFMAQALQE 349

Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is required for several steps in the initiation of protein synthesis. The eIF-3 complex associates with the 40S ribosome and facilitates the recruitment of eIF-1, eIF-1A, eIF-2:GTP:methionyl-tRNAi and eIF-5 to form the 43S preinitiation complex (43S PIC). The eIF-3 complex stimulates mRNA recruitment to the 43S PIC and scanning of the mRNA for AUG recognition. The eIF-3 complex is also required for disassembly and recycling of posttermination ribosomal complexes and subsequently prevents premature joining of the 40S and 60S ribosomal subunits prior to initiation.

Rattus norvegicus (taxid: 10116)

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	315
225433688	337	PREDICTED: eukaryotic translation initia	0.971	0.908	0.622	1e-112
359806280	339	uncharacterized protein LOC100795273 [Gl	0.968	0.899	0.621	1e-111
356568923	337	PREDICTED: eukaryotic translation initia	0.968	0.905	0.621	1e-111
224065052	340	predicted protein [Populus trichocarpa]	0.980	0.908	0.619	1e-111
449468786	337	PREDICTED: eukaryotic translation initia	0.980	0.916	0.613	1e-110
118481029	341	unknown [Populus trichocarpa]	0.980	0.906	0.616	1e-108
224128852	333	predicted protein [Populus trichocarpa]	0.980	0.927	0.616	1e-108
18391211	337	translation initiation factor eIF-3 subu	0.984	0.919	0.592	1e-107
388498918	337	unknown [Lotus japonicus]	0.968	0.905	0.612	1e-107
297849446	337	TIF3H1 [Arabidopsis lyrata subsp. lyrata	0.984	0.919	0.584	1e-106

>gi|225433688|ref|XP_002266909.1| PREDICTED: eukaryotic translation initiation factor 3 subunit H [Vitis vinifera] gi|296089621|emb|CBI39440.3| unnamed protein product [Vitis vinifera]

 Score =  410 bits (1055), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 213/342 (62%), Positives = 261/342 (76%), Gaps = 36/342 (10%)

Query: 1   MAASFLQAAASTEKVNAPPALQVVQIEGLVLLKIIKHCKDLSPSW--------------- 45
           MA SFLQ AA TE+V +P  L+VVQIEGLV+LKIIKHCK+ SP+                
Sbjct: 5   MARSFLQVAA-TEEVASP--LRVVQIEGLVILKIIKHCKEFSPALVTGQLLGLDVGSVLE 61

Query: 46  --------LRQENDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVE 97
                   +R+E   D+E +  GANYQL+MM CLR+ NVD+N VGWYQST  G  FQ+VE
Sbjct: 62  VTNCFPFPIREE---DEEIEADGANYQLEMMRCLREVNVDNNTVGWYQSTLLGS-FQTVE 117

Query: 98  FIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDK 157
            IETFMNY+ENI +CVCII DPSRSN QG LA LKALKLSD+F+ELYRN NF+GE LR+K
Sbjct: 118 LIETFMNYQENIRRCVCIIYDPSRSN-QGVLA-LKALKLSDSFMELYRNNNFTGEKLREK 175

Query: 158 NISWADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRC 217
           N+SW D+FEEI I+VSNSAL+SAFM+ LE D    Q D+DRLQ+S+ P +E N+EFLI C
Sbjct: 176 NLSWVDIFEEIPIKVSNSALISAFMTELEADTPVTQCDYDRLQLSTNPYMERNLEFLIEC 235

Query: 218 MDDLSTEQKKLKFYFKDVTR----QQAWVQERRDENEARKAAGEDPLPEGDSSNPFFKPI 273
           MDDLS EQ+K +FY+++++R    QQAW+Q+RR EN ARK AGEDPLPE D +NP FKPI
Sbjct: 236 MDDLSMEQQKFQFYYRNLSRQQGQQQAWLQKRRAENMARKTAGEDPLPEEDPANPIFKPI 295

Query: 274 PEPSRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKALHDD 315
           PEPSRL+S LITN+I++YCNQI+ VAG SFSRL L+KALH++
Sbjct: 296 PEPSRLDSFLITNQISNYCNQINGVAGQSFSRLYLMKALHEN 337

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359806280|ref|NP_001240962.1| uncharacterized protein LOC100795273 [Glycine max] gi|255647702|gb|ACU24312.1| unknown [Glycine max]

 Score =  406 bits (1044), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 212/341 (62%), Positives = 258/341 (75%), Gaps = 36/341 (10%)

Query: 2   AASFLQAAASTEKVNAPPALQVVQIEGLVLLKIIKHCKDLSPSW---------------- 45
           A SFLQ AA+ E   A P L+VVQIEGLV+LKIIKHCKD SPS                 
Sbjct: 8   ARSFLQVAATEE---AAPPLRVVQIEGLVILKIIKHCKDHSPSLVTGQLLGLDVGSVLEV 64

Query: 46  -------LRQENDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEF 98
                  +R+E   D+E +  GANYQL+MM CLR+ NVD+N VGWYQST  G  FQ+VE 
Sbjct: 65  TNCFPFPMREE---DEEIEADGANYQLEMMRCLREVNVDNNTVGWYQSTLLGS-FQTVEL 120

Query: 99  IETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKN 158
           IETFMNY+ENI +CVCII DPSRS+ QG LA LKALKLSD+F+ELYR+ NF+GE LR+KN
Sbjct: 121 IETFMNYQENIRRCVCIIYDPSRSD-QGVLA-LKALKLSDSFMELYRSNNFTGEKLREKN 178

Query: 159 ISWADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCM 218
           +SW D+FEEI I+VSNSAL+SAFM+ LEPD    Q D+DRLQ+S+  L+E N EFLI CM
Sbjct: 179 LSWVDIFEEIPIKVSNSALISAFMTELEPDTPVTQCDYDRLQLSTSSLMERNTEFLIECM 238

Query: 219 DDLSTEQKKLKFYFKDVTR----QQAWVQERRDENEARKAAGEDPLPEGDSSNPFFKPIP 274
           DDLS EQ+K +FY++ ++R    QQAW+Q+RR EN ARKAAGE+PLPE D SNP FKP+P
Sbjct: 239 DDLSLEQQKFQFYYRSLSRQQAQQQAWLQKRRAENMARKAAGEEPLPEEDPSNPIFKPLP 298

Query: 275 EPSRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKALHDD 315
           EPSRLES LITN+I++YCNQI+ V+G SF+RL L+KALH+D
Sbjct: 299 EPSRLESFLITNQISNYCNQINGVSGQSFNRLYLMKALHED 339

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356568923|ref|XP_003552657.1| PREDICTED: eukaryotic translation initiation factor 3 subunit H-like [Glycine max]

 Score =  405 bits (1042), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 212/341 (62%), Positives = 258/341 (75%), Gaps = 36/341 (10%)

Query: 2   AASFLQAAASTEKVNAPPALQVVQIEGLVLLKIIKHCKDLSPSW---------------- 45
           A SFLQ AA+ E   A P L+VVQIEGLV+LKIIKHCKD SPS                 
Sbjct: 6   ARSFLQVAATEE---AAPPLRVVQIEGLVILKIIKHCKDHSPSLVTGQLLGLDVGSVLEV 62

Query: 46  -------LRQENDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEF 98
                  +R+E   D+E +  GANYQL+MM CLR+ NVD+N VGWYQST  G  FQ+VE 
Sbjct: 63  TNCFPFPMREE---DEEIEADGANYQLEMMRCLREVNVDNNTVGWYQSTLLGS-FQTVEL 118

Query: 99  IETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKN 158
           IETFMNY+ENI +CVCII DPSRS+ QG LA LKALKLSD+F+ELYR+ NF+GE LR+KN
Sbjct: 119 IETFMNYQENIRRCVCIIYDPSRSD-QGVLA-LKALKLSDSFMELYRSNNFTGEKLREKN 176

Query: 159 ISWADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCM 218
           +SW D+FEEI I+VSNSAL+SAFM+ LEPD    Q D+DRLQ+S+  L+E N EFLI CM
Sbjct: 177 LSWVDIFEEIPIKVSNSALISAFMTELEPDTPVTQCDYDRLQLSTSSLMERNTEFLIECM 236

Query: 219 DDLSTEQKKLKFYFKDVTR----QQAWVQERRDENEARKAAGEDPLPEGDSSNPFFKPIP 274
           DDLS EQ+K +FY++ ++R    QQAW+Q+RR EN ARKAAGE+PLPE D SNP FKP+P
Sbjct: 237 DDLSLEQQKFQFYYRSLSRQQAQQQAWLQKRRTENMARKAAGEEPLPEEDPSNPIFKPLP 296

Query: 275 EPSRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKALHDD 315
           EPSRLES LITN+I++YCNQI+ V+G SF+RL L+KALH+D
Sbjct: 297 EPSRLESFLITNQISNYCNQINGVSGQSFNRLYLMKALHED 337

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224065052|ref|XP_002301647.1| predicted protein [Populus trichocarpa] gi|222843373|gb|EEE80920.1| predicted protein [Populus trichocarpa]

 Score =  405 bits (1042), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 210/339 (61%), Positives = 258/339 (76%), Gaps = 30/339 (8%)

Query: 1   MAASFLQAAASTEKVNAPPALQVVQIEGLVLLKIIKHCKDLSPSWLRQE----------- 49
           MA SFLQ AA TE+V  P  L+VVQ+EGLV+LKIIKHCK+ SPS +  +           
Sbjct: 8   MARSFLQVAA-TEEVALP--LRVVQMEGLVVLKIIKHCKEFSPSLVTGQLLGLDVGSDLE 64

Query: 50  ---------NDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIE 100
                     + D+E +  GANYQL+MM CLR+ NVD+N VGWYQS   G CFQ+VE IE
Sbjct: 65  ITNCFPFPIREEDEEIEADGANYQLEMMRCLREVNVDNNTVGWYQSMLFG-CFQTVELIE 123

Query: 101 TFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNIS 160
           TFMNY+ENI +CVCII DPSR+N QG LA LKALKLSD+F++LYRN NF+GE LR+KN+S
Sbjct: 124 TFMNYQENIKRCVCIIYDPSRAN-QGALA-LKALKLSDSFMDLYRNNNFTGEKLREKNLS 181

Query: 161 WADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDD 220
           W D+FEEI I+VSNSAL+SAFM+ LE D    Q D+DRLQ+S+ P LESNVEFLI CMDD
Sbjct: 182 WVDIFEEIPIKVSNSALISAFMTGLEADTPVTQCDYDRLQLSTSPYLESNVEFLIECMDD 241

Query: 221 LSTEQKKLKFYFKDVTR----QQAWVQERRDENEARKAAGEDPLPEGDSSNPFFKPIPEP 276
           LS EQ+K ++++++++R    QQAW+Q+RR EN  RKAAGE+PLPE D SNP FKPIPEP
Sbjct: 242 LSVEQQKFQYHYRNLSRQQAQQQAWLQKRRSENMTRKAAGEEPLPEEDPSNPIFKPIPEP 301

Query: 277 SRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKALHDD 315
           SRL S LITN++A+YCNQI+ V+G SFSRL L+KALH D
Sbjct: 302 SRLGSFLITNQMANYCNQINGVSGQSFSRLYLMKALHKD 340

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449468786|ref|XP_004152102.1| PREDICTED: eukaryotic translation initiation factor 3 subunit H-like [Cucumis sativus] gi|449521699|ref|XP_004167867.1| PREDICTED: eukaryotic translation initiation factor 3 subunit H-like [Cucumis sativus]

 Score =  405 bits (1040), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 208/339 (61%), Positives = 258/339 (76%), Gaps = 30/339 (8%)

Query: 1   MAASFLQAAASTEKVNAPPALQVVQIEGLVLLKIIKHCKDLSPSWLRQE----------- 49
           MA SFLQ AA TE+V +P  L+VVQIEGLV+LKIIKHCK+ SP+ +  +           
Sbjct: 5   MARSFLQVAA-TEEVASP--LRVVQIEGLVILKIIKHCKEFSPALVTGQLLGLDVGSVLE 61

Query: 50  ---------NDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIE 100
                     + D+E +  GANYQL+MM CLR+ NVD+N VGWYQST  G  +Q+VE IE
Sbjct: 62  VTNCFPFPTREEDEEIEADGANYQLEMMRCLREVNVDNNTVGWYQSTFLGS-YQTVELIE 120

Query: 101 TFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNIS 160
           TFMNY+ENI +CVCII DPSRSN QG LA LKALKLSD+F+ELYR  +F+GE LR+KN+S
Sbjct: 121 TFMNYQENIRRCVCIIYDPSRSN-QGVLA-LKALKLSDSFMELYRTNSFTGEKLREKNLS 178

Query: 161 WADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDD 220
           W D+FEEI I+VSNSAL+SAFM+ LE D    Q D+DRLQ+S+ P +E NVEFLI CMDD
Sbjct: 179 WVDIFEEIPIKVSNSALISAFMTELESDSPVTQCDYDRLQLSTNPFMERNVEFLIECMDD 238

Query: 221 LSTEQKKLKFYFKDVTR----QQAWVQERRDENEARKAAGEDPLPEGDSSNPFFKPIPEP 276
           LS EQ+K +FY++ +TR    QQ+W+Q+RR EN  RKAAGE+PLPE D +NP FKP+PEP
Sbjct: 239 LSVEQQKFQFYYRSLTRQQAQQQSWLQKRRAENMTRKAAGEEPLPEEDPTNPIFKPLPEP 298

Query: 277 SRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKALHDD 315
           SRL+S LITN+IA+YCNQI+ VAG SF+RL L+KALHD+
Sbjct: 299 SRLDSYLITNQIANYCNQINGVAGQSFNRLHLMKALHDN 337

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118481029|gb|ABK92468.1| unknown [Populus trichocarpa]

 Score =  397 bits (1020), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 209/339 (61%), Positives = 258/339 (76%), Gaps = 30/339 (8%)

Query: 1   MAASFLQAAASTEKVNAPPALQVVQIEGLVLLKIIKHCKDLSPSWLRQE------NDIDQ 54
           MA SFLQ AA TE+V APP L+ VQIEGL +LKIIKHCK+ SPS +  +        + +
Sbjct: 9   MARSFLQVAA-TEEV-APP-LRAVQIEGLAVLKIIKHCKEFSPSLVTGQLLGLDVGSVLE 65

Query: 55  ETD--------------DIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIE 100
            T+                GANYQL+MM CLR+ NVD+N VGWYQS   G CFQ+VE IE
Sbjct: 66  VTNCFPFPIREEDEEIEAEGANYQLEMMRCLREVNVDNNTVGWYQSMLFG-CFQTVELIE 124

Query: 101 TFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNIS 160
           TFMNY+ENI +CVCII DPSR+N QG LA LKALKLSD+F++LYRN NF+GE LR+KN+S
Sbjct: 125 TFMNYQENIRRCVCIIYDPSRAN-QGVLA-LKALKLSDSFMDLYRNNNFTGEKLREKNLS 182

Query: 161 WADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDD 220
           W D+FEEI I+VSNSAL+SAFM+ LE D    Q D+DRLQ+S+ P LE NVEFLI CMDD
Sbjct: 183 WVDIFEEIPIKVSNSALISAFMTELEDDTPVTQCDYDRLQLSTSPYLERNVEFLIECMDD 242

Query: 221 LSTEQKKLKFYFKDVTR----QQAWVQERRDENEARKAAGEDPLPEGDSSNPFFKPIPEP 276
           LS EQ+K ++Y+++++R    QQAW+Q+RR EN +RKAAGE+PLPE D  NP FKPIPEP
Sbjct: 243 LSMEQQKFQYYYRNLSRQQAQQQAWLQKRRSENMSRKAAGEEPLPEEDPLNPIFKPIPEP 302

Query: 277 SRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKALHDD 315
           SRL+S LITN+IA+YCNQI+ V+G SFSRL L+KALH++
Sbjct: 303 SRLDSFLITNQIANYCNQINGVSGQSFSRLYLMKALHEN 341

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224128852|ref|XP_002320437.1| predicted protein [Populus trichocarpa] gi|222861210|gb|EEE98752.1| predicted protein [Populus trichocarpa]

 Score =  396 bits (1018), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 209/339 (61%), Positives = 258/339 (76%), Gaps = 30/339 (8%)

Query: 1   MAASFLQAAASTEKVNAPPALQVVQIEGLVLLKIIKHCKDLSPSWLRQE------NDIDQ 54
           MA SFLQ AA TE+V APP L+ VQIEGL +LKIIKHCK+ SPS +  +        + +
Sbjct: 1   MARSFLQVAA-TEEV-APP-LRAVQIEGLAVLKIIKHCKEFSPSLVTGQLLGLDVGSVLE 57

Query: 55  ETD--------------DIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIE 100
            T+                GANYQL+MM CLR+ NVD+N VGWYQS   G CFQ+VE IE
Sbjct: 58  VTNCFPFPIREEDEEIEAEGANYQLEMMRCLREVNVDNNTVGWYQSMLFG-CFQTVELIE 116

Query: 101 TFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNIS 160
           TFMNY+ENI +CVCII DPSR+N QG LA LKALKLSD+F++LYRN NF+GE LR+KN+S
Sbjct: 117 TFMNYQENIRRCVCIIYDPSRAN-QGVLA-LKALKLSDSFMDLYRNNNFTGEKLREKNLS 174

Query: 161 WADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDD 220
           W D+FEEI I+VSNSAL+SAFM+ LE D    Q D+DRLQ+S+ P LE NVEFLI CMDD
Sbjct: 175 WVDIFEEIPIKVSNSALISAFMTELEDDTPVTQCDYDRLQLSTSPYLERNVEFLIECMDD 234

Query: 221 LSTEQKKLKFYFKDVTR----QQAWVQERRDENEARKAAGEDPLPEGDSSNPFFKPIPEP 276
           LS EQ+K ++Y+++++R    QQAW+Q+RR EN +RKAAGE+PLPE D  NP FKPIPEP
Sbjct: 235 LSMEQQKFQYYYRNLSRQQAQQQAWLQKRRSENMSRKAAGEEPLPEEDPLNPIFKPIPEP 294

Query: 277 SRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKALHDD 315
           SRL+S LITN+IA+YCNQI+ V+G SFSRL L+KALH++
Sbjct: 295 SRLDSFLITNQIANYCNQINGVSGQSFSRLYLMKALHEN 333

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18391211|ref|NP_563880.1| translation initiation factor eIF-3 subunit 3 [Arabidopsis thaliana] gi|23396619|sp|Q9C5Z2.2|EIF3H_ARATH RecName: Full=Eukaryotic translation initiation factor 3 subunit H; Short=eIF3h; AltName: Full=Eukaryotic translation initiation factor 3 subunit 3; AltName: Full=eIF-3-gamma; AltName: Full=eIF3 p38 subunit gi|4874264|gb|AAD31329.1|AC007354_2 Similar to gb|U54559 eIF3-p40 subunit from Homo sapiens and is a member of the PF|01398 Mov34 family. ESTs gb|N96623 and gb|N07519 come from this gene [Arabidopsis thaliana] gi|15451122|gb|AAK96832.1| Unknown protein [Arabidopsis thaliana] gi|20148435|gb|AAM10108.1| unknown protein [Arabidopsis thaliana] gi|21592938|gb|AAM64888.1| putative translation initiation factor [Arabidopsis thaliana] gi|23397245|gb|AAN31904.1| putative translation initiation factor [Arabidopsis thaliana] gi|332190533|gb|AEE28654.1| translation initiation factor eIF-3 subunit 3 [Arabidopsis thaliana]

 Score =  395 bits (1016), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 201/339 (59%), Positives = 254/339 (74%), Gaps = 29/339 (8%)

Query: 1   MAASFLQAAASTEKVNAPPALQVVQIEGLVLLKIIKHCKDLSPSWLRQE----------- 49
           MA SFLQA +  E V APP L+VVQIEGL +LKIIKHCK+ SP+ +  +           
Sbjct: 4   MARSFLQAISKDEAV-APP-LRVVQIEGLAVLKIIKHCKEFSPTLVTGQLLGLDVGSVLE 61

Query: 50  ---------NDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIE 100
                     D D+E +  GANYQL+MM CLR+ NVD+N VGWYQST  G  +Q+VE IE
Sbjct: 62  VTNCFPFPVRDDDEEIEADGANYQLEMMRCLREVNVDNNTVGWYQSTVLGS-YQTVELIE 120

Query: 101 TFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNIS 160
           TFMNY+ENI +CVCII DPS++++  G+  LKALKLSD+F+ELYR GNF+GE LR+KN S
Sbjct: 121 TFMNYQENIKRCVCIIYDPSKADL--GVLALKALKLSDSFMELYRGGNFTGEKLREKNFS 178

Query: 161 WADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDD 220
           W D+FEEI I+VSNSALVSAFM+ LE D    Q D+DRL  S+ P LE+N+EFLI+CMDD
Sbjct: 179 WMDIFEEIPIKVSNSALVSAFMTELETDTPVSQGDYDRLHSSTTPFLENNMEFLIKCMDD 238

Query: 221 LSTEQKKLKFYFKDVTR----QQAWVQERRDENEARKAAGEDPLPEGDSSNPFFKPIPEP 276
           LS EQ+K ++Y+++++R    QQAW+Q+RR EN ARK+AGE+PLPE D SNP FK IPEP
Sbjct: 239 LSMEQQKFQYYYRNLSRQQAQQQAWLQKRRTENMARKSAGEEPLPEEDPSNPIFKAIPEP 298

Query: 277 SRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKALHDD 315
           SRLES LITN+++++C QI+ VAG +FSRL L KALHD+
Sbjct: 299 SRLESFLITNQVSNFCGQINGVAGQNFSRLYLTKALHDN 337

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388498918|gb|AFK37525.1| unknown [Lotus japonicus]

 Score =  394 bits (1012), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 209/341 (61%), Positives = 258/341 (75%), Gaps = 36/341 (10%)

Query: 2   AASFLQAAASTEKVNAPPALQVVQIEGLVLLKIIKHCKDLSPSW---------------- 45
           A SFLQ AA TE+V APP L+VVQ+EGLV+LK IKHCKD SPS                 
Sbjct: 6   ARSFLQVAA-TEEV-APP-LRVVQMEGLVILKTIKHCKDHSPSLVTGQLLGLDVGSVLEV 62

Query: 46  -------LRQENDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEF 98
                  +R+E   D+E +  GANYQL+MM CLR+ NVD+N VGWYQST  G  FQ+VE 
Sbjct: 63  TNCFPFPMREE---DEEIEADGANYQLEMMRCLREVNVDNNTVGWYQSTLLGS-FQTVEL 118

Query: 99  IETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKN 158
           IETFMNY+ENI +CVCI+ DPSRS+ QG LA LKALKLSD+F+E YR+ NF+GE LR+KN
Sbjct: 119 IETFMNYQENIRRCVCIVYDPSRSD-QGVLA-LKALKLSDSFMEPYRSNNFTGEKLREKN 176

Query: 159 ISWADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCM 218
           +SW D+FEEI I+VSNSAL+SAFM+ LEPD    Q D+DRLQ+S+  LLE N E+LI CM
Sbjct: 177 LSWVDIFEEIPIKVSNSALISAFMTELEPDTPVTQCDYDRLQLSTSSLLERNTEYLIECM 236

Query: 219 DDLSTEQKKLKFYFKDVTR----QQAWVQERRDENEARKAAGEDPLPEGDSSNPFFKPIP 274
           DDLS EQ+K + +++ ++R    QQAW+Q+RR EN ARKAAGE+PLPE D SNP FKP+P
Sbjct: 237 DDLSLEQQKFQLHYRSLSRQQAQQQAWLQKRRTENMARKAAGEEPLPEEDPSNPIFKPLP 296

Query: 275 EPSRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKALHDD 315
           EPSRLES LITN+I++YCNQI+ V+G SF+RL L+KALH+D
Sbjct: 297 EPSRLESFLITNQISNYCNQINGVSGQSFNRLYLMKALHED 337

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297849446|ref|XP_002892604.1| TIF3H1 [Arabidopsis lyrata subsp. lyrata] gi|297338446|gb|EFH68863.1| TIF3H1 [Arabidopsis lyrata subsp. lyrata]

 Score =  392 bits (1006), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 198/339 (58%), Positives = 254/339 (74%), Gaps = 29/339 (8%)

Query: 1   MAASFLQAAASTEKVNAPPALQVVQIEGLVLLKIIKHCKDLSPSWLRQE----------- 49
           MA SFLQA +  E V APP L+VVQIEGL +LK+IKHCK+ +P+ +  +           
Sbjct: 4   MARSFLQAISKDEAV-APP-LRVVQIEGLAVLKMIKHCKEFAPTLVTGQLLGLDVGSVLE 61

Query: 50  ---------NDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIE 100
                     D D+E +  GANYQL+MM CLR+ NVD+N VGWYQST  G  +Q+VE IE
Sbjct: 62  VTNCFPFPVRDDDEEIEADGANYQLEMMRCLREVNVDNNTVGWYQSTVLGS-YQTVELIE 120

Query: 101 TFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNIS 160
           TFMNY+ENI +CVCII DPS++++  G+  LKALKLSD+F+ELYR GNF+GE LR+KN S
Sbjct: 121 TFMNYQENIKRCVCIIYDPSKADL--GVLALKALKLSDSFMELYRGGNFTGEKLREKNFS 178

Query: 161 WADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDD 220
           W D+FEEI I+VSNSALVSAFM+ LE D    Q D+DRL  S+ P LE+N+EFLI+CMDD
Sbjct: 179 WMDIFEEIPIKVSNSALVSAFMTELETDTPVSQGDYDRLHSSTTPFLENNMEFLIKCMDD 238

Query: 221 LSTEQKKLKFYFKDVTR----QQAWVQERRDENEARKAAGEDPLPEGDSSNPFFKPIPEP 276
           LS EQ+K ++Y+++++R    QQAW+Q+RR EN ARK+AGE+PLPE D SNP FK IPEP
Sbjct: 239 LSMEQQKFQYYYRNLSRQQAQQQAWLQKRRTENMARKSAGEEPLPEEDPSNPIFKAIPEP 298

Query: 277 SRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKALHDD 315
           SRLES LITN+++++C QI+ VAG +FSRL L KALH++
Sbjct: 299 SRLESFLITNQVSNFCGQINGVAGQNFSRLYLTKALHEN 337

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

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	315
TAIR|locus:2196469	337	TIF3H1 "AT1G10840" [Arabidopsi	0.984	0.919	0.542	3.3e-86
DICTYBASE|DDB_G0281153	319	eif3H "eukaryotic translation	0.784	0.774	0.347	4.1e-41
UNIPROTKB|B5RI54	344	eif3h "Eukaryotic translation	0.888	0.813	0.297	1.2e-37
UNIPROTKB|Q5ZLE6	348	EIF3H "Eukaryotic translation	0.892	0.807	0.301	1.2e-37
ZFIN|ZDB-GENE-051030-42	333	eif3hb "eukaryotic translation	0.888	0.840	0.294	1.5e-37
UNIPROTKB|B5FY35	348	EIF3H "Eukaryotic translation	0.892	0.807	0.301	1.5e-37
UNIPROTKB|B3KS98	366	EIF3S3 "Eukaryotic translation	0.892	0.767	0.298	2.4e-37
UNIPROTKB|O15372	352	EIF3H "Eukaryotic translation	0.892	0.798	0.298	2.4e-37
RGD|735178	352	Eif3h "eukaryotic translation	0.892	0.798	0.298	3.1e-37
UNIPROTKB|Q6P381	335	eif3h "Eukaryotic translation	0.892	0.838	0.298	3.1e-37

TAIR|locus:2196469 TIF3H1 "AT1G10840" [Arabidopsis thaliana (taxid:3702)]

 Score = 862 (308.5 bits), Expect = 3.3e-86, P = 3.3e-86
 Identities = 184/339 (54%), Positives = 236/339 (69%)

Query:     1 MAASFLQAAASTEKVNAPP--ALQVVQIEGLVLLKIIKHCK-----------DLSPSWLR 47
             MA SFLQA +  E V APP   +Q+  +  L ++K  K              D+  S L 
Sbjct:     4 MARSFLQAISKDEAV-APPLRVVQIEGLAVLKIIKHCKEFSPTLVTGQLLGLDVG-SVLE 61

Query:    48 QEN-------DIDQETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIE 100
               N       D D+E +  GANYQL+MM CLR+ NVD+N VGWYQST  G  +Q+VE IE
Sbjct:    62 VTNCFPFPVRDDDEEIEADGANYQLEMMRCLREVNVDNNTVGWYQSTVLGS-YQTVELIE 120

Query:   101 TFMNYKENIGKCVCIICDPSRSNIQXXXXXXXXXXXSDTFLELYRNGNFSGESLRDKNIS 160
             TFMNY+ENI +CVCII DPS++++            SD+F+ELYR GNF+GE LR+KN S
Sbjct:   121 TFMNYQENIKRCVCIIYDPSKADL--GVLALKALKLSDSFMELYRGGNFTGEKLREKNFS 178

Query:   161 WADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDD 220
             W D+FEEI I+VSNSALVSAFM+ LE D    Q D+DRL  S+ P LE+N+EFLI+CMDD
Sbjct:   179 WMDIFEEIPIKVSNSALVSAFMTELETDTPVSQGDYDRLHSSTTPFLENNMEFLIKCMDD 238

Query:   221 LSTEQKKLKFYFKDVTRQQA----WVQERRDENEARKAAGEDPLPEGDSSNPFFKPIPEP 276
             LS EQ+K ++Y+++++RQQA    W+Q+RR EN ARK+AGE+PLPE D SNP FK IPEP
Sbjct:   239 LSMEQQKFQYYYRNLSRQQAQQQAWLQKRRTENMARKSAGEEPLPEEDPSNPIFKAIPEP 298

Query:   277 SRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKALHDD 315
             SRLES LITN+++++C QI+ VAG +FSRL L KALHD+
Sbjct:   299 SRLESFLITNQVSNFCGQINGVAGQNFSRLYLTKALHDN 337

GO:0003743 "translation initiation factor activity" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISM

GO:0005852 "eukaryotic translation initiation factor 3 complex" evidence=ISS

GO:0006413 "translational initiation" evidence=ISS

GO:0005829 "cytosol" evidence=IDA

GO:0009640 "photomorphogenesis" evidence=RCA

GO:0010388 "cullin deneddylation" evidence=RCA

DICTYBASE|DDB_G0281153 eif3H "eukaryotic translation initiation factor 3 (eIF3) subunit H" [Dictyostelium discoideum (taxid:44689)]

 Score = 373 (136.4 bits), Expect = 4.1e-41, Sum P(2) = 4.1e-41
 Identities = 91/262 (34%), Positives = 147/262 (56%)

Query:    53 DQETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIG-K 111
             D+ ++ I A+YQL+MM  LR+ N+DSN VGWY  T     F     IET  NY+  I  K
Sbjct:    69 DENSESI-ADYQLEMMRFLREVNIDSNTVGWYTPTYLNSFFNE-SVIETQYNYQATINQK 126

Query:   112 CVCIICDPSRSNIQXXXXXXXXXXXSDTFLELYRNGNFSGESLRDKNISWADVFEEITIR 171
             CV I+ DP +++             + +F+EL+++ +FS E L   N+S+ D+FE+I I+
Sbjct:   127 CVVIVYDPIKTS--QGTLSLKCYRLTQSFMELFKDQSFSRERLDQANLSFNDIFEQIPIK 184

Query:   172 VSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDDLSTEQKKLKFY 231
             + NS L++A +   +       +  DRL IS+   LE  VE +  C++ L+ E  K+   
Sbjct:   185 IHNSQLINALLYEFDGASNNLTNSFDRLNISNNIYLEKVVEGMTDCLESLNQELNKVYIN 244

Query:   232 FKDVTRQQA-WVQERRDENEARKAAGEDPLPEGDSSNPFFKPIPEPSRLESLLITNRIAD 290
              +++  Q+  ++Q++  E +      ED L          KP+  PS+L SLL+TN+I +
Sbjct:   245 QRNIQTQKTNYIQQKFLEGQK---VDEDELAS------MIKPLNPPSKLTSLLLTNQINN 295

Query:   291 YCNQIHRVAGHSFSRLSLIKAL 312
             Y +QIH  +G+S ++LSL+K L
Sbjct:   296 YTDQIHSFSGNSLTKLSLLKDL 317

GO:0006446 "regulation of translational initiation" evidence=ISS

GO:0006413 "translational initiation" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0003743 "translation initiation factor activity" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

UNIPROTKB|B5RI54 eif3h "Eukaryotic translation initiation factor 3 subunit H" [Salmo salar (taxid:8030)]

 Score = 359 (131.4 bits), Expect = 1.2e-37, Sum P(2) = 1.2e-37
 Identities = 87/292 (29%), Positives = 155/292 (53%)

Query:    26 IEGLVLLKIIKHCKDLSPSW-LRQENDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWY 84
             ++G++L  +++   +++  +   Q  + D + D++   YQ++MM  LR  N+D   VGWY
Sbjct:    55 VQGVLLGLVVEDRLEITNCFPFPQHTEDDADFDEV--QYQMEMMRSLRHVNIDHLHVGWY 112

Query:    85 QSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQXXXXXXXXXXXSDTFLELY 144
             QST  G  F S   +++  +Y+  I + V +I DP ++              +   +E+ 
Sbjct:   113 QSTYYGS-FVSRALLDSQFSYQHAIEESVVLIYDPIKT--AQGSLSLKAYRLTPKLMEIC 169

Query:   145 RNGNFSGESLRDKNISWADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSK 204
             +  +FS E L+   I +  +FEE+ I + NS L++  M  LE ++ T    H+ L +SS 
Sbjct:   170 KEKDFSAEGLKKAMIGFEHMFEEVPIVIKNSHLINVLMWELE-EKCTVADKHELLNLSSS 228

Query:   205 PLLESNVEFLIRCMDDLSTEQKKLKFYFKDVTRQQA----WVQERRDENEARKAAGEDPL 260
               LE +++ L+  +DD+S +  K   Y +++++QQ     + Q R+ EN  R+  GE PL
Sbjct:   229 NHLEKSLQLLMDRVDDMSQDIVKYNTYSRNLSKQQQQKHQYTQRRQQENAQRQTRGETPL 288

Query:   261 PEGDSSNPFFKPIPEPSRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKAL 312
             PE D S   FKP   P R+++LLI  +I +YC  +      +  +L + +AL
Sbjct:   289 PEEDVSK-MFKPPQPPPRMDTLLIAGQINNYCQNVKEFTSQNLGKLFMAEAL 339

GO:0005852 "eukaryotic translation initiation factor 3 complex" evidence=ISS

GO:0006413 "translational initiation" evidence=ISS

GO:0003743 "translation initiation factor activity" evidence=ISS

UNIPROTKB|Q5ZLE6 EIF3H "Eukaryotic translation initiation factor 3 subunit H" [Gallus gallus (taxid:9031)]

 Score = 355 (130.0 bits), Expect = 1.2e-37, Sum P(2) = 1.2e-37
 Identities = 89/295 (30%), Positives = 159/295 (53%)

Query:    26 IEGLVLLKIIKHCKDLSPSW-LRQENDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWY 84
             ++G++L  ++    +++  +   Q  + D + D++   YQ++MM  LR  N+D   VGWY
Sbjct:    59 VQGVLLGLVVDDRLEITNCFPFPQHTEDDADFDEV--QYQMEMMRSLRHVNIDHLHVGWY 116

Query:    85 QSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQXXXXXXXXXXXSDTFLELY 144
             QST  G  F +   +++  +Y+  I + V +I DP ++              +   +E+ 
Sbjct:   117 QSTYYGS-FVTRALLDSQFSYQHAIEESVVLIYDPIKT--AQGSLSLKAYRLTPKLMEVC 173

Query:   145 RNGNFSGESLRDKNISWADVFEEITIRVSNSALVSAFMSTLEP-DRVTDQSDHDRLQISS 203
             +  +FS E+L+  NI++ ++FEE+ I + NS L++  +  LE    V D+  H+ L ++S
Sbjct:   174 KEKDFSPEALKKANIAYENMFEEVPIVIKNSYLINVMLWELEKKSAVADR--HELLSLAS 231

Query:   204 KPLLESNVEFLIRCMDDLSTEQKKLKFYFKDVTRQQA----WVQERRDENEARKAAGEDP 259
                L  +++ L+  +D++S +  K   Y ++V++QQ     + Q R+ EN  R++ GE P
Sbjct:   232 SNHLGKSLQLLMDRVDEMSQDIVKYNTYLRNVSKQQQQKHQYQQRRQQENLQRQSRGEAP 291

Query:   260 LPEGDSSNPFFKPIPEPSRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKALHD 314
             LPE D  N  FKP   P+R+ESLLI  +I  YC  I      +  +L + +AL D
Sbjct:   292 LPEEDI-NKLFKPPQPPARMESLLIAGQINTYCQNIKEFNAQNLGKLFMAQALQD 345

GO:0006413 "translational initiation" evidence=ISS

GO:0003743 "translation initiation factor activity" evidence=ISS

GO:0005852 "eukaryotic translation initiation factor 3 complex" evidence=ISS

ZFIN|ZDB-GENE-051030-42 eif3hb "eukaryotic translation initiation factor 3, subunit H, b" [Danio rerio (taxid:7955)]

 Score = 357 (130.7 bits), Expect = 1.5e-37, Sum P(2) = 1.5e-37
 Identities = 86/292 (29%), Positives = 157/292 (53%)

Query:    26 IEGLVLLKIIKHCKDLSPSW-LRQENDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWY 84
             ++G++L  +++   +++  +   Q  + D + D++   YQ++MM  LR  N+D   VGWY
Sbjct:    44 VQGVLLGLVVEDQLEITNCFPFPQHTEDDADFDEV--QYQMEMMRSLRHVNIDHLHVGWY 101

Query:    85 QSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQXXXXXXXXXXXSDTFLELY 144
             QST  G  F S   +++  +Y+  I + V +I DP ++              +   +E+ 
Sbjct:   102 QSTLYGS-FVSRALLDSQFSYQHAIEESVVLIYDPIKT--AQGSLCLKAYRLTPKLMEIC 158

Query:   145 RNGNFSGESLRDKNISWADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSK 204
             +  +FS E L+  ++ +  +FEE+ I + NS L++  +  LE ++ T    H+ L +SS 
Sbjct:   159 KEKDFSSEGLKKASVGYEHMFEEVPIVIKNSHLINVLLWELE-EKSTAADKHELLSLSSS 217

Query:   205 PLLESNVEFLIRCMDDLSTEQKKLKFYFKDVTRQQA----WVQERRDENEARKAAGEDPL 260
               LE +++ L+  +DD+S +  K   Y + +++QQ     +VQ R+ EN  R++ GE PL
Sbjct:   218 SHLEKSLQMLMDRVDDMSQDIVKYNNYSRSLSKQQQQKHQYVQRRQQENAQRQSRGEPPL 277

Query:   261 PEGDSSNPFFKPIPEPSRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKAL 312
             PE D +   FKP   P R+++LLI ++I  YC  I      +  +L + +AL
Sbjct:   278 PEEDLTK-MFKPPQPPPRMDTLLIASQINTYCQTIKEFTSQNLGKLFMAEAL 328

GO:0006413 "translational initiation" evidence=IEA;ISS

GO:0003743 "translation initiation factor activity" evidence=IEA;ISS

GO:0005852 "eukaryotic translation initiation factor 3 complex" evidence=ISS

GO:0006412 "translation" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0007420 "brain development" evidence=IMP

GO:0007507 "heart development" evidence=IMP

UNIPROTKB|B5FY35 EIF3H "Eukaryotic translation initiation factor 3 subunit H" [Taeniopygia guttata (taxid:59729)]

 Score = 354 (129.7 bits), Expect = 1.5e-37, Sum P(2) = 1.5e-37
 Identities = 89/295 (30%), Positives = 158/295 (53%)

Query:    26 IEGLVLLKIIKHCKDLSPSW-LRQENDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWY 84
             ++G++L  ++    +++  +   Q  + D + D++   YQ++MM  LR  N+D   VGWY
Sbjct:    59 VQGVLLGLVVDDRLEITNCFPFPQHTEDDADFDEV--QYQMEMMRSLRHVNIDHLHVGWY 116

Query:    85 QSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQXXXXXXXXXXXSDTFLELY 144
             QST  G  F +   +++  +Y+  I + V +I DP ++              +   +E+ 
Sbjct:   117 QSTYYGS-FVTRALLDSQFSYQHAIEESVVLIYDPIKT--AQGSLSLKAYRLTPKLMEVC 173

Query:   145 RNGNFSGESLRDKNISWADVFEEITIRVSNSALVSAFMSTLEP-DRVTDQSDHDRLQISS 203
             +  +FS E+L+  NI++ ++FEE+ I + NS L++  +  LE    V D+  H+ L ++S
Sbjct:   174 KEKDFSPEALKKANIAYENMFEEVPIVIKNSYLINVMLWELEKKSAVADR--HELLSLAS 231

Query:   204 KPLLESNVEFLIRCMDDLSTEQKKLKFYFKDVTRQQA----WVQERRDENEARKAAGEDP 259
                L  +++ L+  +D++S +  K   Y ++V++QQ     + Q R+ EN  R++ GE P
Sbjct:   232 SNHLGKSLQLLMDRVDEMSQDIVKYNTYLRNVSKQQQQKHQYQQRRQQENIQRQSRGEPP 291

Query:   260 LPEGDSSNPFFKPIPEPSRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKALHD 314
             LPE D  N  FKP   P R+ESLLI  +I  YC  I      +  +L + +AL D
Sbjct:   292 LPEEDI-NKLFKPPQPPPRMESLLIAGQINTYCQNIKEFNAQNLGKLFMAQALQD 345

GO:0005852 "eukaryotic translation initiation factor 3 complex" evidence=ISS

GO:0006413 "translational initiation" evidence=ISS

GO:0003743 "translation initiation factor activity" evidence=ISS

UNIPROTKB|B3KS98 EIF3S3 "Eukaryotic translation initiation factor 3, subunit 3 gamma, 40kDa, isoform CRA_b" [Homo sapiens (taxid:9606)]

 Score = 352 (129.0 bits), Expect = 2.4e-37, Sum P(2) = 2.4e-37
 Identities = 88/295 (29%), Positives = 158/295 (53%)

Query:    26 IEGLVLLKIIKHCKDLSPSW-LRQENDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWY 84
             ++G++L  +++   +++  +   Q  + D + D++   YQ++MM  LR  N+D   VGWY
Sbjct:    77 VQGVLLGLVVEDRLEITNCFPFPQHTEDDADFDEV--QYQMEMMRSLRHVNIDHLHVGWY 134

Query:    85 QSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQXXXXXXXXXXXSDTFLELY 144
             QST  G  F +   +++  +Y+  I + V +I DP ++              +   +E+ 
Sbjct:   135 QSTYYGS-FVTRALLDSQFSYQHAIEESVVLIYDPIKT--AQGSLSLKAYRLTPKLMEVC 191

Query:   145 RNGNFSGESLRDKNISWADVFEEITIRVSNSALVSAFMSTLEP-DRVTDQSDHDRLQISS 203
             +  +FS E+L+  NI++  +FEE+ I + NS L++  M  LE    V D+  H+ L ++S
Sbjct:   192 KEKDFSPEALKKANITFEYMFEEVPIVIKNSHLINVLMWELEKKSAVADK--HELLSLAS 249

Query:   204 KPLLESNVEFLIRCMDDLSTEQKKLKFYFKDVTRQQA----WVQERRDENEARKAAGEDP 259
                L  N++ L+  +D++S +  K   Y ++ ++QQ     + Q R+ EN  R++ GE P
Sbjct:   250 SNHLGKNLQLLMDRVDEMSQDIVKYNTYMRNTSKQQQQKHQYQQRRQQENMQRQSRGEPP 309

Query:   260 LPEGDSSNPFFKPIPEPSRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKALHD 314
             LPE D S   FKP   P+R++SLLI  +I  YC  I      +  +L + +AL +
Sbjct:   310 LPEEDLSK-LFKPPQPPARMDSLLIAGQINTYCQNIKEFTAQNLGKLFMAQALQE 363

GO:0003743 "translation initiation factor activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|O15372 EIF3H "Eukaryotic translation initiation factor 3 subunit H" [Homo sapiens (taxid:9606)]

 Score = 352 (129.0 bits), Expect = 2.4e-37, Sum P(2) = 2.4e-37
 Identities = 88/295 (29%), Positives = 158/295 (53%)

Query:    26 IEGLVLLKIIKHCKDLSPSW-LRQENDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWY 84
             ++G++L  +++   +++  +   Q  + D + D++   YQ++MM  LR  N+D   VGWY
Sbjct:    63 VQGVLLGLVVEDRLEITNCFPFPQHTEDDADFDEV--QYQMEMMRSLRHVNIDHLHVGWY 120

Query:    85 QSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQXXXXXXXXXXXSDTFLELY 144
             QST  G  F +   +++  +Y+  I + V +I DP ++              +   +E+ 
Sbjct:   121 QSTYYGS-FVTRALLDSQFSYQHAIEESVVLIYDPIKT--AQGSLSLKAYRLTPKLMEVC 177

Query:   145 RNGNFSGESLRDKNISWADVFEEITIRVSNSALVSAFMSTLEP-DRVTDQSDHDRLQISS 203
             +  +FS E+L+  NI++  +FEE+ I + NS L++  M  LE    V D+  H+ L ++S
Sbjct:   178 KEKDFSPEALKKANITFEYMFEEVPIVIKNSHLINVLMWELEKKSAVADK--HELLSLAS 235

Query:   204 KPLLESNVEFLIRCMDDLSTEQKKLKFYFKDVTRQQA----WVQERRDENEARKAAGEDP 259
                L  N++ L+  +D++S +  K   Y ++ ++QQ     + Q R+ EN  R++ GE P
Sbjct:   236 SNHLGKNLQLLMDRVDEMSQDIVKYNTYMRNTSKQQQQKHQYQQRRQQENMQRQSRGEPP 295

Query:   260 LPEGDSSNPFFKPIPEPSRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKALHD 314
             LPE D S   FKP   P+R++SLLI  +I  YC  I      +  +L + +AL +
Sbjct:   296 LPEEDLSK-LFKPPQPPARMDSLLIAGQINTYCQNIKEFTAQNLGKLFMAQALQE 349

GO:0005515 "protein binding" evidence=IPI

GO:0006413 "translational initiation" evidence=IC;IDA;TAS

GO:0006446 "regulation of translational initiation" evidence=TAS

GO:0003743 "translation initiation factor activity" evidence=IC;IDA

GO:0005852 "eukaryotic translation initiation factor 3 complex" evidence=IDA

GO:0005829 "cytosol" evidence=TAS

GO:0006412 "translation" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0044267 "cellular protein metabolic process" evidence=TAS

GO:0005737 "cytoplasm" evidence=IDA

RGD|735178 Eif3h "eukaryotic translation initiation factor 3, subunit H" [Rattus norvegicus (taxid:10116)]

 Score = 351 (128.6 bits), Expect = 3.1e-37, Sum P(2) = 3.1e-37
 Identities = 88/295 (29%), Positives = 158/295 (53%)

Query:    26 IEGLVLLKIIKHCKDLSPSW-LRQENDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWY 84
             ++G++L  +++   +++  +   Q  + D + D++   YQ++MM  LR  N+D   VGWY
Sbjct:    63 VQGVLLGLVVEDRLEITNCFPFPQHTEDDADFDEV--QYQMEMMRSLRHVNIDHLHVGWY 120

Query:    85 QSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQXXXXXXXXXXXSDTFLELY 144
             QST  G  F +   +++  +Y+  I + V +I DP ++              +   +E+ 
Sbjct:   121 QSTYYGS-FVTRALLDSQFSYQHAIEESVVLIYDPIKT--AQGSLSLKAYRLTPKLMEVC 177

Query:   145 RNGNFSGESLRDKNISWADVFEEITIRVSNSALVSAFMSTLEP-DRVTDQSDHDRLQISS 203
             +  +FS E+L+  NI++  +FEE+ I + NS L++  M  LE    V D+  H+ L ++S
Sbjct:   178 KEKDFSPEALKKANITFEHMFEEVPIVIKNSHLINVLMWELEKKSAVADK--HELLSLAS 235

Query:   204 KPLLESNVEFLIRCMDDLSTEQKKLKFYFKDVTRQQA----WVQERRDENEARKAAGEDP 259
                L  N++ L+  +D++S +  K   Y ++ ++QQ     + Q R+ EN  R++ GE P
Sbjct:   236 SNHLGKNLQLLMDRVDEMSQDIIKYNTYMRNSSKQQQQKHQYQQRRQQENMQRQSRGEPP 295

Query:   260 LPEGDSSNPFFKPIPEPSRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKALHD 314
             LPE D S   FKP   P+R++SLLI  +I  YC  I      +  +L + +AL +
Sbjct:   296 LPEEDLSK-LFKPHQAPARMDSLLIAGQINTYCQNIKEFTAQNLGKLFMAQALQE 349

GO:0003743 "translation initiation factor activity" evidence=ISO;ISS

GO:0005737 "cytoplasm" evidence=ISO

GO:0005852 "eukaryotic translation initiation factor 3 complex" evidence=ISO;ISS

GO:0006413 "translational initiation" evidence=ISO;ISS

GO:0008150 "biological_process" evidence=ND

GO:0032403 "protein complex binding" evidence=IDA

GO:0043231 "intracellular membrane-bounded organelle" evidence=IDA

GO:0043234 "protein complex" evidence=IDA

UNIPROTKB|Q6P381 eif3h "Eukaryotic translation initiation factor 3 subunit H" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 350 (128.3 bits), Expect = 3.1e-37, Sum P(2) = 3.1e-37
 Identities = 88/295 (29%), Positives = 158/295 (53%)

Query:    26 IEGLVLLKIIKHCKDLSPSW-LRQENDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWY 84
             ++G++L  ++    +++  +   Q  + D + D++   YQ++MM  LR  N+D   VGWY
Sbjct:    46 VQGVLLGLVVDDRLEITNCFPFPQHTEDDVDFDEV--QYQMEMMRSLRHVNIDHLHVGWY 103

Query:    85 QSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQXXXXXXXXXXXSDTFLELY 144
             QST  G  F S   +++  +Y+  I + V +I DP ++              +   +E+ 
Sbjct:   104 QSTFYGT-FVSRALLDSQFSYQHAIEESVVLIYDPIKTG--QGSLSLKAYRLTPKLMEVC 160

Query:   145 RNGNFSGESLRDKNISWADVFEEITIRVSNSALVSAFMSTLEPDR-VTDQSDHDRLQISS 203
             +  +FS E L+  NI++ D+FEE+ I + NS L++     L+    VT++  H+ L +SS
Sbjct:   161 KEKDFSAEGLKKANIAFEDMFEEVPIIIKNSHLINVLAWELDKKAPVTEK--HELLNLSS 218

Query:   204 KPLLESNVEFLIRCMDDLSTEQKKLKFYFKDVTRQQA----WVQERRDENEARKAAGEDP 259
                LE +++ L+  +D+LS +  K   Y +++++QQ     + Q R+ EN  R++ GE  
Sbjct:   219 SNHLEKSLQLLMDRVDELSQDIVKYNTYLRNISKQQQQKHQYTQRRQQENLQRQSRGETS 278

Query:   260 LPEGDSSNPFFKPIPEPSRLESLLITNRIADYCNQIHRVAGHSFSRLSLIKALHD 314
             LPE D +  F  P+P PSR++SLLI  +I  Y   I      +  +L + +A+ D
Sbjct:   279 LPEEDVNKLFKPPVP-PSRMDSLLIAGQINTYIQHIKEFTSQNLGKLFMAEAMQD 332

GO:0005852 "eukaryotic translation initiation factor 3 complex" evidence=ISS

GO:0006413 "translational initiation" evidence=ISS

GO:0003743 "translation initiation factor activity" evidence=ISS

---

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)
Q5ZLE6	EIF3H_CHICK	No assigned EC number	0.3250	0.9111	0.8247	yes	no
Q6P381	EIF3H_XENTR	No assigned EC number	0.3231	0.9142	0.8597	yes	no
Q54UD0	EIF3H_DICDI	No assigned EC number	0.3587	0.8920	0.8808	yes	no
Q9C5Z2	EIF3H_ARATH	No assigned EC number	0.5929	0.9841	0.9198	yes	no
O15372	EIF3H_HUMAN	No assigned EC number	0.3302	0.9174	0.8210	yes	no
Q56JZ5	EIF3H_BOVIN	No assigned EC number	0.3271	0.9174	0.8210	yes	no
B5FY35	EIF3H_TAEGU	No assigned EC number	0.3250	0.9111	0.8247	yes	no
Q6AXJ2	EI3HA_DANRE	No assigned EC number	0.3040	0.9714	0.9134	yes	no
Q91WK2	EIF3H_MOUSE	No assigned EC number	0.3239	0.9174	0.8210	yes	no
Q6P9U8	EIF3H_RAT	No assigned EC number	0.3302	0.9174	0.8210	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

Your Input:
	GSVIVG00033547001	SubName- Full=Chromosome chr5 scaffold_67, whole genome shotgun sequence; (333 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00025658001	SubName- Full=Chromosome chr8 scaffold_34, whole genome shotgun sequence; (437 aa)				•	•	•	•		0.977
	GSVIVG00023929001	SubName- Full=Chromosome chr6 scaffold_3, whole genome shotgun sequence; (269 aa)				•		•	•		0.921
	GSVIVG00015309001	SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (363 aa)						•	•		0.902
	GSVIVG00024042001	SubName- Full=Chromosome chr6 scaffold_3, whole genome shotgun sequence; (344 aa)				•		•			0.889
	GSVIVG00029350001	SubName- Full=Chromosome chr13 scaffold_48, whole genome shotgun sequence; (344 aa)				•		•			0.888
	GSVIVG00031929001	SubName- Full=Putative uncharacterized protein (Chromosome undetermined scaffold_60, whole geno [...] (464 aa)				•		•			0.882
	GSVIVG00018281001	SubName- Full=Chromosome chr13 scaffold_17, whole genome shotgun sequence; (285 aa)				•	•	•	•		0.864
	GSVIVG00016373001	SubName- Full=Chromosome chr11 scaffold_13, whole genome shotgun sequence; (200 aa)				•	•	•	•		0.860
	GSVIVG00022664001	SubName- Full=Chromosome chr14 scaffold_27, whole genome shotgun sequence; (977 aa)				•	•	•	•		0.855
	GSVIVG00025451001	SubName- Full=Chromosome chr8 scaffold_34, whole genome shotgun sequence; (605 aa)				•	•	•	•		0.851

---

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	315
cd08065	266	cd08065, MPN_eIF3h, Mpr1p, Pad1p N-terminal (MPN)	6e-94
pfam01398	117	pfam01398, JAB, JAB1/Mov34/MPN/PAD-1 ubiquitin pro	2e-06
smart00232	135	smart00232, JAB_MPN, JAB/MPN domain	1e-04
cd07767	116	cd07767, MPN, Mpr1p, Pad1p N-terminal (MPN) domain	0.003
cd08057	157	cd08057, MPN_euk_non_mb, Mpr1p, Pad1p N-terminal (	0.004

>gnl|CDD|163696 cd08065, MPN_eIF3h, Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF2h

 Score =  279 bits (715), Expect = 6e-94
 Identities = 118/267 (44%), Positives = 167/267 (62%), Gaps = 29/267 (10%)

Query: 24  VQIEGLVLLKIIKHCKDLSPS----------------------WLRQENDIDQETDDIGA 61
           VQI+GLV+LKIIKHCK+  P                       + + E D     D+  A
Sbjct: 3   VQIDGLVVLKIIKHCKEELPELVQGQLLGLDVGGTLEVTNCFPFPKSEEDDSDRADEDIA 62

Query: 62  NYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSR 121
           +YQL+MM  LR+ NVD N VGWYQST  G  F + + IET  NY+E I + V ++ DPS+
Sbjct: 63  DYQLEMMRLLREVNVDHNHVGWYQSTYLGS-FFTRDLIETQYNYQEAIEESVVLVYDPSK 121

Query: 122 SNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNISWADVFEEITIRVSNSALVSAF 181
           ++   G   LKA +LS+ F+ELY+ G FS ESLR+ N++++++FEEI + + NS LV+A 
Sbjct: 122 TS--QGSLSLKAYRLSEKFMELYKEGKFSTESLREANLTFSNIFEEIPVVIRNSHLVNAL 179

Query: 182 MSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDDLSTEQKKLKFYFKDVTRQQA- 240
           +S LE D  + QSD DRL +S+   LE N+E L+  +D+LS EQ K  +Y +++ RQQA 
Sbjct: 180 LSELEEDSPSSQSDFDRLDLSTNSFLEKNLELLMESVDELSQEQGKFNYYQRNLARQQAQ 239

Query: 241 ---WVQERRDENEARKAAGEDPLPEGD 264
              W+Q+R+ EN  R+A GE+PLPE D
Sbjct: 240 IQQWLQKRKAENAQREARGEEPLPEED 266

Eukaryotic translation initiation factor 3 (eIF3) subunit h (eIF3h; eIF3 subunit 3; eIF3S3; eIF3-gamma; eIF3-p40) is an evolutionarily non-conserved subunit of the functional core that comprises eIF3a, eIF3b, eIF3c, eIF3e, eIF3f, and eIF3h, and contains the MPN domain. However, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity.Together with eIF3e and eIF3f, eIF3h stabilizes the eIF3 complex. Results suggest that eIF3h regulates cell growth and viability, and that over-expression of the gene may provide growth advantage to prostate, breast, and liver cancer cells. For example, EIF3h gene amplification is common in late-stage prostate cancer suggesting that it may be functionally involved in the progression of the disease. It has been shown that coamplification of MYC, a well characterized oncogene involved in cell growth, differentiation, and apoptosis, and EIF3h in patients with non-small cell lung cancer (NSCLC) improves survival if treated with the Epidermal Growth Factor Receptor Tyrosine Kinase Inhibitor (EGFR-TKI), Gefitinib. Plant eIF3h is implicated in translation of specific mRNAs. Length = 266

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

 Score = 45.5 bits (108), Expect = 2e-06
 Identities = 29/112 (25%), Positives = 41/112 (36%), Gaps = 25/112 (22%)

Query: 20  ALQVVQIEGLVLLKIIKHCKDLSPSWLR------------------------QENDIDQ- 54
           +++ V I  LVLLKI+ H +    S                           Q    D  
Sbjct: 1   SVRTVVIHPLVLLKIVDHARRGGKSGEEVMGVLLGTLEGDRVIEVTNSFALPQSETEDDV 60

Query: 55  ETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYK 106
           E  ++   Y   M+  L+  N D  VVGWY S P   C+ S   + T   Y+
Sbjct: 61  EAVELDHEYMEKMLEMLKKVNRDEEVVGWYHSHPGYGCWLSSVDVHTQELYQ 112

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 = 41.2 bits (97), Expect = 1e-04
 Identities = 37/139 (26%), Positives = 51/139 (36%), Gaps = 28/139 (20%)

Query: 23  VVQIEGLVLLKIIKH---------C-----KDLSPSW-------LRQENDID-QETDDIG 60
            V++  LV L I+KH         C     K             +  E   D  +  D  
Sbjct: 1   EVKVHPLVPLNILKHAIRDGPEEVCGVLLGKSNKDRPEVKEVFAVPNEPQDDSVQEYDE- 59

Query: 61  ANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIET-FMNYKENIGKCVCIICDP 119
            +Y   M   L+  N D  +VGWY S P    F S   + T            V I+ DP
Sbjct: 60  -DYSHLMDEELKKVNKDLEIVGWYHSHPDESPFPSEVDVATHESYQAPWPISVVLIV-DP 117

Query: 120 SRSNIQGGLAGLKALKLSD 138
            +S  QG L  L+A +L+ 
Sbjct: 118 IKSF-QGRL-SLRAFRLTP 134

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

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

 Score = 36.7 bits (85), Expect = 0.003
 Identities = 14/48 (29%), Positives = 20/48 (41%)

Query: 74  ANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSR 121
            N    +VGWY + P   CF S   + T   ++    + V II D   
Sbjct: 59  LNAGLRIVGWYHTHPKPSCFLSPNDLATHELFQRYFPEKVMIIVDVKP 106

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

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

 Score = 37.0 bits (86), Expect = 0.004
 Identities = 22/129 (17%), Positives = 37/129 (28%), Gaps = 26/129 (20%)

Query: 24  VQIEGLVLLKIIKHCKDLSP-----------SWLRQENDI----------DQETDDIGAN 62
           VQ+  LVLL I  H                      + ++          ++E+  I   
Sbjct: 1   VQLHPLVLLNISDHYTRRKYGIKRVIGVLLGYVDGDKIEVTNSFELPFDEEEESIFIDTE 60

Query: 63  YQLDMMSCLRDANVDSNVVGWYQSTPPG-DCFQSVE--FIETFMNYKENIGKCVCIICDP 119
           Y     +  +       +VGWY       +     +      F    E     + +I DP
Sbjct: 61  YLEKRYNLHKKVYPQEKIVGWYSIGSNNSNEISKSDNSLHSQFSLISEENP--LILILDP 118

Query: 120 SRSNIQGGL 128
           S  +    L
Sbjct: 119 SLQSDSEKL 127

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	315
KOG1560	339	consensus Translation initiation factor 3, subunit	100.0
cd08065	266	MPN_eIF3h Mpr1p, Pad1p N-terminal (MPN) domains wi	100.0
cd08069	268	MPN_RPN11_CSN5 Mov34/MPN/PAD-1 family: proteasomal	100.0
KOG1554	347	consensus COP9 signalosome, subunit CSN5 [Posttran	100.0
cd08064	265	MPN_eIF3f Mpr1p, Pad1p N-terminal (MPN) domains wi	99.95
cd08062	280	MPN_RPN7_8 Mpr1p, Pad1p N-terminal (MPN) domains w	99.91
cd08057	157	MPN_euk_non_mb Mpr1p, Pad1p N-terminal (MPN) domai	99.9
cd08063	288	MPN_CSN6 Mpr1p, Pad1p N-terminal (MPN) domains wit	99.9
PLN03246	303	26S proteasome regulatory subunit; Provisional	99.89
cd08067	187	MPN_2A_DUB Mov34/MPN/PAD-1 family: Histone H2A deu	99.88
KOG2975	288	consensus Translation initiation factor 3, subunit	99.86
KOG1555	316	consensus 26S proteasome regulatory complex, subun	99.85
cd08068	244	MPN_BRCC36 Mov34/MPN/PAD-1 family: BRCC36, a subun	99.84
smart00232	135	JAB_MPN JAB/MPN domain. Domain in Jun kinase activ	99.83
cd08058	119	MPN_euk_mb Mpr1p, Pad1p N-terminal (MPN) domains w	99.82
PF01398	114	JAB: JAB1/Mov34/MPN/PAD-1 ubiquitin protease; Inte	99.78
KOG1556	309	consensus 26S proteasome regulatory complex, subun	99.77
cd08066	173	MPN_AMSH_like Mov34/MPN/PAD-1 family. AMSH (associ	99.53
cd07767	116	MPN Mpr1p, Pad1p N-terminal (MPN) domains. MPN (al	99.52
cd08070	128	MPN_like Mpr1p, Pad1p N-terminal (MPN) domains wit	98.85
COG1310	134	Predicted metal-dependent protease of the PAD1/JAB	98.85
KOG2880	424	consensus SMAD6 interacting protein AMSH, contains	98.36
cd08056	252	MPN_PRP8 Mpr1p, Pad1p N-terminal (MPN) domains wit	98.0
cd08072	117	MPN_archaeal Mov34/MPN/PAD-1 family: archaeal JAB1	97.64
KOG3050	299	consensus COP9 signalosome, subunit CSN6 [Posttran	97.44
cd08061	274	MPN_NPL4 Mov34/MPN/PAD-1 family: nuclear protein l	97.05
PF14464	104	Prok-JAB: Prokaryotic homologs of the JAB domain;	96.81
cd08073	108	MPN_NLPC_P60 Mpr1p, Pad1p N-terminal (MPN) domains	96.48
cd08059	101	MPN_prok_mb Mpr1p, Pad1p N-terminal (MPN) domains	95.78
cd08060	182	MPN_UPF0172 Mov34/MPN/PAD-1 family: UPF0172 family	95.66
PF05021	306	NPL4: NPL4 family; InterPro: IPR007717 The HRD4 ge	94.18
PF03665	196	UPF0172: Uncharacterised protein family (UPF0172);	93.36
TIGR03735	192	PRTRC_A PRTRC system protein A. A novel genetic sy	92.98
TIGR02256	131	ICE_VC0181 integrative and conjugative element pro	87.71

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

Probab=100.00  E-value=9.1e-85  Score=592.16  Aligned_cols=293  Identities=34%  Similarity=0.601  Sum_probs=270.5

Q ss_pred             CCCcceEEEeHhHHHHHHhhhhccCCc--cccC-------------------CCCC--Cccc----hhhhh--hHHHHHH
Q 039881           18 PPALQVVQIEGLVLLKIIKHCKDLSPS--WLRQ-------------------ENDI--DQET----DDIGA--NYQLDMM   68 (315)
Q Consensus        18 ~~~~~~V~I~~lvllKIikH~~~~~~~--~V~G-------------------p~~~--~~~~----~~~~~--~Yq~~Ml   68 (315)
                      ++|++.|++|++|||||||||+++.|.  .++|                   |+..  +|+.    ..+.+  .||.+||
T Consensus         9 ~p~vk~v~ldsLvVMkiiKHc~ee~~n~d~~~GvL~Glvvd~~LeITncFp~p~~~~~edda~~~~~~de~rq~~~l~ml   88 (339)
T KOG1560|consen    9 SPPVKRVELDSLVVMKIIKHCREEFPNGDGTQGVLLGLVVDGRLEITNCFPFPSVLENEDDAVNKSVSDEARQAYQLAML   88 (339)
T ss_pred             CCccceeeehhHHHHHHHHHHHhhcCCcchhhheeeeeeecceeEeecccCCCccCCCccchhhhhhhHHHHHHHHHHHH
Confidence            678999999999999999999998874  3444                   4422  3332    22333  7999999


Q ss_pred             HHHHhcCCCCcceeEEecCCCCCCCCCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEEEechhhHhhhhcCC
Q 039881           69 SCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGN  148 (315)
Q Consensus        69 ~~l~~vn~d~~~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAfRls~~~~~~~k~g~  148 (315)
                      +.||.||+|+.+||||+|++.|+ |+|..++++||.||++++++|++||||++|++  |.|++|||||+|.+|+++++++
T Consensus        89 rrlr~vnid~~hVGwYqs~~vgs-~lS~~lveSqy~YQ~a~pesVvliYD~~kssq--G~L~lrAyrLTp~am~~~kekd  165 (339)
T KOG1560|consen   89 RRLRYVNIDHLHVGWYQSAYVGS-FLSPALVESQYAYQKAIPESVVLIYDPIKSSQ--GTLSLRAYRLTPEAMAAHKEKD  165 (339)
T ss_pred             HHhhhcCccceeeeeeeeehhcc-ccCHHHHHHHHHHHhcCCccEEEEeccccccC--ceEEeehhhcCHHHHHHHhcCC
Confidence            99999999999999999999999 99999999999999999999999999999999  9999999999999999999999


Q ss_pred             CCccccccccccccceeEEEeeeEeccHHHHHHHhccCC--CCCCCCCCCCcccCCCchHHHHHHHHHHHHHHHhHHHHH
Q 039881          149 FSGESLRDKNISWADVFEEITIRVSNSALVSAFMSTLEP--DRVTDQSDHDRLQISSKPLLESNVEFLIRCMDDLSTEQK  226 (315)
Q Consensus       149 ~~~e~l~~~~l~~~~if~EIPi~I~ns~L~~~~L~~L~~--~~~~~~~~~d~L~Ls~~~~Lek~l~~L~e~id~l~~e~~  226 (315)
                      |++|.++.+++++.++|+||||.|+||+|.+++|++|..  ..+...+.+..++|++...|+|+++.||+.+|++++|++
T Consensus       166 wtpealk~~nltyenmfeElPIVIknS~L~nvlmseLs~~e~c~sdk~~~~~fdlgs~t~leknir~lme~vDEl~qe~~  245 (339)
T KOG1560|consen  166 WTPEALKSANLTYENMFEELPIVIKNSHLANVLMSELSEPEDCESDKPLHSNFDLGSGTRLEKNIRLLMERVDELHQEIV  245 (339)
T ss_pred             CCHHHHHhcCCCHHHHHhhcCeeeeccHHHHHHHHhccccccccccccccccccccchhhHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999983  322223347778999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHH----HHHHHHHHHHHHHHHcCCCCCCCCCCCCCCCCCCCCCcchHHHHHHHHHHHHHHHHHHHHhHH
Q 039881          227 KLKFYFKDVTRQQ----AWVQERRDENEARKAAGEDPLPEGDSSNPFFKPIPEPSRLESLLITNRIADYCNQIHRVAGHS  302 (315)
Q Consensus       227 ~~~~yqr~l~r~q----~~~~kr~~EN~~R~~~g~~~lpe~d~~~~~fk~~~~Psrl~~ll~s~qi~~~~~~i~~~~~~~  302 (315)
                      |+++|||+++|||    ||++||++||+.|+++|+||||||| |.|+||+|++|.|||++|+|+||+++|++|..||+++
T Consensus       246 ~l~kyqr~~~rqq~~~~q~~aKrqaENa~R~argep~lP~dd-~kr~fk~pq~p~rLdslLiS~qint~aq~ike~tSqn  324 (339)
T KOG1560|consen  246 NLNKYQRQLARQQAKKHQWIAKRQAENANRAARGEPPLPEDD-WKRIFKPPQEPRRLDSLLISGQINTSAQQIKEFTSQN  324 (339)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChHH-HHHHhcCCCchhHHHHHHHhhhHHHHHHHHHHHHHHH
Confidence            9999999999999    9999999999999999999999999 9999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhcc
Q 039881          303 FSRLSLIKALHD  314 (315)
Q Consensus       303 ~~kl~~~~~~~~  314 (315)
                      |+|||+++++|.
T Consensus       325 l~Klfiaea~~~  336 (339)
T KOG1560|consen  325 LSKLFIAEALQE  336 (339)
T ss_pred             HHHHHHHHHHHH
Confidence            999999999985

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

Probab=100.00  E-value=4.5e-64  Score=468.82  Aligned_cols=240  Identities=48%  Similarity=0.823  Sum_probs=224.0

Q ss_pred             ceEEEeHhHHHHHHhhhhccCCccccC-------------------CCCCCccc---hhhhhhHHHHHHHHHHhcCCCCc
Q 039881           22 QVVQIEGLVLLKIIKHCKDLSPSWLRQ-------------------ENDIDQET---DDIGANYQLDMMSCLRDANVDSN   79 (315)
Q Consensus        22 ~~V~I~~lvllKIikH~~~~~~~~V~G-------------------p~~~~~~~---~~~~~~Yq~~Ml~~l~~vn~d~~   79 (315)
                      ++|+|+++|+|||+|||.++.|.+|+|                   |..++++.   ..++..||.+|+++++++|+|++
T Consensus         1 ~~V~I~~~vllkIv~H~~~~~p~~v~G~LLG~~~~~~leVtn~Fp~P~~~~~~~~~~~~~~~~yq~~m~~~~r~v~~~e~   80 (266)
T cd08065           1 TSVQIDGLVVLKIIKHCKEELPELVQGQLLGLDVGGTLEVTNCFPFPKSEEDDSDRADEDIADYQLEMMRLLREVNVDHN   80 (266)
T ss_pred             CEEEEeHHHHHHHHHHHhcCCCcEEEEEEeeeEcCCEEEEEeccCCCCCCCCCcchhhhhHHHHHHHHHHHHHHhCCCCc
Confidence            479999999999999999999999999                   44444332   45678999999999999999999


Q ss_pred             ceeEEecCCCCCCCCCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEEEechhhHhhhhcCCCCccccccccc
Q 039881           80 VVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNI  159 (315)
Q Consensus        80 ~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAfRls~~~~~~~k~g~~~~e~l~~~~l  159 (315)
                      +||||||||+| ||.+..+|++|+.||...+++|+|||||.++.+  |.+++||||++|.||.+|++|+|+.+.++++++
T Consensus        81 iVGWY~S~p~~-~~~~~s~id~~~~~q~~~~~~v~Li~D~~~s~~--g~l~lkAyrl~~~~~~~~~~~~~~~~~l~~~~~  157 (266)
T cd08065          81 HVGWYQSTYLG-SFFTRDLIETQYNYQEAIEESVVLVYDPSKTSQ--GSLSLKAYRLSEKFMELYKEGKFSTESLREANL  157 (266)
T ss_pred             EEEeEeecCCC-CcCCHHHHHHHHHHhccCCCCEEEEECCCcccc--cceeeEEEEEcHHHHHHhhcCCcCHHHHHHhcC
Confidence            99999999955 599999999999999988999999999999765  999999999999999999999999999999999


Q ss_pred             cccceeEEEeeeEeccHHHHHHHhccCCCCCCCCCCCCcccCCCchHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 039881          160 SWADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDDLSTEQKKLKFYFKDVTRQQ  239 (315)
Q Consensus       160 ~~~~if~EIPi~I~ns~L~~~~L~~L~~~~~~~~~~~d~L~Ls~~~~Lek~l~~L~e~id~l~~e~~~~~~yqr~l~r~q  239 (315)
                      ++.+||+||||+|+|++|++++|.+|.+..+...++++.|+|+++++|+++|+.|+++||++++|++||++|||+++|||
T Consensus       158 ~~~~if~eiPv~i~n~~l~~~~L~~l~~~~~~~~~~~~~l~l~~~~~le~~l~~l~~~id~l~~e~~~~~~y~r~~~~~~  237 (266)
T cd08065         158 TFSNIFEEIPVVIRNSHLVNALLSELEEDSPSSQSDFDRLDLSTNSFLEKNLELLMESVDELSQEQGKFNYYQRNLARQQ  237 (266)
T ss_pred             chhcEEEEEEEEEEchHHHHHHHHhcccCCCcccCCcccccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999876555347899999999999999999999999999999999999999999999


Q ss_pred             ----HHHHHHHHHHHHHHHcCCCCCCCCC
Q 039881          240 ----AWVQERRDENEARKAAGEDPLPEGD  264 (315)
Q Consensus       240 ----~~~~kr~~EN~~R~~~g~~~lpe~d  264 (315)
                          ||++|||+||++|+++|++|||+||
T Consensus       238 ~~~~~~~~kr~~en~~r~~~~~~~lp~~~  266 (266)
T cd08065         238 AQIQQWLQKRKAENAQREARGEEPLPEED  266 (266)
T ss_pred             HHHHHHHHHHHHHhHHHHhcCCCCCCCCC
Confidence                8999999999999999999999986

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

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

Probab=100.00  E-value=2.4e-37  Score=288.99  Aligned_cols=194  Identities=24%  Similarity=0.287  Sum_probs=161.5

Q ss_pred             CCCcceEEEeHhHHHHHHhhhhccCCccccC-------------------CCCCCccchhhhhhHHHHHHH--HHHhcCC
Q 039881           18 PPALQVVQIEGLVLLKIIKHCKDLSPSWLRQ-------------------ENDIDQETDDIGANYQLDMMS--CLRDANV   76 (315)
Q Consensus        18 ~~~~~~V~I~~lvllKIikH~~~~~~~~V~G-------------------p~~~~~~~~~~~~~Yq~~Ml~--~l~~vn~   76 (315)
                      ...+++|+|+++|++||++||.++.|.+|+|                   |.+++++....+..||..|++  +++++|+
T Consensus         6 ~~~~~~V~Is~~allkil~Ha~~~~p~Ev~GlLlG~~~~~~v~Vt~~fp~p~~~t~~~v~~~~e~~~~m~~~~~~~~~~~   85 (268)
T cd08069           6 PDYFEKVYISSLALLKMLKHARAGGPIEVMGLMLGKVDDYTIIVVDVFALPVEGTETRVNAQDEFQEYMVQYEMLKQTGR   85 (268)
T ss_pred             CCcccEEEECHHHHHHHHHHHhccCCceEEEEEEeeecCCeEEEEEEEECCcCCCCCceeccHHHHHHHHHHHHHHHhCC
Confidence            4678999999999999999999999999999                   444433322223489999999  9999999


Q ss_pred             CCcceeEEecCCCCCCCCCHHHHHHHHhhhhcCCCeEEEEeCCCCC-ccCCCceeeeEEEechhhHhh--hhc-----CC
Q 039881           77 DSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRS-NIQGGLAGLKALKLSDTFLEL--YRN-----GN  148 (315)
Q Consensus        77 d~~~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s-~~~~g~lslkAfRls~~~~~~--~k~-----g~  148 (315)
                      ++++||||||||+++||+|..||++|..||...+++|+|||||.++ .+  |+++++|||++|.++.+  +++     |.
T Consensus        86 ~~~vVGWYHSHP~~g~~~S~~Dv~tq~~yq~~~~~~V~lViDP~~t~~~--g~~~i~Afr~~~~~~~~~~~~~~~s~~~~  163 (268)
T cd08069          86 PENVVGWYHSHPGYGCWLSGIDVNTQQLNQQLQDPFVAVVVDPIRSLVK--GKVVIGAFRTIPPGYKPLEPRQTTSNIGH  163 (268)
T ss_pred             CceeEeeeccCCCcCCcCCHHHHHHHHHHHhcCCCcEEEEEeCCccccC--CcceeeEEEEECccccccCcccCccccCc
Confidence            9999999999999999999999999999999999999999999998 55  99999999999999876  555     88


Q ss_pred             CCccccccccccccceeEEEeeeEeccHHHHHHHhccCCCCCCCCCCCCcccCCCchHHHHHHHHHHHHHHHh
Q 039881          149 FSGESLRDKNISWADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDDL  221 (315)
Q Consensus       149 ~~~e~l~~~~l~~~~if~EIPi~I~ns~L~~~~L~~L~~~~~~~~~~~d~L~Ls~~~~Lek~l~~L~e~id~l  221 (315)
                      |+.++++ ...++.++|+||||+|++++|++.+|..|++.       +|.-.|+.+++.+..-+.....+-++
T Consensus       164 ~~~~~~~-~~~~~~~~y~~l~i~~~~s~l~~~~L~~l~~~-------~w~~~l~~~~~~~~~~~~~~~~~~~l  228 (268)
T cd08069         164 LPKPKIE-DFGGHNKQYYSLPIEYFKSSLDRKLLLNLWNK-------YWVNTLSLSPLLENSNEYTIKQILDL  228 (268)
T ss_pred             cCcHHHH-HhCchhcEEEEeeeEEecCHHHHHHHHHHHHH-------hHHHHhhCCchhhhhhHHHHHHHHHH
Confidence            9999999 78899999999999999999999999999864       33334555444433223333444443

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

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

Probab=100.00  E-value=2.5e-34  Score=263.08  Aligned_cols=195  Identities=21%  Similarity=0.258  Sum_probs=166.0

Q ss_pred             CCCcceEEEeHhHHHHHHhhhhccCCccccC-------------------CCCCCcc-chh--hhhhHHHHHHHHHHhcC
Q 039881           18 PPALQVVQIEGLVLLKIIKHCKDLSPSWLRQ-------------------ENDIDQE-TDD--IGANYQLDMMSCLRDAN   75 (315)
Q Consensus        18 ~~~~~~V~I~~lvllKIikH~~~~~~~~V~G-------------------p~~~~~~-~~~--~~~~Yq~~Ml~~l~~vn   75 (315)
                      ...++.|.|+++++|||+.|++++++.+|||                   |.+++|+ +++  ...+|+...++..+.+|
T Consensus        49 p~~fk~vkISalAllKm~~hA~~GgnlEiMGlm~Gkv~g~t~IvmD~FaLPVeGTETRVNAq~~AyEYmv~Y~e~~k~~g  128 (347)
T KOG1554|consen   49 PHYFKHVKISALALLKMVMHARSGGNLEIMGLMQGKVDGDTIIVMDSFALPVEGTETRVNAQAEAYEYMVQYIEEAKNVG  128 (347)
T ss_pred             CchhhhhhhHHHHHHHHHHHHhcCCCeEEEeeecccccCCeEEEEeccccccccccceechHHHHHHHHHHHHHHHHHhh
Confidence            4568999999999999999999999999999                   7788777 554  45678888999999999


Q ss_pred             CCCcceeEEecCCCCCCCCCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEEEechhhHhhhhcCCCC-----
Q 039881           76 VDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFS-----  150 (315)
Q Consensus        76 ~d~~~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAfRls~~~~~~~k~g~~~-----  150 (315)
                      +.+++||||||||+++||+|+.||+||...|++.+|+|++|+||.||.. .|++.|+|||.+|.+.....++.+.     
T Consensus       129 r~envVGWyHSHPgYgCWLSgIDVsTQ~lNQ~fQePfvAvViDP~Rtls-agkv~iGAFRTyp~gyk~~d~~~seyqtip  207 (347)
T KOG1554|consen  129 RLENVVGWYHSHPGYGCWLSGIDVSTQMLNQRFQEPFVAVVIDPTRTLS-AGKVNIGAFRTYPKGYKPPDEPPSEYQTIP  207 (347)
T ss_pred             hhhceeeeeecCCCCCccccCcchhHHHHhhhhcCCeEEEEecCccccc-cCceeeceeecccCCCCCCCCCchhhhccc
Confidence            9999999999999999999999999999999999999999999999975 7999999999999984443344332     


Q ss_pred             ccccccccccccceeEEEeeeEeccHHHHHHHhccCCCCCCCCCCCCcccCCCchHHHHHHHHHHHHHHHhH
Q 039881          151 GESLRDKNISWADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDDLS  222 (315)
Q Consensus       151 ~e~l~~~~l~~~~if~EIPi~I~ns~L~~~~L~~L~~~~~~~~~~~d~L~Ls~~~~Lek~l~~L~e~id~l~  222 (315)
                      ..++.++|+ +..+|+.++|.++.|.|+...|+.|++.       +|.-+|++++ |-+|.+++.++|-+++
T Consensus       208 l~kied~gv-Hck~yysl~isyfks~ld~kll~~Lwnk-------ywv~Tlsss~-ll~N~dy~~~qi~d~~  270 (347)
T KOG1554|consen  208 LNKIEDFGV-HCKQYYSLEISYFKSSLDMKLLELLWNK-------YWVRTLSSSP-LLKNIDYLNGQIRDLS  270 (347)
T ss_pred             hhhhhhccc-ceEEeeccchhhhhhhhhHHHHHHHHhh-------hhhccccccc-ccccchhhcchhhhHH
Confidence            246677777 6889999999999999999999999875       4444455543 6677888888887775

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

Probab=99.95  E-value=5.3e-27  Score=219.10  Aligned_cols=177  Identities=16%  Similarity=0.224  Sum_probs=136.4

Q ss_pred             EEEeHhHHHHHHhhhhc--cCCccccC-------------------CCCCCccchhhhhhHHHHHHHHHHhcCCCCccee
Q 039881           24 VQIEGLVLLKIIKHCKD--LSPSWLRQ-------------------ENDIDQETDDIGANYQLDMMSCLRDANVDSNVVG   82 (315)
Q Consensus        24 V~I~~lvllKIikH~~~--~~~~~V~G-------------------p~~~~~~~~~~~~~Yq~~Ml~~l~~vn~d~~~VG   82 (315)
                      |.|||+|+|+|+|||.+  ..+.+|+|                   |++++++....+.+|+.+|++++++||+++.+||
T Consensus         1 v~ihPlVll~I~dH~~R~~~~~~~V~G~LLG~~~~~~veItnsF~~p~~~~~~~~~~d~~y~~~m~~~~kkv~~~~~vVG   80 (265)
T cd08064           1 VRVHPVVLFSILDSYERRNEGQERVIGTLLGTRSEGEVEITNCFAVPHNESEDQVAVDMEYHRTMYELHQKVNPKEVIVG   80 (265)
T ss_pred             CEEccHHHHhHHHHHhhhcCCCcEEEEEEEEEEeCCEEEEEeCeecceeCCCCeEEEcHHHHHHHHHHHHHhCCCCcEEe
Confidence            68999999999999997  45788999                   5555545556789999999999999999999999


Q ss_pred             EEecCCCCCCCCCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEEEechhhHhhhhcCCCCcccccccccccc
Q 039881           83 WYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNISWA  162 (315)
Q Consensus        83 WY~S~~~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAfRls~~~~~~~k~g~~~~e~l~~~~l~~~  162 (315)
                      ||+|++..+  .+..+|+.||.++...+++|+|++||..+.   |+++++||++++.++.               +-+..
T Consensus        81 WY~tg~~~~--~~~~~Ih~~~~~~~~~~~pI~L~~D~~~~~---~~l~i~ay~~~~~~~~---------------~~~~~  140 (265)
T cd08064          81 WYATGSEIT--EHSALIHDYYSRECTSYNPIHLTVDTSLDD---GKMSIKAYVSSPLGVP---------------GKTLG  140 (265)
T ss_pred             eeeCCCCCC--ccHHHHHHHHHhhCCCCCCEEEEEeCCCCC---CCcceEEEEEEecccC---------------CCCcc
Confidence            999999543  448899999999987678999999998753   6899999999987631               11567


Q ss_pred             ceeEEEeeeEeccHHHHHHHhccCCCCCCCCCCCCcccCCCchHHHHHHHHHHHHHHHhH
Q 039881          163 DVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDDLS  222 (315)
Q Consensus       163 ~if~EIPi~I~ns~L~~~~L~~L~~~~~~~~~~~d~L~Ls~~~~Lek~l~~L~e~id~l~  222 (315)
                      .+|.|||++|.+++.+++.++.|..........- .+ .+.-..+...+..|.+.||.+.
T Consensus       141 ~~F~~ip~~i~~~eaE~i~v~~l~~~~~~~~~~~-~~-~~~l~~~~~al~~L~~~l~~i~  198 (265)
T cd08064         141 SMFVPIPLELLYSEAERVALDLLAKTLASPSRSA-PL-TSDLEQLEASLEKLQEMLDRVL  198 (265)
T ss_pred             eEEEEcceeeecCcHHHHHHHHHHhhccCCcccc-cc-hhhHHHHHHHHHHHHHHHHHHH
Confidence            8999999999999999999999986433311110 00 1122345555556666666553

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

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

Probab=99.91  E-value=3.4e-23  Score=194.77  Aligned_cols=145  Identities=15%  Similarity=0.201  Sum_probs=119.6

Q ss_pred             ceEEEeHhHHHHHHhhhhccC---CccccC-------------------CCCCCcc---chhhhhhHHHHHHHHHHhcCC
Q 039881           22 QVVQIEGLVLLKIIKHCKDLS---PSWLRQ-------------------ENDIDQE---TDDIGANYQLDMMSCLRDANV   76 (315)
Q Consensus        22 ~~V~I~~lvllKIikH~~~~~---~~~V~G-------------------p~~~~~~---~~~~~~~Yq~~Ml~~l~~vn~   76 (315)
                      ++|+|||+|||+|+|||.+..   +.+|+|                   |.+++++   ..+.+..|+.+|++++++||+
T Consensus         1 ~~V~ihplVLl~I~dh~~R~~~~~~~~ViG~LLG~~~~~~veItnsF~~p~~~~~~~~~~~~~d~~y~~~m~~~~kkv~~   80 (280)
T cd08062           1 KKVVVHPLVLLSVVDHYNRVAKGTSKRVVGVLLGSWKKGVLDVTNSFAVPFEEDEKDPSVWFLDHNYLENMYGMFKKVNA   80 (280)
T ss_pred             CeEEEehHHHHHHHHHHhhhcCCCCceEEEEEEEEEeCCEEEEEEeeecCccCCCCCcchhhhhHHHHHHHHHHHHHhCC
Confidence            479999999999999999753   568999                   5554333   246789999999999999999


Q ss_pred             CCcceeEEecCCCCCCCCCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEEEechhhHhhhhcCCCCcccccc
Q 039881           77 DSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRD  156 (315)
Q Consensus        77 d~~~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAfRls~~~~~~~k~g~~~~e~l~~  156 (315)
                      ++.+||||||+|..+    ..++..+-.|+..++++|+|++||...   ++.+.++||...+....              
T Consensus        81 ~e~vVGWY~tg~~~~----~~d~~ih~~~~~~~~~pv~l~vd~~~~---~~~lpi~aY~s~~~~~~--------------  139 (280)
T cd08062          81 KEKIVGWYSTGPKLR----PNDLDINELFRRYCPNPVLVIIDVRPK---DLGLPTEAYIAVEEVHD--------------  139 (280)
T ss_pred             CCCeEEEecCCCCCC----cchHHHHHHHHHhCCCCEEEEEecCCC---CCCCceEEEEEeeeccC--------------
Confidence            999999999999754    566666677788888999999999874   37899999999875431              


Q ss_pred             ccccccceeEEEeeeEeccHHHHHHHhccCC
Q 039881          157 KNISWADVFEEITIRVSNSALVSAFMSTLEP  187 (315)
Q Consensus       157 ~~l~~~~if~EIPi~I~ns~L~~~~L~~L~~  187 (315)
                      .|.+...+|.+||.+|.....+++.++.|..
T Consensus       140 ~g~~~~~~F~~vp~~i~~~eaE~igve~l~r  170 (280)
T cd08062         140 DGTPTSKTFVHVPSEIGAEEAEEVGVEHLLR  170 (280)
T ss_pred             CCCcceeEEEEcceEeeccchHHHHHHHHHh
Confidence            1223578999999999999999999999975

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.

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

Probab=99.90  E-value=2e-23  Score=180.52  Aligned_cols=114  Identities=18%  Similarity=0.209  Sum_probs=95.7

Q ss_pred             EEEeHhHHHHHHhhhhccC--CccccC-------------------CCCCCccchhhhhhHHHHHHHHHHhcCCCCccee
Q 039881           24 VQIEGLVLLKIIKHCKDLS--PSWLRQ-------------------ENDIDQETDDIGANYQLDMMSCLRDANVDSNVVG   82 (315)
Q Consensus        24 V~I~~lvllKIikH~~~~~--~~~V~G-------------------p~~~~~~~~~~~~~Yq~~Ml~~l~~vn~d~~~VG   82 (315)
                      |+|||+|+|||+|||.+..  +.+|+|                   |.+++++....+..|+.+|++++++|++++.+||
T Consensus         1 V~ihplvll~I~dh~~R~~~~~~~v~G~LlG~~~~~~veV~nsF~lp~~~~~~~~~~d~~y~~~m~~~~~~v~~~~~vVG   80 (157)
T cd08057           1 VQLHPLVLLNISDHYTRRKYGIKRVIGVLLGYVDGDKIEVTNSFELPFDEEEESIFIDTEYLEKRYNLHKKVYPQEKIVG   80 (157)
T ss_pred             CEEccHHHhhHHHHHHhccCCCCeEEEEEEeEEeCCEEEEEEeEEccccCCCcchhhhHHHHHHHHHHHHHhCCCCCEEE
Confidence            6899999999999999887  789999                   4544444456689999999999999999999999


Q ss_pred             EEecCCCCCC--CCCHHHHHHHHhhhhcCCCeEEEEeCCCCC-ccCCCceeeeEEEechhh
Q 039881           83 WYQSTPPGDC--FQSVEFIETFMNYKENIGKCVCIICDPSRS-NIQGGLAGLKALKLSDTF  140 (315)
Q Consensus        83 WY~S~~~g~~--f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s-~~~~g~lslkAfRls~~~  140 (315)
                      ||++++.+++  +.+...|+.++.++ ..+++|+|++||.++ ..  |+++++|||+++.+
T Consensus        81 WY~~~~~~~~~~~~~~~~i~~~~~~~-~~~~~v~L~~D~~~~~~~--~~l~i~ay~~~~~~  138 (157)
T cd08057          81 WYSIGSNNSNEISKSDNSLHSQFSLI-SEENPLILILDPSLQSDS--EKLEISTFTSAQRE  138 (157)
T ss_pred             EEeecCCCCCCCChhHHHHHHHHHhc-cCCCCEEEEEcCCcccCC--CcccEEEEEEecCC
Confidence            9999999753  45566688888877 347789999999884 44  99999999998654

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

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

Probab=99.90  E-value=1.1e-22  Score=192.08  Aligned_cols=183  Identities=15%  Similarity=0.194  Sum_probs=136.8

Q ss_pred             eEEEeHhHHHHHHhhhhcc----C--CccccC-------------------CCCCCc-cchhhhhhHHHHHHHHHHhcCC
Q 039881           23 VVQIEGLVLLKIIKHCKDL----S--PSWLRQ-------------------ENDIDQ-ETDDIGANYQLDMMSCLRDANV   76 (315)
Q Consensus        23 ~V~I~~lvllKIikH~~~~----~--~~~V~G-------------------p~~~~~-~~~~~~~~Yq~~Ml~~l~~vn~   76 (315)
                      +|+|||+|||+|++||.+.    .  +.+|+|                   |.++++ +....+.+|+.+|++++++||+
T Consensus         2 ~V~lHPlVll~I~dH~~R~~~~~~~~~~~v~G~LLG~~~~~~veItnsF~~p~~~~~~~~~~id~~y~~~m~~~~kkV~~   81 (288)
T cd08063           2 SVKLHPLVILNISDHITRHRAQSQSEPPRVVGALLGQQDGREIEIENSFELKYDTNEDGEIVLDKEFLETRLEQFKQVFK   81 (288)
T ss_pred             eEEEecceeeeHHhhHhHHhccCCCCCCcEEEEEEEEEcCCEEEEEEEEecccccCCCCceeeCHHHHHHHHHHHHHhcc
Confidence            6999999999999999984    2  678998                   554443 4456789999999999999999


Q ss_pred             CCcceeEEecCCCCCCCCCHHHHHHHHhhhhcCCCeEEEEeCCCCC-ccCCCceeeeEEEechhhHhhhhcCCCCccccc
Q 039881           77 DSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRS-NIQGGLAGLKALKLSDTFLELYRNGNFSGESLR  155 (315)
Q Consensus        77 d~~~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s-~~~~g~lslkAfRls~~~~~~~k~g~~~~e~l~  155 (315)
                      ++.+||||+|++.|. +.+...|+.|+.  ..++++|+|++||..+ .+  |.++++||+..+....             
T Consensus        82 ~~~vVGWY~tg~~~~-~~~~~~Ih~~~~--~~~~~pv~L~~D~~~~~~~--~~lpi~ay~s~~~~~~-------------  143 (288)
T cd08063          82 DLDFVGWYTTGPGGP-TESDLPIHKQIL--EINESPVLLLLDPEANASG--KDLPVTIYESVLELVD-------------  143 (288)
T ss_pred             CCceEEEEecCCCCC-CHHHHHHHHHHH--hhCCCcEEEEEccccccCC--CCCceeEEEEEEeccC-------------
Confidence            999999999999965 888888998888  3457899999999886 55  8899999999876532             


Q ss_pred             cccccccceeEEEeeeEeccHHHHHHHhccCCCCCCCCCCCCcccCCCchHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 039881          156 DKNISWADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDDLSTEQKKLKFYFKD  234 (315)
Q Consensus       156 ~~~l~~~~if~EIPi~I~ns~L~~~~L~~L~~~~~~~~~~~d~L~Ls~~~~Lek~l~~L~e~id~l~~e~~~~~~yqr~  234 (315)
                        + .....|.+||.+|..+..+++.++.+........        +..+.+...++.+..++..+..-......|-+.
T Consensus       144 --~-~~~~~F~~i~~~i~~~eaErIgv~~l~~~~~~~~--------~~~~~~~~~l~~~~~al~~L~~rl~~i~~Yl~~  211 (288)
T cd08063         144 --G-EATLRFRELPYTIETGEAERIGVDHVARGGASGS--------SEKSTVAAHLQAQHNAIKMLNSRVELILEYLKA  211 (288)
T ss_pred             --C-ccccEEEeeeeEEEeccCceeeHHHHHhcCCCCC--------CcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              1 2457899999999999999999999975432111        111234445555555555554333333334333

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

>PLN03246 26S proteasome regulatory subunit; Provisional

Probab=99.89  E-value=6.7e-22  Score=187.64  Aligned_cols=150  Identities=19%  Similarity=0.229  Sum_probs=119.3

Q ss_pred             CCCcceEEEeHhHHHHHHhhhhccCC---ccccC-------------------CCCCCcc---chhhhhhHHHHHHHHHH
Q 039881           18 PPALQVVQIEGLVLLKIIKHCKDLSP---SWLRQ-------------------ENDIDQE---TDDIGANYQLDMMSCLR   72 (315)
Q Consensus        18 ~~~~~~V~I~~lvllKIikH~~~~~~---~~V~G-------------------p~~~~~~---~~~~~~~Yq~~Ml~~l~   72 (315)
                      ..|+.+|+|||+|+|+|+|||.+..+   .+|+|                   |.+++++   ..+.+.+|+.+|+++++
T Consensus         2 ~~~~~~V~vhPlVll~I~dh~~R~~~~~~~rviG~LLG~~~~~~ieItnsF~~p~~e~~~~~~~~~~D~~y~~~m~~~~k   81 (303)
T PLN03246          2 PRGIEKVVVHPLVLLSIVDHYNRVAKDTRKRVVGVLLGSSFRGRVDVTNSFAVPFEEDDKDPSIWFLDHNYLESMFGMFK   81 (303)
T ss_pred             CCCCcEEEECcHHHHHHHHHHHhccCCCCCeeEEEEEeeecCCEEEEEeccccCcccCCCCccceeecHHHHHHHHHHHH
Confidence            57899999999999999999998764   56888                   5443322   24578999999999999


Q ss_pred             hcCCCCcceeEEecCCCCCCCCCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEEEechhhHhhhhcCCCCcc
Q 039881           73 DANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGE  152 (315)
Q Consensus        73 ~vn~d~~~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAfRls~~~~~~~k~g~~~~e  152 (315)
                      +||+++.+||||+|++..+  .+...|+.+|  ....+++|+|++|+...   ++.++++||.+.+.....   |     
T Consensus        82 ~V~~~~~vVGWY~tg~~i~--~~d~~IH~~~--~~~~~~Pv~L~vD~~~~---~~~lpi~aY~s~~~~~~~---~-----  146 (303)
T PLN03246         82 RINAKEHVVGWYSTGPKLR--ENDLDIHELF--NDYVPNPVLVIIDVQPK---ELGIPTKAYYAVEEVKEN---A-----  146 (303)
T ss_pred             HhCCCCcEEeeecCCCCCC--cchHHHHHHH--HhhCCCCeEEEEecCCC---CCCCceEEEEEEEeccCC---C-----
Confidence            9999999999999999765  4455666544  55667899999998762   377999999987664310   0     


Q ss_pred             ccccccccccceeEEEeeeEeccHHHHHHHhccCC
Q 039881          153 SLRDKNISWADVFEEITIRVSNSALVSAFMSTLEP  187 (315)
Q Consensus       153 ~l~~~~l~~~~if~EIPi~I~ns~L~~~~L~~L~~  187 (315)
                           ......+|.+||.+|.....+++.++.+..
T Consensus       147 -----~~~~~~~F~~vp~~i~~~EaE~Igve~l~r  176 (303)
T PLN03246        147 -----TQKSQKVFVHVPSEIGAHEAEEIGVEHLLR  176 (303)
T ss_pred             -----CcccccEEEECCeeeeecCHHHHHHHHHHh
Confidence                 012467899999999999999999999975

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

Probab=99.88  E-value=2.3e-22  Score=178.89  Aligned_cols=117  Identities=20%  Similarity=0.265  Sum_probs=96.0

Q ss_pred             cceEEEeHhHHHHHHhhhhccCCccccCC---------------------CCCCccchhhhhhHHHHHHHHHHhcCCCCc
Q 039881           21 LQVVQIEGLVLLKIIKHCKDLSPSWLRQE---------------------NDIDQETDDIGANYQLDMMSCLRDANVDSN   79 (315)
Q Consensus        21 ~~~V~I~~lvllKIikH~~~~~~~~V~Gp---------------------~~~~~~~~~~~~~Yq~~Ml~~l~~vn~d~~   79 (315)
                      .-+|+|+++|||||++||+++. .+|+|.                     ...+.+....+..+|.+|++.+++.|.  .
T Consensus         4 pf~V~Is~~all~m~~Ha~~~~-~EvcGlL~G~~d~~~~~l~Vt~~~p~~~~~~~~~~e~dp~~q~e~~~~l~~~gl--~   80 (187)
T cd08067           4 PFKVTVSSNALLLMDFHCHLTT-SEVIGYLGGTWDPNTQNLTILQAFPCRSRLTGLDCEMDPVSETEIRESLESRGL--S   80 (187)
T ss_pred             CEEEEECHHHHHHHHHHhcCCC-cEEEEEEEeEEcCCCCeEEEEEEEecCCCCCCcccccCHHHHHHHHHHHHHcCC--E
Confidence            3489999999999999999987 899991                     111111112357899999999998885  9


Q ss_pred             ceeEEecCCCCCCCCCHHHHHHHHhhhhcCC-------CeEEEEeCCCCCccCCCceeeeEEEechhh
Q 039881           80 VVGWYQSTPPGDCFQSVEFIETFMNYKENIG-------KCVCIICDPSRSNIQGGLAGLKALKLSDTF  140 (315)
Q Consensus        80 ~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~~-------~~V~LV~Dp~~s~~~~g~lslkAfRls~~~  140 (315)
                      +||||||||.+.||+|..||+||+.||....       ++|+||+||..+...+....++||+++|+-
T Consensus        81 vVGwYHSHP~~~~~pS~~Di~tQ~~yQ~~~~~~~~~~~p~v~~I~~P~~~~~~~~~s~i~~f~~~~~~  148 (187)
T cd08067          81 VVGWYHSHPTFPPNPSLRDIDTQLDYQIMFKGSDSGYEPCVGLICSPYDRRNSTPESQITCFWVMPPP  148 (187)
T ss_pred             EEEEEecCCCCCcCCCHHHHHHHHHHHhhccccccCCCCeEEEEEccccCCCCCCCCcEEEEEEECCC
Confidence            9999999999999999999999999998764       899999999886432356789999998763

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

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

Probab=99.86  E-value=1.6e-21  Score=177.49  Aligned_cols=179  Identities=15%  Similarity=0.191  Sum_probs=145.0

Q ss_pred             CcceEEEeHhHHHHHHhhhhccC--CccccC-------------------CCCCCccchhhhhhHHHHHHHHHHhcCCCC
Q 039881           20 ALQVVQIEGLVLLKIIKHCKDLS--PSWLRQ-------------------ENDIDQETDDIGANYQLDMMSCLRDANVDS   78 (315)
Q Consensus        20 ~~~~V~I~~lvllKIikH~~~~~--~~~V~G-------------------p~~~~~~~~~~~~~Yq~~Ml~~l~~vn~d~   78 (315)
                      ..-+|.|+|+|+++|++|+.+..  ..+|||                   |+.+.++....+.+|+.+|+++++++|+.|
T Consensus        19 s~ltv~ihP~Vlf~ivD~~~RR~~~~~rviGTLLG~~~~g~ieitNCFaVPhnEssdqvevdm~y~~~M~~l~~k~npnE   98 (288)
T KOG2975|consen   19 SNLTVRLHPVVLFSIVDAYERRNKGAERVIGTLLGTVDKGSVEVTNCFAVPHNESSDQVEVDMEYAKNMYELHKKVNPNE   98 (288)
T ss_pred             CCceEEEcceEEeEeehhhhcCCccchhhhhheeecccCCeEEEEEeeeccCccccccceeeHHHHHHHHHHhcccCCCc
Confidence            35689999999999999999764  578999                   777777777889999999999999999999


Q ss_pred             cceeEEecCCCCCCCCCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEEEechhhHhhhhcCCCCcccccccc
Q 039881           79 NVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKN  158 (315)
Q Consensus        79 ~~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAfRls~~~~~~~k~g~~~~e~l~~~~  158 (315)
                      .+||||.+++..+  -++.+|++.|....  +++|||.+|+..+   +|.+++|||-.++.++.               |
T Consensus        99 ~vvGWyaTg~dvt--~~sslihdyYare~--~~pvhLtVDT~~~---n~rm~ikaYvss~~Gvp---------------g  156 (288)
T KOG2975|consen   99 LVVGWYATGHDVT--EHSSLIHDYYAREA--PNPVHLTVDTSLQ---NGRMSIKAYVSSLMGVP---------------G  156 (288)
T ss_pred             eeEEEEecCCCcc--cchhHHHHHhhccC--CCCeEEEEecccc---CCccceeEEEEeccCCC---------------C
Confidence            9999999999886  45899999998776  5699999999884   49999999999987752               2


Q ss_pred             ccccceeEEEeeeEeccHHHHHHHhccCCCCCCCCCCCCcccCCCchHHHHHHHHHHHHHHHhH
Q 039881          159 ISWADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDDLS  222 (315)
Q Consensus       159 l~~~~if~EIPi~I~ns~L~~~~L~~L~~~~~~~~~~~d~L~Ls~~~~Lek~l~~L~e~id~l~  222 (315)
                      .+...+|.+||++|.+-..++..|..+.+.. ..++....| .+.-.-++.....|.+.||...
T Consensus       157 ~~~~~mF~plpvel~~~~~ervgl~li~kt~-~sp~r~~~l-~~dLqQv~~at~~l~~~L~~Vl  218 (288)
T KOG2975|consen  157 RTMGVMFTPLPVELAYYDAERVGLDLIEKTS-FSPSRVAGL-SSDLQQVEGATARLQSLLERVL  218 (288)
T ss_pred             cccceeeeeeeeEEeecchhhhHHHHHHHhc-cChhhhccc-cchHHHHHHHHHHHHHHHHHHH
Confidence            3345599999999999999999999997654 212222222 1122446777788888888874

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

Probab=99.85  E-value=4.3e-21  Score=180.27  Aligned_cols=229  Identities=20%  Similarity=0.211  Sum_probs=153.9

Q ss_pred             CCcceEEEeHhHHHHHHhhhhccCCcc-ccCC------------------------CCCCcc---chhhhhhHHHHHHHH
Q 039881           19 PALQVVQIEGLVLLKIIKHCKDLSPSW-LRQE------------------------NDIDQE---TDDIGANYQLDMMSC   70 (315)
Q Consensus        19 ~~~~~V~I~~lvllKIikH~~~~~~~~-V~Gp------------------------~~~~~~---~~~~~~~Yq~~Ml~~   70 (315)
                      ..-.+|.|+++++++|++|.+.+.|.+ |||-                        .++..-   +++.+..||..|+++
T Consensus        28 ~~~e~v~i~slall~m~rh~r~~~p~e~v~Glm~lg~~~~fv~~~Tv~vv~v~am~~sg~~is~~~e~~d~V~q~q~~~~  107 (316)
T KOG1555|consen   28 DEKETVYISSLALLKMLRHDRAGSPEETVMGLMSLGRLPEFVDDYTVRVVDVFAMPQSGTGISKFVEAVDPVFQTQMMDL  107 (316)
T ss_pred             cCcceeeeehhhhhhcccccccCCchhhccceeecccccceeeecceeeeeeeccccccceecccchhccHHHHHHHHHH
Confidence            345789999999999999999999987 8881                        111111   345689999999999


Q ss_pred             HHhcCCCCcceeEEecCCCCCCCCCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEEEechhhHhhhh-----
Q 039881           71 LRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYR-----  145 (315)
Q Consensus        71 l~~vn~d~~~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAfRls~~~~~~~k-----  145 (315)
                      ++..|+++.+||||||||+.+||+|..||+||.+||...+++++.++||+.|-.  |+....|||+.....-.-.     
T Consensus       108 l~~tGrp~~VVGWYHSHP~f~~wpS~vDi~tQ~syq~~~~r~~a~~v~~i~S~~--g~vv~d~f~~In~~~~~~~~eprq  185 (316)
T KOG1555|consen  108 LKQTGRPELVVGWYHSHPGFGCWPSLVDIDTQQSYQALSSRAVAVVVDPIQSPY--GKVVPDAFSSINPQWISPGGEPRQ  185 (316)
T ss_pred             HHhcCCcceEEeeccCCCCCCCCccccchhHHHHHhhhccCCcceeeecccCCC--CCccCChhhhcCcccccCCCCCcc
Confidence            999999999999999999999999999999999999999999999999999976  9988889999866432211     


Q ss_pred             ----cCCCCc-cccccccccccceeEEEeeeEeccHHHHHHHhccCCCCCCCCCCCCcccCCCchHHHHHHHHHHHHHHH
Q 039881          146 ----NGNFSG-ESLRDKNISWADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDD  220 (315)
Q Consensus       146 ----~g~~~~-e~l~~~~l~~~~if~EIPi~I~ns~L~~~~L~~L~~~~~~~~~~~d~L~Ls~~~~Lek~l~~L~e~id~  220 (315)
                          -|.+.. +++++.....+ -|+-+.|.++...+...++..+...+..     + +...+-.-..++-+.-.....+
T Consensus       186 tts~~~~m~~~~s~q~~~~g~n-~y~~~ei~~~v~~~~~~~~~nv~~~s~~-----~-~~~~~y~e~~k~~~~~~~~~~s  258 (316)
T KOG1555|consen  186 TTSNGGHMDMQESLQEDIHGLN-RYYRIEIPLHVLPYEQLMLLNVPLKSWK-----S-LQDVLYEEKLKAYLQSVPSMKS  258 (316)
T ss_pred             ccccccccccchhHHhHhhccC-ceEEEEeeEEechhhhhchhccchhhhh-----h-cchhhHHHHHHHhhhhhhHHHh
Confidence                134444 55554444444 5677777777777777776666433221     1 1111111112222222233333


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Q 039881          221 LSTEQKKLKFYFKDVTRQQAWVQERRDENEARKAAG  256 (315)
Q Consensus       221 l~~e~~~~~~yqr~l~r~q~~~~kr~~EN~~R~~~g  256 (315)
                      ++.--|+..--..+..-.+.|+..+-.-|.++..++
T Consensus       259 L~~~~N~~~~~~k~~~~~~~~i~d~~~~~~kq~l~~  294 (316)
T KOG1555|consen  259 LSKVYNKVCDVCKQMSDFLLMIEDVGEQNPKQHLKE  294 (316)
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHhhhhhHHHHhHH
Confidence            333222222223333333388888877776555544

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

Probab=99.84  E-value=3e-20  Score=170.86  Aligned_cols=194  Identities=15%  Similarity=0.132  Sum_probs=134.1

Q ss_pred             cceEEEeHhHHHHHHhhhhccCCccccC----CCCC------Ccc------------------chhhhh---hHHHHHHH
Q 039881           21 LQVVQIEGLVLLKIIKHCKDLSPSWLRQ----ENDI------DQE------------------TDDIGA---NYQLDMMS   69 (315)
Q Consensus        21 ~~~V~I~~lvllKIikH~~~~~~~~V~G----p~~~------~~~------------------~~~~~~---~Yq~~Ml~   69 (315)
                      +++|.|+..++++|+.||.++.|.+++|    ...+      .+.                  .+.+..   .-+.+|-+
T Consensus         1 l~~V~Is~~~l~~il~HA~~~~P~EvCGLL~G~~~~~~~~~~~~~v~i~~~~~~~~~~~s~~r~eidPee~~~a~~ea~~   80 (244)
T cd08068           1 LSKVHLSADVYLVCLTHALSTEKEEVMGLLIGEIEVSKKGEEVAIVHISAVIILRRSDKRKDRVEISPEQLSAASTEAER   80 (244)
T ss_pred             CcEEEECHHHHHHHHHHHHhCCCcceeEEEEeecccccccccceeEEEeeeccccccCCCCceEEeCHHHHHHHHHHHHH
Confidence            4689999999999999999999999999    2211      110                  111122   22356667


Q ss_pred             HHHhcCCCCcceeEEecCCCCCCCCCHHHHHHHHhhhhcCCCeEEEEeCCCC---CccCCCceeeeEEEechhhHhhhhc
Q 039881           70 CLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSR---SNIQGGLAGLKALKLSDTFLELYRN  146 (315)
Q Consensus        70 ~l~~vn~d~~~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~---s~~~~g~lslkAfRls~~~~~~~k~  146 (315)
                      +++.++++..+||||||||.+.||+|..||++|..||...+++|+||+++..   ++. .|++.++|||+.+.-      
T Consensus        81 ~~~~~~rgl~vVGwYHSHP~~~a~PS~~Dv~tq~~~q~~~p~~v~lIvS~~~~~~~~~-~~~~~i~aFr~~~g~------  153 (244)
T cd08068          81 LTEETGRPMRVVGWYHSHPHITVWPSHVDVRTQAMYQMMDSGFVGLIFSCFNEDKSTK-MGEVQVTCFQSVQGN------  153 (244)
T ss_pred             HHhhccCCceEEEEEecCCCCCCCCCHhHHHHHHHHHhhCCCcEEEEEEecCCccccc-cCCEEEEEEEecCCC------
Confidence            7888999999999999999999999999999999999888999999997643   232 388999999997541      


Q ss_pred             CCCCccccccccccccceeEEEeeeEe-ccHHHHHHHhccCCCCCCC-------------CCCCCccc-CCCchHHHHHH
Q 039881          147 GNFSGESLRDKNISWADVFEEITIRVS-NSALVSAFMSTLEPDRVTD-------------QSDHDRLQ-ISSKPLLESNV  211 (315)
Q Consensus       147 g~~~~e~l~~~~l~~~~if~EIPi~I~-ns~L~~~~L~~L~~~~~~~-------------~~~~d~L~-Ls~~~~Lek~l  211 (315)
                                  ........|+|+.|. .+.+...+|..+......+             .+..|.|+ +++.+..+++|
T Consensus       154 ------------~~~~~~~~e~pl~i~~~~~~~~~~~~~~~~l~~~l~~e~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  221 (244)
T cd08068         154 ------------KAGQYERIEVPLEIVPTSTISEACLESLVELPEILYQEEEDAYNKALQSCDLDPLTKIHNGSVYTKSL  221 (244)
T ss_pred             ------------CCCcceEEEeeeEEecCccccccCHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHhhHHHHHHH
Confidence                        134567899999997 4445555655554211000             11122233 44444455555


Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039881          212 EFLIRCMDDLSTEQKKLKFYFKDVTRQQAWVQERRDEN  249 (315)
Q Consensus       212 ~~L~e~id~l~~e~~~~~~yqr~l~r~q~~~~kr~~EN  249 (315)
                      ..+++.+-...            +    +|++.|.++|
T Consensus       222 ~~~~~~~~~p~------------~----~~l~~~~~~~  243 (244)
T cd08068         222 CHILETISGPL------------L----QLLEARLEQN  243 (244)
T ss_pred             HHHHHHHHhhH------------H----HHHHHHHHhc
Confidence            55555443332            2    8999998887

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

>smart00232 JAB_MPN JAB/MPN domain

Probab=99.83  E-value=7.3e-20  Score=152.31  Aligned_cols=114  Identities=29%  Similarity=0.430  Sum_probs=101.0

Q ss_pred             eEEEeHhHHHHHHhhhhccCCccccC-------------------CCCCCcc-chhhhhhHHHHHHHHHHhcCCCCccee
Q 039881           23 VVQIEGLVLLKIIKHCKDLSPSWLRQ-------------------ENDIDQE-TDDIGANYQLDMMSCLRDANVDSNVVG   82 (315)
Q Consensus        23 ~V~I~~lvllKIikH~~~~~~~~V~G-------------------p~~~~~~-~~~~~~~Yq~~Ml~~l~~vn~d~~~VG   82 (315)
                      .|+|++.|+++|++||.+..|.+++|                   |...+++ ....+.+|+..|.+.+++++.+..+||
T Consensus         1 ~v~i~~~v~~~i~~h~~~~~p~e~~G~L~G~~~~~~~~i~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vG   80 (135)
T smart00232        1 EVKVHPLVPLNILKHAIRDGPEEVCGVLLGKSNKDRPEVKEVFAVPNEPQDDSVQEYDEDYSHLMDEELKKVNKDLEIVG   80 (135)
T ss_pred             CEEEcHHHHHHHHHHHhcCCCcEEEEEEEEEEcCCEEEEEEEEecCcCCCCcchhhhhhhHHHHHHHHHHhhCCCceEEE
Confidence            48999999999999999999999999                   2222222 224577999999999999999999999


Q ss_pred             EEecCCCCCCCCCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEEEech
Q 039881           83 WYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSD  138 (315)
Q Consensus        83 WY~S~~~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAfRls~  138 (315)
                      ||||||.+.+++|..|+.++..|+.....+|++++|+.++..  |.++++|||+++
T Consensus        81 wyhshp~~~~~pS~~D~~~~~~~~~~~~~~~~~~v~~~~s~~--g~~~~~af~~~~  134 (135)
T smart00232       81 WYHSHPDESPFPSEVDVATHESYQAPWPISVVLIVDPIKSFQ--GRLSLRAFRLTP  134 (135)
T ss_pred             EEEcCCCCCCCcCHHHHHHHHHHHhcCCceEEEEECCCcccc--CcEEEEEEEecC
Confidence            999999988899999999999999999999999999999887  999999999975

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

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

Probab=99.82  E-value=3.8e-20  Score=152.96  Aligned_cols=104  Identities=17%  Similarity=0.165  Sum_probs=82.7

Q ss_pred             hHHHHHHhhhhccCCccccCCCCC---Cc---c-----chhhh----hhHHHHHHHHHHhcCCCCcceeEEecCCCCCCC
Q 039881           29 LVLLKIIKHCKDLSPSWLRQENDI---DQ---E-----TDDIG----ANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCF   93 (315)
Q Consensus        29 lvllKIikH~~~~~~~~V~Gp~~~---~~---~-----~~~~~----~~Yq~~Ml~~l~~vn~d~~~VGWY~S~~~g~~f   93 (315)
                      .|++||++||.++.|.+++|..-+   ++   +     .+...    ..=...|..+++..+.+.++||||||||.+.+|
T Consensus         1 ~~~~~i~~ha~~~~p~E~cGlL~G~~~~~~~~~~~~~v~~~~p~~~~~~~~~~~~~~~~~~~~g~~~vG~YHSHP~~~~~   80 (119)
T cd08058           1 DALLKMLQHAESNTGIEVMGLLCGELTHNEFTDKHVIVPKQSAGPDSCTGENVEELFNVQTGRPLLVVGWYHSHPTFTAW   80 (119)
T ss_pred             CHHHHHHHHhcCCCCeEEEEEeeeEEecCccceeEEEEeecCCCCCCchhHHHHHHHHHHhCCCCeEEEEEecCCCCCCc
Confidence            489999999999999999993211   10   0     01111    111335777778899999999999999977789


Q ss_pred             CCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEEEec
Q 039881           94 QSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLS  137 (315)
Q Consensus        94 ~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAfRls  137 (315)
                      +|..||++|+.||...+++|+||+||.++     ++++|||||+
T Consensus        81 pS~~Di~~~~~~q~~~p~~~~lI~s~~~~-----~~~~~a~rl~  119 (119)
T cd08058          81 LSSVDIHTQASYQLMLPEAIAIVVSPKHR-----NKDTGIFRLT  119 (119)
T ss_pred             cCHHHHHHHHHHhccCCCeEEEEECcCCC-----CcccceEEeC
Confidence            99999999999999999999999999772     5789999986

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

>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=99.78  E-value=1.3e-19  Score=148.02  Aligned_cols=91  Identities=35%  Similarity=0.516  Sum_probs=74.6

Q ss_pred             CcceEEEeHhHHHHHHhhhhccCCccccC--------------------CCCCCcc-chhhhhhHHHHHHHHHHhcCCCC
Q 039881           20 ALQVVQIEGLVLLKIIKHCKDLSPSWLRQ--------------------ENDIDQE-TDDIGANYQLDMMSCLRDANVDS   78 (315)
Q Consensus        20 ~~~~V~I~~lvllKIikH~~~~~~~~V~G--------------------p~~~~~~-~~~~~~~Yq~~Ml~~l~~vn~d~   78 (315)
                      ++.+|+|+|+|+|+|++||.+..+.+|+|                    |..++++ ....+..+..+|++++++++++.
T Consensus         2 s~~~V~i~p~vll~i~~h~~r~~~~~v~G~LlG~~~~~~~v~I~~~f~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (114)
T PF01398_consen    2 SVQTVQIHPLVLLKIIDHATRSSPNEVIGLLLGTQDGDNTVEITNSFPVPHSESEDDCDMDDEDFQKKMIELLKKVNPNL   81 (114)
T ss_dssp             SCEEEEEEHHHHHHHHHHHHHHHCTEEEEEEEEEEETT-EEEEEEEEEESEEEESSEEEEECCHHHHHHHHHHHHCSTTS
T ss_pred             CcEEEEECHHHHHHHHHHHhcCCCCEEEEEEEEEecCceEEEEEEEEEeeEecCccccccchhhHHHHHHhhhccccccc
Confidence            57899999999999999999988889999                    2222222 23345566689999999999999


Q ss_pred             cceeEEecCCCCCCCCCHHHHHHHHhhhhcCC
Q 039881           79 NVVGWYQSTPPGDCFQSVEFIETFMNYKENIG  110 (315)
Q Consensus        79 ~~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~~  110 (315)
                      .+||||||||.+.||+|..||++|..||.+++
T Consensus        82 ~iVGWY~s~p~~~~~~S~~di~~q~~~q~~~~  113 (114)
T PF01398_consen   82 EIVGWYHSHPNISCFPSPTDIETQKQYQRMNP  113 (114)
T ss_dssp             EEEEEEEEESSS-SS--HHHHHHHHHHHHHTT
T ss_pred             eEEEEEEccCCccccCCHHHHHHHHHHHHhCC
Confidence            99999999999999999999999999999875

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.

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

Probab=99.77  E-value=3.3e-18  Score=154.68  Aligned_cols=149  Identities=17%  Similarity=0.208  Sum_probs=124.1

Q ss_pred             CCCcceEEEeHhHHHHHHhhhhccCC---ccccC-------------------CCCCCcc---chhhhhhHHHHHHHHHH
Q 039881           18 PPALQVVQIEGLVLLKIIKHCKDLSP---SWLRQ-------------------ENDIDQE---TDDIGANYQLDMMSCLR   72 (315)
Q Consensus        18 ~~~~~~V~I~~lvllKIikH~~~~~~---~~V~G-------------------p~~~~~~---~~~~~~~Yq~~Ml~~l~   72 (315)
                      ..++..|.|+|+|||++++|+.+...   .+|.|                   |.+++|.   +.+-|.+|...|..|++
T Consensus         5 ~~~~~kViVhPLVLLS~VDhynR~~k~~~KRvvGvLLG~~~~~~i~vtnSfAvpFeEDdk~~svWFlDh~Y~esM~~mfk   84 (309)
T KOG1556|consen    5 ELTVEKVIVHPLVLLSAVDHYNRVGKDTNKRVVGVLLGSWNGDVIDVTNSFAVPFEEDDKDKSVWFLDHNYIESMFGMFK   84 (309)
T ss_pred             ccccceeeeehhHHHHHHHHHhhhccCcCceEEEEEEecCCCCeEEeecceeccccccCCCCceEEeccHHHHHHHHHHH
Confidence            46788999999999999999998754   68888                   6655443   46789999999999999


Q ss_pred             hcCCCCcceeEEecCCCCCCCCCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEEEechhhHhhhhcCCCCcc
Q 039881           73 DANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGE  152 (315)
Q Consensus        73 ~vn~d~~~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAfRls~~~~~~~k~g~~~~e  152 (315)
                      +||.++.+||||||+|..    ...||+.....-++.+++|.+|+|...-   +-.|...||              |..+
T Consensus        85 KvNakekivGWYhTGPkl----~~nDl~In~l~k~y~pnpvLvIIdvkpk---~~gLPT~AY--------------~aVe  143 (309)
T KOG1556|consen   85 KVNAKEKVVGWYHTGPKL----RENDLDINELLKRYVPNPVLVIIDVKPK---ELGLPTEAY--------------IAVE  143 (309)
T ss_pred             HhcchhheeeeeccCCcc----ccchhhHHHHHhhcCCCceEEEEecccc---cCCCCchhe--------------eeee
Confidence            999999999999999964    3677777777778889999999999762   234778888              5556


Q ss_pred             ccccccccccceeEEEeeeEeccHHHHHHHhccCC
Q 039881          153 SLRDKNISWADVFEEITIRVSNSALVSAFMSTLEP  187 (315)
Q Consensus       153 ~l~~~~l~~~~if~EIPi~I~ns~L~~~~L~~L~~  187 (315)
                      .+.+.|......|+.+|.+|-.-..+....+.|-.
T Consensus       144 ev~dDgt~t~ktF~Hvps~I~AeEAEEvGVEHLlR  178 (309)
T KOG1556|consen  144 EVKDDGTPTSKTFVHVPSEIEAEEAEEVGVEHLLR  178 (309)
T ss_pred             eeecCCCCccceeEecCcccchhHHHHhhHHHHHH
Confidence            66778888899999999999999999998888754

>cd08066 MPN_AMSH_like Mov34/MPN/PAD-1 family

Probab=99.53  E-value=7.1e-14  Score=123.09  Aligned_cols=114  Identities=15%  Similarity=0.263  Sum_probs=87.8

Q ss_pred             ceEEEeHhHHHHHHhhhhccC--CccccC-------------------CCCCCcc-chhhhhhHHHHHHHHHHhcCCCCc
Q 039881           22 QVVQIEGLVLLKIIKHCKDLS--PSWLRQ-------------------ENDIDQE-TDDIGANYQLDMMSCLRDANVDSN   79 (315)
Q Consensus        22 ~~V~I~~lvllKIikH~~~~~--~~~V~G-------------------p~~~~~~-~~~~~~~Yq~~Ml~~l~~vn~d~~   79 (315)
                      ..+.|....+-||+.||..+.  |.++.|                   |..++.. ....+   +.++++.++.  .+..
T Consensus         2 ~~l~Ipk~il~~~l~~A~~~~~~p~E~cGlL~G~~~~~~~~I~~i~~~~q~~~~~~~~~~~---~~e~~~~~~~--~gle   76 (173)
T cd08066           2 RQVVVPADLMDKFLQLAEPNTSRNLETCGILCGKLSNNAFFITHLIIPKQSGTSDSCQTTN---EEELFDFQDQ--HDLI   76 (173)
T ss_pred             eEEEECHHHHHHHHHHHHhCCCCCCeEEEEEEeEcCCCeEEEEEEEeccccCCCceecCCC---HHHHHHHHHh--CCCe
Confidence            467899999999999999985  578888                   1122111 11111   2335554443  4679


Q ss_pred             ceeEEecCCCCCCCCCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEEEec-hhhHhhhhcC
Q 039881           80 VVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLS-DTFLELYRNG  147 (315)
Q Consensus        80 ~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAfRls-~~~~~~~k~g  147 (315)
                      +||||||||...||+|..||+||..||.+.+++++||++|       +..+++|||++ |.+++-.+++
T Consensus        77 ~vGwyHSHP~~~~~pS~~Dv~t~~~~~~~~p~~~~lIvSp-------~~~~l~afrl~~~~g~~~~~~~  138 (173)
T cd08066          77 TLGWIHTHPTQTCFLSSVDLHTHCSYQLMLPEAIAIVCAP-------KYNEFGIFRLTDPPGLDEILNC  138 (173)
T ss_pred             eEEEEeccCCCCCccCHHHHHHHHHHHhcCCCeEEEEECC-------CCcEEeEEEeecCCcceecccC
Confidence            9999999999999999999999999999999999999997       45789999999 7787766543

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

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

Probab=99.52  E-value=3.3e-14  Score=115.42  Aligned_cols=96  Identities=20%  Similarity=0.263  Sum_probs=75.8

Q ss_pred             HHHHhhhhccCCccccC-------------------CCCCCccchhhhhhHHHHHHHHHHhcCCCCcceeEEecCCCCCC
Q 039881           32 LKIIKHCKDLSPSWLRQ-------------------ENDIDQETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDC   92 (315)
Q Consensus        32 lKIikH~~~~~~~~V~G-------------------p~~~~~~~~~~~~~Yq~~Ml~~l~~vn~d~~~VGWY~S~~~g~~   92 (315)
                      .+|++||++..|.+|+|                   |....+.   ....++. |+...+.++.+..+||||||||.+.+
T Consensus         2 k~il~~a~~~~~~ev~G~L~G~~~~~~~~i~~~~~~~~~~~~~---~~~~~~~-~~~~~~~~~~~~~iVGwyhshp~~~~   77 (116)
T cd07767           2 KMFLDAAKSINGKEVIGLLYGSKTKKVLDVDEVIAVPFDEGDK---DDNVWFL-MYLDFKKLNAGLRIVGWYHTHPKPSC   77 (116)
T ss_pred             HhHHHHHhcCCCcEEEEEeEEEEcCCEEEEEEEEecccCCCCC---ccHHHHH-HHHHHHHhcCCCeEEEEEEcCCCCCC
Confidence            58999999988999999                   1111111   1122332 67777888999999999999999988


Q ss_pred             CCCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEE
Q 039881           93 FQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKAL  134 (315)
Q Consensus        93 f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAf  134 (315)
                      |+|..+|.++..||...+++|+||+|+....   ..++++||
T Consensus        78 ~~s~~dv~~~~~~q~~~~~~v~li~~~~~~~---~~~~~~~~  116 (116)
T cd07767          78 FLSPNDLATHELFQRYFPEKVMIIVDVKPKD---LGNSWKCY  116 (116)
T ss_pred             ccCHHHHHHHHHHHHhCCCCEEEEEECCCcc---CCCCcccC
Confidence            9999999999999998889999999998832   35778876

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

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

Probab=98.85  E-value=1.8e-08  Score=84.18  Aligned_cols=96  Identities=23%  Similarity=0.228  Sum_probs=70.9

Q ss_pred             HHHHHHhhhhccCCccccCC-------------------CCCCcc-ch-hhhhhHHHHHHHHHHhcCCCCcceeEEecCC
Q 039881           30 VLLKIIKHCKDLSPSWLRQE-------------------NDIDQE-TD-DIGANYQLDMMSCLRDANVDSNVVGWYQSTP   88 (315)
Q Consensus        30 vllKIikH~~~~~~~~V~Gp-------------------~~~~~~-~~-~~~~~Yq~~Ml~~l~~vn~d~~~VGWY~S~~   88 (315)
                      ++-+|++||+++.|.++.|-                   ...++. .. ..+...+..+.+..++.  +..+||||||||
T Consensus         3 ~~~~il~ha~~~~P~E~cGlL~G~~~~~~~~i~~~~p~~n~~~~~~~~f~~d~~~~~~~~~~~~~~--g~~~vG~~HSHP   80 (128)
T cd08070           3 LLEAILAHAEAEYPEECCGLLLGKGGGVTAIVTEVYPVRNVAESPRRRFEIDPAEQLAAQREARER--GLEVVGIYHSHP   80 (128)
T ss_pred             HHHHHHHHHHhCCCCceEEEEEeecCCCCceEEEEEEccCCCCCCCceEEECHHHHHHHHHHHHHC--CCeEEEEEeCCC
Confidence            56799999999999999981                   111111 11 12455556666666655  479999999999


Q ss_pred             CCCCCCCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEEEec
Q 039881           89 PGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLS  137 (315)
Q Consensus        89 ~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAfRls  137 (315)
                      .+.+++|..|+..+...     ..+.||+.+..     +...++||++.
T Consensus        81 ~~~~~PS~~D~~~~~~~-----~~~~lIv~~~~-----~~~~~~~~~~~  119 (128)
T cd08070          81 DGPARPSETDLRLAWPP-----GVSYLIVSLAG-----GAPELRAWRLE  119 (128)
T ss_pred             CCCCCCCHHHHHhccCC-----CCeEEEEECCC-----CCcEEEEEEEc
Confidence            99999999999887643     67899998754     45679999985

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

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

Probab=98.85  E-value=4.8e-09  Score=88.34  Aligned_cols=92  Identities=18%  Similarity=0.173  Sum_probs=58.9

Q ss_pred             EEEeHhHHHHHHhhhhccCCccccC----CCCC----Ccc---chhhhhhHHHHHH--HHHHhcCCCCcceeEEecCCCC
Q 039881           24 VQIEGLVLLKIIKHCKDLSPSWLRQ----ENDI----DQE---TDDIGANYQLDMM--SCLRDANVDSNVVGWYQSTPPG   90 (315)
Q Consensus        24 V~I~~lvllKIikH~~~~~~~~V~G----p~~~----~~~---~~~~~~~Yq~~Ml--~~l~~vn~d~~~VGWY~S~~~g   90 (315)
                      +.|...++-.|+.|+.+..|.+++|    +..+    ...   .+.....++..|+  ..+.....++.+||||||||++
T Consensus         2 ~~i~~~~l~~il~~a~~~~p~E~~g~l~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~~~~~~~~~g~~vvg~yHSHP~~   81 (134)
T COG1310           2 LVIPKEVLGAILEHARREHPREVCGLLAGTREGERYFPLKNVSVEPVEYFEIDPEYSLFYLAAEDAGEVVVGWYHSHPGG   81 (134)
T ss_pred             ceecHHHHHHHHHHHHhcCChheEEEEEeecccceeeccccccCCcceeEeeCHHHHHHHHHHhhCCCEEEEEEcCCCCC
Confidence            4678899999999999999999998    3222    000   1111112222222  2222333449999999999999


Q ss_pred             CCCCCHHHHHHHHhhhhcCCC-eEEEEeCC
Q 039881           91 DCFQSVEFIETFMNYKENIGK-CVCIICDP  119 (315)
Q Consensus        91 ~~f~s~~~Ietq~~yQ~~~~~-~V~LV~Dp  119 (315)
                      .||+|..|+.    .+...+. ++.++.++
T Consensus        82 ~~~pS~~D~~----~~~~~~~~~~iv~~~~  107 (134)
T COG1310          82 PPYPSEADRR----LSKLGPLPWLIVSVPP  107 (134)
T ss_pred             CCCcCHHHHh----hccccCCCEEEEEcCC
Confidence            9999999998    4444333 45555555

>KOG2880 consensus SMAD6 interacting protein AMSH, contains JAB/MPN/Mov34 domain [Signal transduction mechanisms]

Probab=98.36  E-value=1.6e-07  Score=89.64  Aligned_cols=68  Identities=24%  Similarity=0.507  Sum_probs=56.7

Q ss_pred             cceeEEecCCCCCCCCCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEEEec-hhhHhhhh---cCCCCccc
Q 039881           79 NVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLS-DTFLELYR---NGNFSGES  153 (315)
Q Consensus        79 ~~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAfRls-~~~~~~~k---~g~~~~e~  153 (315)
                      ..+||-|+||.-+||+|+.|++|+++||.+.+++|+||..|..-+       .+-|||+ |.+|+.+.   +..|.+..
T Consensus       326 ~tlGWIHTHPTQt~FmSSVDlHTHcSYQiMlPEAiAIV~aPk~~~-------tGiFrLt~~~Gm~~i~~C~~~GFHpH~  397 (424)
T KOG2880|consen  326 LTLGWIHTHPTQTCFMSSVDLHTHCSYQIMLPEAIAIVCAPKSKT-------TGIFRLTDPGGMEVIRGCRKKGFHPHS  397 (424)
T ss_pred             eeeeeeecCCccchhheeccccccceeeeecchheeEEeccccCC-------cceEEecCCcchHHHhhcccCCCCCCC
Confidence            589999999999999999999999999999999999999997533       3459999 55777664   33377754

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

Probab=98.00  E-value=1.9e-05  Score=73.42  Aligned_cols=66  Identities=21%  Similarity=0.246  Sum_probs=58.4

Q ss_pred             CcceeEEecCCCCCCCCCHHHHHHHHhhhhcCC-----CeEEEEeCCCCCccCCCceeeeEEEechhhHhhhhcCC
Q 039881           78 SNVVGWYQSTPPGDCFQSVEFIETFMNYKENIG-----KCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGN  148 (315)
Q Consensus        78 ~~~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~~-----~~V~LV~Dp~~s~~~~g~lslkAfRls~~~~~~~k~g~  148 (315)
                      -..+||-||+|.-.||+++.||.++..||...+     ++|++++....     |.+++.||+|++.+++-.++++
T Consensus       106 Le~LGWIHTqp~e~~~Lss~Dv~tha~~~~~~~~w~~~~~V~it~Sftp-----Gs~sl~ay~LT~~G~~wg~~n~  176 (252)
T cd08056         106 LEPLGWIHTQPNELPQLSPQDVTTHAKILADNPSWDGEKTVILTCSFTP-----GSCSLTAYKLTPEGYEWGKQNK  176 (252)
T ss_pred             CEeeEEEEcCCCCccccCHHHHHHHHHHHHhccccCCCcEEEEEEcCCC-----CceEEEEEecCHHHHHHHHhCc
Confidence            358999999999999999999999999999886     78999988754     9999999999999988766544

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

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

Probab=97.64  E-value=0.00023  Score=58.74  Aligned_cols=94  Identities=20%  Similarity=0.151  Sum_probs=60.5

Q ss_pred             HhHHHHHHhhhhccCCccccCCCCCCcc----------chhhhhh--HHHHHHHHHHhcCCCCcceeEEecCCCCCCCCC
Q 039881           28 GLVLLKIIKHCKDLSPSWLRQENDIDQE----------TDDIGAN--YQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQS   95 (315)
Q Consensus        28 ~lvllKIikH~~~~~~~~V~Gp~~~~~~----------~~~~~~~--Yq~~Ml~~l~~vn~d~~~VGWY~S~~~g~~f~s   95 (315)
                      .-++-.|++||.++.|.++.|-..+..+          ....+..  |-.+|.    +  .+..+||-|||||.+..++|
T Consensus         3 ~~~~~~i~~ha~~~~P~E~CGlL~G~~~~v~~~~~~~n~~~~~~~~~f~~~~~----~--~g~~ivgi~HSHP~~~~~PS   76 (117)
T cd08072           3 RDLLDSILEAAKSSHPNEFAALLRGKDGVITELLILPGTESGEVSAVFPLLML----P--LDMSIVGSVHSHPSGSPRPS   76 (117)
T ss_pred             HHHHHHHHHHHhhcCCceEEEEEEeeccEEEEEEECCCCCCCCcceeechHHh----c--CCCeEEEEEEcCCCCCCCCC
Confidence            4466789999999999988881111000          0111111  112222    2  36789999999999999999


Q ss_pred             HHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEEEec
Q 039881           96 VEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLS  137 (315)
Q Consensus        96 ~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAfRls  137 (315)
                      ..|+....     .++.+.||+.+-.     +.=.++||+..
T Consensus        77 ~~D~~~~~-----~~~~~~lIvs~~~-----~~~~~~a~~~~  108 (117)
T cd08072          77 DADLSFFS-----KTGLVHIIVGYPY-----DEDDWRAYDSD  108 (117)
T ss_pred             HHHHHhhh-----cCCCEEEEEECcC-----CCCCEEEEecC
Confidence            99986332     2567889988543     22348899773

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.

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

Probab=97.44  E-value=0.00025  Score=65.06  Aligned_cols=146  Identities=13%  Similarity=0.170  Sum_probs=99.9

Q ss_pred             cceEEEeHhHHHHHHhhhhcc-----CCc-cccCC----C---------------CCCccchhhhhhHHHHHHHHHHhcC
Q 039881           21 LQVVQIEGLVLLKIIKHCKDL-----SPS-WLRQE----N---------------DIDQETDDIGANYQLDMMSCLRDAN   75 (315)
Q Consensus        21 ~~~V~I~~lvllKIikH~~~~-----~~~-~V~Gp----~---------------~~~~~~~~~~~~Yq~~Ml~~l~~vn   75 (315)
                      --+|.+||+|+|.|-+|+.+.     .|. .|.|.    +               +..++....+..|-..=-+..++|-
T Consensus         8 s~tv~LHPLVImniSdH~tR~k~Q~gpp~~~VyGaliG~Q~GR~vEi~NSFeL~~d~~~~~~~~dke~l~kk~eqykqVF   87 (299)
T KOG3050|consen    8 SVTVKLHPLVIMNISDHYTRVKTQLGPPVKQVYGALIGKQRGRNVEIMNSFELKMDTEEDTETIDKEYLEKKEEQYKQVF   87 (299)
T ss_pred             ceeEEeccEEEEehhHHHHHHHhhcCCcHHHhhhhheecccCceEEEeeeeEEEecchhhhhhccHHHHHHHHHHHHHhc
Confidence            347899999999999999864     343 56661    1               1112233456677666677889999


Q ss_pred             CCCcceeEEecCCCCCCCCCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEEEechhhHhhhhcCCCCccccc
Q 039881           76 VDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLR  155 (315)
Q Consensus        76 ~d~~~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAfRls~~~~~~~k~g~~~~e~l~  155 (315)
                      +|-.++|||.++..-    +.++|+.+..--..++-++.|-..|.....  ....+.-|-.--.              +.
T Consensus        88 pdl~vlGwYttG~d~----t~sd~~i~k~l~~i~esplflkLNp~t~~t--~~~pv~lfese~d--------------vi  147 (299)
T KOG3050|consen   88 PDLYVLGWYTTGSDP----TPSDIHIHKQLMDINESPLFLKLNPATNHT--DKDPVTLFESEID--------------VI  147 (299)
T ss_pred             ccceEEEEeecCCCC----ChhhhHHHHHHHhhhcCceEEEecchhccc--cCCCceeeeeehe--------------ee
Confidence            999999999998854    488888777666666889999999976432  2223333322100              01


Q ss_pred             cccccccceeEEEeeeEeccHHHHHHHhccCCC
Q 039881          156 DKNISWADVFEEITIRVSNSALVSAFMSTLEPD  188 (315)
Q Consensus       156 ~~~l~~~~if~EIPi~I~ns~L~~~~L~~L~~~  188 (315)
                       .|. ..-+|.++.-++..-..++...+.....
T Consensus       148 -dg~-~q~~f~~~tytl~teEaERIgVdHVA~l  178 (299)
T KOG3050|consen  148 -DGE-AQMLFVPLTYTLATEEAERIGVDHVARL  178 (299)
T ss_pred             -cCc-ceeeeeeeEEEEeehhhhhccchhheee
Confidence             111 2457999999999999999998887654

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

Probab=97.05  E-value=0.0087  Score=56.58  Aligned_cols=72  Identities=22%  Similarity=0.298  Sum_probs=62.8

Q ss_pred             CCcceeEEecCCCC----CCCCCHHHHHHHHhhhh------cCCCeEEEEeCCCCCccCCCceeeeEEEechhhHhhhhc
Q 039881           77 DSNVVGWYQSTPPG----DCFQSVEFIETFMNYKE------NIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRN  146 (315)
Q Consensus        77 d~~~VGWY~S~~~g----~~f~s~~~Ietq~~yQ~------~~~~~V~LV~Dp~~s~~~~g~lslkAfRls~~~~~~~k~  146 (315)
                      .-..|||-.|++..    ++|+|+..|..-..+|.      ...++|.+|+.+..  .  |.+.+.||++|+.+|..+++
T Consensus        92 GL~~VG~IfT~l~~~~~d~~~LSs~Evi~aA~~Q~~~~~g~~gskFvT~vvs~~~--~--g~i~~~ayQvSdq~~~lv~~  167 (274)
T cd08061          92 GLERVGWIFTDLPREDKDGYFLSAEEVILAAKFQLKHPTGKFGSKFVTVVVTGDK--D--GQIHFEAYQVSDQAMALVRD  167 (274)
T ss_pred             CCeEEEEEEecCCCCCCCceeECHHHHHHHHHHhhhcccCCcCCeEEEEEEecCC--C--CceeeeeeeecHHHHHHHHc
Confidence            35899999999966    88999999999999994      55899999999965  2  88999999999999999999


Q ss_pred             CCCCcc
Q 039881          147 GNFSGE  152 (315)
Q Consensus       147 g~~~~e  152 (315)
                      |-+.+.
T Consensus       168 ~~i~~s  173 (274)
T cd08061         168 GLLLPT  173 (274)
T ss_pred             CccccC
Confidence            877653

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

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

Probab=96.81  E-value=0.00072  Score=53.67  Aligned_cols=86  Identities=20%  Similarity=0.210  Sum_probs=50.1

Q ss_pred             hHHHHHHhhhhccCCccccC----CCCCCcc--ch--hhhhhHHHHHHHHHHhcCCCCcceeEEecCCCCCCCCCHHHHH
Q 039881           29 LVLLKIIKHCKDLSPSWLRQ----ENDIDQE--TD--DIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIE  100 (315)
Q Consensus        29 lvllKIikH~~~~~~~~V~G----p~~~~~~--~~--~~~~~Yq~~Ml~~l~~vn~d~~~VGWY~S~~~g~~f~s~~~Ie  100 (315)
                      .++-.|+.||.+..|.+..|    .......  ..  ..+..-+..+... ...+.+..+||+|||||.+..++|..|+.
T Consensus         3 ~~~~~i~~~~~~~~p~E~~G~L~g~~~~~~~~~~~~~~~~p~~~~~~~~~-~~~~~~~~~vg~~HSHP~~~a~pS~~D~~   81 (104)
T PF14464_consen    3 EVLEQIIAHARAAYPNEACGLLLGRRDDQRFIVVPNVNPDPRDSFRRERF-EARERGLEIVGIWHSHPSGPAFPSSTDIR   81 (104)
T ss_dssp             HHHHHHHHHHHHHTTS-EEEEEEEEEECCEEEEEEEEE--HHCHHHHHH--HHHHHT-EEEEEEEEESSSSSS--HHHHH
T ss_pred             HHHHHHHHHHhhCCCCeEEEEEEEEecCCEEEEEeCCCCCcHHHHHHHhh-hhhcccceeeEEEEcCCCCCCCCCHHHHH
Confidence            46778999999999988888    1111000  00  0111111111110 34456779999999999999999999998


Q ss_pred             HHHhhhhcCCCeEEEEeCC
Q 039881          101 TFMNYKENIGKCVCIICDP  119 (315)
Q Consensus       101 tq~~yQ~~~~~~V~LV~Dp  119 (315)
                      +....-    ..+.||+-.
T Consensus        82 ~~~~~~----~~~~iI~~~   96 (104)
T PF14464_consen   82 SMRDLA----PPSYIIVGN   96 (104)
T ss_dssp             THCCS-----SCEEEEEEE
T ss_pred             hhhccC----CeEEEEEeC
Confidence            766433    566666654

>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=96.48  E-value=0.014  Score=47.50  Aligned_cols=77  Identities=17%  Similarity=0.074  Sum_probs=48.8

Q ss_pred             HHHHHhhhhccCCccccCCC-------------CCCccchhhhhhHH---HHHHHHHHhcCCCCcceeEEecCCCCCCCC
Q 039881           31 LLKIIKHCKDLSPSWLRQEN-------------DIDQETDDIGANYQ---LDMMSCLRDANVDSNVVGWYQSTPPGDCFQ   94 (315)
Q Consensus        31 llKIikH~~~~~~~~V~Gp~-------------~~~~~~~~~~~~Yq---~~Ml~~l~~vn~d~~~VGWY~S~~~g~~f~   94 (315)
                      +=.|+.|+++..|.+.-|-.             +..++.   ...|.   .++++..+    ...+||-|||||.+.+.+
T Consensus         3 ~~~i~~ha~~~~P~E~CGll~g~~~~~~~~p~~N~~~~p---~~~F~idp~e~~~a~~----~~~ivgi~HSHP~~~a~P   75 (108)
T cd08073           3 EDAILAHAKAEYPREACGLVVRKGRKLRYIPCRNIAADP---EEHFEISPEDYAAAED----EGEIVAVVHSHPDGSPAP   75 (108)
T ss_pred             HHHHHHHHhHCCCCcceEEEEecCCceEEEECccCCCCc---cceEEeCHHHHHHHhc----CCCEEEEEEcCCCCCCCC
Confidence            44799999999998888811             001110   01121   22333332    227999999999999999


Q ss_pred             CHHHHHHHHhhhhcCCCeEEEEeCC
Q 039881           95 SVEFIETFMNYKENIGKCVCIICDP  119 (315)
Q Consensus        95 s~~~Ietq~~yQ~~~~~~V~LV~Dp  119 (315)
                      |..|+.-+.     .++.+.||+..
T Consensus        76 S~~D~~~~~-----~~~~~~iIvs~   95 (108)
T cd08073          76 SEADRAQQE-----ATGLPWIIVSW   95 (108)
T ss_pred             CHHHHHHhh-----cCCCcEEEEEc
Confidence            999985322     24667788775

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.

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

Probab=95.78  E-value=0.067  Score=42.41  Aligned_cols=77  Identities=22%  Similarity=0.268  Sum_probs=47.7

Q ss_pred             HHHHHHhhhhccCCccccCCCCCC--ccc----------hhhhhhHHHHHHHHHHhcCCCCcceeEEecCCCCCCCCCHH
Q 039881           30 VLLKIIKHCKDLSPSWLRQENDID--QET----------DDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVE   97 (315)
Q Consensus        30 vllKIikH~~~~~~~~V~Gp~~~~--~~~----------~~~~~~Yq~~Ml~~l~~vn~d~~~VGWY~S~~~g~~f~s~~   97 (315)
                      ++-.|+.|+....|.+..|-.-++  ...          ...+..+    ++  ........+||-|||||.|.+.+|..
T Consensus         2 ~~~~i~~~~~~~~p~E~~gll~~~~~~~~~~~~~~~~~~~~~~~~~----~~--~a~~~~~~~v~i~HsHP~g~~~PS~~   75 (101)
T cd08059           2 LLKTILVHAKDAHPDEFCGFLSGSKDNVMDELIFLPFVSGSVSAVI----DL--AALEIGMKVVGLVHSHPSGSCRPSEA   75 (101)
T ss_pred             HHHHHHHHHHhcCChhhheeeecCCCCeEEEEEeCCCcCCccChHH----HH--HHhhCCCcEEEEEecCcCCCCCCCHH
Confidence            445688999998898888721100  000          0001111    22  23344567999999999999999999


Q ss_pred             HHHHHHhhhhcCCCeEEEEe
Q 039881           98 FIETFMNYKENIGKCVCIIC  117 (315)
Q Consensus        98 ~Ietq~~yQ~~~~~~V~LV~  117 (315)
                      |+......     ...++|+
T Consensus        76 D~~~~~~~-----~~~~iIv   90 (101)
T cd08059          76 DLSLFTRF-----GLYHVIV   90 (101)
T ss_pred             HHHHHHhc-----CCeEEEE
Confidence            99744321     4566666

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

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

Probab=95.66  E-value=0.15  Score=45.39  Aligned_cols=95  Identities=14%  Similarity=0.138  Sum_probs=52.6

Q ss_pred             EeHhHHHHHHhhhhccCCccccC----CCC-CCcc-c-hhh---hhhHH---------HHHHHHHHhcCCCCcceeEEec
Q 039881           26 IEGLVLLKIIKHCKDLSPSWLRQ----END-IDQE-T-DDI---GANYQ---------LDMMSCLRDANVDSNVVGWYQS   86 (315)
Q Consensus        26 I~~lvllKIikH~~~~~~~~V~G----p~~-~~~~-~-~~~---~~~Yq---------~~Ml~~l~~vn~d~~~VGWY~S   86 (315)
                      |+..++.||+.||....|.+|.|    ... ++.. + +..   ...|.         ...-+..++  .+-.+||+|||
T Consensus         1 is~~ay~ki~~HA~k~p~~evcGlLlG~~~~~~~~~V~d~vPl~h~~~~l~P~~Eval~~ve~~~~~--~gl~IvG~Yhs   78 (182)
T cd08060           1 LSTLAYVKMLLHAAKYPHCAVNGLLLGKKSSGGSVEITDAVPLFHSCLALAPMLEVALALVDAYCKS--SGLVIVGYYQA   78 (182)
T ss_pred             CCHHHHHHHHHHHHHcCCchheEEEEeeecCCCCEEEEEEEEcCCCccccCHHHHHHHHHHHHHHHH--CCCEEEEEEec
Confidence            46788999999999977778888    222 1111 1 110   11111         111222233  35689999999


Q ss_pred             CCCCCC-CCCHHHHHHHHhhhhcCCCeEEEEeCCCCC
Q 039881           87 TPPGDC-FQSVEFIETFMNYKENIGKCVCIICDPSRS  122 (315)
Q Consensus        87 ~~~g~~-f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s  122 (315)
                      ||.... -++..--..--.-+...++++.+++|-.+.
T Consensus        79 h~~~~d~~~~~~a~kIadki~~~~~~a~ll~vdn~~l  115 (182)
T cd08060          79 NERLDDSSPSPVAKKIADKIAENFSNACLLMVDNEKL  115 (182)
T ss_pred             CCcccCCCCcHHHHHHHHHHHHhCCCCEEEEEeCccc
Confidence            997531 122111111111233446899999998775

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.

>PF05021 NPL4: NPL4 family; InterPro: IPR007717 The HRD4 gene is identical to NPL4, a gene previously implicated in nuclear transport

Probab=94.18  E-value=0.31  Score=46.89  Aligned_cols=71  Identities=20%  Similarity=0.224  Sum_probs=59.1

Q ss_pred             CCcceeEEecCCC---------------CCCCCCHHHHHHHHhhhhcC-------------CCeEEEEeCCCCCccCCCc
Q 039881           77 DSNVVGWYQSTPP---------------GDCFQSVEFIETFMNYKENI-------------GKCVCIICDPSRSNIQGGL  128 (315)
Q Consensus        77 d~~~VGWY~S~~~---------------g~~f~s~~~Ietq~~yQ~~~-------------~~~V~LV~Dp~~s~~~~g~  128 (315)
                      +-..|||-=|+..               .+.|+|+.-|-.-..+|...             .++|.+|+.+..  .  |.
T Consensus        57 GL~rVG~IfTdl~~~~~~~g~v~~~r~~~~~~LSs~Eii~aA~~Q~~~p~~~~~s~~g~fgSkFVT~vvsg~~--~--g~  132 (306)
T PF05021_consen   57 GLERVGWIFTDLTDDGSGDGTVKCKRHKDSYFLSSLEIIFAAKLQNKHPNPCKYSETGYFGSKFVTCVVSGDE--E--GE  132 (306)
T ss_pred             CCEEEEEEEecCcccccCCCceeeccccccccccHHHHHHHHHHHHhcCccccccCCCccCCeEEEEEEeCCC--C--Cc
Confidence            4579999888876               66799999999999998632             478999998843  3  99


Q ss_pred             eeeeEEEechhhHhhhhcCCCCc
Q 039881          129 AGLKALKLSDTFLELYRNGNFSG  151 (315)
Q Consensus       129 lslkAfRls~~~~~~~k~g~~~~  151 (315)
                      +.+.||.+|+..|..+++|-+.+
T Consensus       133 i~~~ayQvS~q~~~Lv~~~~l~~  155 (306)
T PF05021_consen  133 IHFEAYQVSNQCVALVRAGILEP  155 (306)
T ss_pred             eeeEEeeehHHHHHHHHCCcccc
Confidence            99999999999999999886654

Using a diverse set of substrates and direct ubiquitination assays, analysis revealed that HRD4/NPL4 is required for a poorly characterised step in ER-associated degradation following ubiquitination of target proteins but preceding their recognition by the 26S proteasome []. Npl4p physically associates with Cdc48p via Ufd1p to form a Cdc48p-Ufd1p-Npl4p complex. The Cdc48-Ufd1-Npl4 complex functions in the recognition of several polyubiquitin-tagged proteins and facilitates their presentation to the 26S proteasome for processive degradation or even more specific processing [].

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

Probab=93.36  E-value=1.3  Score=39.83  Aligned_cols=101  Identities=16%  Similarity=0.167  Sum_probs=57.3

Q ss_pred             ceEEEeHhHHHHHHhhhhccCCccccC----CCCCCcc-c---hhh-----------hhhHHHHHHHHHHhcCCCCccee
Q 039881           22 QVVQIEGLVLLKIIKHCKDLSPSWLRQ----ENDIDQE-T---DDI-----------GANYQLDMMSCLRDANVDSNVVG   82 (315)
Q Consensus        22 ~~V~I~~lvllKIikH~~~~~~~~V~G----p~~~~~~-~---~~~-----------~~~Yq~~Ml~~l~~vn~d~~~VG   82 (315)
                      .+|.|+..|..||+-||.......|.|    ....++. +   +++           -.+--..+++..-+ ..+..+||
T Consensus         2 ~~v~is~~AY~K~~LHaaKyP~~aVnGvLlg~~~~~~~~v~i~DaVPLfH~~~~L~PmlEvAL~qvd~~~~-~~gl~IvG   80 (196)
T PF03665_consen    2 SSVEISSRAYAKMILHAAKYPHCAVNGVLLGKSSKSSSEVEIVDAVPLFHHWLSLSPMLEVALAQVDAYAK-SNGLVIVG   80 (196)
T ss_pred             ceEEEcHHHHHHHHHHhccCCCCceeeEEEeccCCCCceEEEeeceeccccccCcchHHHHHHHHHHHHHh-hCCCEEEE
Confidence            368999999999999999866567887    2222221 1   111           01111222333222 24578999


Q ss_pred             EEecCCCCC-CCCCHHHHHHHHhhhhcCCCeEEEEeCCCCCc
Q 039881           83 WYQSTPPGD-CFQSVEFIETFMNYKENIGKCVCIICDPSRSN  123 (315)
Q Consensus        83 WY~S~~~g~-~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~  123 (315)
                      |||...... .-++..-...--.-....+.++.|++|-.+-.
T Consensus        81 yY~Ane~~~d~~~~~~a~kiad~I~~~~~~a~ll~idn~kl~  122 (196)
T PF03665_consen   81 YYQANERLDDNSPSPVAEKIADKIAENFSDACLLMIDNKKLS  122 (196)
T ss_pred             EEEeccccccCCCCHHHHHHHHHHHhhCCCcEEEEEECcccc
Confidence            999977321 12333221111112234578999999987744

>TIGR03735 PRTRC_A PRTRC system protein A

Probab=92.98  E-value=0.073  Score=47.79  Aligned_cols=72  Identities=14%  Similarity=0.090  Sum_probs=51.0

Q ss_pred             EEeHhHHHHHHhhhhccCCccccC----CCCCC---------ccchhhhhhHHHHHHHHHHhcCCCCcceeEEecCCCCC
Q 039881           25 QIEGLVLLKIIKHCKDLSPSWLRQ----ENDID---------QETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGD   91 (315)
Q Consensus        25 ~I~~lvllKIikH~~~~~~~~V~G----p~~~~---------~~~~~~~~~Yq~~Ml~~l~~vn~d~~~VGWY~S~~~g~   91 (315)
                      +|....+=+|+.||++..|.++.|    +.++.         -+....--.|...|+      ..++..|+-||||+...
T Consensus        74 ~Ip~~l~~~ii~hAr~~~P~EacG~Iag~~~~~~~r~~p~~N~~~Sp~~~~~d~~~~------~~ge~lV~iyHSH~~sp  147 (192)
T TIGR03735        74 PIPASLLEEFAEAARAALPNEVAAWIVWNSETGSLRLAALESIEASPGHIDYRRPRL------DDGEHLVVDLHSHGTGS  147 (192)
T ss_pred             CCCHHHHHHHHHHHHhcCCcceEEEEEEcCCCCEEEEEeccccccCCceEEEcchHH------hCCCeEEEEEcCCCCCC
Confidence            788889999999999999998887    31110         001111122323333      68889999999999998


Q ss_pred             CCCCHHHHHHH
Q 039881           92 CFQSVEFIETF  102 (315)
Q Consensus        92 ~f~s~~~Ietq  102 (315)
                      .|+|.+|+..-
T Consensus       148 A~PS~tD~~Dd  158 (192)
T TIGR03735       148 AFFSETDDADD  158 (192)
T ss_pred             CCCCcccchhh
Confidence            89999998643

A novel genetic system characterized by six major proteins, included a ParB homolog and a ThiF homolog, is designated PRTRC, or ParB-Related,ThiF-Related Cassette. It is often found on plasmids. This protein family is designated protein A.

>TIGR02256 ICE_VC0181 integrative and conjugative element protein, VC0181 family

Probab=87.71  E-value=3.9  Score=34.57  Aligned_cols=56  Identities=9%  Similarity=0.019  Sum_probs=39.6

Q ss_pred             HHHHHHHHHHhcCCCCcceeEEecCCCCCCCCCHHHHHHHHhhhhcCCCeEEEEeC
Q 039881           63 YQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICD  118 (315)
Q Consensus        63 Yq~~Ml~~l~~vn~d~~~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~D  118 (315)
                      .|...-+..++-+-....||=+||||.+..-+|..|+.+....=......++||+=
T Consensus        58 ~q~~i~~~~~~s~g~~~ylGeWHtHP~~~p~PS~~D~~~~~~~~~~~~~~l~iIvG  113 (131)
T TIGR02256        58 HQSEVDEHFEVSGGVDTYLGEWHTHPEDQPEPSWTDRRSWRTIIRSPEAMLLLIVG  113 (131)
T ss_pred             HHHHHHHHHHHhCCceEEEEecCcCCCCCCCCCHHHHHHHHHHHhCCCeeEEEEEc
Confidence            34445555566666688999999999987678999988877655544555555553

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.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	315
4b4t_V	306	Near-Atomic Resolution Structural Model Of The Yeas		4e-04

>pdb|4B4T|V Chain V, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 306

Iteration: 1
 Score = 42.4 bits (98), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 21/69 (30%), Positives = 35/69 (50%), Gaps = 3/69 (4%)
Query: 54  QETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCV 113
           +  DD+   +Q  MM  L+    D  VVGWY S P   C+ S   + T  ++++   + V
Sbjct: 81  EAVDDV---FQAKMMDMLKQTGRDQMVVGWYHSHPGFGCWLSSVDVNTQKSFEQLNSRAV 137
Query: 114 CIICDPSRS 122
            ++ DP +S
Sbjct: 138 AVVVDPIQS 146

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	315
2o95_A	187	26S proteasome non-ATPase regulatory subunit 7; PS	4e-13
4e0q_A	141	COP9 signalosome complex subunit 6; MPN (MPR1P and	6e-12
3rzv_A	211	STAM-binding protein; ubiquitin hydrolase, endosom	9e-09
2znr_A	178	AMSH-like protease; metal binding protein, alterna	2e-05

>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 = 65.8 bits (160), Expect = 4e-13
 Identities = 35/177 (19%), Positives = 53/177 (29%), Gaps = 47/177 (26%)

Query: 20  ALQVVQIEGLVLLKIIKHCKDLSPS--------------------------WLRQENDID 53
           A+Q V +  LVLL ++ H   +                                 E+D D
Sbjct: 6   AVQKVVVHPLVLLSVVDHFNRIGKVGNQKRVVGVLLGSWQKKVLDVSNSFAVPFDEDDKD 65

Query: 54  QETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCV 113
                +  +Y  +M    +  N    +VGWY +  P      +   E    Y  N    V
Sbjct: 66  DSVWFLDHDYLENMYGMFKKVNARERIVGWYHTG-PKLHKNDIAINELMKRYCPN---SV 121

Query: 114 CIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGESLRDKNISWADVFEEITI 170
            +I D    +   GL             E Y     S E + D     +  FE +T 
Sbjct: 122 LVIIDVKPKD--LGL-----------PTEAYI----SVEEVHDDGTPTSKTFEHVTS 161

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

 Score = 61.4 bits (149), Expect = 6e-12
 Identities = 14/131 (10%), Positives = 34/131 (25%), Gaps = 33/131 (25%)

Query: 24  VQIEGLVLLKIIKHCKDLSPS--------------------------WLRQENDIDQETD 57
           + +  LV++ I +H                                  L+ +   D+   
Sbjct: 8   ISLHPLVIMNISEHWTRFRAQHGEPRQVYGALIGKQKGRNIEIMNSFELKTDVIGDETVI 67

Query: 58  DIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIIC 117
           +   +Y        +    D + +GWY +         ++         E     + +  
Sbjct: 68  NK--DYYNKKEQQYKQVFSDLDFIGWYTTG-DNPTADDIKIQRQIAAINEC---PIMLQL 121

Query: 118 DPSRSNIQGGL 128
           +P   +    L
Sbjct: 122 NPLSRS-VDHL 131

>3rzv_A STAM-binding protein; ubiquitin hydrolase, endosome-associated deubiquitinat enzyme, hydrolase; 1.67A {Homo sapiens} PDB: 3rzu_A Length = 211

 Score = 53.9 bits (129), Expect = 9e-09
 Identities = 22/134 (16%), Positives = 44/134 (32%), Gaps = 17/134 (12%)

Query: 8   AAASTEKVNAPPALQVVQIEGLVLLKIIKHCKDLSP-----------SWLRQENDI---- 52
           A +++E +     L+ V + G +  + ++     +              +R E  I    
Sbjct: 28  ALSNSESIPTIDGLRHVVVPGRLCPQFLQLASANTARGVATCGILCGKLMRNEFTITHVL 87

Query: 53  --DQETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIG 110
              Q       N + +    L         +GW  + P    F S   + T  +Y+  + 
Sbjct: 88  IPKQSAGSDYCNTENEEELFLIQDQQGLITLGWIHTHPTQTAFLSSVDLHTHCSYQMMLP 147

Query: 111 KCVCIICDPSRSNI 124
           + V I+C P     
Sbjct: 148 ESVAIVCSPKFQET 161

>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 Length = 178

 Score = 43.5 bits (102), Expect = 2e-05
 Identities = 17/123 (13%), Positives = 37/123 (30%), Gaps = 21/123 (17%)

Query: 21  LQVVQIEGLVLLKIIKHCKDLSP-----------SWLRQENDI--------DQETDDIGA 61
           L+ V +   +  K ++  +  +                 E  I            D    
Sbjct: 8   LRCVVLPEDLCHKFLQLAESNTVRGIETCGILCGKLTHNEFTITHVIVPKQSAGPDYCDM 67

Query: 62  NYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSR 121
               ++ +       D   +GW  + P    F S   + T  +Y+  + + + I+C P  
Sbjct: 68  ENVEELFNVQDQH--DLLTLGWIHTHPTQTAFLSSVDLHTHCSYQLMLPEAIAIVCSPKH 125

Query: 122 SNI 124
            + 
Sbjct: 126 KDT 128

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	315
4b4t_V	306	26S proteasome regulatory subunit RPN11; hydrolase	100.0
2o95_A	187	26S proteasome non-ATPase regulatory subunit 7; PS	99.95
4e0q_A	141	COP9 signalosome complex subunit 6; MPN (MPR1P and	99.92
4b4t_U	338	RPN8, 26S proteasome regulatory subunit RPN8; hydr	99.88
2znr_A	178	AMSH-like protease; metal binding protein, alterna	99.78
3rzv_A	211	STAM-binding protein; ubiquitin hydrolase, endosom	99.71
2kks_A	146	Uncharacterized protein; NESG, structural genomics	99.33
2kcq_A	153	MOV34/MPN/PAD-1 family; NESG, structure, structura	99.31
1oi0_A	124	AF2198, hypothetical protein AF2198; proteasome, d	99.01
2og4_A	254	PRE-mRNA-splicing factor 8; isopeptidase, JAB1/MPN	98.29
2p8r_A	273	PRP8, PRE-mRNA-splicing factor PRP8; alpha-beta, t	98.17
3sbg_A	565	PRE-mRNA-splicing factor 8; PRP8P, rnaseh domain,	96.81

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

Probab=100.00  E-value=1.1e-42  Score=329.24  Aligned_cols=253  Identities=18%  Similarity=0.239  Sum_probs=173.3

Q ss_pred             cCCCCcceEEEeHhHHHHHHhhhhccCCccccC--------------------CCCCCcc-chhhhhhHHHHHHHHHHhc
Q 039881           16 NAPPALQVVQIEGLVLLKIIKHCKDLSPSWLRQ--------------------ENDIDQE-TDDIGANYQLDMMSCLRDA   74 (315)
Q Consensus        16 ~~~~~~~~V~I~~lvllKIikH~~~~~~~~V~G--------------------p~~~~~~-~~~~~~~Yq~~Ml~~l~~v   74 (315)
                      .++.++++|+|+++|||||+|||+++.|.+|||                    |++++++ +++.+..||.+|+++++++
T Consensus        19 ~~~~~~~~V~is~lallkm~~Ha~~~~~~eV~GlLlG~~~~~~~v~Vt~~f~~P~~~~~~~v~~~d~~y~~~m~~~~~~v   98 (306)
T 4b4t_V           19 GRDDTKETVYISSIALLKMLKHGRAGVPMEVMGLMLGEFVDDYTVNVVDVFAMPQSGTGVSVEAVDDVFQAKMMDMLKQT   98 (306)
T ss_dssp             CCCSSCCEEEECHHHHHHHHHHTCSCSSSCCEEEEEEEEETTTEEEEEEEECCCCEESSSCEECCCHHHHHHHHHHHHHH
T ss_pred             CCCCCCCEEEEeHHHHHHHHHHhcCCCCceEEEEEeeEEcCCeEEEEEEEEeCCcCCCCCchhcCCHHHHHHHHHHHHHh
Confidence            446789999999999999999999999999999                    5554444 5677889999999999999


Q ss_pred             CCCCcceeEEecCCCCCCCCCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEEEechhhHhhhhc--------
Q 039881           75 NVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRN--------  146 (315)
Q Consensus        75 n~d~~~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAfRls~~~~~~~k~--------  146 (315)
                      |+++++||||||||+.+||+|+.||+||+.||...+++|+|||||.+|.+  |+++++|||++|.++.....        
T Consensus        99 ~~~~~vVGWYhShP~~~~~~S~~Di~tq~~yQ~~~~~~V~lV~Dp~~t~~--G~~~i~Afr~~~~~~~~~~~~~~~~~s~  176 (306)
T 4b4t_V           99 GRDQMVVGWYHSHPGFGCWLSSVDVNTQKSFEQLNSRAVAVVVDPIQSVK--GKVVIDAFRLIDTGALINNLEPRQTTSN  176 (306)
T ss_dssp             SCCCCCSEEEEECCSSSCCCCHHHHHHHHHHHHHCSSCEEEEECSSSSSS--CSSCEEEEECCHHHHHHCCCCCSCC---
T ss_pred             CCCcceeeEEecCCCCCCcCCHHHHHHHHHHHhcCCCcEEEEECCCcCCC--CceeeeEEEecCccccccccCccccccc
Confidence            99999999999999999999999999999999999999999999999988  99999999999998776543        


Q ss_pred             -CCCCccccccccccccceeEEEeeeEeccHHHHHHHhccCCCCCCCCCCCCcccCCCchHHHHHHHHHHHHHHHhHHHH
Q 039881          147 -GNFSGESLRDKNISWADVFEEITIRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFLIRCMDDLSTEQ  225 (315)
Q Consensus       147 -g~~~~e~l~~~~l~~~~if~EIPi~I~ns~L~~~~L~~L~~~~~~~~~~~d~L~Ls~~~~Lek~l~~L~e~id~l~~e~  225 (315)
                       |.+..+.+.+.+.++.+.||+|||+++++.|++.+|..|++..+.       -+|+..++ .++.+...+++.++..  
T Consensus       177 ~~~~~~~~~~~~~~~~~~~yy~l~i~~~ks~le~~~L~~L~~~~w~-------~~l~~~~~-~~~~~~~~~~i~~m~~--  246 (306)
T 4b4t_V          177 TGLLNKANIQALIHGLNRHYYSLNIDYHKTAKETKMLMNLHKEQWQ-------SGLKMYDY-EEKEESNLAATKSMVK--  246 (306)
T ss_dssp             -------------------CEEECSCCCCCSSCTHHHHHHHHC-----------------C-HHHHHHHHHHHHHHSS--
T ss_pred             ccccCchhhhhhhccccceEEEeeeEEEeCcHHHHHHHHHHhcccc-------cccccCcH-HHHHHHHHHHHHHHHH--
Confidence             334556677777788899999999999999999999999764322       22333222 2333333333333322  


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCCCCCCCCCCCCCC----cchHHHHHHHHHHHHHHHHHHHHh
Q 039881          226 KKLKFYFKDVTRQQAWVQERRDENEARKAAGEDPLPEGDSSNPFFKPIPEP----SRLESLLITNRIADYCNQIHRVAG  300 (315)
Q Consensus       226 ~~~~~yqr~l~r~q~~~~kr~~EN~~R~~~g~~~lpe~d~~~~~fk~~~~P----srl~~ll~s~qi~~~~~~i~~~~~  300 (315)
                       ....|.+.+..++     +.. +++-..+             ......++    ...+.|+.++-++.+|-.|+.++.
T Consensus       247 -~~~~y~k~v~~e~-----~~~-~~~l~~~-------------~vgk~dp~~~l~~~~~~l~~~ni~~~l~~~~~~~~~  305 (306)
T 4b4t_V          247 -IAEQYSKRIEEEK-----ELT-EEELKTR-------------YVGRQDPKKHLSETADETLENNIVSVLTAGVNSVAI  305 (306)
T ss_dssp             -CHHHHHHHHHHHH-----HHH-HHHHHHT-------------CSCSSCCSSSSHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -HHHHHHHHHHccc-----cCC-HHHHHhh-------------ccCccChHHHHHHHHHHHHHHHHHHHHHHhhhhhhc
Confidence             1223444443222     111 1111111             11112233    335889999999999999998764

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

Probab=99.95  E-value=1e-27  Score=211.36  Aligned_cols=149  Identities=19%  Similarity=0.257  Sum_probs=121.9

Q ss_pred             CCCcceEEEeHhHHHHHHhhhhcc----CCccccC-------------------CCCCCcc---chhhhhhHHHHHHHHH
Q 039881           18 PPALQVVQIEGLVLLKIIKHCKDL----SPSWLRQ-------------------ENDIDQE---TDDIGANYQLDMMSCL   71 (315)
Q Consensus        18 ~~~~~~V~I~~lvllKIikH~~~~----~~~~V~G-------------------p~~~~~~---~~~~~~~Yq~~Ml~~l   71 (315)
                      ..++++|+|+|+|+|||++||.+.    .|.+|+|                   |++++++   ....+.+|+.+|++++
T Consensus         4 ~~~~~~V~i~plvllkI~~H~~r~~~~~~~~~V~G~LLG~~~~~~v~V~~~f~lp~~~~~~~~~~~~~d~ey~~~m~~~~   83 (187)
T 2o95_A            4 ELAVQKVVVHPLVLLSVVDHFNRIGKVGNQKRVVGVLLGSWQKKVLDVSNSFAVPFDEDDKDDSVWFLDHDYLENMYGMF   83 (187)
T ss_dssp             CCSCSEEEECHHHHHHHHHHHHHHHHTTCCSCCEEEEEEEESSSEEEEEEEEEECEEECSSCTTSEEECHHHHHHHHHHH
T ss_pred             CCCCCEEEEchHHHHHHHHHHhhhcccCCCcEEEEEEEEEEcCCEEEEEEEEEeCCcccCCCcchhhcCHHHHHHHHHHH
Confidence            357889999999999999999875    7899999                   4433222   2256778999999999


Q ss_pred             HhcCCCCcceeEEecCCCCCCCCCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEEEechhhHhhhhcCCCCc
Q 039881           72 RDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSG  151 (315)
Q Consensus        72 ~~vn~d~~~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAfRls~~~~~~~k~g~~~~  151 (315)
                      +++|+++++||||||||.++    ..++.++..||...+++|+||+||.++.+  | +.++|||+++.+.+         
T Consensus        84 ~~v~~~~~iVGWY~s~~~~s----~~d~~i~~~~~~~~~~~v~Livd~~~~~~--~-l~i~ay~~~~~~~~---------  147 (187)
T 2o95_A           84 KKVNARERIVGWYHTGPKLH----KNDIAINELMKRYCPNSVLVIIDVKPKDL--G-LPTEAYISVEEVHD---------  147 (187)
T ss_dssp             HTTSSSCEEEEEEECCSSCC----TTHHHHHHHHTTTCTTCEEEEECCCTTC---C-CSEEEEEEEEECC----------
T ss_pred             HHhCCCCCEEEEEcCCCcCC----cccHHHHHHHHhcCCCCEEEEECCCCCCC--C-cCeEEEEEechhcC---------
Confidence            99999999999999999876    45556666788888999999999998754  5 99999999877532         


Q ss_pred             cccccccccccceeEEEeeeEeccHHHHHHHhccCC
Q 039881          152 ESLRDKNISWADVFEEITIRVSNSALVSAFMSTLEP  187 (315)
Q Consensus       152 e~l~~~~l~~~~if~EIPi~I~ns~L~~~~L~~L~~  187 (315)
                           .+.++.++|.|||++|.++..+++.++.|..
T Consensus       148 -----~~~~~~~~F~~ip~~I~~~eaE~i~v~~l~~  178 (187)
T 2o95_A          148 -----DGTPTSKTFEHVTSEIGAEEAEEVGVEHLLR  178 (187)
T ss_dssp             --------CCEEEEEEEEEEECCCHHHHHHHHHHHH
T ss_pred             -----CCCcccCEEEEeeEEEecCcHHHHHHHHHHh
Confidence                 2455788999999999999999999998854

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

Probab=99.92  E-value=4.2e-26  Score=193.19  Aligned_cols=112  Identities=14%  Similarity=0.221  Sum_probs=90.2

Q ss_pred             CCcceEEEeHhHHHHHHhhhhcc-----CCccccC-------------------CCCCCccchhhhhhHHHHHHHHHHhc
Q 039881           19 PALQVVQIEGLVLLKIIKHCKDL-----SPSWLRQ-------------------ENDIDQETDDIGANYQLDMMSCLRDA   74 (315)
Q Consensus        19 ~~~~~V~I~~lvllKIikH~~~~-----~~~~V~G-------------------p~~~~~~~~~~~~~Yq~~Ml~~l~~v   74 (315)
                      .+..+|+|||+|||||+|||.+.     .+.+|+|                   |.+++++....+.+|+.+|++++++|
T Consensus         3 ~~~~~V~ihplvll~I~dH~~R~~~~~g~~~~V~G~LLG~~~~~~veV~nsF~~p~~~~~~~~~~d~~y~~~m~~~~k~v   82 (141)
T 4e0q_A            3 HMSVTISLHPLVIMNISEHWTRFRAQHGEPRQVYGALIGKQKGRNIEIMNSFELKTDVIGDETVINKDYYNKKEQQYKQV   82 (141)
T ss_dssp             --CEEEEECHHHHHHHHHHHHCC------CCEEEEEEEEEEETTEEEEEEEEECCEEEETTEEEECHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEecHHHHHHHHHHhhhcccCCCCcEEEEEEEEEEeCCEEEEEEEEEecccCCCCceeecHHHHHHHHHHHHHh
Confidence            45679999999999999999874     4679999                   55444443467899999999999999


Q ss_pred             CCCCcceeEEecCCCCCCCCCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEEEe
Q 039881           75 NVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKL  136 (315)
Q Consensus        75 n~d~~~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAfRl  136 (315)
                      |+++++||||||+|.    ++..++..+..|+..++++|+|++||.++.+  |+|+++||+.
T Consensus        83 ~~~e~iVGWY~s~~~----~~~~d~~i~~~~~~~~~~pV~L~~Dp~~~~~--g~Lp~~ay~s  138 (141)
T 4e0q_A           83 FSDLDFIGWYTTGDN----PTADDIKIQRQIAAINECPIMLQLNPLSRSV--DHLPLKLFES  138 (141)
T ss_dssp             STTCEEEEEEEEEC-----------CHHHHHHHTTCCCEEEEESCSCCCC--TTHHHHHHCC
T ss_pred             CCCccEEEEEeCCCC----CCcchHHHHHHHHHHCCCCEEEEECCCccCC--CeEEEEEEEE
Confidence            999999999999984    6688888888888888999999999999887  8999999975

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

Probab=99.88  E-value=4e-22  Score=190.85  Aligned_cols=147  Identities=18%  Similarity=0.184  Sum_probs=115.2

Q ss_pred             CcceEEEeHhHHHHHHhhhhcc---CCccccC-------------------CCCCCcc---chhhhhhHHHHHHHHHHhc
Q 039881           20 ALQVVQIEGLVLLKIIKHCKDL---SPSWLRQ-------------------ENDIDQE---TDDIGANYQLDMMSCLRDA   74 (315)
Q Consensus        20 ~~~~V~I~~lvllKIikH~~~~---~~~~V~G-------------------p~~~~~~---~~~~~~~Yq~~Ml~~l~~v   74 (315)
                      ..++|.|||+|||+|++||.+.   .+.+|+|                   |.+++++   +.+.+..|+.+|++++++|
T Consensus         4 ~~~~V~vhPlVll~I~dH~~R~~~~~~~rViG~LLG~~~~~~veV~nsF~~p~~e~~~~~~~~~~D~~y~~~m~~~~kkV   83 (338)
T 4b4t_U            4 QHEKVTIAPLVLLSALDHYERTQTKENKRCVGVILGDANSSTIRVTNSFALPFEEDEKNSDVWFLDHNYIENMNEMCKKI   83 (338)
T ss_dssp             CCSEEEECHHHHHHHHHHHHHHTTTCCSCCEEEEEEEECSSEEEEEEEEECCEEECSSSTTCEEECHHHHHHHHHHHHHH
T ss_pred             CCCEEEEecHHHHHHHHHHHHhhcCCCCeEEEEEEeEEcCCEEEEEEEEEeccccCCCCCccccccHHHHHHHHHHHhhc
Confidence            4578999999999999999863   3568999                   5433222   3456899999999999999


Q ss_pred             CCCCcceeEEecCCCCCCCCCHHHHHHHHhhhhcC-CCeEEEEeCCCCCccCCCceeeeEEEechhhHhhhhcCCCCccc
Q 039881           75 NVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENI-GKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGNFSGES  153 (315)
Q Consensus        75 n~d~~~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~-~~~V~LV~Dp~~s~~~~g~lslkAfRls~~~~~~~k~g~~~~e~  153 (315)
                      |+++.+||||+|++..+    ..++..+..|.... +.+|+|++|+...   +|.++++||+..+...            
T Consensus        84 ~~~e~iVGWY~tg~~~~----~~d~~Ih~~~~~~~~~~pi~l~~d~~~~---~~~lpi~aY~s~~~~~------------  144 (338)
T 4b4t_U           84 NAKEKLIGWYHSGPKLR----ASDLKINELFKKYTQNNPLLLIVDVKQQ---GVGLPTDAYVAIEQVK------------  144 (338)
T ss_dssp             CCSCEEEEEEECCSSCC----STHHHHHHHHGGGCCSCCCEEEECSCCC---SSSCSEEEEEEEEECS------------
T ss_pred             CccCCEEEEEecCCCCC----ccHHHHHHHHHhccCCCcEEEEecCCCC---CCCcceEEEEeehhcc------------
Confidence            99999999999998643    44555555555555 5789999999763   4889999998876532            


Q ss_pred             cccccccccceeEEEeeeEeccHHHHHHHhccCC
Q 039881          154 LRDKNISWADVFEEITIRVSNSALVSAFMSTLEP  187 (315)
Q Consensus       154 l~~~~l~~~~if~EIPi~I~ns~L~~~~L~~L~~  187 (315)
                        ..+.....+|.+||++|.....+++.++.+..
T Consensus       145 --~~~~~~~~~F~~lp~~i~~~eaE~Igv~~l~r  176 (338)
T 4b4t_U          145 --DDGTSTEKTFLHLPCTIEAEEAEEIGVEHLLR  176 (338)
T ss_dssp             --SCSTTCEEEEEEECEEECSCHHHHHHHHHHHH
T ss_pred             --CCCcccccEEEEeeeEeecCcHHHHHHHHHHh
Confidence              22344567899999999999999999988753

>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=99.78  E-value=2.4e-19  Score=157.20  Aligned_cols=124  Identities=14%  Similarity=0.229  Sum_probs=97.0

Q ss_pred             CCCcceEEEeHhHHHHHHhhhhccCC--ccccC-------------------CCCCCcc-chhhhhhHHHHHHHHHHhcC
Q 039881           18 PPALQVVQIEGLVLLKIIKHCKDLSP--SWLRQ-------------------ENDIDQE-TDDIGANYQLDMMSCLRDAN   75 (315)
Q Consensus        18 ~~~~~~V~I~~lvllKIikH~~~~~~--~~V~G-------------------p~~~~~~-~~~~~~~Yq~~Ml~~l~~vn   75 (315)
                      ..+++.|.|...++.||++||.++.|  .+|+|                   |+.++.+ ....+.   .++++.  ..+
T Consensus         5 ~~~~~~v~i~~~~l~k~l~hA~~~~~~~~EvcGlL~G~~~~~~~~V~~v~~~pq~~t~~~~~~~~~---~e~~~~--~~~   79 (178)
T 2znr_A            5 MEGLRCVVLPEDLCHKFLQLAESNTVRGIETCGILCGKLTHNEFTITHVIVPKQSAGPDYCDMENV---EELFNV--QDQ   79 (178)
T ss_dssp             CCSCCCEEEETTHHHHHHHHHHHHHTTTCCCEEEEEEEEETTEEEEEEEEECCEEEETTEEEECCH---HHHHHH--HHH
T ss_pred             cCCcEEEEECHHHHHHHHHHHHhCCCCCceEEEEEeeEecCCCeEEEEEEeCCcCCCCCeeccCCH---HHHHHH--HHh
Confidence            35689999999999999999998754  68998                   2222222 221211   122222  235


Q ss_pred             CCCcceeEEecCCCCCCCCCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEEEechhhHhh---hhcCCCCcc
Q 039881           76 VDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLEL---YRNGNFSGE  152 (315)
Q Consensus        76 ~d~~~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAfRls~~~~~~---~k~g~~~~e  152 (315)
                      .+..+||||||||...||+|..||++|+.||...+++|+||+||.+     +.  ++|||++|.+++.   ++++.|.++
T Consensus        80 ~~l~~vGwyHSHP~~~~~pS~~Dv~tq~~yq~~~~~~v~iIvsp~~-----~~--~~afrl~~~g~~~~~~~~~~~f~p~  152 (178)
T 2znr_A           80 HDLLTLGWIHTHPTQTAFLSSVDLHTHCSYQLMLPEAIAIVCSPKH-----KD--TGIFRLTNAGMLEVSACKKKGFHPH  152 (178)
T ss_dssp             HTCEEEEEEEECSSSCSCCCHHHHHHHHHHHHHCTTCEEEEEEGGG-----TE--EEEEEECHHHHHHHHHCCCCSSCCC
T ss_pred             CCCEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhcCCEEEEEEcCCC-----Cc--ceEEEEECCcEeeecccCCCCcccC
Confidence            7889999999999999999999999999999999999999999976     22  7999999999888   677779886


Q ss_pred             c
Q 039881          153 S  153 (315)
Q Consensus       153 ~  153 (315)
                      .
T Consensus       153 ~  153 (178)
T 2znr_A          153 T  153 (178)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.71  E-value=2e-17  Score=148.32  Aligned_cols=122  Identities=18%  Similarity=0.254  Sum_probs=94.1

Q ss_pred             CcceEEEeHhHHHHHHhhhhccC--CccccC-------------------CCCCCcc-chhhhhhHHHHHHHHHHhcCCC
Q 039881           20 ALQVVQIEGLVLLKIIKHCKDLS--PSWLRQ-------------------ENDIDQE-TDDIGANYQLDMMSCLRDANVD   77 (315)
Q Consensus        20 ~~~~V~I~~lvllKIikH~~~~~--~~~V~G-------------------p~~~~~~-~~~~~~~Yq~~Ml~~l~~vn~d   77 (315)
                      .+..|.|...++-||+.|+..+.  +.+|+|                   |..++++ +...+...+-+.+   ..  .+
T Consensus        40 ~lr~v~Ipk~ll~kfL~~A~~~tp~~~EvcGlL~Gk~~~~~~~I~~v~~ppq~gt~~~v~~~~~~e~~~~~---~~--~~  114 (211)
T 3rzv_A           40 GLRHVVVPGRLCPQFLQLASANTARGVATCGILCGKLMRNEFTITHVLIPKQSAGSDYCNTENEEELFLIQ---DQ--QG  114 (211)
T ss_dssp             TBCCEEEETTHHHHHHHHHHHHHHTTCCCEEEEEEEEETTEEEEEEEEECCEEECSSCEEECCHHHHHHHH---HH--HT
T ss_pred             ccEEEEECHHHHHHHHHHHHhCCCCCceEEEEEEeEcCCCCEEEEEEEeCCccCCCCceeccChHHHHHHH---hh--CC
Confidence            46899999999999999999874  478888                   2222222 2222211111111   11  58


Q ss_pred             CcceeEEecCCCCCCCCCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEEEechhhHh---hhhcCCCCccc
Q 039881           78 SNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLSDTFLE---LYRNGNFSGES  153 (315)
Q Consensus        78 ~~~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAfRls~~~~~---~~k~g~~~~e~  153 (315)
                      ..+||||||||...||+|..||++|+.||.+.+++|+||+||.+       .+++|||++|.+++   .+++..|.++.
T Consensus       115 l~~vGWyHSHP~~~~~pS~~Dl~tq~~~q~~~~~~I~IVvsP~~-------~~lgaFrLtp~G~~~~~~c~~~~fhph~  186 (211)
T 3rzv_A          115 LITLGWIHTHPTQTAFLSSVDLHTHCSYQMMLPESVAIVCSPKF-------QETGFFKLTDHGLEEISSCRQKGFHPHS  186 (211)
T ss_dssp             CEEEEEEEECTTSCSCCCHHHHHHHHHHHHHCTTCEEEEEETTT-------TEEEEEEECHHHHHHHHHCCCCSSCCCC
T ss_pred             CEEEEEEeCCCCCCCCCCHHHHHHHHHHHhcCCCeEEEEEcCCC-------CeeeEEEeccchhhhhhccccCCcccCC
Confidence            89999999999999999999999999999999999999999964       26999999999987   66777798864

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

Probab=99.33  E-value=5.7e-12  Score=106.46  Aligned_cols=103  Identities=13%  Similarity=0.077  Sum_probs=75.3

Q ss_pred             EEEeHhHHHHHHhhhhccCCccccC-------------------CCCCCccc-hhhhhhHHHHHHHHHHhcCCCCcceeE
Q 039881           24 VQIEGLVLLKIIKHCKDLSPSWLRQ-------------------ENDIDQET-DDIGANYQLDMMSCLRDANVDSNVVGW   83 (315)
Q Consensus        24 V~I~~lvllKIikH~~~~~~~~V~G-------------------p~~~~~~~-~~~~~~Yq~~Ml~~l~~vn~d~~~VGW   83 (315)
                      |.|+..++.+|++|++++.|.+++|                   |....+.. -..+...+..+.+.++.  .+..+|||
T Consensus         2 l~i~~~~l~~i~~ha~~~~p~E~cGlL~G~~~~~~~~v~~~~p~~n~~~~~~~f~~dp~~~~~~~~~~~~--~g~~ivG~   79 (146)
T 2kks_A            2 ITLTKKQMEEMLAHARQALPNEACGLLGGRRDGDDRWVERVYPLNNLDQSPEHFSMDPREQLTAVKDMRK--NGWVMLGN   79 (146)
T ss_dssp             EEEEHHHHHHHHHHHHHHTTSCEEEEEEEEEETTEEEEEEEECCCCCSCCSSSCCCCHHHHHHHHHHHHH--HTCEEEEE
T ss_pred             EEECHHHHHHHHHHHHhcCCcceEEEEEEEEcCCCcEEEEEEECCCcCCCCceEEECHHHHHHHHHHHHH--CCCEEEEE
Confidence            6799999999999999999999998                   11111111 11234445555555544  34689999


Q ss_pred             EecCCCCCCCCCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEEEec
Q 039881           84 YQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKLS  137 (315)
Q Consensus        84 Y~S~~~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAfRls  137 (315)
                      |||||.+.||+|..|+.++.     .++.+.+|+.+..    ++...++|||+.
T Consensus        80 ~HSHP~~~~~PS~~D~~~~~-----~~~~~~lIvs~~~----~~~~~~~af~~~  124 (146)
T 2kks_A           80 FHSHPATPARPSAEDKRLAF-----DPSLSYLIISLAE----PQKPVCKSFLIK  124 (146)
T ss_dssp             EEEESSSCSSCCHHHHTTCC-----SSSCEEEEEECSC----SSSCEEEEEEEC
T ss_pred             EeCCCcCCCCCCHHHHHhhh-----cCCCeEEEEEccC----CCceEEEEEEEe
Confidence            99999999999999998642     2678899998754    145789999983

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

Probab=99.31  E-value=2.9e-12  Score=109.05  Aligned_cols=101  Identities=20%  Similarity=0.169  Sum_probs=72.5

Q ss_pred             EEeHhHHHHHHhhhhccCCccccC--------------------CCC--CCccch-hhhhhHHHHHHHHHHhcCCCCcce
Q 039881           25 QIEGLVLLKIIKHCKDLSPSWLRQ--------------------END--IDQETD-DIGANYQLDMMSCLRDANVDSNVV   81 (315)
Q Consensus        25 ~I~~lvllKIikH~~~~~~~~V~G--------------------p~~--~~~~~~-~~~~~Yq~~Ml~~l~~vn~d~~~V   81 (315)
                      .|+..++.+|++|++++.|.+++|                    |..  ++.... ..+..-+..+.+.+++-  +..+|
T Consensus         2 ~i~~~~l~~i~~ha~~~~p~E~cGlL~G~~~~~~~~~v~~~~p~~n~~~~~~~~~f~~dp~~~~~~~~~~~~~--g~~iv   79 (153)
T 2kcq_A            2 KTTPDILDQIRVHGADAYPEEGCGFLLGTVTDDGDNRVAALHRATNRRSEQRTRRYELTADDYRAADAAAQEQ--GLDVV   79 (153)
T ss_dssp             BCCHHHHHHHHHHHHHHTTSCCCEEEEEEECTTSCEEEEEEEESSCCCCCCCSCCSSCCCCSHHHHHHHHHHH--TCEEE
T ss_pred             EeCHHHHHHHHHHHHhcCCcceEEEEEEeeccCCCeEEEEEEECCCCCCCCCCcEEEECHHHHHHHHHHHHHC--CCeEE
Confidence            578899999999999999999998                    111  110111 11223344555555443  57899


Q ss_pred             eEEecCCCCCCCCCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCc-eeeeEEEec
Q 039881           82 GWYQSTPPGDCFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGL-AGLKALKLS  137 (315)
Q Consensus        82 GWY~S~~~g~~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~-lslkAfRls  137 (315)
                      |||||||.+.||+|..|+..+     ..+++++||+.+..     |+ ..++|||++
T Consensus        80 G~yHSHP~~~~~PS~~D~~~~-----~~~~~~~lIvs~~~-----~~~~~~~af~~~  126 (153)
T 2kcq_A           80 GVYHSHPDHPARPSATDLEEA-----TFPGFTYVIVSVRD-----GAPEALTAWALA  126 (153)
T ss_dssp             EEEEECSSSSSSCCHHHHHTC-----CCTTSEEEEEEEET-----TEEEEEEEEEEC
T ss_pred             EEEeCCCCCCCCCCHHHHHhh-----hcCCCeEEEEECCC-----CCccEEEEEEEe
Confidence            999999999999999999653     23678999998643     55 579999995

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

Probab=99.01  E-value=6e-10  Score=91.46  Aligned_cols=98  Identities=20%  Similarity=0.167  Sum_probs=65.7

Q ss_pred             eEEEeHhHHHHHHhhhhccCCccccCCCCCC-----------ccchhhhhhHHHHHHHHHHhcCCCCcceeEEecCCCCC
Q 039881           23 VVQIEGLVLLKIIKHCKDLSPSWLRQENDID-----------QETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGD   91 (315)
Q Consensus        23 ~V~I~~lvllKIikH~~~~~~~~V~Gp~~~~-----------~~~~~~~~~Yq~~Ml~~l~~vn~d~~~VGWY~S~~~g~   91 (315)
                      .|.|...++.+|++|++++.|.+++|-.-+.           .........|+.+|..      .+..+||||||||.+.
T Consensus         3 ~v~i~~~~l~~i~~ha~~~~P~E~cGlL~g~~~~v~~~~~~p~~~~~~~~~f~~~~~~------~~~~ivG~~HSHP~~~   76 (124)
T 1oi0_A            3 SMKISRGLLKTILEAAKSAHPDEFIALLSGSKDVMDELIFLPFVSGSVSAVIHLDMLP------IGMKVFGTVHSHPSPS   76 (124)
T ss_dssp             SCEECHHHHHHHHHHHHHHTTSCCEEEEEESTTEECEEEECCCCC-------------------CCCEEEEEEEEESSSC
T ss_pred             EEEEcHHHHHHHHHHHHhcCCCeeEEEEecccCEEEEEEECCCCCCCcCceeeeeecc------CCCEEEEEEEECcCCC
Confidence            3789999999999999999999999911000           0001122345555544      5688999999999999


Q ss_pred             CCCCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEEEe
Q 039881           92 CFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKL  136 (315)
Q Consensus        92 ~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAfRl  136 (315)
                      ||+|..|+.++..     ...+.||+.+..     +.-.++||+.
T Consensus        77 ~~PS~~D~~~~~~-----~~~~~lIvs~~~-----~~~~~~~f~~  111 (124)
T 1oi0_A           77 CRPSEEDLSLFTR-----FGKYHIIVCYPY-----DENSWKCYNR  111 (124)
T ss_dssp             CSCCHHHHHHHHH-----SCSEEEEEETTC-----CTTCEEEEET
T ss_pred             CccCHHHHHhhhc-----CCCEEEEEEccC-----CCceEEEEec
Confidence            9999999987652     567888888633     3346788865

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

Probab=98.29  E-value=1e-06  Score=80.42  Aligned_cols=67  Identities=16%  Similarity=0.226  Sum_probs=58.7

Q ss_pred             CCCcceeEEecCCCCCCCCCHHHHHHHHhhhhcC-CCeEEEEeCCCCCccCCCceeeeEEEechhhHhhhhcC
Q 039881           76 VDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENI-GKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNG  147 (315)
Q Consensus        76 ~d~~~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~-~~~V~LV~Dp~~s~~~~g~lslkAfRls~~~~~~~k~g  147 (315)
                      .|-..+||-|++|...||+|+.||.|+..||.+. +++|+||+-+..     |..++.||||++.+++=.+++
T Consensus       108 ~dLe~LGWIHTqptq~~fLSs~Dl~tH~~~~~~~~~eaIaIvcsftp-----gs~sl~af~LT~~G~~Wg~~n  175 (254)
T 2og4_A          108 EGLELLGWIHTQTEELKFMAASEVATHSKLFADKKRDCIDISIFSTP-----GSVSLSAYNLTDEGYQWGEEN  175 (254)
T ss_dssp             TTCEEEEEEEEESSCCSSCCHHHHHHHHHHHTTTCTTCEEEEEEEET-----TEEEEEEEEECHHHHHHHHTC
T ss_pred             cCCEecceEeeCCCCCcccCHHHHHHHHHHHHhcCCCeEEEEEecCC-----CCceeEEEEcChhhhhhhhhc
Confidence            4557899999999999999999999999999844 899999998755     999999999999998755544

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

Probab=98.17  E-value=2.3e-06  Score=78.75  Aligned_cols=66  Identities=24%  Similarity=0.273  Sum_probs=57.0

Q ss_pred             CCCcceeEEecCCCCCCCCCHHHHHHHHhhhhc---C--CCeEEEEeCCCCCccCCCceeeeEEEechhhHhhhhc
Q 039881           76 VDSNVVGWYQSTPPGDCFQSVEFIETFMNYKEN---I--GKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRN  146 (315)
Q Consensus        76 ~d~~~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~---~--~~~V~LV~Dp~~s~~~~g~lslkAfRls~~~~~~~k~  146 (315)
                      .|-..+||-|++|...||+|+.||.|+..||.+   .  +++|+||+-+..     |..++.||||++.+++=.++
T Consensus       107 ~dLe~LGWIHTqp~e~~~LSs~Dl~tH~~~~~~~~~~~~~e~I~Ivcsftp-----gs~sl~af~LT~~G~~Wg~~  177 (273)
T 2p8r_A          107 RDFEPLGWMHTQPNELPQLSPQDVTTHAKLLTDNISWDGEKTVMITCSFTP-----GSVSLTAYKLTPSGYEWGKA  177 (273)
T ss_dssp             TTSEEEEEEEEESSCCSSCCHHHHHHHHHHHHHCTTCCTTTCEEEEEEEET-----TEEEEEEEEECHHHHHHHHH
T ss_pred             ccccccceEeeCCCCCCCcCHHHHHHHHHHHhcccccCCCceEEEEEecCC-----CCceeEEEEcChHHhhhhhh
Confidence            456799999999999999999999999999975   2  499999998755     99999999999998874443

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

Probab=96.81  E-value=0.0018  Score=64.11  Aligned_cols=68  Identities=16%  Similarity=0.226  Sum_probs=55.1

Q ss_pred             CCCcceeEEecCCCCCCCCCHHHHHHHHhhhhcC-CCeEEEEeCCCCCccCCCceeeeEEEechhhHhhhhcCC
Q 039881           76 VDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENI-GKCVCIICDPSRSNIQGGLAGLKALKLSDTFLELYRNGN  148 (315)
Q Consensus        76 ~d~~~VGWY~S~~~g~~f~s~~~Ietq~~yQ~~~-~~~V~LV~Dp~~s~~~~g~lslkAfRls~~~~~~~k~g~  148 (315)
                      .|-..+||-|++|.-.||+|+.|+.++...=..+ .++|.+++.-..     |.++|.||.|+|++.+=.++++
T Consensus       419 ~dLe~LGWIHTqp~et~fLSs~Dl~THakl~~~n~~~~I~itvsftP-----GS~SLsAy~LT~eGyeWG~~N~  487 (565)
T 3sbg_A          419 EGLELLGWIHTQTEELKFMAASEVATHSKLFADKKRDCIDISIFSTP-----GSVSLSAYNLTDEGYQWGEENK  487 (565)
T ss_dssp             TTCEEEEEEEEESSCCSSCCHHHHHHHHHHHSSSCTTCEEEEEEEET-----TEEEEEEEEECHHHHHHHHTTT
T ss_pred             ccCEecceeeecCCcccccCHHHHHHHHHHHHhCCCCeEEEEEEecC-----CceEEEEEecCHhHHHHHhhcc
Confidence            4557999999999999999999999998864332 477887776533     9999999999999987666543

---

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	315
d1oi0a_	121	Hypothetical protein AF2198 {Archaeon Archaeoglobu	98.79

>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=98.79  E-value=5.4e-09  Score=83.81  Aligned_cols=98  Identities=22%  Similarity=0.185  Sum_probs=66.5

Q ss_pred             eEEEeHhHHHHHHhhhhccCCccccCC----CCCCcc----chhh---hhhHHHHHHHHHHhcCCCCcceeEEecCCCCC
Q 039881           23 VVQIEGLVLLKIIKHCKDLSPSWLRQE----NDIDQE----TDDI---GANYQLDMMSCLRDANVDSNVVGWYQSTPPGD   91 (315)
Q Consensus        23 ~V~I~~lvllKIikH~~~~~~~~V~Gp----~~~~~~----~~~~---~~~Yq~~Ml~~l~~vn~d~~~VGWY~S~~~g~   91 (315)
                      +++|+..++-.|++||+++.|.++.|-    .....+    .+..   ...+..+|.      -.+..+||||||||.+.
T Consensus         3 ~l~I~~~~l~~i~~hA~~~~P~E~cGlL~G~~~~i~~~~~~~n~~~~~~~~~~~~~~------~~~~~ivgi~HSHP~~~   76 (121)
T d1oi0a_           3 SMKISRGLLKTILEAAKSAHPDEFIALLSGSKDVMDELIFLPFVSGSVSAVIHLDML------PIGMKVFGTVHSHPSPS   76 (121)
T ss_dssp             SCEECHHHHHHHHHHHHHHTTSCCEEEEEESTTEECEEEECCCCC-------------------CCCEEEEEEEEESSSC
T ss_pred             eEEECHHHHHHHHHHHHhcCCceeEEEEEecCCcEEEEEEcCCCCCCcccccccchh------hcCCeEEEEEEecCCCC
Confidence            689999999999999999999998881    100000    0011   112223333      24678999999999999


Q ss_pred             CCCCHHHHHHHHhhhhcCCCeEEEEeCCCCCccCCCceeeeEEEe
Q 039881           92 CFQSVEFIETFMNYKENIGKCVCIICDPSRSNIQGGLAGLKALKL  136 (315)
Q Consensus        92 ~f~s~~~Ietq~~yQ~~~~~~V~LV~Dp~~s~~~~g~lslkAfRl  136 (315)
                      +++|..|+.++..     ...+++|+.+-.     +.-+++||+.
T Consensus        77 a~PS~~D~~~~~~-----~g~~~~Ivs~p~-----~~~~~~~~~~  111 (121)
T d1oi0a_          77 CRPSEEDLSLFTR-----FGKYHIIVCYPY-----DENSWKCYNR  111 (121)
T ss_dssp             CSCCHHHHHHHHH-----SCSEEEEEETTC-----CTTCEEEEET
T ss_pred             CCcCHHHHHhhhc-----cCCEEEEEeCCC-----CCCCEEEEeC
Confidence            9999999988753     467888988744     3345889964