Citrus Sinensis ID: 034054

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-----
Protein Sequence
MDVTERETKTGNSDSALVDNKESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPPISGG
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccEEEEEEccHHHHHHHccccEEEEccccccHHHHHHHHHHHcccHHHHHcccEEEEcccccccccccccccEEEEccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccEEEEEHHHHHHHHHHccccEEEEccccccHHHHHHHHHHHcccHHHHHccEEEEEEHHccccccEcccccEEEEEcccccc
Coil and Loop (DISEMBL)
mdvteretktgnsdsalvdnkesSIQIKVLFFARArdltgltdmplevscgstTQDCLNKLIARFPNLEEIRGCMVLALNEeytnasvivnekdelaiippisgg
Flexible Loop (DISEMBL)
mdvteretktgnsdsalvdnkessIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTnasvivnekdelaiippisgg
Low Complexity Region (SEG)
MDVTERETKTGNSDSALVDNKESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPPISGG
Disordered region (IsUnstruct)
************************IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAII******
Disordered Region (DISOPRED)
**************************IKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPPISGG
Disordered Region (DISEMBL)
****************LVDNKESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPPISGG
Disordered Region (DISPRO)
**********************SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPPIS**
Transmembrane Helix (TMHMM)
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Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDVTERETKTGNSDSALVDNKESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPPISGG
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	105	2.2.26 [Sep-21-2011]
Q9S7A3	96	Molybdopterin synthase su	yes	no	0.790	0.864	0.662	7e-28
B6SXF8	93	Molybdopterin synthase su	N/A	no	0.752	0.849	0.645	6e-24
Q6YVX4	109	Molybdopterin synthase su	yes	no	0.723	0.697	0.671	3e-23
A2X635	109	Molybdopterin synthase su	N/A	no	0.723	0.697	0.671	3e-23
A8JJB2	83	Molybdopterin synthase su	N/A	no	0.771	0.975	0.409	1e-12
B3P6R4	90	Molybdopterin synthase su	N/A	no	0.761	0.888	0.416	3e-10
P0C919	90	Molybdopterin synthase su	yes	no	0.761	0.888	0.392	1e-09
B3M269	90	Molybdopterin synthase su	N/A	no	0.761	0.888	0.369	2e-09
Q1DGL5	98	Molybdopterin synthase su	N/A	no	0.809	0.867	0.358	3e-09
B4QUC1	90	Molybdopterin synthase su	N/A	no	0.761	0.888	0.369	5e-09

>sp|Q9S7A3|MOC2A_ARATH Molybdopterin synthase sulfur carrier subunit OS=Arabidopsis thaliana GN=At4g10100 PE=2 SV=1

 Score =  122 bits (305), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 55/83 (66%), Positives = 70/83 (84%)

Query: 23  SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEE 82
           SS++IKVL FARAR+LTG+ D+ L++  GSTTQ CL++L+ +FP+LEE+R C+VLALNEE
Sbjct: 14  SSVEIKVLLFARARELTGVPDLTLKMPSGSTTQKCLDELVLKFPSLEEVRSCVVLALNEE 73

Query: 83  YTNASVIVNEKDELAIIPPISGG 105
           YT  S IV  +DELAIIPPISGG
Sbjct: 74  YTTDSAIVQHRDELAIIPPISGG 96

Acts as a sulfur carrier required for molybdopterin biosynthesis. Component of the molybdopterin synthase complex that catalyzes the conversion of precursor Z into molybdopterin by mediating the incorporation of 2 sulfur atoms into precursor Z to generate a dithiolene group. In the complex, serves as sulfur donor by being thiocarboxylated (-COSH) at its C-terminus by MOCS3. After interaction with MOCS2B, the sulfur is then transferred to precursor Z to form molybdopterin.
Arabidopsis thaliana (taxid: 3702)

>sp|B6SXF8|MOC2A_MAIZE Molybdopterin synthase sulfur carrier subunit OS=Zea mays GN=VP15 PE=2 SV=1

 Score =  109 bits (272), Expect = 6e-24,   Method: Compositional matrix adjust.
 Identities = 51/79 (64%), Positives = 62/79 (78%)

Query: 27  IKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA 86
           +KVLFFARARDLTG+ D  +EV  GST  +CL +++A+FP LEEIRG +VLALNEEY   
Sbjct: 15  VKVLFFARARDLTGVADSAVEVPPGSTAGECLARVLAQFPKLEEIRGSVVLALNEEYAAD 74

Query: 87  SVIVNEKDELAIIPPISGG 105
           S  V + DELA+IPPISGG
Sbjct: 75  SAAVADGDELAVIPPISGG 93

Acts as a sulfur carrier required for molybdopterin biosynthesis. Component of the molybdopterin synthase complex that catalyzes the conversion of precursor Z into molybdopterin by mediating the incorporation of 2 sulfur atoms into precursor Z to generate a dithiolene group. In the complex, serves as sulfur donor by being thiocarboxylated (-COSH) at its C-terminus by MOCS3. After interaction with MOCS2B, the sulfur is then transferred to precursor Z to form molybdopterin.

Zea mays (taxid: 4577)

>sp|Q6YVX4|MOC2A_ORYSJ Molybdopterin synthase sulfur carrier subunit OS=Oryza sativa subsp. japonica GN=Os02g0558300 PE=3 SV=1

 Score =  107 bits (266), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 51/76 (67%), Positives = 58/76 (76%)

Query: 30  LFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVI 89
           LFFARARDLTG+T+ P+EV  GST  DCL +++A FP LEEIR  MVLALNEEY      
Sbjct: 34  LFFARARDLTGVTEAPVEVPAGSTAGDCLARVLAAFPRLEEIRRSMVLALNEEYAPEDAA 93

Query: 90  VNEKDELAIIPPISGG 105
           V + DELAIIPPISGG
Sbjct: 94  VGDGDELAIIPPISGG 109

Acts as a sulfur carrier required for molybdopterin biosynthesis. Component of the molybdopterin synthase complex that catalyzes the conversion of precursor Z into molybdopterin by mediating the incorporation of 2 sulfur atoms into precursor Z to generate a dithiolene group. In the complex, serves as sulfur donor by being thiocarboxylated (-COSH) at its C-terminus by MOCS3. After interaction with MOCS2B, the sulfur is then transferred to precursor Z to form molybdopterin.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|A2X635|MOC2A_ORYSI Molybdopterin synthase sulfur carrier subunit OS=Oryza sativa subsp. indica GN=OsI_07667 PE=3 SV=1

 Score =  107 bits (266), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 51/76 (67%), Positives = 58/76 (76%)

Query: 30  LFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVI 89
           LFFARARDLTG+T+ P+EV  GST  DCL +++A FP LEEIR  MVLALNEEY      
Sbjct: 34  LFFARARDLTGVTEAPVEVPAGSTAGDCLARVLAAFPRLEEIRRSMVLALNEEYAPEDAA 93

Query: 90  VNEKDELAIIPPISGG 105
           V + DELAIIPPISGG
Sbjct: 94  VGDGDELAIIPPISGG 109

Acts as a sulfur carrier required for molybdopterin biosynthesis. Component of the molybdopterin synthase complex that catalyzes the conversion of precursor Z into molybdopterin by mediating the incorporation of 2 sulfur atoms into precursor Z to generate a dithiolene group. In the complex, serves as sulfur donor by being thiocarboxylated (-COSH) at its C-terminus by MOCS3. After interaction with MOCS2B, the sulfur is then transferred to precursor Z to form molybdopterin.

Oryza sativa subsp. indica (taxid: 39946)

>sp|A8JJB2|MOC2A_CHLRE Molybdopterin synthase sulfur carrier subunit OS=Chlamydomonas reinhardtii GN=CHLREDRAFT_109356 PE=3 SV=1

 Score = 72.0 bits (175), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 34/83 (40%), Positives = 54/83 (65%), Gaps = 2/83 (2%)

Query: 25  IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYT 84
           +QIKVL+FA++R++ G+ +   E+  G+ T+D L ++IA  P L+ +    V ALN+EY 
Sbjct: 1   MQIKVLYFAKSREVAGVNEQTFELGDGAHTEDLLAQIIAAHPALDSVMKTCVFALNQEYV 60

Query: 85  NAS--VIVNEKDELAIIPPISGG 105
                  + + DE+AIIPP+SGG
Sbjct: 61  RPQDKEALKDGDEVAIIPPLSGG 83

Acts as a sulfur carrier required for molybdopterin biosynthesis. Component of the molybdopterin synthase complex that catalyzes the conversion of precursor Z into molybdopterin by mediating the incorporation of 2 sulfur atoms into precursor Z to generate a dithiolene group. In the complex, serves as sulfur donor by being thiocarboxylated (-COSH) at its C-terminus by MOCS3. After interaction with MOCS2B, the sulfur is then transferred to precursor Z to form molybdopterin.

Chlamydomonas reinhardtii (taxid: 3055)

>sp|B3P6R4|MOC2A_DROER Molybdopterin synthase sulfur carrier subunit OS=Drosophila erecta GN=Mocs2 PE=3 SV=1

 Score = 63.5 bits (153), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 35/84 (41%), Positives = 51/84 (60%), Gaps = 4/84 (4%)

Query: 25  IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYT 84
           + + VLFFA++R+L       ++V    T  D L+ L++RF  L  IR  ++LA NE Y 
Sbjct: 8   VNVHVLFFAKSRELANTPRSKVDVPTKITASDLLDLLVSRF-GLISIRDNLILAHNESYI 66

Query: 85  NA---SVIVNEKDELAIIPPISGG 105
           +    +V+  E DELAIIPP+SGG
Sbjct: 67  DNLSDTVLFKEGDELAIIPPLSGG 90

Acts as a sulfur carrier required for molybdopterin biosynthesis. Component of the molybdopterin synthase complex that catalyzes the conversion of precursor Z into molybdopterin by mediating the incorporation of 2 sulfur atoms into precursor Z to generate a dithiolene group. In the complex, serves as sulfur donor by being thiocarboxylated (-COSH) at its C-terminus by MOCS3. After interaction with MOCS2B, the sulfur is then transferred to precursor Z to form molybdopterin.

Drosophila erecta (taxid: 7220)

>sp|P0C919|MOC2A_DROME Molybdopterin synthase sulfur carrier subunit OS=Drosophila melanogaster GN=Mocs2 PE=3 SV=1

 Score = 61.6 bits (148), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 33/84 (39%), Positives = 50/84 (59%), Gaps = 4/84 (4%)

Query: 25  IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYT 84
           + + VLFFA++R+L       +EV    T  + L+ L+++F  L  IR  ++LA NE Y 
Sbjct: 8   VNVHVLFFAKSRELANTPRSTVEVPTEITATELLDHLVSKF-GLTSIRDNLILAHNESYI 66

Query: 85  NA---SVIVNEKDELAIIPPISGG 105
           +     ++  E DELAIIPP+SGG
Sbjct: 67  DNLSDRILFKEGDELAIIPPLSGG 90

Acts as a sulfur carrier required for molybdopterin biosynthesis. Component of the molybdopterin synthase complex that catalyzes the conversion of precursor Z into molybdopterin by mediating the incorporation of 2 sulfur atoms into precursor Z to generate a dithiolene group. In the complex, serves as sulfur donor by being thiocarboxylated (-COSH) at its C-terminus by MOCS3. After interaction with MOCS2B, the sulfur is then transferred to precursor Z to form molybdopterin.

Drosophila melanogaster (taxid: 7227)

>sp|B3M269|MOC2A_DROAN Molybdopterin synthase sulfur carrier subunit OS=Drosophila ananassae GN=Mocs2 PE=3 SV=1

 Score = 60.8 bits (146), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 31/84 (36%), Positives = 50/84 (59%), Gaps = 4/84 (4%)

Query: 25  IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYT 84
           + + VLFFA++R+L       ++V       D L++L+ RF +L  I+  ++LA NE Y 
Sbjct: 8   VNVHVLFFAKSRELAQTPRSKVDVPSQIVASDLLDQLVTRF-DLASIKDNLILAHNESYI 66

Query: 85  ---NASVIVNEKDELAIIPPISGG 105
              +  ++  E DELA+IPP+SGG
Sbjct: 67  ENLSDKILFREGDELAVIPPLSGG 90

Acts as a sulfur carrier required for molybdopterin biosynthesis. Component of the molybdopterin synthase complex that catalyzes the conversion of precursor Z into molybdopterin by mediating the incorporation of 2 sulfur atoms into precursor Z to generate a dithiolene group. In the complex, serves as sulfur donor by being thiocarboxylated (-COSH) at its C-terminus by MOCS3. After interaction with MOCS2B, the sulfur is then transferred to precursor Z to form molybdopterin.

Drosophila ananassae (taxid: 7217)

>sp|Q1DGL5|MOC2A_AEDAE Molybdopterin synthase sulfur carrier subunit OS=Aedes aegypti GN=AAEL007643 PE=3 SV=1

 Score = 60.1 bits (144), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 33/92 (35%), Positives = 53/92 (57%), Gaps = 7/92 (7%)

Query: 21  KESSIQIKVLFFARARDLTG---LTDMPLEVSCGSTTQDC-LNKLIARFPNLEEIRGCMV 76
            E  +++ +LFFA++R+L G   L + PL  S G  +    L  +  RFP L  IR  ++
Sbjct: 7   SEEVVRVNLLFFAKSRELVGTSSLDNFPLATSGGHLSGSAVLGTICERFPELVAIRDSVI 66

Query: 77  LALNEEYT---NASVIVNEKDELAIIPPISGG 105
           +A NE+Y       + + + DE+A+IPPI+GG
Sbjct: 67  IAHNEQYCEDLTEPISLADGDEIAVIPPIAGG 98

Acts as a sulfur carrier required for molybdopterin biosynthesis. Component of the molybdopterin synthase complex that catalyzes the conversion of precursor Z into molybdopterin by mediating the incorporation of 2 sulfur atoms into precursor Z to generate a dithiolene group. In the complex, serves as sulfur donor by being thiocarboxylated (-COSH) at its C-terminus by MOCS3. After interaction with MOCS2B, the sulfur is then transferred to precursor Z to form molybdopterin.

Aedes aegypti (taxid: 7159)

>sp|B4QUC1|MOC2A_DROSI Molybdopterin synthase sulfur carrier subunit OS=Drosophila simulans GN=Mocs2 PE=3 SV=1

 Score = 59.7 bits (143), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 31/84 (36%), Positives = 50/84 (59%), Gaps = 4/84 (4%)

Query: 25  IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYT 84
           + + VLFFA++R+L       ++V    T  + L+ L+++F  L  IR  ++LA NE Y 
Sbjct: 8   VNVHVLFFAKSRELANTPRSTVDVPTEITATELLDHLVSKF-GLTSIRDNLILAHNESYI 66

Query: 85  NA---SVIVNEKDELAIIPPISGG 105
           +     ++  E DELA+IPP+SGG
Sbjct: 67  DNLSDRILFKEGDELAVIPPLSGG 90

Acts as a sulfur carrier required for molybdopterin biosynthesis. Component of the molybdopterin synthase complex that catalyzes the conversion of precursor Z into molybdopterin by mediating the incorporation of 2 sulfur atoms into precursor Z to generate a dithiolene group. In the complex, serves as sulfur donor by being thiocarboxylated (-COSH) at its C-terminus by MOCS3. After interaction with MOCS2B, the sulfur is then transferred to precursor Z to form molybdopterin.

Drosophila simulans (taxid: 7240)

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	105
255569062	103	conserved hypothetical protein [Ricinus	0.923	0.941	0.762	2e-35
224145035	101	predicted protein [Populus trichocarpa]	0.942	0.980	0.747	5e-35
388495418	103	unknown [Medicago truncatula]	0.904	0.922	0.705	2e-32
357455873	102	Molybdopterin synthase sulfur carrier su	0.904	0.931	0.705	2e-32
225460055	106	PREDICTED: molybdopterin synthase sulfur	0.942	0.933	0.676	9e-32
351726258	102	uncharacterized protein LOC100527353 [Gl	0.819	0.843	0.770	1e-31
388517593	103	unknown [Lotus japonicus]	0.961	0.980	0.643	2e-30
449447575	103	PREDICTED: molybdopterin synthase sulfur	0.961	0.980	0.613	3e-27
18413298	96	Molybdopterin synthase sulfur carrier su	0.790	0.864	0.662	3e-26
297809215	97	CNX7/SIR5 [Arabidopsis lyrata subsp. lyr	0.790	0.855	0.638	6e-25

>gi|255569062|ref|XP_002525500.1| conserved hypothetical protein [Ricinus communis] gi|223535179|gb|EEF36858.1| conserved hypothetical protein [Ricinus communis]

 Score =  152 bits (385), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 74/97 (76%), Positives = 85/97 (87%)

Query: 9   KTGNSDSALVDNKESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNL 68
           K+GN +S  V++  SSI+IKVLFFARARDLTGL++MPLEVS GSTT DCLNKL+A+FP+L
Sbjct: 7   KSGNIESKHVESNGSSIKIKVLFFARARDLTGLSEMPLEVSSGSTTNDCLNKLVAQFPSL 66

Query: 69  EEIRGCMVLALNEEYTNASVIVNEKDELAIIPPISGG 105
           EEIR C+VLALNEEYT  S IV EKDELAIIPPISGG
Sbjct: 67  EEIRRCIVLALNEEYTTESAIVREKDELAIIPPISGG 103

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224145035|ref|XP_002325503.1| predicted protein [Populus trichocarpa] gi|222862378|gb|EEE99884.1| predicted protein [Populus trichocarpa]

 Score =  151 bits (381), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 74/99 (74%), Positives = 82/99 (82%)

Query: 7   ETKTGNSDSALVDNKESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFP 66
           E K  N+D   V ++ SS+ IKVLFFARARD+TGL DM LEVS GSTT DCLNKLIARFP
Sbjct: 3   EVKAENTDGEPVGSEGSSVSIKVLFFARARDITGLADMQLEVSSGSTTSDCLNKLIARFP 62

Query: 67  NLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPPISGG 105
           +LEEIRGC+VLALNEEYT  + IV EKDELAIIPPISGG
Sbjct: 63  SLEEIRGCIVLALNEEYTTEAAIVKEKDELAIIPPISGG 101

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388495418|gb|AFK35775.1| unknown [Medicago truncatula]

 Score =  142 bits (359), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 67/95 (70%), Positives = 79/95 (83%)

Query: 11  GNSDSALVDNKESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEE 70
           G+ D      + S ++IKVLFFARARDLTGL+++PLEVS GSTTQDCL KL+ +FP+LEE
Sbjct: 9   GDGDQTQTKRESSLVKIKVLFFARARDLTGLSEVPLEVSSGSTTQDCLKKLLVQFPSLEE 68

Query: 71  IRGCMVLALNEEYTNASVIVNEKDELAIIPPISGG 105
           I+GCMVLALNEEYT  S IV +KDELAIIPPISGG
Sbjct: 69  IKGCMVLALNEEYTMDSTIVKDKDELAIIPPISGG 103

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357455873|ref|XP_003598217.1| Molybdopterin synthase sulfur carrier subunit [Medicago truncatula] gi|355487265|gb|AES68468.1| Molybdopterin synthase sulfur carrier subunit [Medicago truncatula]

 Score =  142 bits (358), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 67/95 (70%), Positives = 79/95 (83%)

Query: 11  GNSDSALVDNKESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEE 70
           G+ D      + S ++IKVLFFARARDLTGL+++PLEVS GSTTQDCL KL+ +FP+LEE
Sbjct: 8   GDGDQTQTKRESSLVKIKVLFFARARDLTGLSEVPLEVSSGSTTQDCLKKLLVQFPSLEE 67

Query: 71  IRGCMVLALNEEYTNASVIVNEKDELAIIPPISGG 105
           I+GCMVLALNEEYT  S IV +KDELAIIPPISGG
Sbjct: 68  IKGCMVLALNEEYTMDSTIVKDKDELAIIPPISGG 102

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225460055|ref|XP_002274036.1| PREDICTED: molybdopterin synthase sulfur carrier subunit [Vitis vinifera] gi|297740933|emb|CBI31245.3| unnamed protein product [Vitis vinifera]

 Score =  140 bits (353), Expect = 9e-32,   Method: Compositional matrix adjust.
 Identities = 71/105 (67%), Positives = 80/105 (76%), Gaps = 6/105 (5%)

Query: 7   ETKTGNSDSALVDNKE-----SSIQIKVLFFARARDLTG-LTDMPLEVSCGSTTQDCLNK 60
           E K G  +S  VD+       SS+ IK LFFARARDLTG LTDMP+EV  GST  DCLNK
Sbjct: 2   EVKGGEKESQTVDSTNKGSDGSSVGIKFLFFARARDLTGGLTDMPMEVPSGSTAHDCLNK 61

Query: 61  LIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPPISGG 105
           L+A+FP LEEIRGCMVLALNEEYT  S +V ++DELAIIPPISGG
Sbjct: 62  LVAKFPRLEEIRGCMVLALNEEYTPESTVVKDRDELAIIPPISGG 106

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351726258|ref|NP_001238656.1| uncharacterized protein LOC100527353 [Glycine max] gi|255632153|gb|ACU16429.1| unknown [Glycine max]

 Score =  140 bits (352), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 67/87 (77%), Positives = 75/87 (86%), Gaps = 1/87 (1%)

Query: 20  NKESS-IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLA 78
            KESS ++IKVLFFARARDLTGL+++PLEVS GSTT DCL KL  +FP+LEEIRGCMVLA
Sbjct: 16  KKESSLVKIKVLFFARARDLTGLSELPLEVSSGSTTHDCLKKLFVKFPSLEEIRGCMVLA 75

Query: 79  LNEEYTNASVIVNEKDELAIIPPISGG 105
           LNEEYT  S IV + DELAIIPPISGG
Sbjct: 76  LNEEYTTESTIVKDTDELAIIPPISGG 102

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388517593|gb|AFK46858.1| unknown [Lotus japonicus]

 Score =  136 bits (342), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 65/101 (64%), Positives = 82/101 (81%)

Query: 5   ERETKTGNSDSALVDNKESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIAR 64
           E +  T + D+     + + ++IKVLFFARARDLTGL+++PLEV+ GSTT+DCL KL+A+
Sbjct: 3   EGDINTCDGDNMHSKKESALVKIKVLFFARARDLTGLSEVPLEVTSGSTTRDCLKKLLAQ 62

Query: 65  FPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPPISGG 105
           FP+LEEI+GCMVLALNEEYT  S IV + DELAIIPPISGG
Sbjct: 63  FPSLEEIQGCMVLALNEEYTTESTIVKDTDELAIIPPISGG 103

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449447575|ref|XP_004141543.1| PREDICTED: molybdopterin synthase sulfur carrier subunit-like isoform 1 [Cucumis sativus] gi|449447577|ref|XP_004141544.1| PREDICTED: molybdopterin synthase sulfur carrier subunit-like isoform 2 [Cucumis sativus]

 Score =  125 bits (314), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 62/101 (61%), Positives = 75/101 (74%)

Query: 5   ERETKTGNSDSALVDNKESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIAR 64
           E+E    ++D    D  E  +QIK LFFARARDLTG  D+ LE+  GSTT+DCL+K+I +
Sbjct: 3   EQEDGFVSADKHGEDKVEQLVQIKTLFFARARDLTGTNDVLLEIPLGSTTKDCLDKIIGK 62

Query: 65  FPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPPISGG 105
           FP LEEI GC+VLALNE+YT  S IV + DELAIIPPISGG
Sbjct: 63  FPRLEEILGCVVLALNEDYTTDSTIVKDGDELAIIPPISGG 103

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18413298|ref|NP_567352.1| Molybdopterin synthase sulfur carrier subunit [Arabidopsis thaliana] gi|30681325|ref|NP_849354.1| Molybdopterin synthase sulfur carrier subunit [Arabidopsis thaliana] gi|145333001|ref|NP_001078366.1| Molybdopterin synthase sulfur carrier subunit [Arabidopsis thaliana] gi|75265357|sp|Q9S7A3.1|MOC2A_ARATH RecName: Full=Molybdopterin synthase sulfur carrier subunit; AltName: Full=Molybdenum cofactor synthesis protein 2 small subunit; AltName: Full=Molybdenum cofactor synthesis protein 2A; Short=MOCS2A; AltName: Full=Sulfur carrier protein MOCS2A gi|6635743|gb|AAF19969.1|AF208343_1 molybdopterin synthase small subunit [Arabidopsis thaliana] gi|4538974|emb|CAB39762.1| hypothetical protein [Arabidopsis thaliana] gi|7267706|emb|CAB78133.1| hypothetical protein [Arabidopsis thaliana] gi|21593079|gb|AAM65028.1| unknown [Arabidopsis thaliana] gi|26450476|dbj|BAC42352.1| unknown protein [Arabidopsis thaliana] gi|88010994|gb|ABD38884.1| At4g10100 [Arabidopsis thaliana] gi|222424385|dbj|BAH20148.1| AT4G10100 [Arabidopsis thaliana] gi|332657438|gb|AEE82838.1| Molybdopterin synthase sulfur carrier subunit [Arabidopsis thaliana] gi|332657439|gb|AEE82839.1| Molybdopterin synthase sulfur carrier subunit [Arabidopsis thaliana] gi|332657440|gb|AEE82840.1| Molybdopterin synthase sulfur carrier subunit [Arabidopsis thaliana]

 Score =  122 bits (305), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 55/83 (66%), Positives = 70/83 (84%)

Query: 23  SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEE 82
           SS++IKVL FARAR+LTG+ D+ L++  GSTTQ CL++L+ +FP+LEE+R C+VLALNEE
Sbjct: 14  SSVEIKVLLFARARELTGVPDLTLKMPSGSTTQKCLDELVLKFPSLEEVRSCVVLALNEE 73

Query: 83  YTNASVIVNEKDELAIIPPISGG 105
           YT  S IV  +DELAIIPPISGG
Sbjct: 74  YTTDSAIVQHRDELAIIPPISGG 96

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297809215|ref|XP_002872491.1| CNX7/SIR5 [Arabidopsis lyrata subsp. lyrata] gi|297318328|gb|EFH48750.1| CNX7/SIR5 [Arabidopsis lyrata subsp. lyrata]

 Score =  117 bits (294), Expect = 6e-25,   Method: Compositional matrix adjust.
 Identities = 53/83 (63%), Positives = 69/83 (83%)

Query: 23  SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEE 82
           SS++IKVL FARAR+L G+ D+ L++  GSTTQ C+++L+ +FP+LEE+R C+VLALNEE
Sbjct: 15  SSVEIKVLLFARARELAGVPDLTLKMPSGSTTQKCMDELVLKFPSLEEVRCCVVLALNEE 74

Query: 83  YTNASVIVNEKDELAIIPPISGG 105
           YT  S IV  +DELAIIPPISGG
Sbjct: 75  YTTDSAIVQHRDELAIIPPISGG 97

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	105
TAIR|locus:2124660	96	CNX7 "AT4G10100" [Arabidopsis	0.790	0.864	0.662	8.4e-26
UNIPROTKB|B3P6R4	90	Mocs2 "Molybdopterin synthase	0.761	0.888	0.440	9.4e-11
FB|FBgn0260229	90	CG42503 [Drosophila melanogast	0.761	0.888	0.416	2e-10
FB|FBgn0039280	90	Mocs2 "Molybdenum cofactor syn	0.761	0.888	0.416	2e-10
UNIPROTKB|B3M269	90	Mocs2 "Molybdopterin synthase	0.761	0.888	0.392	5.2e-10
UNIPROTKB|B4PUD0	90	Mocs2 "Molybdopterin synthase	0.761	0.888	0.404	5.2e-10
UNIPROTKB|B4QUC1	90	Mocs2 "Molybdopterin synthase	0.761	0.888	0.392	5.2e-10
UNIPROTKB|B4IJG8	90	Mocs2 "Molybdopterin synthase	0.761	0.888	0.392	6.6e-10
UNIPROTKB|Q1DGL5	98	AAEL007643 "Molybdopterin synt	0.8	0.857	0.362	6.6e-10
UNIPROTKB|Q5TT27	91	AGAP004289 "Molybdopterin synt	0.733	0.846	0.395	2.2e-09

TAIR|locus:2124660 CNX7 "AT4G10100" [Arabidopsis thaliana (taxid:3702)]

 Score = 292 (107.8 bits), Expect = 8.4e-26, P = 8.4e-26
 Identities = 55/83 (66%), Positives = 70/83 (84%)

Query:    23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEE 82
             SS++IKVL FARAR+LTG+ D+ L++  GSTTQ CL++L+ +FP+LEE+R C+VLALNEE
Sbjct:    14 SSVEIKVLLFARARELTGVPDLTLKMPSGSTTQKCLDELVLKFPSLEEVRSCVVLALNEE 73

Query:    83 YTNASVIVNEKDELAIIPPISGG 105
             YT  S IV  +DELAIIPPISGG
Sbjct:    74 YTTDSAIVQHRDELAIIPPISGG 96

GO:0003824 "catalytic activity" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISM

GO:0006777 "Mo-molybdopterin cofactor biosynthetic process" evidence=IEA;ISS

GO:0006790 "sulfur compound metabolic process" evidence=ISS

GO:0018315 "molybdenum incorporation into molybdenum-molybdopterin complex" evidence=IDA

GO:0009734 "auxin mediated signaling pathway" evidence=IMP

UNIPROTKB|B3P6R4 Mocs2 "Molybdopterin synthase sulfur carrier subunit" [Drosophila erecta (taxid:7220)]

 Score = 150 (57.9 bits), Expect = 9.4e-11, P = 9.4e-11
 Identities = 37/84 (44%), Positives = 51/84 (60%)

Query:    25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYT 84
             + + VLFFA++R+L       ++V    T  D L+ L++RF  L  IR  ++LA NE Y 
Sbjct:     8 VNVHVLFFAKSRELANTPRSKVDVPTKITASDLLDLLVSRF-GLISIRDNLILAHNESYI 66

Query:    85 -NAS--VIVNEKDELAIIPPISGG 105
              N S  V+  E DELAIIPP+SGG
Sbjct:    67 DNLSDTVLFKEGDELAIIPPLSGG 90

GO:0005829 "cytosol" evidence=ISS

GO:0006777 "Mo-molybdopterin cofactor biosynthetic process" evidence=ISS

GO:0030366 "Mo-molybdopterin synthase activity" evidence=ISS

FB|FBgn0260229 CG42503 [Drosophila melanogaster (taxid:7227)]

 Score = 147 (56.8 bits), Expect = 2.0e-10, P = 2.0e-10
 Identities = 35/84 (41%), Positives = 51/84 (60%)

Query:    25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYT 84
             + + VLFFA++R+L       +EV    T  + L+ L+++F  L  IR  ++LA NE Y 
Sbjct:     8 VNVHVLFFAKSRELANTPRSTVEVPTEITATELLDHLVSKF-GLTSIRDNLILAHNESYI 66

Query:    85 -NAS--VIVNEKDELAIIPPISGG 105
              N S  ++  E DELAIIPP+SGG
Sbjct:    67 DNLSDRILFKEGDELAIIPPLSGG 90

GO:0006777 "Mo-molybdopterin cofactor biosynthetic process" evidence=IEA

FB|FBgn0039280 Mocs2 "Molybdenum cofactor synthesis 2" [Drosophila melanogaster (taxid:7227)]

 Score = 147 (56.8 bits), Expect = 2.0e-10, P = 2.0e-10
 Identities = 35/84 (41%), Positives = 51/84 (60%)

Query:    25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYT 84
             + + VLFFA++R+L       +EV    T  + L+ L+++F  L  IR  ++LA NE Y 
Sbjct:     8 VNVHVLFFAKSRELANTPRSTVEVPTEITATELLDHLVSKF-GLTSIRDNLILAHNESYI 66

Query:    85 -NAS--VIVNEKDELAIIPPISGG 105
              N S  ++  E DELAIIPP+SGG
Sbjct:    67 DNLSDRILFKEGDELAIIPPLSGG 90

GO:0019008 "molybdopterin synthase complex" evidence=ISS;IPI

GO:0006777 "Mo-molybdopterin cofactor biosynthetic process" evidence=ISS

GO:0006338 "chromatin remodeling" evidence=IDA

GO:0004402 "histone acetyltransferase activity" evidence=IDA

GO:0005671 "Ada2/Gcn5/Ada3 transcription activator complex" evidence=IPI

GO:0016573 "histone acetylation" evidence=IDA

GO:0005700 "polytene chromosome" evidence=IDA

UNIPROTKB|B3M269 Mocs2 "Molybdopterin synthase sulfur carrier subunit" [Drosophila ananassae (taxid:7217)]

 Score = 143 (55.4 bits), Expect = 5.2e-10, P = 5.2e-10
 Identities = 33/84 (39%), Positives = 51/84 (60%)

Query:    25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYT 84
             + + VLFFA++R+L       ++V       D L++L+ RF +L  I+  ++LA NE Y 
Sbjct:     8 VNVHVLFFAKSRELAQTPRSKVDVPSQIVASDLLDQLVTRF-DLASIKDNLILAHNESYI 66

Query:    85 -NAS--VIVNEKDELAIIPPISGG 105
              N S  ++  E DELA+IPP+SGG
Sbjct:    67 ENLSDKILFREGDELAVIPPLSGG 90

GO:0005829 "cytosol" evidence=ISS

GO:0006777 "Mo-molybdopterin cofactor biosynthetic process" evidence=ISS

GO:0030366 "Mo-molybdopterin synthase activity" evidence=ISS

UNIPROTKB|B4PUD0 Mocs2 "Molybdopterin synthase sulfur carrier subunit" [Drosophila yakuba (taxid:7245)]

 Score = 143 (55.4 bits), Expect = 5.2e-10, P = 5.2e-10
 Identities = 34/84 (40%), Positives = 50/84 (59%)

Query:    25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYT 84
             + + VLFFA++R+L       +++    T  D L  L+++F  L  IR  ++LA NE Y 
Sbjct:     8 VNVHVLFFAKSRELANTPRSKVDLPTEITASDLLELLVSKF-GLTPIRDNLILAHNESYI 66

Query:    85 -NAS--VIVNEKDELAIIPPISGG 105
              N S  ++  E DELAIIPP+SGG
Sbjct:    67 DNLSERILFKEGDELAIIPPLSGG 90

GO:0005829 "cytosol" evidence=ISS

GO:0006777 "Mo-molybdopterin cofactor biosynthetic process" evidence=ISS

GO:0030366 "Mo-molybdopterin synthase activity" evidence=ISS

UNIPROTKB|B4QUC1 Mocs2 "Molybdopterin synthase sulfur carrier subunit" [Drosophila simulans (taxid:7240)]

 Score = 143 (55.4 bits), Expect = 5.2e-10, P = 5.2e-10
 Identities = 33/84 (39%), Positives = 51/84 (60%)

Query:    25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYT 84
             + + VLFFA++R+L       ++V    T  + L+ L+++F  L  IR  ++LA NE Y 
Sbjct:     8 VNVHVLFFAKSRELANTPRSTVDVPTEITATELLDHLVSKF-GLTSIRDNLILAHNESYI 66

Query:    85 -NAS--VIVNEKDELAIIPPISGG 105
              N S  ++  E DELA+IPP+SGG
Sbjct:    67 DNLSDRILFKEGDELAVIPPLSGG 90

GO:0005829 "cytosol" evidence=ISS

GO:0006777 "Mo-molybdopterin cofactor biosynthetic process" evidence=ISS

GO:0030366 "Mo-molybdopterin synthase activity" evidence=ISS

UNIPROTKB|B4IJG8 Mocs2 "Molybdopterin synthase sulfur carrier subunit" [Drosophila sechellia (taxid:7238)]

 Score = 142 (55.0 bits), Expect = 6.6e-10, P = 6.6e-10
 Identities = 33/84 (39%), Positives = 51/84 (60%)

Query:    25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYT 84
             + + VLFFA++R+L       ++V    T  + L+ L+++F  L  IR  ++LA NE Y 
Sbjct:     8 VNVHVLFFAKSRELANTPRSTVDVPTEITANELLDHLVSKF-GLISIRDNLILAHNESYI 66

Query:    85 -NAS--VIVNEKDELAIIPPISGG 105
              N S  ++  E DELA+IPP+SGG
Sbjct:    67 DNLSDRILFKEGDELAVIPPLSGG 90

GO:0005829 "cytosol" evidence=ISS

GO:0006777 "Mo-molybdopterin cofactor biosynthetic process" evidence=ISS

GO:0030366 "Mo-molybdopterin synthase activity" evidence=ISS

UNIPROTKB|Q1DGL5 AAEL007643 "Molybdopterin synthase sulfur carrier subunit" [Aedes aegypti (taxid:7159)]

 Score = 142 (55.0 bits), Expect = 6.6e-10, P = 6.6e-10
 Identities = 33/91 (36%), Positives = 53/91 (58%)

Query:    22 ESSIQIKVLFFARARDLTG---LTDMPLEVSCGSTTQDC-LNKLIARFPNLEEIRGCMVL 77
             E  +++ +LFFA++R+L G   L + PL  S G  +    L  +  RFP L  IR  +++
Sbjct:     8 EEVVRVNLLFFAKSRELVGTSSLDNFPLATSGGHLSGSAVLGTICERFPELVAIRDSVII 67

Query:    78 ALNEEYTN---ASVIVNEKDELAIIPPISGG 105
             A NE+Y       + + + DE+A+IPPI+GG
Sbjct:    68 AHNEQYCEDLTEPISLADGDEIAVIPPIAGG 98

GO:0005829 "cytosol" evidence=ISS

GO:0006777 "Mo-molybdopterin cofactor biosynthetic process" evidence=ISS

GO:0030366 "Mo-molybdopterin synthase activity" evidence=ISS

UNIPROTKB|Q5TT27 AGAP004289 "Molybdopterin synthase sulfur carrier subunit" [Anopheles gambiae (taxid:7165)]

 Score = 137 (53.3 bits), Expect = 2.2e-09, P = 2.2e-09
 Identities = 36/91 (39%), Positives = 58/91 (63%)

Query:    24 SIQIKVLFFARARDLTGL--TD---MP-LEVSCGSTTQDCLNKLIARFPNLEEIRGCMVL 77
             S+++K+LFFA++R+L G+  TD   +P  E+ C     + L+ +  R+ NL  IR  ++L
Sbjct:     6 SVRVKLLFFAKSRELAGVSGTDDFLVPHAEIKCS----ELLDLICNRY-NLSIIRNNVIL 60

Query:    78 ALNEEYT---NASVIVNEKDELAIIPPISGG 105
             A NE+Y    + ++ +   DELA+IPPISGG
Sbjct:    61 AHNEQYCADLSETIRIRNGDELAVIPPISGG 91

GO:0005829 "cytosol" evidence=ISS

GO:0006777 "Mo-molybdopterin cofactor biosynthetic process" evidence=ISS

GO:0030366 "Mo-molybdopterin synthase 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)
Q9S7A3	MOC2A_ARATH	No assigned EC number	0.6626	0.7904	0.8645	yes	no
Q6YVX4	MOC2A_ORYSJ	No assigned EC number	0.6710	0.7238	0.6972	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	estExt_fgenesh4_pg.C_LG_XIX0639	molybdopterin synthase (101 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	estExt_Genewise1_v1.C_LG_I1954	molybdopterin synthase (201 aa)	•		•		•	•	•		0.980
	eugene3.00140447	molybderin biosynthesis protein (213 aa)	•					•	•		0.962
	fgenesh4_pg.C_LG_IX001324	molybderin biosynthesis protein (355 aa)	•					•	•		0.945
	fgenesh4_pm.C_LG_I001118	hypothetical protein (460 aa)					•	•	•		0.904
	fgenesh4_pg.C_scaffold_620000001	Predicted protein (168 aa)	•		•						0.699
	eugene3.32270001	Predicted protein (135 aa)	•								0.480

---

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	105
PLN02799	82	PLN02799, PLN02799, Molybdopterin synthase sulfur	5e-47
TIGR01682	80	TIGR01682, moaD, molybdopterin converting factor,	1e-23
cd00754	80	cd00754, MoaD, Ubiquitin domain of MoaD-like prote	2e-22
COG1977	84	COG1977, MoaD, Molybdopterin converting factor, sm	2e-12
pfam02597	70	pfam02597, ThiS, ThiS family	1e-10
TIGR01687	88	TIGR01687, moaD_arch, MoaD family protein, archaea	1e-07
PRK11130	81	PRK11130, moaD, molybdopterin synthase small subun	1e-06

>gnl|CDD|215429 PLN02799, PLN02799, Molybdopterin synthase sulfur carrier subunit

 Score =  144 bits (366), Expect = 5e-47
 Identities = 56/82 (68%), Positives = 69/82 (84%)

Query: 24  SIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEY 83
           S++IKVLFFARAR+LTG++DM LE+  GSTT DCL +L+A+FP+LEE+R C VLALNEEY
Sbjct: 1   SVEIKVLFFARARELTGVSDMTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEEY 60

Query: 84  TNASVIVNEKDELAIIPPISGG 105
           T  S  + + DELAIIPPISGG
Sbjct: 61  TTESAALKDGDELAIIPPISGG 82

Length = 82

>gnl|CDD|130743 TIGR01682, moaD, molybdopterin converting factor, subunit 1, non-archaeal

 Score = 85.8 bits (213), Expect = 1e-23
 Identities = 36/80 (45%), Positives = 50/80 (62%), Gaps = 1/80 (1%)

Query: 27  IKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIA-RFPNLEEIRGCMVLALNEEYTN 85
           IKVL+FAR R+  G  +  LE+   STT   L + +A   P L   RG +++A+NEEY  
Sbjct: 1   IKVLYFARLREQAGTDEETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVT 60

Query: 86  ASVIVNEKDELAIIPPISGG 105
              ++NE DE+A IPP+SGG
Sbjct: 61  DDALLNEGDEVAFIPPVSGG 80

This model describes MoaD. It excludes archaeal homologs, since many Archaea have two MoaD-like proteins, suggesting two different functions. The Pfam model pfam02597 describes both the thiamine biosynthesis protein ThiS and this protein, MoaD, a subunit (together with MoaE, pfam02391) of the molybdopterin converting factor. Both ThiS and MoaD are involved in sulfur transfer reactions. Distribution of this family appears limited to species that also have a member of pfam02391, but a number of Archaea have two different members, suggesting functionally distinct subtypes. The C-terminal Gly-Gly of this model is critical to function [Biosynthesis of cofactors, prosthetic groups, and carriers, Molybdopterin]. Length = 80

>gnl|CDD|176354 cd00754, MoaD, Ubiquitin domain of MoaD-like proteins

 Score = 82.6 bits (205), Expect = 2e-22
 Identities = 34/80 (42%), Positives = 51/80 (63%), Gaps = 1/80 (1%)

Query: 27  IKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPN-LEEIRGCMVLALNEEYTN 85
           +KVL+FAR R+  G  +  LE+  G+T  + L+ L AR+P  LEE+   + +A+N EY  
Sbjct: 1   VKVLYFARLREAAGKDEEELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVR 60

Query: 86  ASVIVNEKDELAIIPPISGG 105
               + + DE+AIIPP+SGG
Sbjct: 61  LDTPLKDGDEVAIIPPVSGG 80

MoaD family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor of a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. Moco contains a tricyclic pyranopterin, termed molybdopterin (MPT), that contains the cis-dithiolene group responsible for molybdenum ligation. This dithiolene group is generated by MPT synthase, the second major step in Moco biosynthesis. MPT synthase consists of a large (MoeE) and small (MoaD) subunit. The small subunit is inserted into the lare subunit to form the active site. The small subunit, which is structurally similar to ubiquitin, contains a C-terminal thiocarboxylated glycine residue that serves as a sulfur donor for the synthesis of the MPT dithiolene group. Length = 80

>gnl|CDD|224888 COG1977, MoaD, Molybdopterin converting factor, small subunit [Coenzyme metabolism]

 Score = 57.3 bits (139), Expect = 2e-12
 Identities = 24/88 (27%), Positives = 36/88 (40%), Gaps = 12/88 (13%)

Query: 26  QIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFP--------NLEEIRGCMVL 77
            +KV +FA  R+  G  +   E   G T    + +L    P         LE+    +  
Sbjct: 1   MVKVKYFAALREAAGKDE---EELEGLTVGATVGELEELLPKEGERWLLALEDNI-VVNA 56

Query: 78  ALNEEYTNASVIVNEKDELAIIPPISGG 105
           A NE        + + DE+A  PP+SGG
Sbjct: 57  ANNEFLVGLDTPLKDGDEVAFFPPVSGG 84

Length = 84

>gnl|CDD|217132 pfam02597, ThiS, ThiS family

 Score = 52.2 bits (126), Expect = 1e-10
 Identities = 28/80 (35%), Positives = 37/80 (46%), Gaps = 13/80 (16%)

Query: 29  VLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTN--- 85
           VL FA  R+L G     LE+  G+T  + L  L              V A+N E      
Sbjct: 1   VLLFAELRELAGKE---LELPEGATVAELLEALG------LNPERVAV-AVNGEIVPRSQ 50

Query: 86  ASVIVNEKDELAIIPPISGG 105
           A   + + DE+AIIPP+SGG
Sbjct: 51  ADTPLKDGDEVAIIPPVSGG 70

ThiS (thiaminS) is a 66 aa protein involved in sulphur transfer. ThiS is coded in the thiCEFSGH operon in E. coli. This family of proteins have two conserved Glycines at the COOH terminus. Thiocarboxylate is formed at the last G in the activation process. Sulphur is transferred from ThiI to ThiS in a reaction catalyzed by IscS. MoaD, a protein involved sulphur transfer in molybdopterin synthesis, is about the same length and shows limited sequence similarity to ThiS. Both have the conserved GG at the COOH end. Length = 70

>gnl|CDD|233531 TIGR01687, moaD_arch, MoaD family protein, archaeal

 Score = 44.7 bits (106), Expect = 1e-07
 Identities = 26/89 (29%), Positives = 45/89 (50%), Gaps = 11/89 (12%)

Query: 27  IKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLE--------EIRGCMVLA 78
           ++V +FA  RD+TG     +E+  G T  D LN+L+AR+P            +   +++ 
Sbjct: 1   VRVKYFATLRDITGKKSEEIEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIIL 59

Query: 79  LNEEYTNAS--VIVNEKDELAIIPPISGG 105
           +N    +      + + D +AI PP+SGG
Sbjct: 60  VNGRNVDWGLGTELKDGDVVAIFPPVSGG 88

Members of this family appear to be archaeal versions of MoaD, subunit 1 of molybdopterin converting factor. This model has been split from the bacterial/eukaryotic equivalog model TIGR01682 because the presence of two members of this family in a substantial number of archaeal species suggests that roles might not be interchangeable [Biosynthesis of cofactors, prosthetic groups, and carriers, Molybdopterin]. Length = 88

>gnl|CDD|182985 PRK11130, moaD, molybdopterin synthase small subunit; Provisional

 Score = 42.6 bits (101), Expect = 1e-06
 Identities = 29/84 (34%), Positives = 49/84 (58%), Gaps = 9/84 (10%)

Query: 27  IKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPN-----LEEIRGCMVLALNE 81
           IKVLFFA+ R+L G TD  LE++    T + L + +A+  +     LE+  G ++ A+N+
Sbjct: 2   IKVLFFAQVRELVG-TD-ALELAADFPTVEALRQHLAQKGDRWALALED--GKLLAAVNQ 57

Query: 82  EYTNASVIVNEKDELAIIPPISGG 105
              +    + + DE+A  PP++GG
Sbjct: 58  TLVSFDHPLTDGDEVAFFPPVTGG 81

Length = 81

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	105
PLN02799	82	Molybdopterin synthase sulfur carrier subunit	99.95
TIGR01682	80	moaD molybdopterin converting factor, subunit 1, n	99.93
PRK11130	81	moaD molybdopterin synthase small subunit; Provisi	99.92
cd00754	80	MoaD Ubiquitin domain of MoaD-like proteins. MoaD	99.91
TIGR01687	88	moaD_arch MoaD family protein, archaeal. Members o	99.91
PF02597	77	ThiS: ThiS family; InterPro: IPR003749 ThiS (thiam	99.86
COG1977	84	MoaD Molybdopterin converting factor, small subuni	99.84
cd01764	94	Urm1 Urm1-like ubuitin domain. Urm1 (Ubiquitin-Rel	99.79
KOG3474	84	consensus Molybdopterin converting factor, small s	99.75
PRK08364	70	sulfur carrier protein ThiS; Provisional	99.62
cd00565	65	ThiS ThiaminS ubiquitin-like sulfur carrier protei	99.49
PRK06437	67	hypothetical protein; Provisional	99.42
PRK06944	65	sulfur carrier protein ThiS; Provisional	99.39
TIGR01683	64	thiS thiamine biosynthesis protein ThiS. This mode	99.36
PRK08053	66	sulfur carrier protein ThiS; Provisional	99.35
PRK06488	65	sulfur carrier protein ThiS; Validated	99.34
PF14451	81	Ub-Mut7C: Mut7-C ubiquitin	99.34
COG2104	68	ThiS Sulfur transfer protein involved in thiamine	99.23
PRK05659	66	sulfur carrier protein ThiS; Validated	99.21
PRK05863	65	sulfur carrier protein ThiS; Provisional	99.17
PRK01777	95	hypothetical protein; Validated	99.13
PRK07440	70	hypothetical protein; Provisional	99.08
PRK06083	84	sulfur carrier protein ThiS; Provisional	99.07
PF09138	96	Urm1: Urm1 (Ubiquitin related modifier); InterPro:	99.05
PRK07696	67	sulfur carrier protein ThiS; Provisional	98.98
COG5131	96	URM1 Ubiquitin-like protein [Posttranslational mod	98.68
KOG4146	101	consensus Ubiquitin-like protein [Posttranslationa	98.67
PRK11840	326	bifunctional sulfur carrier protein/thiazole synth	98.59
PF03658	84	Ub-RnfH: RnfH family Ubiquitin; InterPro: IPR00534	98.29
PF06805	82	Lambda_tail_I: Bacteriophage lambda tail assembly	98.22
cd01668	60	TGS_RelA_SpoT TGS_RelA_SpoT: The RelA (SpoT) prote	97.79
cd01616	60	TGS The TGS domain, named after the ThrRS, GTPase,	97.74
PF02824	60	TGS: TGS domain; InterPro: IPR004095 The TGS domai	97.54
cd01806	76	Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also kn	97.47
cd00196	69	UBQ Ubiquitin-like proteins. Ubiquitin homologs; I	97.42
cd01666	75	TGS_DRG_C TGS_DRG_C: DRG (developmentally regulate	97.4
PF14453	57	ThiS-like: ThiS-like ubiquitin	97.39
cd01803	76	Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40	97.28
cd01804	78	midnolin_N Ubiquitin-like domain of midnolin. midn	97.16
COG2914	99	Uncharacterized protein conserved in bacteria [Fun	96.99
cd01802	103	AN1_N ubiquitin-like domain of AN1. AN1 (also know	96.69
PTZ00044	76	ubiquitin; Provisional	96.68
cd01793	74	Fubi Fubi ubiquitin-like protein. Fubi is a ubiqui	96.63
cd01667	61	TGS_ThrRS_N TGS _ThrRS_N: ThrRS (threonyl-tRNA Syn	96.6
cd01805	77	RAD23_N Ubiquitin-like domain of RAD23. RAD23 belo	96.56
KOG1769	99	consensus Ubiquitin-like proteins [Posttranslation	96.25
cd01669	76	TGS_Ygr210_C TGS_Ygr210_C: The C-terminal TGS doma	96.22
cd01812	71	BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-ter	96.03
cd01807	74	GDX_N ubiquitin-like domain of GDX. GDX contains a	95.95
cd01763	87	Sumo Small ubiquitin-related modifier (SUMO). Smal	95.89
cd01810	74	ISG15_repeat2 ISG15 ubiquitin-like protein, second	95.89
cd01809	72	Scythe_N Ubiquitin-like domain of Scythe protein.	95.78
cd01800	76	SF3a120_C Ubiquitin-like domain of Mammalian splic	95.71
TIGR00691	683	spoT_relA (p)ppGpp synthetase, RelA/SpoT family. (	95.35
PRK11092	702	bifunctional (p)ppGpp synthetase II/ guanosine-3',	94.95
PRK10872	743	relA (p)ppGpp synthetase I/GTP pyrophosphokinase;	94.66
COG4723	198	Phage-related protein, tail component [Function un	94.64
cd01791	73	Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also know	94.3
cd01792	80	ISG15_repeat1 ISG15 ubiquitin-like protein, first	94.25
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	94.24
COG0317	701	SpoT Guanosine polyphosphate pyrophosphohydrolases	93.87
TIGR02988	59	YaaA_near_RecF S4 domain protein YaaA. This small	93.66
smart00213	64	UBQ Ubiquitin homologues. Ubiquitin-mediated prote	93.56
PF00240	69	ubiquitin: Ubiquitin family; InterPro: IPR000626 U	93.17
cd04938	76	TGS_Obg-like TGS_Obg-like: The C-terminal TGS doma	93.02
PF11976	72	Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; Inter	92.99
cd01769	69	UBL Ubiquitin-like domain of UBL. UBLs function by	92.13
PF01479	48	S4: S4 domain; InterPro: IPR002942 Ribosomes are t	91.99
PRK00413	638	thrS threonyl-tRNA synthetase; Reviewed	91.9
PRK12444	639	threonyl-tRNA synthetase; Reviewed	91.04
PRK07570	250	succinate dehydrogenase/fumarate reductase iron-su	90.95
smart00363	60	S4 S4 RNA-binding domain.	90.75
cd01808	71	hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC	90.2
PRK08640	249	sdhB succinate dehydrogenase iron-sulfur subunit;	89.73
PF08817	79	YukD: WXG100 protein secretion system (Wss), prote	89.66
cd01796	71	DDI1_N DNA damage inducible protein 1 ubiquitin-li	88.65
cd01797	78	NIRF_N amino-terminal ubiquitin-like domain of Np9	88.52
PF11834	69	DUF3354: Domain of unknown function (DUF3354); Int	88.08
cd01813	74	UBP_N UBP ubiquitin processing protease. The UBP (	88.03
PF14478	68	DUF4430: Domain of unknown function (DUF4430); PDB	87.53
PLN02560	308	enoyl-CoA reductase	86.97
PF10302	97	DUF2407: DUF2407 ubiquitin-like domain; InterPro:	86.74
PF13019	162	Telomere_Sde2: Telomere stability and silencing	86.43
PF13881	111	Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB	86.29
COG0522	205	RpsD Ribosomal protein S4 and related proteins [Tr	86.26
PRK12385	244	fumarate reductase iron-sulfur subunit; Provisiona	86.18
TIGR00384	220	dhsB succinate dehydrogenase and fumarate reductas	85.81
cd00165	70	S4 S4/Hsp/ tRNA synthetase RNA-binding domain; The	84.96
PRK12577	329	succinate dehydrogenase iron-sulfur subunit; Provi	84.72
PF13085	110	Fer2_3: 2Fe-2S iron-sulfur cluster binding domain;	84.66
PRK11025	317	23S rRNA pseudouridylate synthase C; Provisional	84.15
cd01798	70	parkin_N amino-terminal ubiquitin-like of parkin p	84.08
PRK13552	239	frdB fumarate reductase iron-sulfur subunit; Provi	83.48
COG2501	73	S4-like RNA binding protein [Replication, recombin	83.4
cd01794	70	DC_UbP_C dendritic cell derived ubiquitin-like pro	82.48
PRK11507	70	ribosome-associated protein; Provisional	82.09
COG1188	100	Ribosome-associated heat shock protein implicated	81.76
cd01799	75	Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HO	81.1
smart00666	81	PB1 PB1 domain. Phox and Bem1p domain, present in	80.54
PF06241	206	DUF1012: Protein of unknown function (DUF1012); In	80.37
COG1163	365	DRG Predicted GTPase [General function prediction	80.12

>PLN02799 Molybdopterin synthase sulfur carrier subunit

Probab=99.95  E-value=1.5e-27  Score=150.94  Aligned_cols=82  Identities=68%  Similarity=1.134  Sum_probs=78.5

Q ss_pred             ceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEcCCC
Q 034054           24 SIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPPIS  103 (105)
Q Consensus        24 ~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiPPvs  103 (105)
                      +|+|+|+|||.+|+.+|..++++++++++|+++|++.|..+||++.+++..+.+++|++++++++.|++||+|+||||||
T Consensus         1 ~m~i~V~~fa~~re~~g~~~~~~~~~~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~~v~~~~~l~dgDeVai~Ppvs   80 (82)
T PLN02799          1 SVEIKVLFFARARELTGVSDMTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEEYTTESAALKDGDELAIIPPIS   80 (82)
T ss_pred             CeEEEEEehHHHHHHhCCCeEEEECCCCCcHHHHHHHHHHHChhHHHHhhCcEEEECCEEcCCCcCcCCCCEEEEeCCCC
Confidence            48999999999999999989999999999999999999999999988878889999999999999999999999999999


Q ss_pred             CC
Q 034054          104 GG  105 (105)
Q Consensus       104 GG  105 (105)
                      ||
T Consensus        81 GG   82 (82)
T PLN02799         81 GG   82 (82)
T ss_pred             CC
Confidence            99

>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal

Probab=99.93  E-value=2.9e-25  Score=139.90  Aligned_cols=79  Identities=42%  Similarity=0.688  Sum_probs=74.1

Q ss_pred             EEEEecHHhHhhcCCCceEEEeCCC-CCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEcCCCCC
Q 034054           27 IKVLFFARARDLTGLTDMPLEVSCG-STTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        27 V~V~~fg~lre~~g~~~~~vev~~~-~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiPPvsGG  105 (105)
                      |+|+|||.+|+.+|+.++.++++.+ .|+++|++.|.++||++.+.++.++|+||+++++.+++|++||+|+||||||||
T Consensus         1 v~V~~fa~lr~~~g~~~~~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~~~~~l~dgDevai~PpvsGG   80 (80)
T TIGR01682         1 IKVLYFARLREQAGTDEETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVTDDALLNEGDEVAFIPPVSGG   80 (80)
T ss_pred             CEEEEeHHHHHHhCCCeEEEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcCCCcCcCCCCEEEEeCCCCCC
Confidence            6899999999999998889999876 899999999999999877667789999999999999999999999999999999

The C-terminal Gly-Gly of this model is critical to function.

>PRK11130 moaD molybdopterin synthase small subunit; Provisional

Probab=99.92  E-value=6.8e-25  Score=138.91  Aligned_cols=79  Identities=29%  Similarity=0.453  Sum_probs=68.6

Q ss_pred             EEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhh--cceeEEEECCeecCCCCccCCCCEEEEEcCCC
Q 034054           26 QIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEI--RGCMVLALNEEYTNASVIVNEKDELAIIPPIS  103 (105)
Q Consensus        26 ~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~--~~~~~vaVNg~~v~~d~~L~dGDeVaiiPPvs  103 (105)
                      +|+|+|||.+|+.+|.++.+++ +++.|+++|++.|.++||.+...  ...++++||+++++++++|++||||+||||||
T Consensus         1 ~v~V~~Fa~lre~~g~~~~~v~-~~~~tv~~l~~~L~~~~~~~~~~~~~~~~~~aVN~~~~~~~~~l~dgDeVai~PPVs   79 (81)
T PRK11130          1 MIKVLFFAQVRELVGTDALELA-ADFPTVEALRQHLAQKGDRWALALEDGKLLAAVNQTLVSFDHPLTDGDEVAFFPPVT   79 (81)
T ss_pred             CEEEEEeHHHHHHhCCceEEec-CCCCCHHHHHHHHHHhCccHHhhhcCCCEEEEECCEEcCCCCCCCCCCEEEEeCCCC
Confidence            3899999999999997655554 34689999999999999976432  35678999999999999999999999999999


Q ss_pred             CC
Q 034054          104 GG  105 (105)
Q Consensus       104 GG  105 (105)
                      ||
T Consensus        80 GG   81 (81)
T PRK11130         80 GG   81 (81)
T ss_pred             CC
Confidence            99

>cd00754 MoaD Ubiquitin domain of MoaD-like proteins

Probab=99.91  E-value=6.5e-24  Score=132.57  Aligned_cols=79  Identities=43%  Similarity=0.735  Sum_probs=72.9

Q ss_pred             EEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCc-hhhcceeEEEECCeecCCCCccCCCCEEEEEcCCCCC
Q 034054           27 IKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNL-EEIRGCMVLALNEEYTNASVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        27 V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l-~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiPPvsGG  105 (105)
                      |+|+|||.|++.+|+.+.+++++++.|+++|+++|..+||.+ ....+.++|+|||++++++++|++||+|+|+||++||
T Consensus         1 i~v~~f~~l~~~~g~~~~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~~~~~l~~gD~v~i~ppv~GG   80 (80)
T cd00754           1 VKVLYFARLREAAGKDEEELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVRLDTPLKDGDEVAIIPPVSGG   80 (80)
T ss_pred             CEEEEeHHHHHHhCCceEEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcCCCcccCCCCEEEEeCCCCCC
Confidence            589999999999999888999998999999999999999973 2345789999999999999999999999999999999

MoaD family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor of a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. Moco contains a tricyclic pyranopterin, termed molybdopterin (MPT), that contains the cis-dithiolene group responsible for molybdenum ligation. This dithiolene group is generated by MPT synthase, the second major step in Moco biosynthesis. MPT synthase consists of a large (MoeE) and small (MoaD) subunit. The small subunit is inserted into the lare subunit to form the active site. The small subunit, which is structurally similar to ubiquitin, contains a C-terminal thiocarboxylated glycine residue that serves as a sulfur donor for the synthesis of the MPT dithiolene group.

>TIGR01687 moaD_arch MoaD family protein, archaeal

Probab=99.91  E-value=1e-23  Score=134.66  Aligned_cols=78  Identities=33%  Similarity=0.615  Sum_probs=70.7

Q ss_pred             EEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchh--------hcceeEEEECCeecCCCC--ccCCCCEE
Q 034054           27 IKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEE--------IRGCMVLALNEEYTNASV--IVNEKDEL   96 (105)
Q Consensus        27 V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~--------~~~~~~vaVNg~~v~~d~--~L~dGDeV   96 (105)
                      |+|+|||.+|+++|+++.+++++ +.|+++|++.|.++||++..        +++.++|+||+++++++.  +|++||+|
T Consensus         1 v~V~~fa~lre~~g~~~~~v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~~~~~~l~dgdev   79 (88)
T TIGR01687         1 VRVKYFATLRDITGKKSEEIEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDWGLGTELKDGDVV   79 (88)
T ss_pred             CEEEEEhHHHHHhCCceEEEEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCccCCCCCCCCCEE
Confidence            68999999999999988899987 89999999999999997543        245799999999998776  99999999


Q ss_pred             EEEcCCCCC
Q 034054           97 AIIPPISGG  105 (105)
Q Consensus        97 aiiPPvsGG  105 (105)
                      +||||+|||
T Consensus        80 ~i~PpvsGG   88 (88)
T TIGR01687        80 AIFPPVSGG   88 (88)
T ss_pred             EEeCCCcCC
Confidence            999999999

Members of this family appear to be archaeal versions of MoaD, subunit 1 of molybdopterin converting factor. This model has been split from the bacterial/eukaryotic equivalog model TIGR01682 because the presence of two members of this family in a substantial number of archaeal species suggests that roles might not be interchangeable.

>PF02597 ThiS: ThiS family; InterPro: IPR003749 ThiS (thiaminS) is a 66 aa protein involved in sulphur transfer

Probab=99.86  E-value=5.3e-22  Score=122.95  Aligned_cols=74  Identities=39%  Similarity=0.715  Sum_probs=69.8

Q ss_pred             EEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC---CCccCCCCEEEEEcCCCCC
Q 034054           29 VLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA---SVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        29 V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~---d~~L~dGDeVaiiPPvsGG  105 (105)
                      |+|||.+++.+|  +..++++++.|+++|++.|..+||.+. ..+.++++|||+++++   ++.|++||+|+||||+|||
T Consensus         1 V~~fg~~~~~~g--~~~~~~~~~~tv~~ll~~l~~~~p~~~-~~~~~~v~vN~~~v~~~~~~~~l~~gD~V~i~ppvsGG   77 (77)
T PF02597_consen    1 VKFFGELREIAG--EEEIEVPEGSTVRDLLEALAERYPELA-LRDRVAVAVNGEIVPDDGLDTPLKDGDEVAILPPVSGG   77 (77)
T ss_dssp             EEETTHHHHHHT--EEEEEESSTSBHHHHHHHHCHHTGGGH-TTTTEEEEETTEEEGGGTTTSBEETTEEEEEEESTSTS
T ss_pred             CEEChhHHHHhC--CeEEecCCCCcHHHHHHHHHhhccccc-cCccEEEEECCEEcCCccCCcCcCCCCEEEEECCCCCC
Confidence            789999999999  678888999999999999999999887 5678999999999998   9999999999999999999

ThiS is coded in the thiCEFSGH operon in Escherichia coli. This family of proteins have two conserved Glycines at the COOH terminus. Thiocarboxylate is formed at the last G in the activation process. Sulphur is transferred from ThiI to ThiS in a reaction catalysed by IscS []. MoaD, a protein involved in sulphur transfer during molybdopterin synthesis, is about the same length and shows limited sequence similarity to ThiS. Both have the conserved GG at the COOH end.; PDB: 1JW9_D 1JWB_D 1JWA_D 3BII_D 1NVI_D 1FMA_D 1FM0_D 2QIE_G 2Q5W_D 2K5P_A ....

>COG1977 MoaD Molybdopterin converting factor, small subunit [Coenzyme metabolism]

Probab=99.84  E-value=4.2e-21  Score=122.61  Aligned_cols=80  Identities=28%  Similarity=0.317  Sum_probs=66.0

Q ss_pred             EEEEEecHHhHhhcCCCceEEEe-CCCCCHHHHHHHHHHhCCCchhhc---ceeEEEECCeecCCCCccCCCCEEEEEcC
Q 034054           26 QIKVLFFARARDLTGLTDMPLEV-SCGSTTQDCLNKLIARFPNLEEIR---GCMVLALNEEYTNASVIVNEKDELAIIPP  101 (105)
Q Consensus        26 ~V~V~~fg~lre~~g~~~~~vev-~~~~tv~dLl~~L~~~~p~l~~~~---~~~~vaVNg~~v~~d~~L~dGDeVaiiPP  101 (105)
                      +|+|+|||.+|+.+|..+++++. ..+.|+.+|.++|..+++.+....   ..+..++|..+++++++|++||+|+||||
T Consensus         1 ~v~V~~fA~lre~~g~~~~~~~~~~~~~tv~~L~~~l~~~~~~~~~~~~~~~~v~~~~~~~~~~~~t~L~dGDeVa~~PP   80 (84)
T COG1977           1 MVKVKYFAALREAAGKDEEELEGLTVGATVGELEELLPKEGERWLLALEDNIVVNAANNEFLVGLDTPLKDGDEVAFFPP   80 (84)
T ss_pred             CeEEEEehhHHHHhCCCceeeecccHHHHHHHHHHHHHhhhhhHHhccCccceEEeeeceeeccccccCCCCCEEEEeCC
Confidence            48899999999999998888873 335788889888888887544332   23677777888999999999999999999


Q ss_pred             CCCC
Q 034054          102 ISGG  105 (105)
Q Consensus       102 vsGG  105 (105)
                      ||||
T Consensus        81 VsGG   84 (84)
T COG1977          81 VSGG   84 (84)
T ss_pred             CCCC
Confidence            9999

>cd01764 Urm1 Urm1-like ubuitin domain

Probab=99.79  E-value=5.8e-19  Score=115.01  Aligned_cols=79  Identities=20%  Similarity=0.298  Sum_probs=67.4

Q ss_pred             EEEEecHHhHhhcCCCce-EEEeC--CCCCHHHHHHHHHHhCCCchh--------hcceeEEEECCeecC----CCCccC
Q 034054           27 IKVLFFARARDLTGLTDM-PLEVS--CGSTTQDCLNKLIARFPNLEE--------IRGCMVLALNEEYTN----ASVIVN   91 (105)
Q Consensus        27 V~V~~fg~lre~~g~~~~-~vev~--~~~tv~dLl~~L~~~~p~l~~--------~~~~~~vaVNg~~v~----~d~~L~   91 (105)
                      |+|+|+|.|+..+|..+. .++++  .+.||++|++.|..+||.+++        +++.++|+||++.+.    .+++|+
T Consensus         1 i~v~f~ggl~~~~~~~~~~~~~~~~~~~~tV~dll~~L~~~~~~~~~~lf~~~g~lr~~i~VlvN~~di~~l~g~~t~L~   80 (94)
T cd01764           1 IKVEFLGGLELLFGNQKEHHVVLDGEKPVTVGDLLDYVASNLLEERPDLFIEGGSVRPGIIVLINDTDWELLGEEDYILE   80 (94)
T ss_pred             CEEEEechHHHHhCCceEEEEeccCCCCCcHHHHHHHHHHhCchhhhhhEecCCcccCCEEEEECCccccccCCcccCCC
Confidence            589999999999997554 23344  568999999999999986543        467999999999974    689999


Q ss_pred             CCCEEEEEcCCCCC
Q 034054           92 EKDELAIIPPISGG  105 (105)
Q Consensus        92 dGDeVaiiPPvsGG  105 (105)
                      +||+|+||||++||
T Consensus        81 dgD~v~i~P~v~GG   94 (94)
T cd01764          81 DGDHVVFISTLHGG   94 (94)
T ss_pred             CcCEEEEECCCCCC
Confidence            99999999999998

Urm1 (Ubiquitin-Related Modifier1) The Urm1 fold, like those of two closely related proteins MoaD (molybdopterin synthase) and ThiS (sulfur carrier protein), is similar to that of ubiquitin although there is little or no sequence similarity. The C-terminal glycines of Urm1 are conjugated to an E1-like protein Uba4 as part of a novel conjugation system in yeast. The Urm1 fold is found only in eukaryotes.

>KOG3474 consensus Molybdopterin converting factor, small subunit [Energy production and conversion]

Probab=99.75  E-value=9.9e-19  Score=108.56  Aligned_cols=82  Identities=52%  Similarity=0.902  Sum_probs=77.2

Q ss_pred             ceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecC--CCCccCCCCEEEEEcC
Q 034054           24 SIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTN--ASVIVNEKDELAIIPP  101 (105)
Q Consensus        24 ~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~--~d~~L~dGDeVaiiPP  101 (105)
                      ++.|+|+|||..++.+|+.++.+++|++++..+.++.|.++||.|.++.+.+.+|+|.+++.  ....|..-|||+++||
T Consensus         1 ~ieIKVL~Fa~A~eLtG~~d~ai~~Pe~s~~ee~~deil~kfPaLeei~k~mmLAldeEYanp~D~~~l~~~dEiAiIPP   80 (84)
T KOG3474|consen    1 MIEIKVLFFAEACELTGKPDEAIDFPEESDTEECLDEILEKFPALEEIEKCMMLALDEEYANPGDRAELQHFDEIAIIPP   80 (84)
T ss_pred             CceEEEeeehhhHHhcCCchhhccCCCCCCHHHHHHHHHHhCccHHHHHHHhheehhhhhcCCCCceeeEeeceeeEcCC
Confidence            36799999999999999999999999999999999999999999999999999999999995  4568999999999999


Q ss_pred             CCCC
Q 034054          102 ISGG  105 (105)
Q Consensus       102 vsGG  105 (105)
                      +|||
T Consensus        81 iSGG   84 (84)
T KOG3474|consen   81 ISGG   84 (84)
T ss_pred             CCCC
Confidence            9998

>PRK08364 sulfur carrier protein ThiS; Provisional

Probab=99.62  E-value=2.1e-15  Score=93.11  Aligned_cols=67  Identities=22%  Similarity=0.296  Sum_probs=58.2

Q ss_pred             EEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEcCCCCC
Q 034054           26 QIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        26 ~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiPPvsGG  105 (105)
                      +|+|+++|..      ....+++++++|+.+|++.|....       +.+++++||+++..++.|++||+|+|||||+||
T Consensus         4 mm~v~vng~~------~~~~~~~~~~~tv~~ll~~l~~~~-------~~v~v~vNg~iv~~~~~l~~gD~Veii~~V~GG   70 (70)
T PRK08364          4 MIRVKVIGRG------IEKEIEWRKGMKVADILRAVGFNT-------ESAIAKVNGKVALEDDPVKDGDYVEVIPVVSGG   70 (70)
T ss_pred             EEEEEEeccc------cceEEEcCCCCcHHHHHHHcCCCC-------ccEEEEECCEECCCCcCcCCCCEEEEEccccCC
Confidence            3889999986      346788888999999999995321       458999999999999999999999999999999

>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein

Probab=99.49  E-value=6.2e-14  Score=85.10  Aligned_cols=56  Identities=29%  Similarity=0.388  Sum_probs=49.0

Q ss_pred             ceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC----CccCCCCEEEEEcCCCCC
Q 034054           43 DMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS----VIVNEKDELAIIPPISGG  105 (105)
Q Consensus        43 ~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d----~~L~dGDeVaiiPPvsGG  105 (105)
                      .+.+++++++|+.+|++.|....       +.++|++||++++.+    +.|++||+|+|+|||+||
T Consensus         6 g~~~~~~~~~tv~~ll~~l~~~~-------~~i~V~vNg~~v~~~~~~~~~L~~gD~V~ii~~v~GG   65 (65)
T cd00565           6 GEPREVEEGATLAELLEELGLDP-------RGVAVALNGEIVPRSEWASTPLQDGDRIEIVTAVGGG   65 (65)
T ss_pred             CeEEEcCCCCCHHHHHHHcCCCC-------CcEEEEECCEEcCHHHcCceecCCCCEEEEEEeccCC
Confidence            35788888999999999997432       468999999999876    899999999999999999

ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.

>PRK06437 hypothetical protein; Provisional

Probab=99.42  E-value=5.8e-13  Score=81.72  Aligned_cols=59  Identities=22%  Similarity=0.287  Sum_probs=52.0

Q ss_pred             CCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEcCCCCC
Q 034054           40 GLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        40 g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiPPvsGG  105 (105)
                      |..+..+++++++|+.+|++.|.-.       .+.+.+++||++++.++.|++||+|.|+||++||
T Consensus         9 g~~~~~~~i~~~~tv~dLL~~Lgi~-------~~~vaV~vNg~iv~~~~~L~dgD~Veiv~~V~GG   67 (67)
T PRK06437          9 GHINKTIEIDHELTVNDIIKDLGLD-------EEEYVVIVNGSPVLEDHNVKKEDDVLILEVFSGG   67 (67)
T ss_pred             CCcceEEEcCCCCcHHHHHHHcCCC-------CccEEEEECCEECCCceEcCCCCEEEEEecccCC
Confidence            5567889999999999999998642       1457899999999999999999999999999998

>PRK06944 sulfur carrier protein ThiS; Provisional

Probab=99.39  E-value=1.1e-12  Score=79.24  Aligned_cols=55  Identities=25%  Similarity=0.458  Sum_probs=47.5

Q ss_pred             ceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC----CCccCCCCEEEEEcCCCCC
Q 034054           43 DMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA----SVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        43 ~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~----d~~L~dGDeVaiiPPvsGG  105 (105)
                      .+.+++++++|+.+|++.|...        +.+++++||++++.    ++.|++||+|+|+|||+||
T Consensus         7 g~~~~~~~~~tl~~ll~~l~~~--------~~~~v~vN~~~v~~~~~~~~~L~~gD~vei~~~v~GG   65 (65)
T PRK06944          7 QQTLSLPDGATVADALAAYGAR--------PPFAVAVNGDFVARTQHAARALAAGDRLDLVQPVAGG   65 (65)
T ss_pred             CEEEECCCCCcHHHHHHhhCCC--------CCeEEEECCEEcCchhcccccCCCCCEEEEEeeccCC
Confidence            4678888899999999988642        23689999999974    6889999999999999999

>TIGR01683 thiS thiamine biosynthesis protein ThiS

Probab=99.36  E-value=1.8e-12  Score=78.45  Aligned_cols=56  Identities=30%  Similarity=0.414  Sum_probs=47.6

Q ss_pred             ceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecC---C-CCccCCCCEEEEEcCCCCC
Q 034054           43 DMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTN---A-SVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        43 ~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~---~-d~~L~dGDeVaiiPPvsGG  105 (105)
                      ...+++++++|+.+|++.|... |      +.++|++|+++++   + ++.|++||+|+|+|||+||
T Consensus         5 g~~~~~~~~~tv~~ll~~l~~~-~------~~v~v~vN~~iv~~~~~~~~~L~~gD~veii~~V~GG   64 (64)
T TIGR01683         5 GEPVEVEDGLTLAALLESLGLD-P------RRVAVAVNGEIVPRSEWDDTILKEGDRIEIVTFVGGG   64 (64)
T ss_pred             CeEEEcCCCCcHHHHHHHcCCC-C------CeEEEEECCEEcCHHHcCceecCCCCEEEEEEeccCC
Confidence            3577888899999999988643 1      5689999999997   3 4689999999999999999

This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.

>PRK08053 sulfur carrier protein ThiS; Provisional

Probab=99.35  E-value=2.6e-12  Score=78.34  Aligned_cols=56  Identities=27%  Similarity=0.442  Sum_probs=48.2

Q ss_pred             ceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecC---C-CCccCCCCEEEEEcCCCCC
Q 034054           43 DMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTN---A-SVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        43 ~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~---~-d~~L~dGDeVaiiPPvsGG  105 (105)
                      ...+++++++|+.+|++.|...+       +.++|++|+++++   | ++.|++||+|.|+|||+||
T Consensus         7 g~~~~~~~~~tl~~ll~~l~~~~-------~~vaVavN~~iv~r~~w~~~~L~~gD~Ieii~~v~GG   66 (66)
T PRK08053          7 DQPMQCAAGQTVHELLEQLNQLQ-------PGAALAINQQIIPREQWAQHIVQDGDQILLFQVIAGG   66 (66)
T ss_pred             CeEEEcCCCCCHHHHHHHcCCCC-------CcEEEEECCEEeChHHcCccccCCCCEEEEEEEccCC
Confidence            35788888999999999886554       3589999999998   4 4689999999999999999

>PRK06488 sulfur carrier protein ThiS; Validated

Probab=99.34  E-value=2.6e-12  Score=77.95  Aligned_cols=54  Identities=24%  Similarity=0.396  Sum_probs=44.7

Q ss_pred             eEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC----CCccCCCCEEEEEcCCCCC
Q 034054           44 MPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA----SVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        44 ~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~----d~~L~dGDeVaiiPPvsGG  105 (105)
                      +.++++ ..|+.+|++.|...       .+.+++++|+++++.    ++.|++||+|+|||||+||
T Consensus         8 ~~~~~~-~~tl~~Ll~~l~~~-------~~~vavavN~~iv~~~~~~~~~L~dgD~Ieiv~~V~GG   65 (65)
T PRK06488          8 ETLQTE-ATTLALLLAELDYE-------GNWLATAVNGELVHKEARAQFVLHEGDRIEILSPMQGG   65 (65)
T ss_pred             eEEEcC-cCcHHHHHHHcCCC-------CCeEEEEECCEEcCHHHcCccccCCCCEEEEEEeccCC
Confidence            456664 57999999988422       145789999999985    7899999999999999999

>PF14451 Ub-Mut7C: Mut7-C ubiquitin

Probab=99.34  E-value=4.9e-12  Score=80.44  Aligned_cols=72  Identities=17%  Similarity=0.265  Sum_probs=62.7

Q ss_pred             eEEEEEecHHhHhhcCC----CceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEc
Q 034054           25 IQIKVLFFARARDLTGL----TDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIP  100 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~----~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiP  100 (105)
                      .+|+++|||.|++++..    ....+.++.+.|++++++.|+-.+++..      .|.|||+.+++++.+++||.|+++|
T Consensus         2 ~~i~~rf~~~L~~flp~~~r~~~~~~~~~~~~tvkd~IEsLGVP~tEV~------~i~vNG~~v~~~~~~~~Gd~v~V~P   75 (81)
T PF14451_consen    2 PTITFRFYAELNDFLPPERRGGPFTHPFDGGATVKDVIESLGVPHTEVG------LILVNGRPVDFDYRLKDGDRVAVYP   75 (81)
T ss_pred             CEEEEEEchHHhhhcChhhcCCceEEecCCCCcHHHHHHHcCCChHHeE------EEEECCEECCCcccCCCCCEEEEEe
Confidence            46899999999999974    2456678888999999999998887553      7899999999999999999999999


Q ss_pred             CC
Q 034054          101 PI  102 (105)
Q Consensus       101 Pv  102 (105)
                      ..
T Consensus        76 ~~   77 (81)
T PF14451_consen   76 VF   77 (81)
T ss_pred             cc
Confidence            65

>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]

Probab=99.23  E-value=4.9e-11  Score=73.58  Aligned_cols=56  Identities=27%  Similarity=0.408  Sum_probs=49.7

Q ss_pred             ceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecC----CCCccCCCCEEEEEcCCCCC
Q 034054           43 DMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTN----ASVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        43 ~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~----~d~~L~dGDeVaiiPPvsGG  105 (105)
                      ...++++++.|+.||++.|.-.-       +.+++++||++++    .|+.|++||+|.|+.+|+||
T Consensus         9 g~~~e~~~~~tv~dLL~~l~~~~-------~~vav~vNg~iVpr~~~~~~~l~~gD~ievv~~v~GG   68 (68)
T COG2104           9 GKEVEIAEGTTVADLLAQLGLNP-------EGVAVAVNGEIVPRSQWADTILKEGDRIEVVRVVGGG   68 (68)
T ss_pred             CEEEEcCCCCcHHHHHHHhCCCC-------ceEEEEECCEEccchhhhhccccCCCEEEEEEeecCC
Confidence            46788888899999999997542       4689999999999    68999999999999999998

>PRK05659 sulfur carrier protein ThiS; Validated

Probab=99.21  E-value=4e-11  Score=72.60  Aligned_cols=55  Identities=24%  Similarity=0.313  Sum_probs=47.3

Q ss_pred             eEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecC----CCCccCCCCEEEEEcCCCCC
Q 034054           44 MPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTN----ASVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        44 ~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~----~d~~L~dGDeVaiiPPvsGG  105 (105)
                      ..++++++.|+.+|+..|...       ...+.+++|+++++    .++.|++||+|.|+++|+||
T Consensus         8 ~~~~~~~~~tl~~lL~~l~~~-------~~~vav~vNg~iv~r~~~~~~~l~~gD~vei~~~vgGG   66 (66)
T PRK05659          8 EPRELPDGESVAALLAREGLA-------GRRVAVEVNGEIVPRSQHASTALREGDVVEIVHALGGG   66 (66)
T ss_pred             eEEEcCCCCCHHHHHHhcCCC-------CCeEEEEECCeEeCHHHcCcccCCCCCEEEEEEEecCC
Confidence            467888899999999987532       24678999999998    68999999999999999998

>PRK05863 sulfur carrier protein ThiS; Provisional

Probab=99.17  E-value=5.2e-11  Score=72.44  Aligned_cols=55  Identities=16%  Similarity=0.212  Sum_probs=47.0

Q ss_pred             eEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecC---CCCccCCCCEEEEEcCCCCC
Q 034054           44 MPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTN---ASVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        44 ~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~---~d~~L~dGDeVaiiPPvsGG  105 (105)
                      ..+++++++|+.+|++.|...       .+.+++++|+.+++   |++.|++||+|.||+||+||
T Consensus         8 ~~~~~~~~~tl~~ll~~l~~~-------~~~vav~~N~~iv~r~~~~~~L~~gD~ieIv~~VgGG   65 (65)
T PRK05863          8 EQVEVDEQTTVAALLDSLGFP-------EKGIAVAVDWSVLPRSDWATKLRDGARLEVVTAVQGG   65 (65)
T ss_pred             EEEEcCCCCcHHHHHHHcCCC-------CCcEEEEECCcCcChhHhhhhcCCCCEEEEEeeccCC
Confidence            567788889999999988532       24689999999986   56789999999999999998

>PRK01777 hypothetical protein; Validated

Probab=99.13  E-value=2e-10  Score=75.02  Aligned_cols=74  Identities=12%  Similarity=0.193  Sum_probs=58.4

Q ss_pred             ceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHH--hCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEcC
Q 034054           24 SIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIA--RFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPP  101 (105)
Q Consensus        24 ~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~--~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiPP  101 (105)
                      .|+|.|-|...=+    .....+++++|+|+.|++..++.  .||++.  .....+.|||+.+.+|++|++||+|.||||
T Consensus         3 ~i~v~V~ya~~~~----~~~~~l~vp~GtTv~dal~~sgi~~~~pei~--~~~~~vgI~Gk~v~~d~~L~dGDRVeIyrP   76 (95)
T PRK01777          3 KIRVEVVYALPER----QYLQRLTLQEGATVEEAIRASGLLELRTDID--LAKNKVGIYSRPAKLTDVLRDGDRVEIYRP   76 (95)
T ss_pred             eeEEEEEEECCCc----eEEEEEEcCCCCcHHHHHHHcCCCccCcccc--cccceEEEeCeECCCCCcCCCCCEEEEecC
Confidence            5889998874422    22378899999999999998764  445552  233578999999999999999999999999


Q ss_pred             CC
Q 034054          102 IS  103 (105)
Q Consensus       102 vs  103 (105)
                      ..
T Consensus        77 L~   78 (95)
T PRK01777         77 LL   78 (95)
T ss_pred             CC
Confidence            74

>PRK07440 hypothetical protein; Provisional

Probab=99.08  E-value=3.3e-10  Score=70.02  Aligned_cols=55  Identities=24%  Similarity=0.306  Sum_probs=47.7

Q ss_pred             eEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecC----CCCccCCCCEEEEEcCCCCC
Q 034054           44 MPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTN----ASVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        44 ~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~----~d~~L~dGDeVaiiPPvsGG  105 (105)
                      ..+++++++|+.+|++.|...       .+.+++++|+++++    .++.|++||+|.|+++++||
T Consensus        12 ~~~~~~~~~tl~~lL~~l~~~-------~~~vav~~N~~iv~r~~w~~~~L~~gD~IEIv~~v~GG   70 (70)
T PRK07440         12 ETRTCSSGTSLPDLLQQLGFN-------PRLVAVEYNGEILHRQFWEQTQVQPGDRLEIVTIVGGG   70 (70)
T ss_pred             EEEEcCCCCCHHHHHHHcCCC-------CCeEEEEECCEEeCHHHcCceecCCCCEEEEEEEecCC
Confidence            467888899999999987532       25789999999998    57899999999999999998

>PRK06083 sulfur carrier protein ThiS; Provisional

Probab=99.07  E-value=8.1e-10  Score=70.68  Aligned_cols=56  Identities=23%  Similarity=0.447  Sum_probs=47.2

Q ss_pred             ceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC----CCccCCCCEEEEEcCCCCC
Q 034054           43 DMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA----SVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        43 ~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~----d~~L~dGDeVaiiPPvsGG  105 (105)
                      .+..+++++.|+.+|++.|.  ++     ...++|++|+++++.    ++.|++||.|.|+.+|+||
T Consensus        25 G~~~~~~~~~tl~~LL~~l~--~~-----~~~vAVevNg~iVpr~~w~~t~L~egD~IEIv~~VgGG   84 (84)
T PRK06083         25 DQSIQVDISSSLAQIIAQLS--LP-----ELGCVFAINNQVVPRSEWQSTVLSSGDAISLFQAIAGG   84 (84)
T ss_pred             CeEEEcCCCCcHHHHHHHcC--CC-----CceEEEEECCEEeCHHHcCcccCCCCCEEEEEEEecCC
Confidence            35777888999999999874  32     246899999999983    5789999999999999999

>PF09138 Urm1: Urm1 (Ubiquitin related modifier); InterPro: IPR015221 Ubiquitin related modifier 1 (Urm1) is a ubiquitin related protein that modifies proteins in the yeast ubiquitin-like urmylation pathway []

Probab=99.05  E-value=5.5e-10  Score=73.10  Aligned_cols=80  Identities=18%  Similarity=0.290  Sum_probs=60.6

Q ss_pred             EEEEEecHHhHhhcCC-CceEEEeC---CCCCHHHHHHHHHHhCCCch--------hhcceeEEEECCeecC----CCCc
Q 034054           26 QIKVLFFARARDLTGL-TDMPLEVS---CGSTTQDCLNKLIARFPNLE--------EIRGCMVLALNEEYTN----ASVI   89 (105)
Q Consensus        26 ~V~V~~fg~lre~~g~-~~~~vev~---~~~tv~dLl~~L~~~~p~l~--------~~~~~~~vaVNg~~v~----~d~~   89 (105)
                      +|+|.|-|.+--.++. +...+++|   ...|+++|+.+|.+.+-.-+        .+++.+.|+||+....    .|++
T Consensus         1 ~i~vEF~GGlE~Lf~~~k~h~v~l~~~~~~~ti~~Li~~l~~nll~~r~elF~~~~~vrPGILvLINd~DwEl~g~~~y~   80 (96)
T PF09138_consen    1 KITVEFSGGLELLFGNQKKHKVSLPSDGEPATIKDLIDYLRDNLLKERPELFLEGGSVRPGILVLINDADWELLGEEDYV   80 (96)
T ss_dssp             EEEEEEETTCGGGTTT-SEEEEEE-SSCSC-BHHHHHHHHCCCT-SSGHHHHBSSSSB-TTEEEEETTCEHHHHTCCCSB
T ss_pred             CEEEEEcCcHHHHhCCceeEEEEcCCCCCCcCHHHHHHHHHHhccCCCHhHEecCCeEcCcEEEEEcCccceeecCcceE
Confidence            5899999999999984 45678888   56899999999998763212        2589999999999863    5899


Q ss_pred             cCCCCEEEEEcCCCCC
Q 034054           90 VNEKDELAIIPPISGG  105 (105)
Q Consensus        90 L~dGDeVaiiPPvsGG  105 (105)
                      |++||.|.|++...||
T Consensus        81 l~~~D~I~FiSTLHGG   96 (96)
T PF09138_consen   81 LKDGDNITFISTLHGG   96 (96)
T ss_dssp             --TTEEEEEEETTT--
T ss_pred             cCCCCEEEEEccCCCC
Confidence            9999999999999998

Structural comparisons and phylogenetic analysis of the ubiquitin superfamily has indicated that Urm1 has the most conserved structural and sequence features of the common ancestor of the entire superfamily []. ; GO: 0034227 tRNA thio-modification, 0005737 cytoplasm; PDB: 2AX5_A 2QJL_A 2PKO_A 1WGK_A 1XO3_A 2K9X_A.

>PRK07696 sulfur carrier protein ThiS; Provisional

Probab=98.98  E-value=9.6e-10  Score=67.33  Aligned_cols=55  Identities=22%  Similarity=0.319  Sum_probs=46.1

Q ss_pred             eEEEeCCC-CCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC----CCccCCCCEEEEEcCCCCC
Q 034054           44 MPLEVSCG-STTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA----SVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        44 ~~vev~~~-~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~----d~~L~dGDeVaiiPPvsGG  105 (105)
                      ..++++++ +|+.+|++.|.-.       .+.++|++|+++++.    ++.|++||+|.|+++++||
T Consensus         8 ~~~~~~~~~~tv~~lL~~l~~~-------~~~vav~vN~~iv~r~~w~~~~L~~gD~iEIv~~VgGG   67 (67)
T PRK07696          8 NQIEVPESVKTVAELLTHLELD-------NKIVVVERNKDILQKDDHTDTSVFDGDQIEIVTFVGGG   67 (67)
T ss_pred             EEEEcCCCcccHHHHHHHcCCC-------CCeEEEEECCEEeCHHHcCceecCCCCEEEEEEEecCC
Confidence            46677777 6899999987543       146899999999985    3889999999999999998

>COG5131 URM1 Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]

Probab=98.68  E-value=8.9e-08  Score=61.75  Aligned_cols=81  Identities=17%  Similarity=0.252  Sum_probs=64.5

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeC--CCCCHHHHHHHHHH-hC-CCc-------hhhcceeEEEECCeecC----CCCc
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVS--CGSTTQDCLNKLIA-RF-PNL-------EEIRGCMVLALNEEYTN----ASVI   89 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~--~~~tv~dLl~~L~~-~~-p~l-------~~~~~~~~vaVNg~~v~----~d~~   89 (105)
                      |.+||.|.|.+--.++.+..++.+.  +++++..+++.+.. .| |.-       ..+++.+.+.||+....    .+++
T Consensus         1 ~~~KvellGgld~~fnqR~~el~~~~~e~~~vg~liD~~~~~i~~p~~~sifie~g~lrpGiI~LINd~DWeLleke~y~   80 (96)
T COG5131           1 HEMKVELLGGLDVEFNQREIELTREEVEGSSVGTLIDALRYFIYAPTRDSIFIEHGELRPGIICLINDMDWELLEKERYP   80 (96)
T ss_pred             CCceEEEeccchhhhcceeeEEEEcccCCcchhhHHHHHHHHHhCCccceeeecCCCCcccEEEEEcCccHhhhhccccc
Confidence            4689999999999999886666654  46899999988876 11 311       12578999999998865    3689


Q ss_pred             cCCCCEEEEEcCCCCC
Q 034054           90 VNEKDELAIIPPISGG  105 (105)
Q Consensus        90 L~dGDeVaiiPPvsGG  105 (105)
                      |++||.|.|+|-..||
T Consensus        81 ledgDiIvfistlHGg   96 (96)
T COG5131          81 LEDGDIIVFISTLHGG   96 (96)
T ss_pred             CCCCCEEEEEecccCC
Confidence            9999999999999998

>KOG4146 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]

Probab=98.67  E-value=1.2e-07  Score=61.56  Aligned_cols=83  Identities=17%  Similarity=0.318  Sum_probs=65.5

Q ss_pred             CceEEEEEecHHhHhhcCCCceE-EEeC---CCCCHHHHHHHHHHhCC----Cc----hhhcceeEEEECCeecC----C
Q 034054           23 SSIQIKVLFFARARDLTGLTDMP-LEVS---CGSTTQDCLNKLIARFP----NL----EEIRGCMVLALNEEYTN----A   86 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~-vev~---~~~tv~dLl~~L~~~~p----~l----~~~~~~~~vaVNg~~v~----~   86 (105)
                      ..|.|+|+|.|.+--.+++.... +.++   +..|+++|+.++..+|-    .+    ..+++.+.+.||.....    .
T Consensus         3 ~~~~vkvef~Gg~dllfn~~k~~~~~l~~~e~~~tvgdll~yi~~~~ie~r~~lFi~~gsvrpGii~lINd~DWElleke   82 (101)
T KOG4146|consen    3 EAHEVKVEFLGGLDLLFNKQKIHLTRLEVGESPATVGDLLDYIFGKYIETRDSLFIHHGSVRPGIIVLINDMDWELLEKE   82 (101)
T ss_pred             cceeEEEEEcCceeeeECCeEEEEEecccCCCcccHHHHHHHHHHHHhcCCcceEeeCCcCcCcEEEEEeccchhhhccc
Confidence            45889999999999888865432 2333   24799999999998772    22    12578999999998764    5


Q ss_pred             CCccCCCCEEEEEcCCCCC
Q 034054           87 SVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        87 d~~L~dGDeVaiiPPvsGG  105 (105)
                      |++|++||.|.|+.-..||
T Consensus        83 dy~ledgD~ivfiSTlHGg  101 (101)
T KOG4146|consen   83 DYPLEDGDHIVFISTLHGG  101 (101)
T ss_pred             ccCcccCCEEEEEEeccCC
Confidence            8999999999999999998

>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional

Probab=98.59  E-value=9.9e-08  Score=74.12  Aligned_cols=55  Identities=29%  Similarity=0.338  Sum_probs=47.4

Q ss_pred             eEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecC----CCCccCCCCEEEEEcCCCCC
Q 034054           44 MPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTN----ASVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        44 ~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~----~d~~L~dGDeVaiiPPvsGG  105 (105)
                      +.+++++++|+.||++.|...       .+.+.|++|+++++    .++.|++||+|.||++|+||
T Consensus         8 k~~el~e~~TL~dLL~~L~i~-------~~~VAVeVNgeIVpr~~w~~t~LkeGD~IEII~~VgGG   66 (326)
T PRK11840          8 EPRQVPAGLTIAALLAELGLA-------PKKVAVERNLEIVPRSEYGQVALEEGDELEIVHFVGGG   66 (326)
T ss_pred             EEEecCCCCcHHHHHHHcCCC-------CCeEEEEECCEECCHHHcCccccCCCCEEEEEEEecCC
Confidence            467888899999999988532       24689999999998    46899999999999999998

>PF03658 Ub-RnfH: RnfH family Ubiquitin; InterPro: IPR005346 This is a small family of proteins of unknown function

Probab=98.29  E-value=2e-06  Score=55.11  Aligned_cols=73  Identities=16%  Similarity=0.376  Sum_probs=45.4

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHH--HHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEcCC
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNK--LIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPPI  102 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~--L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiPPv  102 (105)
                      |+|.|-|-.. .   ......+++++|+|+.+.++.  |.+.||++.  +....+-|=|+.+.+|+.|++||.|.|+-|.
T Consensus         1 i~VeV~yA~p-~---~q~~~~l~vp~GtTv~~Ai~~Sgi~~~~p~id--l~~~~vGIfGk~~~~d~~L~~GDRVEIYRPL   74 (84)
T PF03658_consen    1 IRVEVAYALP-E---RQVILTLEVPEGTTVAQAIEASGILEQFPEID--LEKNKVGIFGKLVKLDTVLRDGDRVEIYRPL   74 (84)
T ss_dssp             EEEEEEEEET-T---CEEEEEEEEETT-BHHHHHHHHTHHHH-TT----TTTSEEEEEE-S--TT-B--TT-EEEEE-S-
T ss_pred             CEEEEEEECC-C---eEEEEEEECCCcCcHHHHHHHcCchhhCcccC--cccceeeeeeeEcCCCCcCCCCCEEEEeccC
Confidence            6788877533 1   233467889999999999875  667889863  2345788889999999999999999999886


Q ss_pred             C
Q 034054          103 S  103 (105)
Q Consensus       103 s  103 (105)
                      .
T Consensus        75 ~   75 (84)
T PF03658_consen   75 T   75 (84)
T ss_dssp             -
T ss_pred             c
Confidence            3

; PDB: 2HJ1_B.

>PF06805 Lambda_tail_I: Bacteriophage lambda tail assembly protein I; InterPro: IPR010654 This family consists of several Bacteriophage lambda tail assembly protein I and related phage and bacterial sequences

Probab=98.22  E-value=4.9e-06  Score=52.88  Aligned_cols=76  Identities=16%  Similarity=0.190  Sum_probs=58.1

Q ss_pred             EEEEEecHHhH-hhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecC---C-CCccCCCCEEEEEc
Q 034054           26 QIKVLFFARAR-DLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTN---A-SVIVNEKDELAIIP  100 (105)
Q Consensus        26 ~V~V~~fg~lr-e~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~---~-d~~L~dGDeVaiiP  100 (105)
                      ..+|+++|.|. ..+|. ...+.   ..|+.|.+..|..+.|+++........-.||+...   | +..+++|++|.|.|
T Consensus         2 ~~tI~L~G~L~~~~fGr-~~~l~---v~t~~Eai~AL~~~~pGf~~~~~v~~~~~ng~~~l~~~~~~~~~~~g~~I~IvP   77 (82)
T PF06805_consen    2 MRTIRLYGPLGPRRFGR-RHRLA---VDTPAEAIRALCVQLPGFEQFFAVFIGKRNGEDELEARWHDERPKGGSVIRIVP   77 (82)
T ss_pred             cEEEEEeCcCcCccceE-EEEec---cCCHHHHHHHHHhcChhhhhhcceEEeeeCChhhhhhhhhcccCCCCCEEEEEE
Confidence            46899999998 78884 34433   46999999999999999987634445555655543   2 25799999999999


Q ss_pred             CCCCC
Q 034054          101 PISGG  105 (105)
Q Consensus       101 PvsGG  105 (105)
                      -+.|+
T Consensus        78 vi~Gs   82 (82)
T PF06805_consen   78 VIAGS   82 (82)
T ss_pred             ecCCC
Confidence            99996

Members of this family are typically around 200 residues in length. The function of this family is unknown.

>cd01668 TGS_RelA_SpoT TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response

Probab=97.79  E-value=0.00014  Score=42.11  Aligned_cols=51  Identities=20%  Similarity=0.333  Sum_probs=40.8

Q ss_pred             eEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEE
Q 034054           44 MPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAII   99 (105)
Q Consensus        44 ~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaii   99 (105)
                      ..++++.++|+.++++.+..   .+.  ...+.+.+||+.++.+++|.+||+|.++
T Consensus         9 ~~~~~~~~~t~~~~~~~~~~---~~~--~~~va~~vng~~vdl~~~l~~~~~ve~v   59 (60)
T cd01668           9 EIIELPAGATVLDFAYAIHT---EIG--NRCVGAKVNGKLVPLSTVLKDGDIVEII   59 (60)
T ss_pred             CEEEcCCCCCHHHHHHHHCh---Hhh--hheEEEEECCEECCCCCCCCCCCEEEEE
Confidence            46778999999998876642   222  1457888999999999999999999886

RelA contains a TGS domain, named after the Threonyl-tRNA Synthetase, GTPase, and SpoT proteins where it occurs. The function of the TGS domain is unknown.

>cd01616 TGS The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin

Probab=97.74  E-value=0.00023  Score=40.11  Aligned_cols=51  Identities=20%  Similarity=0.326  Sum_probs=41.7

Q ss_pred             eEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEE
Q 034054           44 MPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAII   99 (105)
Q Consensus        44 ~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaii   99 (105)
                      ..++++.++|+.+++..+...++     ...+++.+||+.++.+++|.+||+|.|+
T Consensus         9 ~~~~~~~g~t~~~~~~~~~~~~~-----~~~~~~~vn~~~~~l~~~l~~~~~i~~i   59 (60)
T cd01616           9 SAVELPKGATAMDFALKIHTDLG-----KGFIGALVNGQLVDLSYTLQDGDTVSIV   59 (60)
T ss_pred             CEEEcCCCCCHHHHHHHHHHHHH-----hheEEEEECCEECCCCcCcCCCCEEEEe
Confidence            46777889999999988865432     1346788999999999999999999987

TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.

>PF02824 TGS: TGS domain; InterPro: IPR004095 The TGS domain is present in a number of enzymes, for example, in threonyl-tRNA synthetase (ThrRS), GTPase, and guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (SpoT) []

Probab=97.54  E-value=0.00013  Score=43.56  Aligned_cols=52  Identities=19%  Similarity=0.228  Sum_probs=41.8

Q ss_pred             ceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEE
Q 034054           43 DMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAII   99 (105)
Q Consensus        43 ~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaii   99 (105)
                      ....+++.++|+.|+...+...   +.+  ..+...|||+.++.+++|++||.|.|+
T Consensus         8 G~~~~~~~g~T~~d~A~~I~~~---l~~--~~~~A~Vng~~vdl~~~L~~~d~v~ii   59 (60)
T PF02824_consen    8 GSIKELPEGSTVLDVAYSIHSS---LAK--RAVAAKVNGQLVDLDHPLEDGDVVEII   59 (60)
T ss_dssp             SCEEEEETTBBHHHHHHHHSHH---HHH--CEEEEEETTEEEETTSBB-SSEEEEEE
T ss_pred             CCeeeCCCCCCHHHHHHHHCHH---HHh--heeEEEEcCEECCCCCCcCCCCEEEEE
Confidence            4567789999999999887643   332  456788999999999999999999997

The TGS domain is also present at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi). TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role []. ; PDB: 1WXQ_A 1NYR_B 1NYQ_B 2KMM_A 1WWT_A 1TKE_A 1TKG_A 1TJE_A 1QF6_A 1TKY_A ....

>cd01806 Nedd8 Nebb8-like ubiquitin protein

Probab=97.47  E-value=0.0014  Score=39.59  Aligned_cols=71  Identities=13%  Similarity=0.223  Sum_probs=53.9

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      |+|.|+.+.      | +...++++...|+.+|.+.+..+. ++..  ...++..+|+....     ++-+.+|+.|.++
T Consensus         1 m~i~v~~~~------g-~~~~~~v~~~~tv~~lK~~i~~~~-g~~~--~~qrL~~~g~~L~d~~tl~~~~i~~g~~i~l~   70 (76)
T cd01806           1 MLIKVKTLT------G-KEIEIDIEPTDKVERIKERVEEKE-GIPP--QQQRLIYSGKQMNDDKTAADYKLEGGSVLHLV   70 (76)
T ss_pred             CEEEEEeCC------C-CEEEEEECCCCCHHHHHHHHhHhh-CCCh--hhEEEEECCeEccCCCCHHHcCCCCCCEEEEE
Confidence            667777753      4 467888988899999999998875 2211  23456688988754     4679999999999


Q ss_pred             cCCCCC
Q 034054          100 PPISGG  105 (105)
Q Consensus       100 PPvsGG  105 (105)
                      +...||
T Consensus        71 ~~~~gg   76 (76)
T cd01806          71 LALRGG   76 (76)
T ss_pred             EEccCC
Confidence            998887

Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.

>cd00196 UBQ Ubiquitin-like proteins

Probab=97.42  E-value=0.0018  Score=35.40  Aligned_cols=59  Identities=22%  Similarity=0.232  Sum_probs=46.5

Q ss_pred             CCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEEcC
Q 034054           40 GLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAIIPP  101 (105)
Q Consensus        40 g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaiiPP  101 (105)
                      +.....+.++...|++++++.+..+++..   .+.+.+++|+.....     +..+.+|++|.+.|+
T Consensus         6 ~~~~~~~~~~~~~tv~~l~~~i~~~~~~~---~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~   69 (69)
T cd00196           6 DGKTVELLVPSGTTVADLKEKLAKKLGLP---PEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVPR   69 (69)
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHHCcC---hHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEeC
Confidence            34567788887899999999999998521   245788999998763     358999999999874

Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.

>cd01666 TGS_DRG_C TGS_DRG_C: DRG (developmentally regulated GTP-binding protein) represents a family of GTP-binding proteins that includes two members, DRG1 and DRG2

Probab=97.40  E-value=0.00059  Score=42.66  Aligned_cols=54  Identities=19%  Similarity=0.287  Sum_probs=38.8

Q ss_pred             ceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEE-----EECCeecCCCCccCCCCEEEEE
Q 034054           43 DMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVL-----ALNEEYTNASVIVNEKDELAII   99 (105)
Q Consensus        43 ~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~v-----aVNg~~v~~d~~L~dGDeVaii   99 (105)
                      ...+.++.|+|+.|+...+....   .+-.....+     -++|+.++.+++|++||.|.|+
T Consensus        16 ~~~liL~~GaTV~D~a~~iH~di---~~~f~~A~v~g~s~~~~gq~Vgl~~~L~d~DvVeI~   74 (75)
T cd01666          16 DEPVILRRGSTVEDVCNKIHKDL---VKQFKYALVWGSSVKHSPQRVGLDHVLEDEDVVQIV   74 (75)
T ss_pred             CCCEEECCCCCHHHHHHHHHHHH---HHhCCeeEEeccCCcCCCeECCCCCEecCCCEEEEe
Confidence            46788899999999988776321   110011111     2499999999999999999986

DRG1 and DRG2 have a C-terminal TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it occurs) with a predominantly beta-sheet structure. The function of TGS is unknown but its presence in two types of regulatory proteins (the DRG GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.

>PF14453 ThiS-like: ThiS-like ubiquitin

Probab=97.39  E-value=0.00069  Score=40.41  Aligned_cols=49  Identities=18%  Similarity=0.164  Sum_probs=40.5

Q ss_pred             ceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEc
Q 034054           43 DMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIP  100 (105)
Q Consensus        43 ~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiP  100 (105)
                      +..+++.+++|+.+|.+.+....         =.+.+||=.+..|..|++||+|.|++
T Consensus         7 ~k~~~~~~~~tl~~lr~~~k~~~---------DI~I~NGF~~~~d~~L~e~D~v~~Ik   55 (57)
T PF14453_consen    7 EKEIETEENTTLFELRKESKPDA---------DIVILNGFPTKEDIELKEGDEVFLIK   55 (57)
T ss_pred             CEEEEcCCCcCHHHHHHhhCCCC---------CEEEEcCcccCCccccCCCCEEEEEe
Confidence            46778888899999998775321         15679999999999999999999986

>cd01803 Ubiquitin Ubiquitin

Probab=97.28  E-value=0.0034  Score=37.88  Aligned_cols=71  Identities=18%  Similarity=0.258  Sum_probs=53.3

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      |+|.|+.+.      | +...++++...|+++|.+.+..... +..  ....+..+|+....     ++-+++|+.|.+.
T Consensus         1 m~i~v~~~~------g-~~~~~~v~~~~tV~~lK~~i~~~~g-~~~--~~q~L~~~g~~L~d~~~L~~~~i~~~~~i~l~   70 (76)
T cd01803           1 MQIFVKTLT------G-KTITLEVEPSDTIENVKAKIQDKEG-IPP--DQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV   70 (76)
T ss_pred             CEEEEEcCC------C-CEEEEEECCcCcHHHHHHHHHHHhC-CCH--HHeEEEECCEECCCCCcHHHcCCCCCCEEEEE
Confidence            667777664      4 4577899888999999999988752 111  23455678888764     4678999999999


Q ss_pred             cCCCCC
Q 034054          100 PPISGG  105 (105)
Q Consensus       100 PPvsGG  105 (105)
                      ....||
T Consensus        71 ~~~~gg   76 (76)
T cd01803          71 LRLRGG   76 (76)
T ss_pred             EEccCC
Confidence            999998

Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)

>cd01804 midnolin_N Ubiquitin-like domain of midnolin

Probab=97.16  E-value=0.004  Score=38.64  Aligned_cols=72  Identities=15%  Similarity=0.322  Sum_probs=52.9

Q ss_pred             ceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC----CCccCCCCEEEEE
Q 034054           24 SIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA----SVIVNEKDELAII   99 (105)
Q Consensus        24 ~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~----d~~L~dGDeVaii   99 (105)
                      .|+|+|+-..      | +...++++...|+++|.+.+.++. ++..  ...++...|+....    ++-+++|+.|.++
T Consensus         1 ~m~I~Vk~~~------G-~~~~l~v~~~~TV~~LK~~I~~~~-~~~~--~~qrL~~~Gk~L~d~~L~~~gi~~~~~i~l~   70 (78)
T cd01804           1 PMNLNIHSTT------G-TRFDLSVPPDETVEGLKKRISQRL-KVPK--ERLALLHRETRLSSGKLQDLGLGDGSKLTLV   70 (78)
T ss_pred             CeEEEEEECC------C-CEEEEEECCcCHHHHHHHHHHHHh-CCCh--HHEEEEECCcCCCCCcHHHcCCCCCCEEEEE
Confidence            3778887663      4 357899988899999999998875 2221  22345566776654    3568999999999


Q ss_pred             cCCCCC
Q 034054          100 PPISGG  105 (105)
Q Consensus       100 PPvsGG  105 (105)
                      +++-||
T Consensus        71 ~~~~~~   76 (78)
T cd01804          71 PTVEAG   76 (78)
T ss_pred             eecccc
Confidence            999887

midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.

>COG2914 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.99  E-value=0.0031  Score=41.30  Aligned_cols=72  Identities=17%  Similarity=0.325  Sum_probs=51.2

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHH--HHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEcCC
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNK--LIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPPI  102 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~--L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiPPv  102 (105)
                      +.|.|.|--+=+.+    -..+.+++|+|+.+.+..  |.+.+|++.  ...+.+=|=++.+.++..|++||.|.|+-|.
T Consensus         4 I~VevvyAlPerq~----l~~v~v~egatV~dAi~~Sgll~~~~~id--l~~n~~GI~~k~~kl~~~l~dgDRVEIyRPL   77 (99)
T COG2914           4 IAVEVVYALPERQY----LCRVQLQEGATVEDAILASGLLELFPDID--LHENKVGIYSKPVKLDDELHDGDRVEIYRPL   77 (99)
T ss_pred             eEEEEEEEcCCcce----EEEEEeccCcCHHHHHHhcchhhccccCC--ccccceeEEccccCccccccCCCEEEEeccc
Confidence            55666554332221    246788899999988764  666777664  2345666777888899999999999999885

>cd01802 AN1_N ubiquitin-like domain of AN1

Probab=96.69  E-value=0.023  Score=37.27  Aligned_cols=72  Identities=18%  Similarity=0.138  Sum_probs=54.1

Q ss_pred             ceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEE
Q 034054           24 SIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAI   98 (105)
Q Consensus        24 ~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVai   98 (105)
                      +|+|.|+-.+      | ....++++...||.+|.+.+.+.+. +..  ....+.-+|+....     ++-|.+|+.|.+
T Consensus        27 ~M~I~Vk~l~------G-~~~~leV~~~~TV~~lK~kI~~~~g-ip~--~~QrLi~~Gk~L~D~~tL~dy~I~~~stL~l   96 (103)
T cd01802          27 TMELFIETLT------G-TCFELRVSPFETVISVKAKIQRLEG-IPV--AQQHLIWNNMELEDEYCLNDYNISEGCTLKL   96 (103)
T ss_pred             CEEEEEEcCC------C-CEEEEEeCCCCcHHHHHHHHHHHhC-CCh--HHEEEEECCEECCCCCcHHHcCCCCCCEEEE
Confidence            5777776553      3 4688999888999999999988753 211  22355678888764     467888999999


Q ss_pred             EcCCCCC
Q 034054           99 IPPISGG  105 (105)
Q Consensus        99 iPPvsGG  105 (105)
                      ..+.-||
T Consensus        97 ~~~l~GG  103 (103)
T cd01802          97 VLAMRGG  103 (103)
T ss_pred             EEecCCC
Confidence            9999887

AN1 (also known as ANUBL1 and RSD-7) is ubiquitin-like protein with a testis-specific expression in rats that has an N-terminal ubiquitin-like domain and a C-terminal zinc-binding domain. Unlike ubiquitin polyproteins and most ubiquitin fusion proteins, the N-terminal ubiquitin-like domain of An1 does not undergo proteolytic processing. The function of AN1 is unknown.

>PTZ00044 ubiquitin; Provisional

Probab=96.68  E-value=0.03  Score=33.91  Aligned_cols=71  Identities=15%  Similarity=0.192  Sum_probs=52.2

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      |+|.|+-+      -| ....+++....|+.+|...+.+... +..  ....+..+|+....     ++-+.+|+.|.++
T Consensus         1 m~i~vk~~------~G-~~~~l~v~~~~tv~~lK~~i~~~~g-i~~--~~q~L~~~g~~L~d~~~l~~~~i~~~~~i~l~   70 (76)
T PTZ00044          1 MQILIKTL------TG-KKQSFNFEPDNTVQQVKMALQEKEG-IDV--KQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMV   70 (76)
T ss_pred             CEEEEEeC------CC-CEEEEEECCCCcHHHHHHHHHHHHC-CCH--HHeEEEECCEEccCCCcHHHcCCCCCCEEEEE
Confidence            55666655      34 4778899888999999999988763 211  22345578888753     4678999999999


Q ss_pred             cCCCCC
Q 034054          100 PPISGG  105 (105)
Q Consensus       100 PPvsGG  105 (105)
                      .+..||
T Consensus        71 ~~~~gg   76 (76)
T PTZ00044         71 LQLRGG   76 (76)
T ss_pred             EEccCC
Confidence            988887

>cd01793 Fubi Fubi ubiquitin-like protein

Probab=96.63  E-value=0.035  Score=33.75  Aligned_cols=69  Identities=22%  Similarity=0.136  Sum_probs=51.1

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      |+|.|+.        + ....++++...||+++...+.+... +.  .....+.-+|+....     ++-+++++.|.+.
T Consensus         1 mqi~vk~--------~-~~~~l~v~~~~tV~~lK~~i~~~~g-ip--~~~q~Li~~Gk~L~D~~tL~~~~i~~~~tl~l~   68 (74)
T cd01793           1 MQLFVRA--------Q-NTHTLEVTGQETVSDIKAHVAGLEG-ID--VEDQVLLLAGVPLEDDATLGQCGVEELCTLEVA   68 (74)
T ss_pred             CEEEEEC--------C-CEEEEEECCcCcHHHHHHHHHhhhC-CC--HHHEEEEECCeECCCCCCHHHcCCCCCCEEEEE
Confidence            5677764        2 3578899888999999999987752 11  123456678888764     4678999999999


Q ss_pred             cCCCCC
Q 034054          100 PPISGG  105 (105)
Q Consensus       100 PPvsGG  105 (105)
                      .+.-||
T Consensus        69 ~~l~GG   74 (74)
T cd01793          69 GRLLGG   74 (74)
T ss_pred             EecCCC
Confidence            998887

Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.

>cd01667 TGS_ThrRS_N TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA

Probab=96.60  E-value=0.019  Score=32.25  Aligned_cols=51  Identities=24%  Similarity=0.269  Sum_probs=40.2

Q ss_pred             EEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEc
Q 034054           45 PLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIP  100 (105)
Q Consensus        45 ~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiP  100 (105)
                      .++++.++|+.+++..+...++     ...+...+||+..++.+++.++++|.++.
T Consensus        10 ~~~~~~~~t~~~~~~~~~~~~~-----~~~v~~~vng~~~dL~~~l~~~~~ie~i~   60 (61)
T cd01667          10 VKEFPKGTTPLDIAKSISPGLA-----KKAVAAKVNGELVDLSRPLEEDCELEIIT   60 (61)
T ss_pred             EEEeCCCCCHHHHHHHHHHHHH-----hheEEEEECCEEecCCcCcCCCCEEEEEe
Confidence            4567788999998887765432     13467779999999999999999999874

In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and SpoT proteins where it occurs. The TGS domain is thought to interact with the tRNA acceptor arm along with an adjacent N-terminal domain. The specific function of TGS is not well understood.

>cd01805 RAD23_N Ubiquitin-like domain of RAD23

Probab=96.56  E-value=0.03  Score=33.97  Aligned_cols=66  Identities=15%  Similarity=0.173  Sum_probs=47.9

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCC-chhhcceeEEEECCeecCC-----CCccCCCCEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPN-LEEIRGCMVLALNEEYTNA-----SVIVNEKDELAI   98 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~-l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVai   98 (105)
                      |+|.|+.++      | ....++++...|+.+|.+.+.+...- +.  .....+..+|+....     +.-+++|+.|.+
T Consensus         1 m~i~vk~~~------g-~~~~l~v~~~~TV~~lK~~i~~~~~i~~~--~~~q~L~~~G~~L~d~~~L~~~~i~~~~~i~~   71 (77)
T cd01805           1 MKITFKTLK------Q-QTFPIEVDPDDTVAELKEKIEEEKGCDYP--PEQQKLIYSGKILKDDTTLEEYKIDEKDFVVV   71 (77)
T ss_pred             CEEEEEeCC------C-CEEEEEECCCCcHHHHHHHHHHhhCCCCC--hhHeEEEECCEEccCCCCHHHcCCCCCCEEEE
Confidence            677777753      3 46788998889999999999887631 01  133567789998864     457889998876


Q ss_pred             E
Q 034054           99 I   99 (105)
Q Consensus        99 i   99 (105)
                      +
T Consensus        72 ~   72 (77)
T cd01805          72 M   72 (77)
T ss_pred             E
Confidence            5

RAD23 belongs to a family of adaptor molecules having affinity for both the proteasome and ubiquitinylated proteins and thought to shuttle these ubiquitinylated proteins to the proteasome for destruction. RAD23 interacts with ubiquitin through its C-terminal ubiquitin-associated domains (UBA) and with the proteasome through its N-terminal ubiquitin-like domain (UBL).

>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]

Probab=96.25  E-value=0.078  Score=34.89  Aligned_cols=74  Identities=12%  Similarity=0.215  Sum_probs=57.3

Q ss_pred             ceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecC-----CCCccCCCCEEEE
Q 034054           24 SIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTN-----ASVIVNEKDELAI   98 (105)
Q Consensus        24 ~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~-----~d~~L~dGDeVai   98 (105)
                      +..|+++.-|.     +.....+.+...+++.-|+..-+++-. +.  ...+++..||+.+.     .+....+||+|.+
T Consensus        18 ~~hi~LKV~gq-----d~~~~~Fkikr~t~LkKLM~aYc~r~G-l~--~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev   89 (99)
T KOG1769|consen   18 SEHINLKVKGQ-----DGSVVVFKIKRHTPLKKLMKAYCERQG-LS--MNSLRFLFDGQRIRETHTPADLEMEDGDEIEV   89 (99)
T ss_pred             cceEEEEEecC-----CCCEEEEEeecCChHHHHHHHHHHHcC-Cc--cceEEEEECCcCcCCCCChhhhCCcCCcEEEE
Confidence            57777777773     334557788888899999998887642 32  35789999999985     3567999999999


Q ss_pred             EcCCCCC
Q 034054           99 IPPISGG  105 (105)
Q Consensus        99 iPPvsGG  105 (105)
                      +.+-.||
T Consensus        90 ~~~q~gG   96 (99)
T KOG1769|consen   90 VQEQTGG   96 (99)
T ss_pred             EeecccC
Confidence            9998887

>cd01669 TGS_Ygr210_C TGS_Ygr210_C: The C-terminal TGS domain of Ygr210 GTP-binding protein which is a member of Obg-like family of GTPases, and present in archaea

Probab=96.22  E-value=0.032  Score=34.79  Aligned_cols=53  Identities=13%  Similarity=0.118  Sum_probs=38.5

Q ss_pred             eEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEE
Q 034054           44 MPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAII   99 (105)
Q Consensus        44 ~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaii   99 (105)
                      +.+.++.++|+.|+-..+-.....  .+ .....+.|++.+++++.|++||.|.|+
T Consensus        23 d~~~l~~GaTv~D~A~~IHtdi~~--~f-~~Ai~~k~~~~vg~~~~L~dgDvV~Ii   75 (76)
T cd01669          23 DAFLLPKGSTARDLAYAIHTDIGD--GF-LHAIDARTGRRVGEDYELKHRDVIKIV   75 (76)
T ss_pred             ceEEECCCCCHHHHHHHHHHHHHh--cc-eeeEEeeCCEEeCCCcEecCCCEEEEe
Confidence            577889999999988766543211  01 112334599999999999999999997

Several Obg-like family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.

>cd01812 BAG1_N Ubiquitin-like domain of BAG1

Probab=96.03  E-value=0.062  Score=31.91  Aligned_cols=65  Identities=15%  Similarity=0.123  Sum_probs=45.2

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      |+|+|++.|        ....++++...|+.+|.+.+..... +..  ....+..+|+....     +.-+++|++|.++
T Consensus         1 i~i~vk~~g--------~~~~i~v~~~~tv~~lK~~i~~~~g-i~~--~~q~L~~~g~~l~d~~~L~~~~i~~g~~l~v~   69 (71)
T cd01812           1 IRVRVKHGG--------ESHDLSISSQATFGDLKKMLAPVTG-VEP--RDQKLIFKGKERDDAETLDMSGVKDGSKVMLL   69 (71)
T ss_pred             CEEEEEECC--------EEEEEEECCCCcHHHHHHHHHHhhC-CCh--HHeEEeeCCcccCccCcHHHcCCCCCCEEEEe
Confidence            456676643        3467888888999999999987752 211  23456678877754     3557999999887


Q ss_pred             c
Q 034054          100 P  100 (105)
Q Consensus       100 P  100 (105)
                      .
T Consensus        70 ~   70 (71)
T cd01812          70 E   70 (71)
T ss_pred             c
Confidence            3

BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).

>cd01807 GDX_N ubiquitin-like domain of GDX

Probab=95.95  E-value=0.12  Score=31.24  Aligned_cols=66  Identities=12%  Similarity=0.170  Sum_probs=48.3

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      |+|.|+.+      -| ....+++....|+++|.+.+.+... +..  ....+..+|+....     ++-+++|+.|.++
T Consensus         1 m~i~vk~~------~G-~~~~l~v~~~~tV~~lK~~i~~~~g-i~~--~~q~L~~~G~~L~d~~~L~~~~i~~~~~l~l~   70 (74)
T cd01807           1 MFLTVKLL------QG-RECSLQVSEKESVSTLKKLVSEHLN-VPE--EQQRLLFKGKALADDKRLSDYSIGPNAKLNLV   70 (74)
T ss_pred             CEEEEEeC------CC-CEEEEEECCCCcHHHHHHHHHHHHC-CCH--HHeEEEECCEECCCCCCHHHCCCCCCCEEEEE
Confidence            67777766      24 4678999888999999999988752 211  23466788998864     4678899999776


Q ss_pred             c
Q 034054          100 P  100 (105)
Q Consensus       100 P  100 (105)
                      .
T Consensus        71 ~   71 (74)
T cd01807          71 V   71 (74)
T ss_pred             E
Confidence            4

GDX contains an N-terminal ubiquitin-like domain as well as an uncharacterized c-terminal domain. The function of GDX is unknown.

>cd01763 Sumo Small ubiquitin-related modifier (SUMO)

Probab=95.89  E-value=0.15  Score=32.07  Aligned_cols=63  Identities=11%  Similarity=0.278  Sum_probs=50.2

Q ss_pred             cCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEEcCCCCC
Q 034054           39 TGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        39 ~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaiiPPvsGG  105 (105)
                      .| ....+.+....++..|.+.+.++. ++.  ...+.+.-||+.+..     +.-+++||.|.++-..-||
T Consensus        20 ~g-~~~~~~v~~~~~l~~l~~~y~~~~-gi~--~~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l~l~GG   87 (87)
T cd01763          20 DG-NEVFFKIKRSTPLKKLMEAYCQRQ-GLS--MNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLEQTGG   87 (87)
T ss_pred             CC-CEEEEEEcCCCHHHHHHHHHHHHh-CCC--ccceEEEECCeECCCCCCHHHcCCCCCCEEEEEEecccC
Confidence            45 467889988899999999999875 332  256788889999864     4679999999999888777

Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.

>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2

Probab=95.89  E-value=0.078  Score=32.21  Aligned_cols=61  Identities=11%  Similarity=0.060  Sum_probs=46.8

Q ss_pred             CceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEEcCCCCC
Q 034054           42 TDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        42 ~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaiiPPvsGG  105 (105)
                      +...+++....||++|.+.+..... +..  +...+.-+|+....     ++-+++|+.|.+.++..||
T Consensus         9 ~~~~l~v~~~~tV~~lK~~I~~~~g-i~~--~~q~L~~~G~~L~D~~tL~~~~i~~~~tl~l~~~l~gg   74 (74)
T cd01810           9 RSSIYEVQLTQTVATLKQQVSQRER-VQA--DQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNLRLRGG   74 (74)
T ss_pred             CEEEEEECCcChHHHHHHHHHHHhC-CCH--HHeEEEECCEECCCCCCHHHcCCCCCCEEEEEEEccCC
Confidence            4678899888999999999987642 211  22355678888764     4679999999999999988

ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.

>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein

Probab=95.78  E-value=0.13  Score=30.38  Aligned_cols=66  Identities=15%  Similarity=0.134  Sum_probs=46.8

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      |+|.|+.+.      | +...++++...|+.+|.+.+..... ..  .....+..+|+....     ++-+++|+.|.++
T Consensus         1 i~i~vk~~~------g-~~~~~~v~~~~tv~~lK~~i~~~~g-i~--~~~q~L~~~g~~L~d~~~L~~~~i~~~~~l~l~   70 (72)
T cd01809           1 IEIKVKTLD------S-QTHTFTVEEEITVLDLKEKIAEEVG-IP--VEQQRLIYSGRVLKDDETLSEYKVEDGHTIHLV   70 (72)
T ss_pred             CEEEEEeCC------C-CEEEEEECCCCcHHHHHHHHHHHHC-cC--HHHeEEEECCEECCCcCcHHHCCCCCCCEEEEE
Confidence            566666652      3 4678899888999999999988753 21  123455678988764     4578899998876


Q ss_pred             c
Q 034054          100 P  100 (105)
Q Consensus       100 P  100 (105)
                      .
T Consensus        71 ~   71 (72)
T cd01809          71 K   71 (72)
T ss_pred             e
Confidence            3

Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.

>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120

Probab=95.71  E-value=0.093  Score=32.13  Aligned_cols=63  Identities=8%  Similarity=0.018  Sum_probs=47.0

Q ss_pred             CCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEEcCCCCC
Q 034054           40 GLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        40 g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaiiPPvsGG  105 (105)
                      +.....++++...|+.+|...|..... +..  ....+..+|.....     ++-+++|+.|.++...-||
T Consensus         6 ~g~~~~l~v~~~~TV~~lK~~i~~~~g-ip~--~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~~~~gg   73 (76)
T cd01800           6 NGQMLNFTLQLSDPVSVLKVKIHEETG-MPA--GKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQLKERGG   73 (76)
T ss_pred             CCeEEEEEECCCCcHHHHHHHHHHHHC-CCH--HHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEEecCCC
Confidence            335788999988999999999987652 221  23456678887654     4689999999999888776

SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.

>TIGR00691 spoT_relA (p)ppGpp synthetase, RelA/SpoT family

Probab=95.35  E-value=0.071  Score=45.38  Aligned_cols=53  Identities=19%  Similarity=0.234  Sum_probs=40.8

Q ss_pred             ceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEc
Q 034054           43 DMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIP  100 (105)
Q Consensus        43 ~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiP  100 (105)
                      ...+.+|.|+|+-|+--.+-   +++..  ......|||+.++++++|++||.|.|+.
T Consensus       369 G~~~~lp~gst~~DfAy~ih---~~~g~--~~~~a~vng~~v~l~~~l~~gd~vei~t  421 (683)
T TIGR00691       369 GDVVELPSGSTPVDFAYAVH---TDVGN--KCTGAKVNGKIVPLDKELENGDVVEIIT  421 (683)
T ss_pred             CeEEEcCCCCCHHHHHHHHh---HHhHh--ceeEEEECCEECCCCccCCCCCEEEEEe
Confidence            56788999999998766543   33321  2334559999999999999999999985

(p)ppGpp is a regulatory metabolite of the stringent response, but appears also to be involved in antibiotic biosynthesis in some species.

>PRK11092 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional

Probab=94.95  E-value=0.071  Score=45.60  Aligned_cols=53  Identities=15%  Similarity=0.240  Sum_probs=38.9

Q ss_pred             ceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEc
Q 034054           43 DMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIP  100 (105)
Q Consensus        43 ~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiP  100 (105)
                      ...+++|.|+|+-|.-=.+   |.++.  ..++..-|||+.|+++++|+.||.|.|+.
T Consensus       395 G~v~~LP~GaT~lDFAY~i---Ht~iG--~~c~gAkVNg~~vpL~~~L~~Gd~VeIiT  447 (702)
T PRK11092        395 GRIVELPAGATPVDFAYAV---HTDIG--HACVGARVDRQPYPLSQPLTSGQTVEIIT  447 (702)
T ss_pred             CCEEeCCCCCchhhhhHhh---Cchhh--ceeEEEEECCEECCCCccCCCCCEEEEEe
Confidence            4567777777776654322   23332  24678899999999999999999999985

>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional

Probab=94.66  E-value=0.13  Score=44.42  Aligned_cols=54  Identities=15%  Similarity=0.255  Sum_probs=40.5

Q ss_pred             ceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEcC
Q 034054           43 DMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPP  101 (105)
Q Consensus        43 ~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiPP  101 (105)
                      ...+.+|.|.|+-|+--.+-   +++.  .......|||+.++++++|++||.|.|+.-
T Consensus       413 G~~~~Lp~gaT~lDfAy~iH---t~iG--~~~~gAkvng~~v~l~~~L~~GD~VeIits  466 (743)
T PRK10872        413 GDVVDLPAGSTPLDFAYHIH---SDVG--HRCIGAKIGGRIVPFTYQLQMGDQIEIITQ  466 (743)
T ss_pred             CCeEEcCCCCcHHHHHHHHh---HHHH--hhceEEEECCEECCCCcCCCCCCEEEEEeC
Confidence            45788999999988765443   2222  123455699999999999999999999853

>COG4723 Phage-related protein, tail component [Function unknown]

Probab=94.64  E-value=0.09  Score=38.29  Aligned_cols=75  Identities=15%  Similarity=0.281  Sum_probs=55.2

Q ss_pred             EEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhc--ceeEEEECCeecC-------CCCccCCCCEE
Q 034054           26 QIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIR--GCMVLALNEEYTN-------ASVIVNEKDEL   96 (105)
Q Consensus        26 ~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~--~~~~vaVNg~~v~-------~d~~L~dGDeV   96 (105)
                      ..+|.+||.| ..+|+ ...+.+.   |.+|.++.|+.+-|+|+...  ....+.+-+....       .-..+.+|+.|
T Consensus         5 m~~I~L~G~L-~rFGR-~~~l~V~---t~aEAi~AL~~q~pgfr~~m~~~~y~~~i~~~~~~~~~v~~~~~e~~~~g~~I   79 (198)
T COG4723           5 LARICLYGDL-QRFGR-RLSLYVN---TAAEAIRALSLQMPGFRRQMNEGWYQIRIAGVDTAPENVTASLHESLGPGAVI   79 (198)
T ss_pred             eeEEEecChH-HHhhh-HHhhhhC---CHHHHHHHHHhcChhHHHHHhcceeeeEeeccccCcccccHhHhccCCCCcEE
Confidence            4789999999 88896 4566553   78999999999999998642  2233444444432       23568899999


Q ss_pred             EEEcCCCCC
Q 034054           97 AIIPPISGG  105 (105)
Q Consensus        97 aiiPPvsGG  105 (105)
                      -|.|-++|+
T Consensus        80 ~iVPrlaGa   88 (198)
T COG4723          80 HIVPRLAGA   88 (198)
T ss_pred             EecceeccC
Confidence            999999884

>cd01791 Ubl5 UBL5 ubiquitin-like modifier

Probab=94.30  E-value=0.7  Score=28.30  Aligned_cols=57  Identities=12%  Similarity=0.074  Sum_probs=40.2

Q ss_pred             cCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----CccCCCCEEEEE
Q 034054           39 TGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----VIVNEKDELAII   99 (105)
Q Consensus        39 ~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L~dGDeVaii   99 (105)
                      .| ....++++...||++|.+.+.+.. ++..  +..++...|+....+     +-|++|+.|-++
T Consensus        10 ~G-k~~~~~v~~~~TV~~LK~~I~~~~-~~~~--~~qrLi~~Gk~L~D~~tL~~ygi~~~stv~l~   71 (73)
T cd01791          10 LG-KKVRVKCNPDDTIGDLKKLIAAQT-GTRP--EKIVLKKWYTIFKDHISLGDYEIHDGMNLELY   71 (73)
T ss_pred             CC-CEEEEEeCCCCcHHHHHHHHHHHh-CCCh--HHEEEEeCCcCCCCCCCHHHcCCCCCCEEEEE
Confidence            35 467889988899999999998875 2322  223445568777643     568899998775

UBL5 (also known as HUB1) is a ubiquitin-like modifier that is both widely expressed and highly phylogenetically conserved. At the C-terminal end of the ubiquitin-like fold of UBL5 is a di-tyrosine motif followed by a single variable residue instead of the characteristic di-glycine found in all other ubiquitin-like modifiers. ULB5 interacts with a cyclin-like kinase called CLK4 but not with other cyclin-like kinase family members.

>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2

Probab=94.25  E-value=0.59  Score=28.74  Aligned_cols=68  Identities=9%  Similarity=0.151  Sum_probs=44.6

Q ss_pred             ceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEE
Q 034054           24 SIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAI   98 (105)
Q Consensus        24 ~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVai   98 (105)
                      .|+++|+-..      | +...++++...||.+|.+.+.+... +..-+..+...-+|+....     |+-+++|+.|.+
T Consensus         2 ~~~i~Vk~~~------G-~~~~~~v~~~~TV~~lK~~I~~~~~-i~~~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~l~l   73 (80)
T cd01792           2 GWDLKVKMLG------G-NEFLVSLRDSMTVSELKQQIAQKIG-VPAFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLL   73 (80)
T ss_pred             ceEEEEEeCC------C-CEEEEEcCCCCcHHHHHHHHHHHhC-CCHHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEE
Confidence            3777776644      4 4677888888999999999988762 2211112211236776654     456888998876


Q ss_pred             E
Q 034054           99 I   99 (105)
Q Consensus        99 i   99 (105)
                      +
T Consensus        74 ~   74 (80)
T cd01792          74 V   74 (80)
T ss_pred             E
Confidence            5

ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=94.24  E-value=0.28  Score=39.13  Aligned_cols=66  Identities=11%  Similarity=0.131  Sum_probs=48.6

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCC--CchhhcceeEEEECCeecCC-----CCccCCCCEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFP--NLEEIRGCMVLALNEEYTNA-----SVIVNEKDELA   97 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p--~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVa   97 (105)
                      |+|+||.+.      | +...++++...||.+|.+.|.....  .+.  .....+..+|++...     ++.|++||.|.
T Consensus         1 MkItVKtl~------g-~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip--~~~QkLIy~GkiL~Dd~tL~dy~I~e~~~Iv   71 (378)
T TIGR00601         1 MTLTFKTLQ------Q-QKFKIDMEPDETVKELKEKIEAEQGKDAYP--VAQQKLIYSGKILSDDKTVREYKIKEKDFVV   71 (378)
T ss_pred             CEEEEEeCC------C-CEEEEEeCCcChHHHHHHHHHHhhCCCCCC--hhHeEEEECCEECCCCCcHHHcCCCCCCEEE
Confidence            678887653      3 4678899888999999999987642  121  133567788998865     45689999998


Q ss_pred             EE
Q 034054           98 II   99 (105)
Q Consensus        98 ii   99 (105)
                      ++
T Consensus        72 vm   73 (378)
T TIGR00601        72 VM   73 (378)
T ss_pred             EE
Confidence            87

All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>COG0317 SpoT Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]

Probab=93.87  E-value=0.16  Score=43.55  Aligned_cols=54  Identities=15%  Similarity=0.285  Sum_probs=41.7

Q ss_pred             ceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEcC
Q 034054           43 DMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPP  101 (105)
Q Consensus        43 ~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiPP  101 (105)
                      ...+++|.|.|.-|.-=.+   |.++.  ..++..-|||+.+++++.|+.||.|.|+..
T Consensus       396 G~vi~LP~GatplDFAY~v---Ht~iG--~~c~gAkVnG~ivpl~~~Lk~Gd~VEIit~  449 (701)
T COG0317         396 GKVIDLPKGATPLDFAYAV---HTDIG--HRCIGAKVNGRIVPLTTKLQTGDQVEIITS  449 (701)
T ss_pred             CCEEeCCCCCcchhhhhhh---hchhc--ceeeEEEECCEEeccceecCCCCEEEEEeC
Confidence            4788999998887764333   23222  246788999999999999999999999854

>TIGR02988 YaaA_near_RecF S4 domain protein YaaA

Probab=93.66  E-value=0.044  Score=32.05  Aligned_cols=28  Identities=14%  Similarity=0.054  Sum_probs=22.9

Q ss_pred             hcceeEEEECCeec-CCCCccCCCCEEEE
Q 034054           71 IRGCMVLALNEEYT-NASVIVNEKDELAI   98 (105)
Q Consensus        71 ~~~~~~vaVNg~~v-~~d~~L~dGDeVai   98 (105)
                      +...=.|.|||..+ .+.+.|+.||+|.|
T Consensus        30 li~~G~V~VNg~~~~~~~~~l~~Gd~v~i   58 (59)
T TIGR02988        30 FLQENEVLVNGELENRRGKKLYPGDVIEI   58 (59)
T ss_pred             HHHcCCEEECCEEccCCCCCCCCCCEEEe
Confidence            33445789999998 57999999999986

This small protein has a single S4 domain (pfam01479), as do bacterial ribosomal protein S4, some pseudouridine synthases, tyrosyl-tRNA synthetases. The S4 domain may bind RNA. Members of this protein family are found almost exclusively in the Firmicutes, and almost invariably just a few nucleotides upstream of the gene for the DNA replication and repair protein RecF. The few members of this family that are not near recF are found instead near dnaA and/or dnaN, the usual neighbors of recF, near the origin of replication. The conserved location suggests a possible role in replication in the Firmicutes lineage.

>smart00213 UBQ Ubiquitin homologues

Probab=93.56  E-value=0.48  Score=26.96  Aligned_cols=53  Identities=15%  Similarity=0.108  Sum_probs=36.8

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCC
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASV   88 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~   88 (105)
                      |+|.|+..+        ....++++...|+++|...+..... +.  .....+..||+....+.
T Consensus         1 ~~i~vk~~~--------~~~~~~v~~~~tv~~lk~~i~~~~~-~~--~~~~~L~~~g~~L~d~~   53 (64)
T smart00213        1 IELTVKTLD--------GTITLEVKPSDTVSELKEKIAELTG-IP--VEQQRLIYKGKVLEDDR   53 (64)
T ss_pred             CEEEEEECC--------ceEEEEECCCCcHHHHHHHHHHHHC-CC--HHHEEEEECCEECCCCC
Confidence            567777764        2457888888899999999988763 21  12356778888876543

Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression

>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade

Probab=93.17  E-value=0.49  Score=27.79  Aligned_cols=55  Identities=15%  Similarity=0.159  Sum_probs=42.5

Q ss_pred             CceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           42 TDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        42 ~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      ....++++...|+.+|.+.+....+ +.  .+...+..||+....     ++-+.+|+.|.+.
T Consensus         6 ~~~~~~v~~~~tV~~lK~~i~~~~~-~~--~~~~~L~~~G~~L~d~~tL~~~~i~~~~~I~l~   65 (69)
T PF00240_consen    6 KTFTLEVDPDDTVADLKQKIAEETG-IP--PEQQRLIYNGKELDDDKTLSDYGIKDGSTIHLV   65 (69)
T ss_dssp             EEEEEEEETTSBHHHHHHHHHHHHT-ST--GGGEEEEETTEEESTTSBTGGGTTSTTEEEEEE
T ss_pred             cEEEEEECCCCCHHHhhhhcccccc-cc--cccceeeeeeecccCcCcHHHcCCCCCCEEEEE
Confidence            3678889888999999999998764 11  245678889999854     4678899988764

There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....

>cd04938 TGS_Obg-like TGS_Obg-like: The C-terminal TGS domain of Obg-like GTPases such as those present in DRG (developmentally regulated GTP-binding protein), and GTP-binding proteins Ygr210 and YchF

Probab=93.02  E-value=0.41  Score=29.71  Aligned_cols=51  Identities=22%  Similarity=0.244  Sum_probs=36.8

Q ss_pred             ceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEEC--CeecCCCCccCCCCEEEEE
Q 034054           43 DMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALN--EEYTNASVIVNEKDELAII   99 (105)
Q Consensus        43 ~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVN--g~~v~~d~~L~dGDeVaii   99 (105)
                      ...+-++.++|+.|+...+-...   .   ..+..|+.  .+.++.|+.|++||.|.|.
T Consensus        23 ~~~~~l~~g~tv~d~a~~IH~d~---~---~~F~~A~v~~~~~vg~d~~l~d~DVv~i~   75 (76)
T cd04938          23 RDCVLVKKGTTVGDVARKIHGDL---E---KGFIEAVGGRRRLEGKDVILGKNDILKFK   75 (76)
T ss_pred             ceeEEEcCCCCHHHHHHHHhHHH---H---hccEEEEEccCEEECCCEEecCCCEEEEE
Confidence            45777899999999888776432   2   22233333  4688999999999999885

The TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it occurs) is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.

>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins

Probab=92.99  E-value=0.38  Score=28.63  Aligned_cols=56  Identities=11%  Similarity=0.201  Sum_probs=41.0

Q ss_pred             CceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           42 TDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        42 ~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      ....+.+....+++.|++..+++..--.  ...+.+..||+.++.     +.-+.+||.|.++
T Consensus        11 ~~~~~~v~~~~~~~~l~~~~~~~~~i~~--~~~~~l~fdG~~L~~~~T~~~~~ied~d~Idv~   71 (72)
T PF11976_consen   11 KEIKFKVKPTTTVSKLIEKYCEKKGIPP--EESIRLIFDGKRLDPNDTPEDLGIEDGDTIDVI   71 (72)
T ss_dssp             EEEEEEEETTSCCHHHHHHHHHHHTTTT---TTEEEEETTEEE-TTSCHHHHT-STTEEEEEE
T ss_pred             CEEEEEECCCCcHHHHHHHHHHhhCCCc--cceEEEEECCEEcCCCCCHHHCCCCCCCEEEEE
Confidence            3678888888999999999988752111  145889999999874     3569999999875

SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....

>cd01769 UBL Ubiquitin-like domain of UBL

Probab=92.13  E-value=1.4  Score=25.32  Aligned_cols=55  Identities=16%  Similarity=0.145  Sum_probs=40.0

Q ss_pred             CceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----CccCCCCEEEEE
Q 034054           42 TDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----VIVNEKDELAII   99 (105)
Q Consensus        42 ~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L~dGDeVaii   99 (105)
                      ....++++...|+++|.+.+....+ +.  .....+..||+.+..+     .-+.+|+.|.++
T Consensus         8 ~~~~~~~~~~~ti~~lK~~i~~~~~-~~--~~~~~l~~~g~~l~d~~~l~~~~v~~~~~i~v~   67 (69)
T cd01769           8 KTFELEVSPDDTVAELKAKIAAKEG-VP--PEQQRLIYAGKILKDDKTLSDYGIQDGSTLHLV   67 (69)
T ss_pred             CEEEEEECCCChHHHHHHHHHHHHC-cC--hHHEEEEECCcCCCCcCCHHHCCCCCCCEEEEE
Confidence            4667888888999999999998764 21  1234567788877643     467889888775

UBLs function by remodeling the surface of their target proteins, changing their target's half-life, enzymatic activity, protein-protein interactions, subcellular localization or other properties. At least 10 different ubiquitin-like modifications exist in mammals, and attachment of different ubls to a target leads to different biological consequences. Ubl-conjugation cascades are initiated by activating enzymes, which also coordinate the ubls with their downstream pathways.

>PF01479 S4: S4 domain; InterPro: IPR002942 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=91.99  E-value=0.42  Score=26.40  Aligned_cols=21  Identities=24%  Similarity=0.298  Sum_probs=19.2

Q ss_pred             EEEECCeecC-CCCccCCCCEE
Q 034054           76 VLALNEEYTN-ASVIVNEKDEL   96 (105)
Q Consensus        76 ~vaVNg~~v~-~d~~L~dGDeV   96 (105)
                      .|.|||+.+. +++.+++||.|
T Consensus        27 ~V~VNg~~v~~~~~~v~~~d~I   48 (48)
T PF01479_consen   27 RVKVNGKVVKDPSYIVKPGDVI   48 (48)
T ss_dssp             TEEETTEEESSTTSBESTTEEE
T ss_pred             EEEECCEEEcCCCCCCCCcCCC
Confidence            5899999997 89999999987

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterised, small proteins that may be involved in translation regulation []. The S4 domain probably mediates binding to RNA.; GO: 0003723 RNA binding; PDB: 3BBU_A 1DM9_B 2K6P_A 3U5G_E 3U5C_E 3IZB_D 2XZM_D 2XZN_D 3O30_E 3O2Z_E ....

>PRK00413 thrS threonyl-tRNA synthetase; Reviewed

Probab=91.90  E-value=0.53  Score=39.26  Aligned_cols=51  Identities=22%  Similarity=0.276  Sum_probs=42.5

Q ss_pred             EEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEc
Q 034054           45 PLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIP  100 (105)
Q Consensus        45 ~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiP  100 (105)
                      .+++|.++|+.++...+...++.     ..++..|||+.+++++++..+++|.|+.
T Consensus        11 ~~~~~~gtt~~dia~~~~~~~~~-----~~v~a~vng~l~dL~~~l~~d~~Vefi~   61 (638)
T PRK00413         11 VREFEAGVTVADVAASISPGLAK-----AAVAGKVNGELVDLSTPIEEDASLEIIT   61 (638)
T ss_pred             EEEeCCCCCHHHHHHHhhhhchh-----heEEEEECCEEeeCCccccCCCceeeee
Confidence            56678899999999888765432     4578889999999999999999999885

>PRK12444 threonyl-tRNA synthetase; Reviewed

Probab=91.04  E-value=0.75  Score=38.61  Aligned_cols=51  Identities=16%  Similarity=0.189  Sum_probs=42.3

Q ss_pred             EEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEc
Q 034054           45 PLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIP  100 (105)
Q Consensus        45 ~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiP  100 (105)
                      ..+++.++|+.++.+.+...++.     ..+++.|||+..+++++|..+.+|.|+.
T Consensus        15 ~~~~~~g~t~~~ia~~~~~~~~~-----~iv~a~vn~~l~dL~~~i~~d~~i~fv~   65 (639)
T PRK12444         15 VKEFVKGITLEEIAGSISSSLKK-----KAVAGKVNDKLYDLRRNLEEDAEVEIIT   65 (639)
T ss_pred             EEEecCCCCHHHHHHHhhhhcch-----heEEEEECCEEEEcCcccCCCCeEEEec
Confidence            45577899999999988765432     4578889999999999999999999985

>PRK07570 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated

Probab=90.95  E-value=1.4  Score=33.26  Aligned_cols=57  Identities=19%  Similarity=0.219  Sum_probs=37.7

Q ss_pred             eEEEeC---CCCCHHHHHHHHHHhC-----CCchh-------hcceeEEEECCeec-------CCCC---ccCCCCEEEE
Q 034054           44 MPLEVS---CGSTTQDCLNKLIARF-----PNLEE-------IRGCMVLALNEEYT-------NASV---IVNEKDELAI   98 (105)
Q Consensus        44 ~~vev~---~~~tv~dLl~~L~~~~-----p~l~~-------~~~~~~vaVNg~~v-------~~d~---~L~dGDeVai   98 (105)
                      .+++++   +++||-++|..+.++.     +.|+-       +=..+.+.|||+..       .-.+   .+.+|++|.|
T Consensus        20 q~y~v~~~~~~~tvLd~L~~Ik~~~~~~~~~~l~fr~sCr~~iCGsCam~ING~p~~~~~~~LAC~t~~~~~~~~~~i~i   99 (250)
T PRK07570         20 ETYEVDDISPDMSFLEMLDVLNEQLIEKGEEPVAFDHDCREGICGMCGLVINGRPHGPDRGTTTCQLHMRSFKDGDTITI   99 (250)
T ss_pred             EEEEecCCCCCCcHHHHHHHHHHHhhccCCCCeeEeccccCCcCCcceeEECCccCCCCcccchhhhhhhhcCCCCeEEE
Confidence            455555   5799999999997653     33431       12578999999983       1122   2456788888


Q ss_pred             Ec
Q 034054           99 IP  100 (105)
Q Consensus        99 iP  100 (105)
                      -|
T Consensus       100 eP  101 (250)
T PRK07570        100 EP  101 (250)
T ss_pred             EE
Confidence            76

>smart00363 S4 S4 RNA-binding domain

Probab=90.75  E-value=0.37  Score=26.48  Aligned_cols=26  Identities=19%  Similarity=0.187  Sum_probs=22.1

Q ss_pred             eEEEECCeec-CCCCccCCCCEEEEEc
Q 034054           75 MVLALNEEYT-NASVIVNEKDELAIIP  100 (105)
Q Consensus        75 ~~vaVNg~~v-~~d~~L~dGDeVaiiP  100 (105)
                      -.|.|||..+ ..++.|..||.|.+..
T Consensus        26 g~i~vng~~~~~~~~~l~~gd~i~~~~   52 (60)
T smart00363       26 GRVKVNGKKVTKPSYIVKPGDVISVRG   52 (60)
T ss_pred             CCEEECCEEecCCCeEeCCCCEEEEcc
Confidence            3688999999 7899999999998743

>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2

Probab=90.20  E-value=2.6  Score=25.07  Aligned_cols=54  Identities=9%  Similarity=0.185  Sum_probs=39.1

Q ss_pred             eEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEEc
Q 034054           44 MPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAIIP  100 (105)
Q Consensus        44 ~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaiiP  100 (105)
                      ..++++...|+.+|.+.+.++.+ ...  ....+.-+|+....     |+-+++|+.|.+..
T Consensus        12 ~~l~v~~~~TV~~lK~~I~~~~~-i~~--~~~~Li~~Gk~L~d~~tL~~~~i~~~stl~l~~   70 (71)
T cd01808          12 EEIEIAEDASVKDFKEAVSKKFK-ANQ--EQLVLIFAGKILKDTDTLTQHNIKDGLTVHLVI   70 (71)
T ss_pred             EEEEECCCChHHHHHHHHHHHhC-CCH--HHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEE
Confidence            47888888999999999988763 321  23344558887754     46788899988764

hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.

>PRK08640 sdhB succinate dehydrogenase iron-sulfur subunit; Reviewed

Probab=89.73  E-value=0.88  Score=34.19  Aligned_cols=77  Identities=6%  Similarity=0.145  Sum_probs=45.0

Q ss_pred             CceEEEEEecHHhHhhcC-CCceEEEeCCCCCHHHHHHHHHHh--------CCCchh-------hcceeEEEECCeecC-
Q 034054           23 SSIQIKVLFFARARDLTG-LTDMPLEVSCGSTTQDCLNKLIAR--------FPNLEE-------IRGCMVLALNEEYTN-   85 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g-~~~~~vev~~~~tv~dLl~~L~~~--------~p~l~~-------~~~~~~vaVNg~~v~-   85 (105)
                      +.|+++|+=|-. .+..+ ..+.++++.+++||-|+|..+.+.        .+.|.-       +=..+.+.|||+..- 
T Consensus         4 ~~~~~~i~R~~~-~~~~~~~q~y~v~~~~~~tvLdaL~~I~~~~~~~~g~~~~~l~fr~sCr~giCGsCam~ING~p~LA   82 (249)
T PRK08640          4 KTVRLIIKRQDG-PDSKPYWEEFEIPYRPNMNVISALMEIRRNPVNAKGEKTTPVVWDMNCLEEVCGACSMVINGKPRQA   82 (249)
T ss_pred             cEEEEEEEeeCC-CCCCceeEEEEecCCCCCcHHHHHHHHHhcccccccccCCCeeEecccCCCCCCcCeeEECCccchh
Confidence            346666665544 22222 123445555789999999999864        233421       124789999999853 


Q ss_pred             CCCccCC-CCEEEEEc
Q 034054           86 ASVIVNE-KDELAIIP  100 (105)
Q Consensus        86 ~d~~L~d-GDeVaiiP  100 (105)
                      =.+.|.+ +++|.|=|
T Consensus        83 C~t~v~~~~~~i~ieP   98 (249)
T PRK08640         83 CTALIDQLEQPIRLEP   98 (249)
T ss_pred             hhChHHHcCCcEEEEE
Confidence            2333322 46676654

>PF08817 YukD: WXG100 protein secretion system (Wss), protein YukD; InterPro: IPR014921 YukD is a bacterial protein that adopts a ubiquitin-like fold []

Probab=89.66  E-value=1  Score=27.66  Aligned_cols=57  Identities=16%  Similarity=0.184  Sum_probs=35.3

Q ss_pred             CceEEEeCCCCCHHHHHHHHHHhCCC--chhh-cceeEEE-ECCeecCC-----CCccCCCCEEEE
Q 034054           42 TDMPLEVSCGSTTQDCLNKLIARFPN--LEEI-RGCMVLA-LNEEYTNA-----SVIVNEKDELAI   98 (105)
Q Consensus        42 ~~~~vev~~~~tv~dLl~~L~~~~p~--l~~~-~~~~~va-VNg~~v~~-----d~~L~dGDeVai   98 (105)
                      ....+.+|...++++|+..|.+.+..  .... .....+. .+|...+.     +..+.+||.+.+
T Consensus        13 ~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~g~~L~~~~tL~~~gV~dGd~L~L   78 (79)
T PF08817_consen   13 RQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARAGGRPLDPDQTLADAGVRDGDVLVL   78 (79)
T ss_dssp             -EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-GGTEEEETTSBCGGGT--TT-EEEE
T ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEecCCcccCCcCcHhHcCCCCCCEEEe
Confidence            57899999999999999999887641  1111 1134555 67776653     567889998876

Ubiquitin covalently binds to protein and flags them for protein degradation, however conjugation assays have indicated that YukD lacks the capacity for covalent bond formation with other proteins []. ; PDB: 2BPS_B.

>cd01796 DDI1_N DNA damage inducible protein 1 ubiquitin-like domain

Probab=88.65  E-value=3.6  Score=24.63  Aligned_cols=55  Identities=15%  Similarity=0.028  Sum_probs=39.3

Q ss_pred             CCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC------CccCCCCEEEE
Q 034054           41 LTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS------VIVNEKDELAI   98 (105)
Q Consensus        41 ~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d------~~L~dGDeVai   98 (105)
                      .....++++...||++|...+..... +..  ....+.-+|+....+      .-+++||.|.+
T Consensus         9 g~~~~l~v~~~~TV~~lK~~I~~~~g-ip~--~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~l~l   69 (71)
T cd01796           9 ETTFSLDVDPDLELENFKALCEAESG-IPA--SQQQLIYNGRELVDNKRLLALYGVKDGDLVVL   69 (71)
T ss_pred             CCEEEEEECCcCCHHHHHHHHHHHhC-CCH--HHeEEEECCeEccCCcccHHHcCCCCCCEEEE
Confidence            35678999888999999999988753 211  223556788887543      45788988765

DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.

>cd01797 NIRF_N amino-terminal ubiquitin-like domain of Np95 and NIRF

Probab=88.52  E-value=4  Score=25.09  Aligned_cols=67  Identities=16%  Similarity=0.210  Sum_probs=43.7

Q ss_pred             eEEEEEecHHhHhhcCCCceEEE-eCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLE-VSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAI   98 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~ve-v~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVai   98 (105)
                      |+|.|+-.      .|.....++ ++...||++|.+.+.+... +..  ..-.+.-+|+....     ++-+++|+.|.+
T Consensus         1 M~I~vk~~------~G~~~~~l~~v~~~~TV~~lK~~i~~~~g-i~~--~~QrLi~~Gk~L~D~~tL~~y~i~~~~~i~l   71 (78)
T cd01797           1 MWIQVRTM------DGKETRTVDSLSRLTKVEELREKIQELFN-VEP--ECQRLFYRGKQMEDGHTLFDYNVGLNDIIQL   71 (78)
T ss_pred             CEEEEEcC------CCCEEEEeeccCCcCcHHHHHHHHHHHhC-CCH--HHeEEEeCCEECCCCCCHHHcCCCCCCEEEE
Confidence            56666443      243223564 5667899999999987652 211  22355668888764     467899999988


Q ss_pred             Ec
Q 034054           99 IP  100 (105)
Q Consensus        99 iP  100 (105)
                      +.
T Consensus        72 ~~   73 (78)
T cd01797          72 LV   73 (78)
T ss_pred             EE
Confidence            74

NIRF_N This CD represents the amino-terminal ubiquitin-like domain of a family of nuclear proteins that includes Np95 and NIRF (Np95/ICBP90-like RING finger) protein. Both Np95 and NIRF have a domain architecture consisting of a ubiquitin-like domain, a PHD finger, a YDG/SRA domain, Rb-binding motifs and a RING finger domain. Both Np95 and NIRF are ubiquitin ligases that ubiquitinate PCNP (PEST-containing nuclear proteins). While Np95 is capable of binding histones, NIRF is involved in cell cycle regulation.

>PF11834 DUF3354: Domain of unknown function (DUF3354); InterPro: IPR021789 Potassium channels take part in important processes of higher plants, including opening and closing of stomatal pores and leaf movement

Probab=88.08  E-value=1.9  Score=26.41  Aligned_cols=67  Identities=9%  Similarity=0.091  Sum_probs=43.0

Q ss_pred             EEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEE
Q 034054           26 QIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAII   99 (105)
Q Consensus        26 ~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaii   99 (105)
                      +|+|..+..-.. -.....-+-+|+  |+.+|++.-.+++..-    ....+.-||--++.=..|+|||.+.|+
T Consensus         3 RVtI~~~~~~~~-~~~~GKvi~lP~--SleeLl~ia~~kfg~~----~~~v~~~dgaeIdDI~~IRDgD~L~~~   69 (69)
T PF11834_consen    3 RVTIFPNHPPEK-GRRAGKVIWLPD--SLEELLKIASEKFGFS----ATKVLNEDGAEIDDIDVIRDGDHLYLV   69 (69)
T ss_pred             EEEEecCCCCcc-cCcCCEEEEcCc--cHHHHHHHHHHHhCCC----ceEEEcCCCCEEeEEEEEEcCCEEEEC
Confidence            455554444333 111234667774  9999999999998642    234555566656666789999998764

Inward rectifying potassium (K(+)in) channels play an important role in turgor regulation and ion uptake in higher plants. All of them comprise, from their N-terminal to their C-terminal ends: a short hydrophilic region, a hydrophobic region structurally analogous and partially homologous to the transmembrane domain of voltage-gated animal channels from the Shaker superfamily, a putative cyclic nucleotide-binding domain, and a conserved C-terminal KHA domain. Between these last two regions, some of them (AKT1, AKT2 and SKT1) contain an ankyrin-repeat domain with six repeats homologous to those of human erythrocyte ankyrin. This entry represents the KHA domain which is unique to plant K(+)in channels. The KHA domain contains two high-homology blocks enriched for hydrophobic and acidic residues, respectively. The KHA domain is essential for interaction of plant K(+)in channels. The KHA domain mediates tetramerization and/or stabilisation of the heteromers [, , ].

>cd01813 UBP_N UBP ubiquitin processing protease

Probab=88.03  E-value=4.3  Score=24.71  Aligned_cols=65  Identities=8%  Similarity=0.065  Sum_probs=41.5

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEE--ECCeecCC-----CCccCCCCEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLA--LNEEYTNA-----SVIVNEKDELA   97 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~va--VNg~~v~~-----d~~L~dGDeVa   97 (105)
                      |.|+|++-        .....++++...|+++|.+.|.+... +..-+.. +++  +.|.....     +..+++|+.|.
T Consensus         1 ~~i~vk~~--------g~~~~v~v~~~~Tv~~lK~~i~~~tg-vp~~~QK-Li~~~~~Gk~l~D~~~L~~~~i~~g~~i~   70 (74)
T cd01813           1 VPVIVKWG--------GQEYSVTTLSEDTVLDLKQFIKTLTG-VLPERQK-LLGLKVKGKPAEDDVKISALKLKPNTKIM   70 (74)
T ss_pred             CEEEEEEC--------CEEEEEEECCCCCHHHHHHHHHHHHC-CCHHHEE-EEeecccCCcCCCCcCHHHcCCCCCCEEE
Confidence            45666663        34678889888999999999988652 2111122 222  34655543     35688999988


Q ss_pred             EE
Q 034054           98 II   99 (105)
Q Consensus        98 ii   99 (105)
                      ++
T Consensus        71 lm   72 (74)
T cd01813          71 MM   72 (74)
T ss_pred             EE
Confidence            76

The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes.

>PF14478 DUF4430: Domain of unknown function (DUF4430); PDB: 3U7Z_B 2BB5_A

Probab=87.53  E-value=0.75  Score=27.57  Aligned_cols=25  Identities=20%  Similarity=0.268  Sum_probs=17.4

Q ss_pred             eeEEEECCeecC---CCCccCCCCEEEE
Q 034054           74 CMVLALNEEYTN---ASVIVNEKDELAI   98 (105)
Q Consensus        74 ~~~vaVNg~~v~---~d~~L~dGDeVai   98 (105)
                      .-.+.|||+..+   .+..|++||.|.|
T Consensus        40 ~W~~~vNG~~~~~ga~~~~l~~GD~i~~   67 (68)
T PF14478_consen   40 YWMYYVNGESANVGAGSYKLKDGDKITW   67 (68)
T ss_dssp             EEEEEETTEE-SS-CCC-B--TTEEEEE
T ss_pred             eeEEEECCEEhhcCcceeEeCCCCEEEe
Confidence            557889999976   4789999999986

>PLN02560 enoyl-CoA reductase

Probab=86.97  E-value=2.8  Score=32.58  Aligned_cols=24  Identities=25%  Similarity=0.144  Sum_probs=20.4

Q ss_pred             eEEEeCCCCCHHHHHHHHHHhCCC
Q 034054           44 MPLEVSCGSTTQDCLNKLIARFPN   67 (105)
Q Consensus        44 ~~vev~~~~tv~dLl~~L~~~~p~   67 (105)
                      .+++++...|++||...+.++.+.
T Consensus        16 ~~lev~~~aTV~dLK~~Isk~~~~   39 (308)
T PLN02560         16 GGLEVPDSATVADLKKAIHKRKKK   39 (308)
T ss_pred             eeEEcCCCCcHHHHHHHHHHHcCC
Confidence            478898889999999999987654

>PF10302 DUF2407: DUF2407 ubiquitin-like domain; InterPro: IPR019413 This entry represents a family of proteins of unknown function found in fungi

Probab=86.74  E-value=3.4  Score=26.84  Aligned_cols=54  Identities=17%  Similarity=0.241  Sum_probs=38.8

Q ss_pred             EEEEecHHhHhhcCCCceEEEeC--CCCCHHHHHHHHHHhC-CCchhhcceeEEEECCeecCCCC
Q 034054           27 IKVLFFARARDLTGLTDMPLEVS--CGSTTQDCLNKLIARF-PNLEEIRGCMVLALNEEYTNASV   88 (105)
Q Consensus        27 V~V~~fg~lre~~g~~~~~vev~--~~~tv~dLl~~L~~~~-p~l~~~~~~~~vaVNg~~v~~d~   88 (105)
                      ++|+|-..+      ....++++  ..+|+.+|...+.+.. |..+.  ...++.-||+.....+
T Consensus         3 l~IRFs~si------pDl~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~--~rLRlI~~Gr~L~d~t   59 (97)
T PF10302_consen    3 LTIRFSDSI------PDLPLDIPSPNTTTVAWLKQLIRERLPPEPSR--RRLRLIYAGRLLNDHT   59 (97)
T ss_pred             EEEEECCCC------CCceeecCCCCcccHHHHHHHHHhhcCCCCcc--ccEEeeecCcccCccc
Confidence            678887744      34677776  6689999999999988 44442  4567778998876543

They contain a characteristic GFDRL sequence motif.

>PF13019 Telomere_Sde2: Telomere stability and silencing

Probab=86.43  E-value=6.7  Score=27.97  Aligned_cols=77  Identities=17%  Similarity=0.257  Sum_probs=45.8

Q ss_pred             EEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecC-CCCccC-----CCC----E
Q 034054           26 QIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTN-ASVIVN-----EKD----E   95 (105)
Q Consensus        26 ~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~-~d~~L~-----dGD----e   95 (105)
                      .|-|..|..+-  + .....+.+|..+|+.+|...|...+|........+.+.-|+.... .+..+.     +.|    .
T Consensus         2 ~Vlvss~~g~~--l-p~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~~~~~~~~   78 (162)
T PF13019_consen    2 NVLVSSFDGLT--L-PPTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTNSNGQLSPSSDIPLSSLLSSSQDSDFIT   78 (162)
T ss_pred             eEEEecCCCCC--C-CCeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEeCCCeeCCCccccHHhhccCcCCCCceE
Confidence            44555554431  1 256788899889999999999998875432211123333555543 233221     222    5


Q ss_pred             EEEEcCCCCC
Q 034054           96 LAIIPPISGG  105 (105)
Q Consensus        96 VaiiPPvsGG  105 (105)
                      +.+.+++-||
T Consensus        79 l~l~~rl~GG   88 (162)
T PF13019_consen   79 LRLSLRLRGG   88 (162)
T ss_pred             EEEEEeccCC
Confidence            7888888887

>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A

Probab=86.29  E-value=5.4  Score=26.48  Aligned_cols=60  Identities=18%  Similarity=0.236  Sum_probs=41.6

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCC-chh---hcceeEEEECCeecCCCCcc
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPN-LEE---IRGCMVLALNEEYTNASVIV   90 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~-l~~---~~~~~~vaVNg~~v~~d~~L   90 (105)
                      +.++++++      -|.+...+.++..+|+.+|.+.|-..+|. +..   -...+++...|++...+..|
T Consensus         3 i~lkf~l~------~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL   66 (111)
T PF13881_consen    3 IELKFRLA------DGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTL   66 (111)
T ss_dssp             EEEEEEET------TS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBT
T ss_pred             EEEEEEEe------CCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcH
Confidence            45666555      36556788888899999999999999974 332   13578899999998754433

>COG0522 RpsD Ribosomal protein S4 and related proteins [Translation, ribosomal structure and biogenesis]

Probab=86.26  E-value=1.1  Score=32.92  Aligned_cols=27  Identities=22%  Similarity=0.290  Sum_probs=23.4

Q ss_pred             cceeEEEECCeecC-CCCccCCCCEEEE
Q 034054           72 RGCMVLALNEEYTN-ASVIVNEKDELAI   98 (105)
Q Consensus        72 ~~~~~vaVNg~~v~-~d~~L~dGDeVai   98 (105)
                      ..+=.|+|||+.|+ +.+.++.||+|.|
T Consensus       116 V~HGHI~VnGk~V~iPSy~V~~gdei~V  143 (205)
T COG0522         116 VSHGHILVNGKRVNIPSYLVSPGDEISV  143 (205)
T ss_pred             hhcceEEECCEEeccCcEEecCCCEEEe
Confidence            45568999999997 7999999999987

>PRK12385 fumarate reductase iron-sulfur subunit; Provisional

Probab=86.18  E-value=1.5  Score=32.75  Aligned_cols=76  Identities=14%  Similarity=0.202  Sum_probs=43.9

Q ss_pred             ceEEEEEecHHhHhhcC-CCceEEEeCCCCCHHHHHHHHHHhC-CCch--h-----hcceeEEEECCeecC-CCCccCC-
Q 034054           24 SIQIKVLFFARARDLTG-LTDMPLEVSCGSTTQDCLNKLIARF-PNLE--E-----IRGCMVLALNEEYTN-ASVIVNE-   92 (105)
Q Consensus        24 ~m~V~V~~fg~lre~~g-~~~~~vev~~~~tv~dLl~~L~~~~-p~l~--~-----~~~~~~vaVNg~~v~-~d~~L~d-   92 (105)
                      .|+++|+=|-+=.+..+ .....++++++.||.++|..+.+.. |.|.  .     +=..+.+.|||+.+- -.+.+.+ 
T Consensus         6 ~v~~~i~R~~~~~~~~~~~~~~~v~~~~~~tvl~~L~~ik~~~d~~l~fr~~C~~giCGsC~v~InG~~~laC~t~~~~~   85 (244)
T PRK12385          6 NLKIEVLRYNPEVDTEPHSQTYEVPYDETTSLLDALGYIKDNLAPDLSYRWSCRMAICGSCGMMVNNVPKLACKTFLRDY   85 (244)
T ss_pred             EEEEEEEeeCCCCCCCceeEEEEeeCCCCCcHHHHHHHHHHhcCCCceeccCCCCCcCCCCcceECccChhhHhhHHHHc
Confidence            36666665554222222 2345566668899999999998765 5442  1     112378899998753 2444443 


Q ss_pred             CCEEEEE
Q 034054           93 KDELAII   99 (105)
Q Consensus        93 GDeVaii   99 (105)
                      ++.+.|-
T Consensus        86 ~~~~~ie   92 (244)
T PRK12385         86 TGGMKVE   92 (244)
T ss_pred             CCCeEEe
Confidence            2334443

>TIGR00384 dhsB succinate dehydrogenase and fumarate reductase iron-sulfur protein

Probab=85.81  E-value=1.8  Score=31.58  Aligned_cols=53  Identities=19%  Similarity=0.214  Sum_probs=37.6

Q ss_pred             ceEEEeCCCCCHHHHHHHHHHhC-CCchhh-------cceeEEEECCeec-CCCCccCC-CCE
Q 034054           43 DMPLEVSCGSTTQDCLNKLIARF-PNLEEI-------RGCMVLALNEEYT-NASVIVNE-KDE   95 (105)
Q Consensus        43 ~~~vev~~~~tv~dLl~~L~~~~-p~l~~~-------~~~~~vaVNg~~v-~~d~~L~d-GDe   95 (105)
                      ...++++++.||-+++..+...+ |.+.--       =..+.+.|||+.+ .-.+.+.+ |..
T Consensus        16 ~~~v~~~~~~tvl~~l~~i~~~~~~~l~~~~~C~~g~Cg~C~v~vnG~~~laC~t~v~~~g~~   78 (220)
T TIGR00384        16 SYEVPADEGMTVLDALNYIKDEQDPSLAFRRSCRNGICGSCAMNVNGKPVLACKTKVEDLGQP   78 (220)
T ss_pred             EEEEeCCCCCcHHHHHHHHHHhcCCCceeecccCCCCCCCCeeEECCEEhhhhhChHHHcCCC
Confidence            45667778999999999988544 554311       1246899999886 45778888 875

Succinate dehydrogenase and fumarate reductase are reverse directions of the same enzymatic interconversion, succinate + FAD+ = fumarate + FADH2 (EC 1.3.11.1). In E. coli, the forward and reverse reactions are catalyzed by distinct complexes: fumarate reductase operates under anaerobic conditions and succinate dehydrogenase operates under aerobic conditions. This model also describes a region of the B subunit of a cytosolic archaeal fumarate reductase.

>cd00165 S4 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized functional similarity between these three protein classes

Probab=84.96  E-value=1.5  Score=24.60  Aligned_cols=26  Identities=15%  Similarity=0.079  Sum_probs=22.0

Q ss_pred             eEEEECCeec-CCCCccCCCCEEEEEc
Q 034054           75 MVLALNEEYT-NASVIVNEKDELAIIP  100 (105)
Q Consensus        75 ~~vaVNg~~v-~~d~~L~dGDeVaiiP  100 (105)
                      =.|.|||+.+ ...+.+..||.|.+..
T Consensus        26 g~V~vn~~~~~~~~~~v~~~d~i~i~~   52 (70)
T cd00165          26 GHVLVNGKVVTKPSYKVKPGDVIEVDG   52 (70)
T ss_pred             CCEEECCEEccCCccCcCCCCEEEEcC
Confidence            3688999998 7889999999998753

>PRK12577 succinate dehydrogenase iron-sulfur subunit; Provisional

Probab=84.72  E-value=2.2  Score=33.17  Aligned_cols=59  Identities=27%  Similarity=0.331  Sum_probs=40.1

Q ss_pred             CceEEEeCCCCCHHHHHHHHHHhC-CCchh---h----cceeEEEECCeecC-CCCccCC------------CCEEEEEc
Q 034054           42 TDMPLEVSCGSTTQDCLNKLIARF-PNLEE---I----RGCMVLALNEEYTN-ASVIVNE------------KDELAIIP  100 (105)
Q Consensus        42 ~~~~vev~~~~tv~dLl~~L~~~~-p~l~~---~----~~~~~vaVNg~~v~-~d~~L~d------------GDeVaiiP  100 (105)
                      .+.+++++++.||-|++..+.... |.|.-   .    =..|.+-|||+.+- -.+.+.+            +++|.|=|
T Consensus        19 ~~~~v~~~~~~tvL~~l~~i~~~~d~tL~~~~~c~~~~Cg~C~v~inG~~~laC~t~v~~~~~~~~~~~~~~~~~i~ieP   98 (329)
T PRK12577         19 QTYTLEVEPGNTILDCLNRIKWEQDGSLAFRKNCRNTICGSCAMRINGRSALACKENVGSELARLSDSNSGAIPEITIAP   98 (329)
T ss_pred             EEEEEECCCCChHHHHHHHhCCcCCCCcEEcCCCCCCCCCCCEEEECCeeecCcccchhhhhccccccccCCCCeEEEEE
Confidence            346777888999999999998876 44431   1    12578999998753 3455543            36776654

>PF13085 Fer2_3: 2Fe-2S iron-sulfur cluster binding domain; PDB: 3P4Q_N 1KFY_N 3CIR_N 3P4R_B 2B76_N 1KF6_B 3P4P_N 3P4S_B 1L0V_B 1ZOY_B

Probab=84.66  E-value=3.1  Score=27.67  Aligned_cols=58  Identities=24%  Similarity=0.300  Sum_probs=38.5

Q ss_pred             ceEEEeCCCCCHHHHHHHHHHhC-CCchh-------hcceeEEEECCeec-CCCCccCCCC-----EEEEEc
Q 034054           43 DMPLEVSCGSTTQDCLNKLIARF-PNLEE-------IRGCMVLALNEEYT-NASVIVNEKD-----ELAIIP  100 (105)
Q Consensus        43 ~~~vev~~~~tv~dLl~~L~~~~-p~l~~-------~~~~~~vaVNg~~v-~~d~~L~dGD-----eVaiiP  100 (105)
                      +.+++++.++||-++|..+.++. |.|+-       +=..+.+.|||+.. .-.+.+.+..     +|.|=|
T Consensus        20 ~y~v~~~~~~tVLd~L~~Ik~~~D~sLafr~sCr~giCGsCam~ING~~~LAC~t~v~~~~~~~~~~i~IeP   91 (110)
T PF13085_consen   20 EYEVPVEPGMTVLDALNYIKEEQDPSLAFRYSCRSGICGSCAMRINGRPRLACKTQVDDLIEKFGNVITIEP   91 (110)
T ss_dssp             EEEEEGGSTSBHHHHHHHHHHHT-TT--B--SSSSSSSSTTEEEETTEEEEGGGSBGGGCTTSETBEEEEEE
T ss_pred             EEEecCCCCCcHHHHHHHHHhccCCCeEEEecCCCCCCCCCEEEECCceecceeeEchhccCCCcceEEEEE
Confidence            34566677899999999999885 55532       12478999999984 3345554443     566654

...

>PRK11025 23S rRNA pseudouridylate synthase C; Provisional

Probab=84.15  E-value=3.2  Score=31.94  Aligned_cols=28  Identities=18%  Similarity=0.190  Sum_probs=23.7

Q ss_pred             ceeEEEECCeecCCCCccCCCCEEEEEc
Q 034054           73 GCMVLALNEEYTNASVIVNEKDELAIIP  100 (105)
Q Consensus        73 ~~~~vaVNg~~v~~d~~L~dGDeVaiiP  100 (105)
                      ..=.|.|||+.+..++.|+.||+|.+.+
T Consensus        43 ~~G~V~VNg~~v~~~~~v~~GD~I~i~~   70 (317)
T PRK11025         43 RKGEVRVNKKRIKPEYKLEAGDEVRIPP   70 (317)
T ss_pred             HcCCEEECCEEcCcccccCCCCEEEeCC
Confidence            3347889999999999999999999854

>cd01798 parkin_N amino-terminal ubiquitin-like of parkin protein

Probab=84.08  E-value=6.6  Score=23.14  Aligned_cols=55  Identities=9%  Similarity=0.116  Sum_probs=40.1

Q ss_pred             CceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           42 TDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        42 ~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      ....++++...|++++.+.+..+.. +..  ....+.-+|+....     +.-+++|+.|.+.
T Consensus         9 ~~~~~~v~~~~tV~~lK~~i~~~~g-i~~--~~q~Li~~G~~L~d~~~l~~~~i~~~stl~l~   68 (70)
T cd01798           9 HTFPVEVDPDTDIKQLKEVVAKRQG-VPP--DQLRVIFAGKELRNTTTIQECDLGQQSILHAV   68 (70)
T ss_pred             CEEEEEECCCChHHHHHHHHHHHHC-CCH--HHeEEEECCeECCCCCcHHHcCCCCCCEEEEE
Confidence            4778899888999999999988752 211  23456688888764     4568888888654

parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.

>PRK13552 frdB fumarate reductase iron-sulfur subunit; Provisional

Probab=83.48  E-value=3.7  Score=30.59  Aligned_cols=58  Identities=24%  Similarity=0.355  Sum_probs=37.3

Q ss_pred             ceEEEeCCCCCHHHHHHHHHHhC-CCchh-------hcceeEEEECCeecC-CCCccCC-CC-EEEEEc
Q 034054           43 DMPLEVSCGSTTQDCLNKLIARF-PNLEE-------IRGCMVLALNEEYTN-ASVIVNE-KD-ELAIIP  100 (105)
Q Consensus        43 ~~~vev~~~~tv~dLl~~L~~~~-p~l~~-------~~~~~~vaVNg~~v~-~d~~L~d-GD-eVaiiP  100 (105)
                      +.++++++++||-|+|..+.++. |.|+-       +=..+.+.|||+..- =.+.+.+ ++ +|.|=|
T Consensus        25 ~y~v~~~~~~tvLdaL~~Ik~~~D~sL~fr~sCr~giCGsCam~ING~~~LAC~t~v~~~~~~~i~ieP   93 (239)
T PRK13552         25 TYQLEETPGMTLFIALNRIREEQDPSLQFDFVCRAGICGSCAMVINGRPTLACRTLTSDYPDGVITLMP   93 (239)
T ss_pred             EEEecCCCCCCHHHHHHHHHhcCCCCeeEeccCCCCCCCCceeEECCeEhhhhhccHhhcCCCcEEEEE
Confidence            44555667899999999998764 55531       224789999999853 2343433 22 555543

>COG2501 S4-like RNA binding protein [Replication, recombination, and repair]

Probab=83.40  E-value=3  Score=25.98  Aligned_cols=48  Identities=13%  Similarity=-0.060  Sum_probs=35.8

Q ss_pred             CCCHHHHHHHHHHhCCC--chhhcceeEEEECCeecC-CCCccCCCCEEEE
Q 034054           51 GSTTQDCLNKLIARFPN--LEEIRGCMVLALNEEYTN-ASVIVNEKDELAI   98 (105)
Q Consensus        51 ~~tv~dLl~~L~~~~p~--l~~~~~~~~vaVNg~~v~-~d~~L~dGDeVai   98 (105)
                      -.|+.+|++.+.--..+  .+.++..--|.|||+.-. .-..|.+||.|.|
T Consensus        11 ~I~L~qlLK~~g~i~sGG~AK~~i~eg~V~vNGe~EtRRgkKlr~gd~V~i   61 (73)
T COG2501          11 FITLGQLLKLAGLIESGGQAKAFIAEGEVKVNGEVETRRGKKLRDGDVVEI   61 (73)
T ss_pred             eEEHHHHHHHhCcccCcHHHHHHHHCCeEEECCeeeeccCCEeecCCEEEE
Confidence            47999999988765432  223455568999999864 5788999999987

>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein

Probab=82.48  E-value=8.3  Score=23.14  Aligned_cols=55  Identities=16%  Similarity=0.195  Sum_probs=38.9

Q ss_pred             CceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----CccCCCCEEEEE
Q 034054           42 TDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----VIVNEKDELAII   99 (105)
Q Consensus        42 ~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L~dGDeVaii   99 (105)
                      +...++++...||++|.+.+.+... +..  ....+...|+....+     +-+++|..|-++
T Consensus         9 ~~~~l~v~~~~TV~~lK~~I~~~~g-i~~--~~q~Li~~G~~L~D~~~l~~~~i~~~~tv~~~   68 (70)
T cd01794           9 KDVKLSVSSKDTVGQLKKQLQAAEG-VDP--CCQRWFFSGKLLTDKTRLQETKIQKDYVVQVI   68 (70)
T ss_pred             CEEEEEECCcChHHHHHHHHHHHhC-CCH--HHeEEEECCeECCCCCCHHHcCCCCCCEEEEE
Confidence            5788999888999999999987642 221  123455788887653     567778877765

DC_UbP (dendritic cell derived ubiquitin-like protein) is a ubiquitin-like protein from human dendritic cells that is expressed in the mitochondrion. The ubiquitin-like domain of this protein is found at the C-terminus and lacks the canonical gly-gly motif of ubiquitin required for ubiquitinization. DC_UbP is expressed in tumor cells but not in normal human adult tissue suggesting a role for DC_UbP in tumorogenesis.

>PRK11507 ribosome-associated protein; Provisional

Probab=82.09  E-value=2.4  Score=26.19  Aligned_cols=47  Identities=4%  Similarity=-0.144  Sum_probs=34.1

Q ss_pred             CCHHHHHHHHHHhCCC--chhhcceeEEEECCeecC-CCCccCCCCEEEE
Q 034054           52 STTQDCLNKLIARFPN--LEEIRGCMVLALNEEYTN-ASVIVNEKDELAI   98 (105)
Q Consensus        52 ~tv~dLl~~L~~~~p~--l~~~~~~~~vaVNg~~v~-~d~~L~dGDeVai   98 (105)
                      +++.+|+++..--..+  .+.++..-.|.|||+.-. .-..|.+||.|.|
T Consensus        12 I~L~QlLK~~~~v~SGG~AK~~I~eg~V~VNGeve~rRgkKl~~GD~V~~   61 (70)
T PRK11507         12 VELCDLLKLEGWSESGAQAKIAIAEGQVKVDGAVETRKRCKIVAGQTVSF   61 (70)
T ss_pred             EEHHHHHhhhCcccChHHHHHHHHcCceEECCEEecccCCCCCCCCEEEE
Confidence            6889998876654322  222445568999999864 5788999999987

>COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]

Probab=81.76  E-value=2.3  Score=28.04  Aligned_cols=27  Identities=22%  Similarity=0.085  Sum_probs=23.8

Q ss_pred             ceeEEEECCeecCCCCccCCCCEEEEE
Q 034054           73 GCMVLALNEEYTNASVIVNEKDELAII   99 (105)
Q Consensus        73 ~~~~vaVNg~~v~~d~~L~dGDeVaii   99 (105)
                      +.=.|.|||..+-+...++.||+|.|-
T Consensus        32 ~~GrV~vNG~~aKpS~~VK~GD~l~i~   58 (100)
T COG1188          32 EGGRVKVNGQRAKPSKEVKVGDILTIR   58 (100)
T ss_pred             HCCeEEECCEEcccccccCCCCEEEEE
Confidence            344899999999999999999999875

>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1

Probab=81.10  E-value=10  Score=23.18  Aligned_cols=56  Identities=11%  Similarity=0.024  Sum_probs=37.7

Q ss_pred             CCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecC-C-----CCccC-CCCEEEEE
Q 034054           40 GLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTN-A-----SVIVN-EKDELAII   99 (105)
Q Consensus        40 g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~-~-----d~~L~-dGDeVaii   99 (105)
                      +.....++++...||++|.+.|..+.. +..  ..-++ .+|+... .     +.-++ +||.+.++
T Consensus        11 ~~~t~~l~v~~~~TV~~lK~kI~~~~g-ip~--~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~   73 (75)
T cd01799          11 HTVTIWLTVRPDMTVAQLKDKVFLDYG-FPP--AVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLY   73 (75)
T ss_pred             CCCeEEEEECCCCcHHHHHHHHHHHHC-cCH--HHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEE
Confidence            345678999888999999999987752 211  12244 6776653 2     34666 78888775

HOIL1_N HOIL-1 (heme-oxidized IRP2 ubiquitin ligase-1) is an E3 ubiquitin-protein ligase that recognizes heme-oxidized IRP2 (iron regulatory protein2) and is thought to affect the turnover of oxidatively damaged proteins. Hoil-1 has an amino-terminal ubiquitin-like domain as well as an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain.

>smart00666 PB1 PB1 domain

Probab=80.54  E-value=5.2  Score=24.11  Aligned_cols=35  Identities=23%  Similarity=0.310  Sum_probs=27.6

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCC
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPN   67 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~   67 (105)
                      +++|+.|        |.....+.++.+.|..+|...+...++-
T Consensus         2 ~~vK~~~--------~~~~~~~~~~~~~s~~dL~~~i~~~~~~   36 (81)
T smart00666        2 VDVKLRY--------GGETRRLSVPRDISFEDLRSKVAKRFGL   36 (81)
T ss_pred             ccEEEEE--------CCEEEEEEECCCCCHHHHHHHHHHHhCC
Confidence            4567766        3346678888899999999999999873

Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.

>PF06241 DUF1012: Protein of unknown function (DUF1012); InterPro: IPR010420 This entry represents the CASTOR/POLLUX/SYM8 family of ion channels, which are found in plants

Probab=80.37  E-value=2.3  Score=31.20  Aligned_cols=31  Identities=19%  Similarity=0.433  Sum_probs=25.4

Q ss_pred             eeEEEECCeec---CCCCccCCCCEEEEEcCCCC
Q 034054           74 CMVLALNEEYT---NASVIVNEKDELAIIPPISG  104 (105)
Q Consensus        74 ~~~vaVNg~~v---~~d~~L~dGDeVaiiPPvsG  104 (105)
                      .|-++-||.++   +.|+.|.+||++.|+-|+.|
T Consensus       119 ~CGv~r~GkI~fhP~Dd~vL~e~DklLvIa~~~~  152 (206)
T PF06241_consen  119 VCGVKRDGKIVFHPDDDYVLREGDKLLVIAPVNG  152 (206)
T ss_pred             eeeeeeCCeeEECCCCCceeecCCEEEEEeecCC
Confidence            36677888886   35789999999999999865

They have been implicated in modulating the nuclear membrane envelope potential [].

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=80.12  E-value=5.8  Score=31.62  Aligned_cols=55  Identities=20%  Similarity=0.227  Sum_probs=38.5

Q ss_pred             ceEEEeCCCCCHHHHHHHHHHhCC-Cchh---hcceeEEEECCeecCCCCccCCCCEEEEE
Q 034054           43 DMPLEVSCGSTTQDCLNKLIARFP-NLEE---IRGCMVLALNEEYTNASVIVNEKDELAII   99 (105)
Q Consensus        43 ~~~vev~~~~tv~dLl~~L~~~~p-~l~~---~~~~~~vaVNg~~v~~d~~L~dGDeVaii   99 (105)
                      ++.+-+..|.||.|+.+.|...+- .|+-   |.+  .+-.+++.|++|++|.|+|.|.|+
T Consensus       305 ~~PlIlr~GsTV~Dvc~~IH~~l~~~FryA~VWGk--Svk~~~QrVG~dHvLeD~DIV~I~  363 (365)
T COG1163         305 DEPLILRRGSTVGDVCRKIHRDLVENFRYARVWGK--SVKHPGQRVGLDHVLEDEDIVEIH  363 (365)
T ss_pred             CCCeEEeCCCcHHHHHHHHHHHHHHhcceEEEecc--CCCCCccccCcCcCccCCCeEEEe
Confidence            356777889999999988865431 1211   111  233567778899999999999986

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	105
1vjk_A	98	Putative Molybdopterin Converting Factor, Subunit 1		2e-06
2q5w_D	77	The X-Ray Crystal Structure Of Molybdopterin Syntha		3e-06
1fm0_D	81	Molybdopterin Synthase (MoadMOAE) Length = 81		2e-04
1nvi_D	81	Orthorhombic Crystal Form Of Molybdopterin Synthase		3e-04

>pdb|1VJK|A Chain A, Putative Molybdopterin Converting Factor, Subunit 1 From Pyrococcus Furiosus, Pfu-562899-001 Length = 98

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 25/91 (27%), Positives = 47/91 (51%), Gaps = 8/91 (8%)
Query: 23  SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNL-EEIRGCMV----- 76
            S+++KV +FAR R L G+ +  +E+  G+  +D + ++  R     EE+ G        
Sbjct: 8   GSVKVKVKYFARFRQLAGVDEEEIELPEGARVRDLIEEIKKRHEKFKEEVFGEGYDEDAD 67
Query: 77  --LALNEEYTNASVIVNEKDELAIIPPISGG 105
             +A+N  Y +    + + D + + PP+SGG
Sbjct: 68  VNIAVNGRYVSWDEELKDGDVVGVFPPVSGG 98

>pdb|2Q5W|D Chain D, The X-Ray Crystal Structure Of Molybdopterin Synthase From Staphylococcus Aureus Length = 77

Iteration: 1
 Score = 47.0 bits (110), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 24/79 (30%), Positives = 41/79 (51%), Gaps = 2/79 (2%)
Query: 27  IKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA 86
           +KVL+FA  +D+       + +    T Q   + L  R+P +   +    +A+NEE+   
Sbjct: 1   MKVLYFAEIKDILQKAQEDIVLEQALTVQQFEDLLFERYPQINNKK--FQVAVNEEFVQK 58
Query: 87  SVIVNEKDELAIIPPISGG 105
           S  +   D +A+IPP+SGG
Sbjct: 59  SDFIQPNDTVALIPPVSGG 77

>pdb|1FM0|D Chain D, Molybdopterin Synthase (MoadMOAE) Length = 81

Iteration: 1
 Score = 40.4 bits (93), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 30/84 (35%), Positives = 48/84 (57%), Gaps = 9/84 (10%)
Query: 27  IKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIA----RFP-NLEEIRGCMVLALNE 81
           IKVLFFA+ R+L G TD   EV+    T + L + +A    R+   LE+  G ++ A+N+
Sbjct: 2   IKVLFFAQVRELVG-TDA-TEVAADFPTVEALRQHMAAQSDRWALALED--GKLLAAVNQ 57
Query: 82  EYTNASVIVNEKDELAIIPPISGG 105
              +    + + DE+A  PP++GG
Sbjct: 58  TLVSFDHPLTDGDEVAFFPPVTGG 81

>pdb|1NVI|D Chain D, Orthorhombic Crystal Form Of Molybdopterin Synthase Length = 81

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 29/84 (34%), Positives = 48/84 (57%), Gaps = 9/84 (10%)
Query: 27  IKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIA----RFP-NLEEIRGCMVLALNE 81
           +KVLFFA+ R+L G TD   EV+    T + L + +A    R+   LE+  G ++ A+N+
Sbjct: 2   VKVLFFAQVRELVG-TDA-TEVAADFPTVEALRQHMAAQSDRWALALED--GKLLAAVNQ 57
Query: 82  EYTNASVIVNEKDELAIIPPISGG 105
              +    + + DE+A  PP++GG
Sbjct: 58  TLVSFDHPLTDGDEVAFFPPVTGG 81

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	105
2q5w_D	77	Molybdopterin converting factor, subunit 1; MOCO,	3e-24
1vjk_A	98	Molybdopterin converting factor, subunit 1; struct	1e-23
3po0_A	89	Small archaeal modifier protein 1; ubiquitin-like	4e-22
1fm0_D	81	Molybdopterin convertin factor, subunit 1; molybde	2e-21
2l52_A	99	Methanosarcina acetivorans SAMP1 homolog; beta-grA	2e-15
1v8c_A	168	MOAD related protein; riken structural genomics/pr	4e-15
2g1e_A	90	Hypothetical protein TA0895; MOAD, molybdopterin,	9e-13
3rpf_C	74	Molybdopterin converting factor, subunit 1 (MOAD);	4e-12
3dwg_C	93	9.5 kDa culture filtrate antigen CFP10A; sulfur ca	1e-09

>2q5w_D Molybdopterin converting factor, subunit 1; MOCO, MPT synthase, MOAD, MOAE, transferase, molybdenum cofactor biosynthesis; 2.00A {Staphylococcus aureus} PDB: 2qie_B* Length = 77

 Score = 86.8 bits (216), Expect = 3e-24
 Identities = 25/79 (31%), Positives = 41/79 (51%), Gaps = 2/79 (2%)

Query: 27  IKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA 86
           +KVL+FA  +D+       + +    T Q   + L  R+P +   +   V A+NEE+   
Sbjct: 1   MKVLYFAEIKDILQKAQEDIVLEQALTVQQFEDLLFERYPQINNKK-FQV-AVNEEFVQK 58

Query: 87  SVIVNEKDELAIIPPISGG 105
           S  +   D +A+IPP+SGG
Sbjct: 59  SDFIQPNDTVALIPPVSGG 77

>1vjk_A Molybdopterin converting factor, subunit 1; structural genomics, PSI, protein structure INI southeast collaboratory for structural genomics; 1.51A {Pyrococcus furiosus} SCOP: d.15.3.1 Length = 98

 Score = 85.5 bits (212), Expect = 1e-23
 Identities = 23/94 (24%), Positives = 47/94 (50%), Gaps = 8/94 (8%)

Query: 20  NKESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEE--------I 71
           +   S+++KV +FAR R L G+ +  +E+  G+  +D + ++  R    +E         
Sbjct: 5   HHHGSVKVKVKYFARFRQLAGVDEEEIELPEGARVRDLIEEIKKRHEKFKEEVFGEGYDE 64

Query: 72  RGCMVLALNEEYTNASVIVNEKDELAIIPPISGG 105
              + +A+N  Y +    + + D + + PP+SGG
Sbjct: 65  DADVNIAVNGRYVSWDEELKDGDVVGVFPPVSGG 98

>3po0_A Small archaeal modifier protein 1; ubiquitin-like protein, protein binding; 1.55A {Haloferax volcanii} PDB: 2l83_A Length = 89

 Score = 81.6 bits (202), Expect = 4e-22
 Identities = 23/87 (26%), Positives = 38/87 (43%), Gaps = 8/87 (9%)

Query: 27  IKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLE--------EIRGCMVLA 78
           ++   FA   ++ G   + ++V   +T  D L+ L+   P LE        E+   + + 
Sbjct: 3   MEWKLFADLAEVAGSRTVRVDVDGDATVGDALDALVGAHPALESRVFGDDGELYDHINVL 62

Query: 79  LNEEYTNASVIVNEKDELAIIPPISGG 105
            N E           DELA+ PP+SGG
Sbjct: 63  RNGEAAALGEATAAGDELALFPPVSGG 89

>1fm0_D Molybdopterin convertin factor, subunit 1; molybdenum cofactor biosynthesis, transferase; 1.45A {Escherichia coli} SCOP: d.15.3.1 PDB: 1fma_D 1jw9_D 1jwa_D* 1jwb_D* 3bii_D 1nvi_D Length = 81

 Score = 79.6 bits (197), Expect = 2e-21
 Identities = 22/81 (27%), Positives = 38/81 (46%), Gaps = 3/81 (3%)

Query: 27  IKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEI--RGCMVLALNEEYT 84
           IKVLFFA+ R+L G     +      T +     + A+          G ++ A+N+   
Sbjct: 2   IKVLFFAQVRELVGTDATEVAAD-FPTVEALRQHMAAQSDRWALALEDGKLLAAVNQTLV 60

Query: 85  NASVIVNEKDELAIIPPISGG 105
           +    + + DE+A  PP++GG
Sbjct: 61  SFDHPLTDGDEVAFFPPVTGG 81

>2l52_A Methanosarcina acetivorans SAMP1 homolog; beta-grAsp fold, protein binding, E1-like, SAMP activator, ELSA, adenylation, ubiquitin; NMR {Methanosarcina acetivorans} Length = 99

 Score = 64.8 bits (158), Expect = 2e-15
 Identities = 24/98 (24%), Positives = 42/98 (42%), Gaps = 21/98 (21%)

Query: 26  QIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEE--------------I 71
           ++KV  FA  R+  G  ++PL    G    D L  L  ++P L+               +
Sbjct: 5   EVKVKLFANLREAAGTPELPLS---GEKVIDVLLSLTDKYPALKYVIFEKGDEKSEILIL 61

Query: 72  RGCMVLALNEEY----TNASVIVNEKDELAIIPPISGG 105
            G + + +N            ++ + DE+ I+PP+SGG
Sbjct: 62  CGSINILINGNNIRHLEGLETLLKDSDEIGILPPVSGG 99

>1v8c_A MOAD related protein; riken structural genomics/proteomics initiative, RSGI, structural genomics, protein binding; 1.60A {Thermus thermophilus} SCOP: d.15.3.1 d.129.5.1 Length = 168

 Score = 65.7 bits (160), Expect = 4e-15
 Identities = 23/89 (25%), Positives = 39/89 (43%), Gaps = 14/89 (15%)

Query: 28  KVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEE-------IRGCMVLALN 80
           KV  +A  RDLTG + + L    G+T  + L  L+  +P L+E       +   + + L 
Sbjct: 2   KVNLYATFRDLTGKSQLELP---GATVGEVLENLVRAYPALKEELFEGEGLAERVSVFLE 58

Query: 81  EEY----TNASVIVNEKDELAIIPPISGG 105
                     S  ++    L + PP++GG
Sbjct: 59  GRDVRYLQGLSTPLSPGATLDLFPPVAGG 87

>2g1e_A Hypothetical protein TA0895; MOAD, molybdopterin, transferase; NMR {Thermoplasma acidophilum} PDB: 2k22_A Length = 90

 Score = 57.8 bits (140), Expect = 9e-13
 Identities = 13/91 (14%), Positives = 36/91 (39%), Gaps = 14/91 (15%)

Query: 27  IKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNL--------EEIRGCMVLA 78
           + V ++A  R +T   +     +  S   + L +L   + +           +   +++ 
Sbjct: 2   VTVRYYATLRPITKKKE--ETFNGISKISELLERLKVEYGSEFTKQMYDGNNLFKNVIIL 59

Query: 79  LNEEYTNASV----IVNEKDELAIIPPISGG 105
           +N     +       + + D++ + PP++GG
Sbjct: 60  VNGNNITSMKGLDTEIKDDDKIDLFPPVAGG 90

>3rpf_C Molybdopterin converting factor, subunit 1 (MOAD); MCSG, PSI-biology, structural genomics, midwest center for S genomics, transferase; 1.90A {Helicobacter pylori} Length = 74

 Score = 55.8 bits (135), Expect = 4e-12
 Identities = 16/82 (19%), Positives = 36/82 (43%), Gaps = 9/82 (10%)

Query: 25  IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEY- 83
           + ++V FF        + +    +      +  L  ++     L+E  G   +ALN+   
Sbjct: 1   MMVEVRFFGP------IKEENFFIKANDLKE--LRAILQEKEGLKEWLGVCAIALNDHLI 52

Query: 84  TNASVIVNEKDELAIIPPISGG 105
            N +  + + D ++++PP+ GG
Sbjct: 53  DNLNTPLKDGDVISLLPPVCGG 74

>3dwg_C 9.5 kDa culture filtrate antigen CFP10A; sulfur carrier protein complex, beta-grAsp fold, amino-acid biosynthesis; HET: PLP; 1.53A {Mycobacterium tuberculosis} PDB: 3dwm_A Length = 93

 Score = 49.7 bits (119), Expect = 1e-09
 Identities = 17/93 (18%), Positives = 35/93 (37%), Gaps = 16/93 (17%)

Query: 27  IKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEE----------IRGCMV 76
           + V      R  TG     +  S G T    ++ L A +  + E          +   + 
Sbjct: 3   VTVSIPTILRPHTG-GQKSVSAS-GDTLGAVISDLEANYSGISERLMDPSSPGKLHRFVN 60

Query: 77  LALNEEY----TNASVIVNEKDELAIIPPISGG 105
           + +N+E        +  + + D + I+P ++GG
Sbjct: 61  IYVNDEDVRFSGGLATAIADGDSVTILPAVAGG 93

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	105
1vjk_A	98	Molybdopterin converting factor, subunit 1; struct	99.94
3po0_A	89	Small archaeal modifier protein 1; ubiquitin-like	99.94
1fm0_D	81	Molybdopterin convertin factor, subunit 1; molybde	99.92
2qjl_A	99	URM1, ubiquitin-related modifier 1; ubiquitin-like	99.92
2q5w_D	77	Molybdopterin converting factor, subunit 1; MOCO,	99.91
3dwg_C	93	9.5 kDa culture filtrate antigen CFP10A; sulfur ca	99.91
2l52_A	99	Methanosarcina acetivorans SAMP1 homolog; beta-grA	99.9
3rpf_C	74	Molybdopterin converting factor, subunit 1 (MOAD);	99.89
2g1e_A	90	Hypothetical protein TA0895; MOAD, molybdopterin,	99.88
1wgk_A	114	Riken cDNA 2900073H19 protein; THis domain, ubiqut	99.85
2k9x_A	110	Tburm1, uncharacterized protein; unknown function;	99.78
1v8c_A	168	MOAD related protein; riken structural genomics/pr	99.78
1rws_A	77	Hypothetical protein PF1061; residual dipolar coup	99.68
1ryj_A	70	Unknown; beta/alpha protein, structural genomics,	99.54
1f0z_A	66	THis protein; ubiquitin fold, transport protein; N	99.5
2cu3_A	64	Unknown function protein; thermus thermophilus HB8	99.47
2l32_A	74	Small archaeal modifier protein 2; protein BIN; NM	99.44
1tyg_B	87	YJBS; alpha beta barrel, protein-protein complex,	99.42
2k5p_A	78	THis protein, thiamine-biosynthesis protein; NESG,	99.21
2kl0_A	73	Putative thiamin biosynthesis THis; structural gen	99.2
2hj1_A	97	Hypothetical protein; structural genomics, PSI, pr	99.12
2kmm_A	73	Guanosine-3',5'-BIS(diphosphate) 3'- pyrophosphohy	98.54
3hvz_A	78	Uncharacterized protein; alpha-beta protein, struc	98.04
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	97.72
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	97.67
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	97.6
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	97.55
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	97.46
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	97.41
4hcn_B	98	Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidas	97.36
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	97.3
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	97.18
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	97.16
3vdz_A	111	Ubiquitin-40S ribosomal protein S27A; gadolinium,	97.08
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	97.06
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	97.06
1wwt_A	88	Threonyl-tRNA synthetase, cytoplasmic; TGS domain,	97.03
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	97.01
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	96.98
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	96.81
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	96.8
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	96.74
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	96.65
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	96.63
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	96.63
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	96.58
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	96.58
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	96.52
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	96.43
2d07_B	93	Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Ho	96.42
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	96.39
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	96.39
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	96.39
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	96.33
3v6c_B	91	Ubiquitin; structural genomics, structural genomic	96.33
2eki_A	93	DRG 1, developmentally-regulated GTP-binding prote	96.29
1v2y_A	105	3300001G02RIK protein; hypothetical protein, ubiqu	96.28
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	96.26
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	96.23
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	96.23
1wia_A	95	Hypothetical ubiquitin-like protein (riken cDNA 20	96.12
4a20_A	98	Ubiquitin-like protein MDY2; protein binding, GET-	96.11
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	95.99
1we6_A	111	Splicing factor, putative; structural genomics, ub	95.94
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	95.86
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	95.85
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	95.85
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	95.81
2eke_C	106	Ubiquitin-like protein SMT3; UBC9, SUMO binding mo	95.81
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	95.76
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	95.74
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	95.65
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	95.62
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	95.58
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	95.53
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	95.43
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	95.32
1tke_A	224	Threonyl-tRNA synthetase; ligase; 1.46A {Escherich	95.22
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	95.11
2daf_A	118	FLJ35834 protein; hypothetical protein FLJ35834, u	95.02
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	94.95
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	94.83
3plu_A	93	Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-	94.75
3a4r_A	79	Nfatc2-interacting protein; ubiquitin fold, coiled	94.61
2gow_A	125	HCG-1 protein, ubiquitin-like protein 3; BC059385,	94.52
1x1m_A	107	Ubiquitin-like protein SB132; structural genomics,	94.47
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	94.34
1v5t_A	90	8430435I17RIK protein; hypothetical protein, ubiqu	94.27
1wgh_A	116	Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fo	94.2
3goe_A	82	DNA repair protein RAD60; SUMO-like domain, sumoyl	94.17
1wgg_A	96	Ubiquitin carboxyl-terminal hydrolase 14; ubiquiti	93.95
1uh6_A	100	Ubiquitin-like 5; beta-grAsp fold, structural geno	93.81
1wm3_A	72	Ubiquitin-like protein SMT3B; ubiquitin fold, half	93.72
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	92.77
2bps_A	81	YUKD protein; ubiquitin-like protein, ubiquitin; 2	93.64
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	93.5
2kdb_A	99	Homocysteine-responsive endoplasmic reticulum- res	92.86
3u5c_f	152	40S ribosomal protein S31; translation, ribosome,	92.85
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	92.83
1wxv_A	92	BAG-family molecular chaperone regulator-1; struct	92.65
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	92.47
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	92.38
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	92.31
2dzj_A	88	Synaptic glycoprotein SC2; ubiquitin-like fold, st	92.29
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	92.23
3kyd_D	115	Small ubiquitin-related modifier 1; SUMO, thioeste	92.0
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	91.38
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	91.1
1wju_A	100	NEDD8 ultimate buster-1; ubiquitin-like domain, st	90.83
1se9_A	126	Ubiquitin family; ubiquitin-like, cell-free, wheat	90.73
3tix_A	207	Ubiquitin-like protein SMT3, RNA-induced transcri	90.38
2jxx_A	97	Nfatc2-interacting protein; nuclear factor of acti	90.37
2k6p_A	92	Uncharacterized protein HP_1423; alpha-L motif, RN	90.24
1p9k_A	79	ORF, hypothetical protein; alfal motif, RNA-bindin	89.61
4ejq_A	154	Kinesin-like protein KIF1A; homodimer, FHA domain,	89.55
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	89.2
3fm8_A	124	Kinesin-like protein KIF13B; kinesin, GAP, GTPase	89.02
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	88.79
1wjn_A	97	Tubulin-folding protein TBCE; ubiquitin-like domai	88.45
4egx_A	184	Kinesin-like protein KIF1A; FHA domain, transport	87.74
2fnj_B	118	Transcription elongation factor B polypeptide 2; b	87.22
1dm9_A	133	Hypothetical 15.5 KD protein in MRCA-PCKA intergen	87.19
2lxa_A	87	Ubiquitin-like protein MDY2; ubiquitin-like domain	86.29
1oey_A	83	P67-PHOX, neutrophil cytosol factor 2; immune syst	85.23
1wxq_A	397	GTP-binding protein; structural genomics, riken st	84.36
2kzr_A	86	Ubiquitin thioesterase OTU1; structural genomics,	83.84
1wln_A	120	Afadin; beta sandwich, FHA domain, structural geno	83.54
1c05_A	159	Ribosomal protein S4 delta 41; two subdomains, uni	83.43
2pie_A	138	E3 ubiquitin-protein ligase RNF8; FHA domain, comp	82.09
4dbg_A	105	Ranbp-type and C3HC4-type zinc finger-containing;	81.79

>1vjk_A Molybdopterin converting factor, subunit 1; structural genomics, PSI, protein structure INI southeast collaboratory for structural genomics; 1.51A {Pyrococcus furiosus} SCOP: d.15.3.1

Probab=99.94  E-value=5.6e-27  Score=151.92  Aligned_cols=83  Identities=28%  Similarity=0.546  Sum_probs=74.6

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhc--------ceeEEEECCeecCCCCccCCCC
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIR--------GCMVLALNEEYTNASVIVNEKD   94 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~--------~~~~vaVNg~~v~~d~~L~dGD   94 (105)
                      .+|+|+|+|||.||+++|..+++++++++.|+++|++.|..+||++++.+        +.++|+|||++++++++|++||
T Consensus         8 ~~~~v~V~~FA~lre~~g~~~~~~e~~~~~Tv~~Ll~~L~~~~p~l~~~l~~~~g~~~~~v~v~VNg~~v~~~~~L~dGD   87 (98)
T 1vjk_A            8 GSVKVKVKYFARFRQLAGVDEEEIELPEGARVRDLIEEIKKRHEKFKEEVFGEGYDEDADVNIAVNGRYVSWDEELKDGD   87 (98)
T ss_dssp             -CEEEEEEECTHHHHHHSSSEEEEEECTTCBHHHHHHHHHHHCGGGGGSCBCSSSCTTSSBEEEETTBCCCTTCBCCTTC
T ss_pred             CcEEEEEEEhHHHHHHhCCCeEEEECCCCCCHHHHHHHHHhHChhHHHHhhccccccCCcEEEEECCEECCCCCCCCCCC
Confidence            46999999999999999998999999988999999999999999887653        6799999999999999999999


Q ss_pred             EEEEEcCCCCC
Q 034054           95 ELAIIPPISGG  105 (105)
Q Consensus        95 eVaiiPPvsGG  105 (105)
                      +|+|||||+||
T Consensus        88 eV~i~ppv~GG   98 (98)
T 1vjk_A           88 VVGVFPPVSGG   98 (98)
T ss_dssp             EEEEESCC---
T ss_pred             EEEEECCCCCC
Confidence            99999999998

>3po0_A Small archaeal modifier protein 1; ubiquitin-like protein, protein binding; 1.55A {Haloferax volcanii} PDB: 2l83_A

Probab=99.94  E-value=4.6e-26  Score=144.71  Aligned_cols=80  Identities=28%  Similarity=0.466  Sum_probs=74.3

Q ss_pred             EEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchh-h-------cceeEEEECCeecCCCCccCCCCEEE
Q 034054           26 QIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEE-I-------RGCMVLALNEEYTNASVIVNEKDELA   97 (105)
Q Consensus        26 ~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~-~-------~~~~~vaVNg~~v~~d~~L~dGDeVa   97 (105)
                      +|+|+|||.||+++|+.+++++++++.|+++|+++|..+||++++ +       ++.++|+|||++++++++|++||+|+
T Consensus         2 ~i~V~~fa~lre~~g~~~~~~~~~~~~Tv~~ll~~L~~~~p~~~~~~l~~~g~l~~~~~v~VN~~~v~~~~~l~~gDeV~   81 (89)
T 3po0_A            2 SMEWKLFADLAEVAGSRTVRVDVDGDATVGDALDALVGAHPALESRVFGDDGELYDHINVLRNGEAAALGEATAAGDELA   81 (89)
T ss_dssp             EEEEEECHHHHHHHTCSEEEEECCTTCBHHHHHHHHHHHCGGGHHHHBCTTSCBCTTSEEEETTEECCTTSBCCTTCEEE
T ss_pred             EEEEEEcHHHHHHhCCCeEEEECCCCCcHHHHHHHHHHHCcHHHHHHhccCCcccccEEEEECCEECCCCcccCCCCEEE
Confidence            589999999999999989999999899999999999999998864 2       24589999999999999999999999


Q ss_pred             EEcCCCCC
Q 034054           98 IIPPISGG  105 (105)
Q Consensus        98 iiPPvsGG  105 (105)
                      |||||+||
T Consensus        82 i~Ppv~GG   89 (89)
T 3po0_A           82 LFPPVSGG   89 (89)
T ss_dssp             EECCCSCC
T ss_pred             EECCCCCC
Confidence            99999998

>1fm0_D Molybdopterin convertin factor, subunit 1; molybdenum cofactor biosynthesis, transferase; 1.45A {Escherichia coli} SCOP: d.15.3.1 PDB: 1fma_D 1jw9_D 1jwa_D* 1jwb_D* 3bii_D 1nvi_D

Probab=99.92  E-value=4.4e-25  Score=137.58  Aligned_cols=79  Identities=28%  Similarity=0.432  Sum_probs=72.0

Q ss_pred             EEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhc--ceeEEEECCeecCCCCccCCCCEEEEEcCCC
Q 034054           26 QIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIR--GCMVLALNEEYTNASVIVNEKDELAIIPPIS  103 (105)
Q Consensus        26 ~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~--~~~~vaVNg~~v~~d~~L~dGDeVaiiPPvs  103 (105)
                      +|+|+|||.||+++|+.+++++ +++.|+.+|++.|..+||++++.+  ..++|+|||++++++++|++||+|+||||++
T Consensus         1 ~v~V~~fa~lr~~~g~~~~~~~-~~~~tv~~ll~~L~~~~p~~~~~l~~~~~~v~vN~~~v~~~~~l~~gD~V~i~Ppv~   79 (81)
T 1fm0_D            1 MIKVLFFAQVRELVGTDATEVA-ADFPTVEALRQHMAAQSDRWALALEDGKLLAAVNQTLVSFDHPLTDGDEVAFFPPVT   79 (81)
T ss_dssp             CEEEEECHHHHHHHTCSEEEEC-SCCSBHHHHHHHHHTTCHHHHHHHCCTTCEEEETTEECCTTCBCCTTCEEEEECCCC
T ss_pred             CEEEEEeHHHHHHhCCCeEEEc-CCCCCHHHHHHHHHHHChhHHHHhcCCCEEEEECCEECCCCCCCCCCCEEEEeCCCC
Confidence            4899999999999998888887 778999999999999999887653  3579999999999999999999999999999


Q ss_pred             CC
Q 034054          104 GG  105 (105)
Q Consensus       104 GG  105 (105)
                      ||
T Consensus        80 GG   81 (81)
T 1fm0_D           80 GG   81 (81)
T ss_dssp             CC
T ss_pred             CC
Confidence            98

>2qjl_A URM1, ubiquitin-related modifier 1; ubiquitin-like protein, signaling protein; 1.44A {Saccharomyces cerevisiae} PDB: 2pko_A 2ax5_A

Probab=99.92  E-value=8e-25  Score=142.07  Aligned_cols=81  Identities=16%  Similarity=0.286  Sum_probs=72.1

Q ss_pred             eEEEEEecHHhHhhc-CCCceEEEeC--CCCCHHHHHHHHHHhCCCch----------hhcceeEEEECCeecC----CC
Q 034054           25 IQIKVLFFARARDLT-GLTDMPLEVS--CGSTTQDCLNKLIARFPNLE----------EIRGCMVLALNEEYTN----AS   87 (105)
Q Consensus        25 m~V~V~~fg~lre~~-g~~~~~vev~--~~~tv~dLl~~L~~~~p~l~----------~~~~~~~vaVNg~~v~----~d   87 (105)
                      |+|+|+|||.+|+++ |+++++++++  ++.|+++|+++|.++||++.          .+++.+.++||++++.    +|
T Consensus         2 M~i~V~~fa~lre~~~g~~~~~~~l~~~~~~Tv~~L~~~L~~~~~~~~~~l~~~~~~~~lr~~~~v~VN~~~~~~~~~~d   81 (99)
T 2qjl_A            2 VNVKVEFLGGLDAIFGKQRVHKIKMDKEDPVTVGDLIDHIVSTMINNPNDVSIFIEDDSIRPGIITLINDTDWELEGEKD   81 (99)
T ss_dssp             EEEEEEEETTGGGGTTTCCEEEEEECSCSCCBHHHHHHHHHHHTCSSGGGHHHHEETTEECTTEEEEETTEEGGGGTGGG
T ss_pred             cEEEEEEchHHHHHhCCCcEEEEecCCCCCCcHHHHHHHHHHHCchhhHHHhhhccCCccccCeEEEECCEEccccCCCC
Confidence            899999999999999 7888889988  78999999999999998632          2345688999999874    68


Q ss_pred             CccCCCCEEEEEcCCCCC
Q 034054           88 VIVNEKDELAIIPPISGG  105 (105)
Q Consensus        88 ~~L~dGDeVaiiPPvsGG  105 (105)
                      ++|++||+|+||||++||
T Consensus        82 ~~L~dgDeVa~~Ppv~GG   99 (99)
T 2qjl_A           82 YILEDGDIISFTSTLHGG   99 (99)
T ss_dssp             CBCCTTCEEEEEECTTCC
T ss_pred             cCcCCCCEEEEECCCCCC
Confidence            999999999999999998

>2q5w_D Molybdopterin converting factor, subunit 1; MOCO, MPT synthase, MOAD, MOAE, transferase, molybdenum cofactor biosynthesis; 2.00A {Staphylococcus aureus} PDB: 2qie_B*

Probab=99.91  E-value=8.4e-25  Score=135.28  Aligned_cols=77  Identities=31%  Similarity=0.573  Sum_probs=70.9

Q ss_pred             EEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEcCCCCC
Q 034054           27 IKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        27 V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiPPvsGG  105 (105)
                      |+|+|||.||+++|..+++++++++.|+.+|++.|..+||++..+  .++++|||++++.++.|++||+|+||||++||
T Consensus         1 i~V~~fa~lr~~~g~~~~~~~~~~~~tv~~ll~~l~~~~p~~~~v--~~~v~vNg~~v~~~~~L~~gD~V~i~ppv~GG   77 (77)
T 2q5w_D            1 MKVLYFAEIKDILQKAQEDIVLEQALTVQQFEDLLFERYPQINNK--KFQVAVNEEFVQKSDFIQPNDTVALIPPVSGG   77 (77)
T ss_dssp             CEEECCHHHHHHHTCSEEECCCSSCEEHHHHHHHHHHHCGGGTTC--CCEEEETTEEECTTSEECTTCEEEEECSCCCC
T ss_pred             CEEEEeHHHHHHhCCCEEEEECCCCCCHHHHHHHHHHHCcchhcc--eEEEEECCEECCCCCCcCCCCEEEEECCCCCC
Confidence            589999999999999888999988999999999999999876543  35899999999999999999999999999998

>3dwg_C 9.5 kDa culture filtrate antigen CFP10A; sulfur carrier protein complex, beta-grAsp fold, amino-acid biosynthesis; HET: PLP; 1.53A {Mycobacterium tuberculosis} PDB: 3dwm_A

Probab=99.91  E-value=2.4e-24  Score=137.87  Aligned_cols=79  Identities=20%  Similarity=0.365  Sum_probs=69.0

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhh----------cceeEEEECCeecC----CCCcc
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEI----------RGCMVLALNEEYTN----ASVIV   90 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~----------~~~~~vaVNg~~v~----~d~~L   90 (105)
                      |+|+|+|||.||+++|.. .+++. ++.|+++|++.|..+||++++.          ++.++|+|||++++    .+++|
T Consensus         1 M~v~V~~fa~lr~~~g~~-~~~~~-~~~Tv~~ll~~L~~~~p~l~~~l~~~~~~g~~~~~~~v~VN~~~v~~~~~~~~~L   78 (93)
T 3dwg_C            1 MNVTVSIPTILRPHTGGQ-KSVSA-SGDTLGAVISDLEANYSGISERLMDPSSPGKLHRFVNIYVNDEDVRFSGGLATAI   78 (93)
T ss_dssp             -CEEEECCGGGGGGTTTC-SEEEE-CCSBHHHHHHHHHHHSTTHHHHHBCSSSTTSBCTTEEEEETTEEGGGTTGGGCBC
T ss_pred             CEEEEEEeHHHHHHhCCC-eEEec-CCCCHHHHHHHHHHHChhHHHHHhccccCCcccCCEEEEECCEEccCcCCCCcCC
Confidence            789999999999999963 46774 5789999999999999988653          23699999999997    58999


Q ss_pred             CCCCEEEEEcCCCCC
Q 034054           91 NEKDELAIIPPISGG  105 (105)
Q Consensus        91 ~dGDeVaiiPPvsGG  105 (105)
                      ++||+|+|||||+||
T Consensus        79 ~~gDeV~i~Ppv~GG   93 (93)
T 3dwg_C           79 ADGDSVTILPAVAGG   93 (93)
T ss_dssp             CTTCEEEEEECCTTC
T ss_pred             CCCCEEEEECCCCCC
Confidence            999999999999999

>2l52_A Methanosarcina acetivorans SAMP1 homolog; beta-grAsp fold, protein binding, E1-like, SAMP activator, ELSA, adenylation, ubiquitin; NMR {Methanosarcina acetivorans}

Probab=99.90  E-value=2.6e-23  Score=135.13  Aligned_cols=80  Identities=29%  Similarity=0.617  Sum_probs=69.8

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhh-------ccee-------EEEECCeec----
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEI-------RGCM-------VLALNEEYT----   84 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~-------~~~~-------~vaVNg~~v----   84 (105)
                      .+|+|+|+|||.||+++|.++.+++   +.|+.+|++.|..+||++++.       ++.+       +|+|||+++    
T Consensus         2 ~mm~v~V~~fa~lr~~~g~~~~~l~---~~tv~~ll~~L~~~~p~l~~~l~~~g~l~~~v~~~~~~~~v~VNg~~v~~~~   78 (99)
T 2l52_A            2 HMAEVKVKLFANLREAAGTPELPLS---GEKVIDVLLSLTDKYPALKYVIFEKGDEKSEILILCGSINILINGNNIRHLE   78 (99)
T ss_dssp             CCCEEEEEECTHHHHHHSSSEEEEE---CSSHHHHHHHHHHHCGGGTTTSBCSCCTTSSCCCBCSSCEEEETTSCGGGTT
T ss_pred             CceEEEEEEeHHHHHHhCCCeEEEe---CCcHHHHHHHHHHHChhHHHHHhcccccccceeccccccEEEECCEEccccC
Confidence            3589999999999999998766555   689999999999999987652       2346       899999999    


Q ss_pred             CCCCccCCCCEEEEEcCCCCC
Q 034054           85 NASVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        85 ~~d~~L~dGDeVaiiPPvsGG  105 (105)
                      ..+++|++||+|+|||||+||
T Consensus        79 ~~~~~L~~gD~V~i~ppv~GG   99 (99)
T 2l52_A           79 GLETLLKDSDEIGILPPVSGG   99 (99)
T ss_dssp             STTSCCCTTEEEEEECCCSCC
T ss_pred             CCCCCCCCCCEEEEECCCCCC
Confidence            578999999999999999998

>3rpf_C Molybdopterin converting factor, subunit 1 (MOAD); MCSG, PSI-biology, structural genomics, midwest center for S genomics, transferase; 1.90A {Helicobacter pylori}

Probab=99.89  E-value=1e-23  Score=130.25  Aligned_cols=73  Identities=22%  Similarity=0.454  Sum_probs=65.1

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCee-cCCCCccCCCCEEEEEcCCC
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEY-TNASVIVNEKDELAIIPPIS  103 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~-v~~d~~L~dGDeVaiiPPvs  103 (105)
                      |+|+|+|||.+|+      +++++ ++.|+++|+++|..+ |+++++++.++++|||++ .+++++|++||+|+||||++
T Consensus         1 M~v~V~~fa~l~~------~~~e~-~~~tv~~ll~~L~~~-~~l~~~l~~~~vavN~~~v~~~~~~l~~gDeV~i~Ppvs   72 (74)
T 3rpf_C            1 MMVEVRFFGPIKE------ENFFI-KANDLKELRAILQEK-EGLKEWLGVCAIALNDHLIDNLNTPLKDGDVISLLPPVC   72 (74)
T ss_dssp             CEEEEEECTTCCC------CCEEE-ECSSHHHHHHHHHTC-TTTTTTTTTCEEEESSSEECCTTCCCCTTCEEEEECCBC
T ss_pred             CEEEEEEEeecce------eEEee-CCCcHHHHHHHHHHC-cCHHHHhhccEEEECCEEcCCCCcCCCCCCEEEEECCCC
Confidence            7899999999998      34666 678999999999875 778777788999999999 67899999999999999999


Q ss_pred             CC
Q 034054          104 GG  105 (105)
Q Consensus       104 GG  105 (105)
                      ||
T Consensus        73 GG   74 (74)
T 3rpf_C           73 GG   74 (74)
T ss_dssp             CC
T ss_pred             CC
Confidence            99

>2g1e_A Hypothetical protein TA0895; MOAD, molybdopterin, transferase; NMR {Thermoplasma acidophilum} PDB: 2k22_A

Probab=99.88  E-value=1.1e-22  Score=128.73  Aligned_cols=77  Identities=17%  Similarity=0.341  Sum_probs=68.8

Q ss_pred             EEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhh--------cceeEEEECCeecC----CCCccCCCC
Q 034054           27 IKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEI--------RGCMVLALNEEYTN----ASVIVNEKD   94 (105)
Q Consensus        27 V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~--------~~~~~vaVNg~~v~----~d~~L~dGD   94 (105)
                      |+|+|||.||+++|.++.  +++.+.|+.+|++.|..+||++++.        ++.++|+|||++++    .+++|++||
T Consensus         2 v~V~~fa~lr~~~g~~~~--~~~~~~tv~~ll~~l~~~~p~~~~~~l~~~~g~~~~v~v~vN~~~v~~~~~~~~~l~~gD   79 (90)
T 2g1e_A            2 VTVRYYATLRPITKKKEE--TFNGISKISELLERLKVEYGSEFTKQMYDGNNLFKNVIILVNGNNITSMKGLDTEIKDDD   79 (90)
T ss_dssp             EEEEECSTHHHHHTCSEE--EESSCCBHHHHHHHHHHHSCHHHHHHHCCSSCSTTTCEEEESSSBGGGTCSSSCBCCTTC
T ss_pred             EEEEEeHHHHHHcCCCEE--EcCCCCcHHHHHHHHHHHCcchhhhccccccCcCcceEEEECCEEccccCCCCcCCCCCC
Confidence            899999999999997544  5666789999999999999988765        26789999999996    689999999


Q ss_pred             EEEEEcCCCCC
Q 034054           95 ELAIIPPISGG  105 (105)
Q Consensus        95 eVaiiPPvsGG  105 (105)
                      +|+|||||+||
T Consensus        80 ~V~i~ppv~GG   90 (90)
T 2g1e_A           80 KIDLFPPVAGG   90 (90)
T ss_dssp             EEEEECCTTCC
T ss_pred             EEEEeCCCCCC
Confidence            99999999998

>1wgk_A Riken cDNA 2900073H19 protein; THis domain, ubiqutin-like fold, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.15.3.3 PDB: 1xo3_A

Probab=99.85  E-value=2.3e-21  Score=129.27  Aligned_cols=83  Identities=14%  Similarity=0.181  Sum_probs=72.5

Q ss_pred             CceEEEEEecHHhHhhcCC-CceEEEeCC---CCCHHHHHHHHHHhCCCchh--------hcceeEEEECCeec----CC
Q 034054           23 SSIQIKVLFFARARDLTGL-TDMPLEVSC---GSTTQDCLNKLIARFPNLEE--------IRGCMVLALNEEYT----NA   86 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~-~~~~vev~~---~~tv~dLl~~L~~~~p~l~~--------~~~~~~vaVNg~~v----~~   86 (105)
                      ++|+|+|+|||.||+++|. ++.+++++.   +.|+++|+++|.++||.+++        +++.++|+||++.+    ..
T Consensus        10 ~~M~v~V~~~~~Lr~~~g~~~~~~vel~~~~~~~TV~~Ll~~L~~~~~~~~~~lf~~~g~lr~~i~VlVN~~di~~l~gl   89 (114)
T 1wgk_A           10 APLCVKVEFGGGAELLFDGVKKHQVALPGQEEPWDIRNLLVWIKKNLLKERPELFIQGDSVRPGILVLINDADWELLGEL   89 (114)
T ss_dssp             CCEEEEEEECTTTGGGTTTCSEEEEEECCCSSCCBHHHHHHHHTTTTCCSCHHHHCCSSSCCSSEEEEESSSBHHHHCTT
T ss_pred             CCcEEEEEEchHHHHHhCCceEEEEEeCCCCCCCCHHHHHHHHHHHccchhHhhCccCCcccCCeEEEECCeeeeccCCc
Confidence            4599999999999999995 466789883   36999999999999986542        57789999999976    47


Q ss_pred             CCccCCCCEEEEEcCCCCC
Q 034054           87 SVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        87 d~~L~dGDeVaiiPPvsGG  105 (105)
                      |++|++||+|+||||++||
T Consensus        90 dt~L~dGDeV~iip~vaGG  108 (114)
T 1wgk_A           90 DYQLQDQDSILFISTLHGG  108 (114)
T ss_dssp             TCBCCSSEEEEEEECSCCC
T ss_pred             CcCCCCCCEEEEeCCCCCC
Confidence            9999999999999999998

>2k9x_A Tburm1, uncharacterized protein; unknown function; NMR {Trypanosoma brucei}

Probab=99.78  E-value=2e-19  Score=119.30  Aligned_cols=81  Identities=17%  Similarity=0.290  Sum_probs=71.3

Q ss_pred             ceEEEEEecHHhHhhcCCCceEEEeCC----CCCHHHHHHHHHHhCCCch----------hhcceeEEEECCeec----C
Q 034054           24 SIQIKVLFFARARDLTGLTDMPLEVSC----GSTTQDCLNKLIARFPNLE----------EIRGCMVLALNEEYT----N   85 (105)
Q Consensus        24 ~m~V~V~~fg~lre~~g~~~~~vev~~----~~tv~dLl~~L~~~~p~l~----------~~~~~~~vaVNg~~v----~   85 (105)
                      +|+|+|+|||.|++++|+ +.++++|+    +.|+++|+++|.++||.++          ++++.+.|+|||+.+    .
T Consensus         4 ~m~v~V~f~g~l~~l~g~-~~~v~l~~~~g~~~TV~dLl~~L~~~~~~~r~~lf~~~g~~~lrpgIlVLVNg~d~e~l~g   82 (110)
T 2k9x_A            4 HNHITVQFAGGCELLFAK-QTSLQLDGVVPTGTNLNGLVQLLKTNYVKERPDLLVDQTGQTLRPGILVLVNSCDAEVVGG   82 (110)
T ss_dssp             SSCCEEEEESSCGGGTTS-CSEECCCCSCGGGCCHHHHHHHHTTTTCCSCHHHHBCSSSSSBCTTEEEEESSSBHHHHTS
T ss_pred             ccEEEEEEEecHHHHhCC-eEEEEeCCcCCCCccHHHHHHHHHHHccccchhhEecCCCcccCCCeEEEECCeeeeccCC
Confidence            499999999999999995 67899984    3699999999999997542          256779999999998    4


Q ss_pred             CCCccCCCCEEEEEcCCCCC
Q 034054           86 ASVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        86 ~d~~L~dGDeVaiiPPvsGG  105 (105)
                      .+++|++||+|+||||++||
T Consensus        83 ldt~L~dgD~V~fistlhg~  102 (110)
T 2k9x_A           83 MDYVLNDGDTVEFISTLHGG  102 (110)
T ss_dssp             SCCCCCSSCEEEEEECCCCC
T ss_pred             cccCCCCcCEEEEeCCCccc
Confidence            79999999999999999998

>1v8c_A MOAD related protein; riken structural genomics/proteomics initiative, RSGI, structural genomics, protein binding; 1.60A {Thermus thermophilus} SCOP: d.15.3.1 d.129.5.1

Probab=99.78  E-value=4.4e-19  Score=125.07  Aligned_cols=75  Identities=31%  Similarity=0.500  Sum_probs=67.2

Q ss_pred             EEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhh-------cceeEEEECCeecCC----CCccCCCCEE
Q 034054           28 KVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEI-------RGCMVLALNEEYTNA----SVIVNEKDEL   96 (105)
Q Consensus        28 ~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~-------~~~~~vaVNg~~v~~----d~~L~dGDeV   96 (105)
                      +|+|||.||+++|+.  +++++. .|+.+|++.|..+||+++..       .+.++|+|||++++.    +++|++||+|
T Consensus         2 ~V~~FA~Lre~~G~~--~~ev~~-~TV~dLl~~L~~~~p~l~~~l~~~~~l~~~v~VaVNg~~v~~~~~~dt~L~dGDeV   78 (168)
T 1v8c_A            2 KVNLYATFRDLTGKS--QLELPG-ATVGEVLENLVRAYPALKEELFEGEGLAERVSVFLEGRDVRYLQGLSTPLSPGATL   78 (168)
T ss_dssp             EEEECTHHHHHHTCS--EEECCC-SBHHHHHHHHHHHCGGGHHHHEETTEECTTCEEEETTEEGGGTTGGGCBCCTTCEE
T ss_pred             EEEEeHHHHHHhCCC--eEEECC-CcHHHHHHHHHhhChhhhhhhhcccccCCcEEEEECCEECCCcCCCccCCCCCCEE
Confidence            799999999999975  456665 89999999999999988763       467899999999987    8999999999


Q ss_pred             EEEcCCCCC
Q 034054           97 AIIPPISGG  105 (105)
Q Consensus        97 aiiPPvsGG  105 (105)
                      +|||||+||
T Consensus        79 ai~PpVsGG   87 (168)
T 1v8c_A           79 DLFPPVAGG   87 (168)
T ss_dssp             EEECSCCSE
T ss_pred             EEECccccc
Confidence            999999998

>1rws_A Hypothetical protein PF1061; residual dipolar couplings, structural genomics, unknown FUN; NMR {Pyrococcus furiosus} SCOP: d.15.3.2 PDB: 1sf0_A

Probab=99.68  E-value=2.1e-18  Score=107.27  Aligned_cols=68  Identities=19%  Similarity=0.260  Sum_probs=61.5

Q ss_pred             ecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEcCCCCC
Q 034054           31 FFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        31 ~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiPPvsGG  105 (105)
                      -||.+|+.+|...+.++++++.|+.+|++.|.  +|     .+.++|+|||++++.++.|++||+|+|||||+||
T Consensus        10 ~fa~~~e~~~~n~~~~~~~~~~Tv~dLl~~L~--~~-----~~~v~VavNg~~v~~~~~L~dGD~V~i~ppv~GG   77 (77)
T 1rws_A           10 KMIKVKVIGRNIEKEIEWREGMKVRDILRAVG--FN-----TESAIAKVNGKVVLEDDEVKDGDFVEVIPVVSGG   77 (77)
T ss_dssp             CCCCCBSTTCCCCCCCCCCSSCCHHHHHHTTT--CS-----SCSSCEEETTEEECSSSCCCSSCCCBCSCCCCCC
T ss_pred             HHHHHHHhcccCCEEEECCCCCcHHHHHHHhC--CC-----CcCEEEEECCEECCCCCCcCCCCEEEEEcccccC
Confidence            48999999999999999999999999999986  33     2457899999999999999999999999999998

>1ryj_A Unknown; beta/alpha protein, structural genomics, protein structure initiative, OCSP, NESG, PSI; NMR {Methanothermococcusthermolithotrophicus} SCOP: d.15.3.2

Probab=99.54  E-value=1.2e-14  Score=88.64  Aligned_cols=56  Identities=21%  Similarity=0.216  Sum_probs=49.1

Q ss_pred             ceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEcCCCCC
Q 034054           43 DMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        43 ~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiPPvsGG  105 (105)
                      +.+++++++.|+.+|+++|...       .+.+++++||++++.++.|++||+|+|||||+||
T Consensus        15 ~~~~~~~~~~tv~~Ll~~l~~~-------~~~v~vavN~~~v~~~~~L~~gD~V~ii~~V~GG   70 (70)
T 1ryj_A           15 KKILESGAPRRIKDVLGELEIP-------IETVVVKKNGQIVIDEEEIFDGDIIEVIRVIYGG   70 (70)
T ss_dssp             EEEEEESSCCBHHHHHHHTTCC-------TTTEEEEETTEECCTTSBCCTTCEEEEEECTTCC
T ss_pred             ceeEECCCCCcHHHHHHHhCCC-------CCCEEEEECCEECCCcccCCCCCEEEEEeccccC
Confidence            4568888889999999998532       1457899999999999999999999999999998

>1f0z_A THis protein; ubiquitin fold, transport protein; NMR {Escherichia coli} SCOP: d.15.3.2 PDB: 1zud_2

Probab=99.50  E-value=1.3e-14  Score=87.37  Aligned_cols=55  Identities=25%  Similarity=0.472  Sum_probs=47.9

Q ss_pred             eEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC----CCccCCCCEEEEEcCCCCC
Q 034054           44 MPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA----SVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        44 ~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~----d~~L~dGDeVaiiPPvsGG  105 (105)
                      +.++++++.|+.+|++.|...       .+.++|++|+++++.    ++.|++||+|+|||||+||
T Consensus         8 ~~~~~~~~~tv~~ll~~l~~~-------~~~v~vavN~~~v~~~~~~~~~L~~gD~v~i~~~V~GG   66 (66)
T 1f0z_A            8 QAMQCAAGQTVHELLEQLDQR-------QAGAALAINQQIVPREQWAQHIVQDGDQILLFQVIAGG   66 (66)
T ss_dssp             CEECCCTTCCHHHHHHHHTCC-------CSSEEEEETTEEECHHHHTTCCCCTTEEECEEESCCCC
T ss_pred             EEEEcCCCCcHHHHHHHcCCC-------CCCEEEEECCEECCchhcCCcCCCCCCEEEEEeecccC
Confidence            467788889999999999532       246789999999985    7999999999999999998

>2cu3_A Unknown function protein; thermus thermophilus HB8, structural genomics, riken structu genomics/proteomics initiative, RSGI, NPPSFA; 1.70A {Thermus thermophilus} SCOP: d.15.3.2 PDB: 2htm_E

Probab=99.47  E-value=4.1e-14  Score=84.79  Aligned_cols=54  Identities=20%  Similarity=0.282  Sum_probs=45.2

Q ss_pred             eEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC----CccCCCCEEEEEcCCCCC
Q 034054           44 MPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS----VIVNEKDELAIIPPISGG  105 (105)
Q Consensus        44 ~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d----~~L~dGDeVaiiPPvsGG  105 (105)
                      +.+++ ++.|+.+|++.|...       .+.++|++|+++++.+    +.|++||+|+|||||+||
T Consensus         7 ~~~~~-~~~tv~~ll~~l~~~-------~~~v~vavN~~~v~~~~~~~~~L~dgD~v~i~~~V~GG   64 (64)
T 2cu3_A            7 EPRPL-EGKTLKEVLEEMGVE-------LKGVAVLLNEEAFLGLEVPDRPLRDGDVVEVVALMQGG   64 (64)
T ss_dssp             EEECC-TTCCHHHHHHHHTBC-------GGGEEEEETTEEEEGGGCCCCCCCTTCEEEEEECCCC-
T ss_pred             EEEEc-CCCcHHHHHHHcCCC-------CCcEEEEECCEECCccccCCcCCCCCCEEEEEeecccC
Confidence            46677 779999999999532       2467899999999854    899999999999999998

>2l32_A Small archaeal modifier protein 2; protein BIN; NMR {Haloferax volcanii}

Probab=99.44  E-value=6.4e-14  Score=86.67  Aligned_cols=66  Identities=14%  Similarity=0.158  Sum_probs=57.2

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEcCCCC
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPPISG  104 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiPPvsG  104 (105)
                      |+|+|++||.       ....+++++++|++||++.|...-       +.+++++||+++++|..+. ||+|.|++.++|
T Consensus         1 M~v~Vkl~g~-------~~~~~ev~~g~Tv~dLL~~Lgl~~-------~~VvV~vNG~~v~~d~~l~-GD~VeIv~~V~G   65 (74)
T 2l32_A            1 MNVTVEVVGE-------ETSEVAVDDDGTYADLVRAVDLSP-------HEVTVLVDGRPVPEDQSVE-VDRVKVLRLIKG   65 (74)
T ss_dssp             CEEEEECSSS-------SEEEEECSTTCSHHHHHHTTCCCS-------SCCCEECCCCCCCTTSSSC-CCCEEECSSCSC
T ss_pred             CEEEEEEeCc-------cceeEEcCCCCcHHHHHHHcCCCc-------ceEEEEECCEECCHHHCCC-CCEEEEEEeecc
Confidence            8899999976       356789999999999999886432       3468999999999999885 999999999999


Q ss_pred             C
Q 034054          105 G  105 (105)
Q Consensus       105 G  105 (105)
                      |
T Consensus        66 ~   66 (74)
T 2l32_A           66 G   66 (74)
T ss_dssp             C
T ss_pred             c
Confidence            8

>1tyg_B YJBS; alpha beta barrel, protein-protein complex, THis, BIOS protein; 3.15A {Bacillus subtilis} SCOP: d.15.3.2

Probab=99.42  E-value=1.1e-13  Score=88.08  Aligned_cols=56  Identities=20%  Similarity=0.273  Sum_probs=47.0

Q ss_pred             ceEEEeCCC-CCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC----CCccCCCCEEEEEcCCCCC
Q 034054           43 DMPLEVSCG-STTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA----SVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        43 ~~~vev~~~-~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~----d~~L~dGDeVaiiPPvsGG  105 (105)
                      .+.++++++ .|+.+|++.|...       .+.++|+|||++++.    ++.|++||+|+|||||+||
T Consensus        27 Ge~~el~~~~~Tv~dLL~~L~~~-------~~~vaVavNg~iV~~~~~~~~~L~dGD~Vei~~~V~GG   87 (87)
T 1tyg_B           27 GKDVKWKKDTGTIQDLLASYQLE-------NKIVIVERNKEIIGKERYHEVELCDRDVIEIVHFVGGG   87 (87)
T ss_dssp             TEEECCSSSCCBHHHHHHHTTCT-------TSCCEEEETTEEECGGGTTTSBCCSSSEEEEEEECCC-
T ss_pred             CEEEECCCCCCcHHHHHHHhCCC-------CCCEEEEECCEECChhhcCCcCCCCCCEEEEEcccccC
Confidence            457888887 9999999998532       245789999999985    6899999999999999998

>2k5p_A THis protein, thiamine-biosynthesis protein; NESG, GMR137, structural genomics, PSI-2, protein structure initiative; NMR {Geobacter metallireducens gs-15} PDB: 3cwi_A

Probab=99.21  E-value=9.2e-12  Score=77.59  Aligned_cols=56  Identities=20%  Similarity=0.264  Sum_probs=47.3

Q ss_pred             eEEEeC--CCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC----CccCCCCEEEEEcCCCCC
Q 034054           44 MPLEVS--CGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS----VIVNEKDELAIIPPISGG  105 (105)
Q Consensus        44 ~~vev~--~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d----~~L~dGDeVaiiPPvsGG  105 (105)
                      +.++++  ++.|+.+|++.|....|      +.++|++||++++.+    +.|++||+|.|+|||+||
T Consensus         8 e~~e~~~~~~~Tl~~LL~~l~~~~~------~~vAVavNg~iVpr~~~~~~~L~dGD~IEIv~~VgGG   69 (78)
T 2k5p_A            8 KPSTVDGAESLNVTELLSALKVAQA------EYVTVELNGEVLEREAFDATTVKDGDAVEFLYFMGGG   69 (78)
T ss_dssp             EEEECSSCSCEEHHHHHHHHTCSCT------TTCCEEETTEECCTTHHHHCEECSSBCEEECCCCCCS
T ss_pred             EEEEcCCCCCCcHHHHHHHcCCCCC------CcEEEEECCEECChHHcCcccCCCCCEEEEEeeecCC
Confidence            467777  88999999999864311      347899999999864    899999999999999998

>2hj1_A Hypothetical protein; structural genomics, PSI, protein structure initiative, NEW research center for structural genomics, nysgxrc; 2.10A {Haemophilus influenzae} SCOP: d.15.3.4

Probab=99.12  E-value=1e-10  Score=75.76  Aligned_cols=76  Identities=17%  Similarity=0.258  Sum_probs=61.1

Q ss_pred             CCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHH--hCCCchhhcceeEEEECCeecCCCCccCCCCEEEEE
Q 034054           22 ESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIA--RFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAII   99 (105)
Q Consensus        22 ~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~--~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaii   99 (105)
                      -..|.|.|-|--+-+.    ....+++++++|+.++++.++.  ++|++.  +..+.+.|||+.+++++.|++||.|.|+
T Consensus        10 ~~~~~v~v~ya~p~rq----~~~~~~v~~g~TV~daI~~~gi~~~~peId--l~~~~V~Vng~~v~~d~~L~dGDRVEIy   83 (97)
T 2hj1_A           10 LNQINIEIAYAFPERY----YLKSFQVDEGITVQTAITQSGILSQFPEID--LSTNKIGIFSRPIKLTDVLKEGDRIEIY   83 (97)
T ss_dssp             -CEEEEEEEEEETTEE----EEEEEEEETTCBHHHHHHHHTHHHHCTTCC--TTTSEEEEEECSCCTTCBCCTTCEEEEC
T ss_pred             cceEEEEEEEeCCCCC----EEEEEEcCCCCcHHHHHHHcCCCccCCccc--ccccEEEEcCEECCCCccCCCCCEEEEE
Confidence            3458899888755432    3457788999999999999876  777653  2357899999999999999999999999


Q ss_pred             cCCC
Q 034054          100 PPIS  103 (105)
Q Consensus       100 PPvs  103 (105)
                      ||+.
T Consensus        84 rpl~   87 (97)
T 2hj1_A           84 RPLL   87 (97)
T ss_dssp             CCCC
T ss_pred             eccc
Confidence            9984

>2kmm_A Guanosine-3',5'-BIS(diphosphate) 3'- pyrophosphohydrolase; methods development, TGS domain, predominantly beta-sheet structure; NMR {Porphyromonas gingivalis}

Probab=98.54  E-value=1.5e-07  Score=56.37  Aligned_cols=56  Identities=20%  Similarity=0.251  Sum_probs=45.7

Q ss_pred             eEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEcCCCC
Q 034054           44 MPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPPISG  104 (105)
Q Consensus        44 ~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiPPvsG  104 (105)
                      ...+++.++|+.+++..+...   +.  .+.+.+.|||+.++++++|++||.|.|+++.++
T Consensus        11 ~~~~~~~g~T~~dla~~i~~~---l~--~~~vaa~vNg~lvdl~~~L~~~~~Veivt~~~~   66 (73)
T 2kmm_A           11 EIKRLPQGATALDFAYSLHSD---LG--DHCIGAKVNHKLVPLSYVLNSGDQVEVLSSKSL   66 (73)
T ss_dssp             CEEEECTTCBHHHHHHHHCSH---HH--HTEEEEEETTEECCTTCBCCSSSBEEEEECCCC
T ss_pred             CEEEcCCCCcHHHHHHHHhhc---cc--cceEEEEECCEEeCCCcCcCCCCEEEEEECCCC
Confidence            357889999999999887422   21  245788999999999999999999999998764

>3hvz_A Uncharacterized protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium; 2.20A {Clostridium leptum}

Probab=98.04  E-value=1e-05  Score=50.07  Aligned_cols=54  Identities=9%  Similarity=0.127  Sum_probs=44.2

Q ss_pred             ceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEcC
Q 034054           43 DMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPP  101 (105)
Q Consensus        43 ~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiPP  101 (105)
                      ...+++|.|+|+.|+...+   ++++..  ..+..-|||+.++++++|++||.|.|+..
T Consensus        15 G~~~~lp~GaT~~D~A~~I---h~~lg~--~~v~AkVNG~~v~L~~~L~~gd~VeIit~   68 (78)
T 3hvz_A           15 GDVISLPIGSTVIDFAYAI---HSAVGN--RMIGAKVDGRIVPIDYKVKTGEIIDVLTT   68 (78)
T ss_dssp             SCEEEEETTCBHHHHHHHH---CHHHHH--TEEEEEETTEEECTTCBCCTTCBEEEEEC
T ss_pred             CCEEEecCCCCHHHHHHHh---hhhhhc--ceEEEEECCEEcCCCcccCCCCEEEEEcc
Confidence            4578899999999988766   333432  45778899999999999999999999864

>3mtn_B UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquitin-specific protease activity, hydrolase, ubiquitin B structural genomics consortium, SGC; 2.70A {Homo sapiens} SCOP: d.15.1.1

Probab=97.72  E-value=0.00036  Score=41.94  Aligned_cols=73  Identities=19%  Similarity=0.228  Sum_probs=54.7

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----CccCCCCEEE
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----VIVNEKDELA   97 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L~dGDeVa   97 (105)
                      ++|+|+|+.+.      | ....++++...||.+|.+.+.+... +.  .....+..+|+....+     +-+++|+.|.
T Consensus         2 s~m~i~vk~~~------g-~~~~~~v~~~~tV~~lK~~i~~~~~-i~--~~~qrL~~~g~~L~d~~tL~~~~i~~~~~l~   71 (85)
T 3mtn_B            2 SHMQIFVKTLT------G-KTITLEVEPSDTIENVKAKIQDKEG-IP--PDQQRLIFAGKQLEDGRTLSDYNIQKWSTLF   71 (85)
T ss_dssp             -CEEEEEECTT------S-CEEEEEECTTCBHHHHHHHHHHHHC-CC--GGGCEEEETTEECCTTSBTGGGTCCTTCEEE
T ss_pred             CeEEEEEEcCC------C-CEEEEEECCCCCHHHHHHHHHHHHC-cC--hHHEEEEECCEECCCCCCHHHcCCCCCCEEE
Confidence            56999998763      3 4678899888999999999988652 11  1234566799887654     4578999999


Q ss_pred             EEcCCCCC
Q 034054           98 IIPPISGG  105 (105)
Q Consensus        98 iiPPvsGG  105 (105)
                      ++...-||
T Consensus        72 l~~r~~GG   79 (85)
T 3mtn_B           72 LLLRLRGG   79 (85)
T ss_dssp             EECCCCCC
T ss_pred             EEEECcCC
Confidence            99998887

>3n3k_B Ubiquitin; hydrolase, protease, thiol protease, DUB, zinc ribbon, inhibitor, ubiqu acetylation, cytoplasm, isopeptide bond, nucleus; 2.60A {Homo sapiens} SCOP: d.15.1.1

Probab=97.67  E-value=0.00048  Score=41.44  Aligned_cols=73  Identities=18%  Similarity=0.233  Sum_probs=52.2

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEE
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELA   97 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVa   97 (105)
                      ++|+|+|+.+.      | ....++++...||.+|.+.+.+... +.  .....+..+|+....     ++-+++|+.|.
T Consensus         2 s~m~i~vk~~~------g-~~~~~~v~~~~tV~~lK~~i~~~~~-ip--~~~qrL~~~g~~L~d~~tL~~~~i~~~~~i~   71 (85)
T 3n3k_B            2 SHMRIVVKTLM------G-RTIILEVEPSDTIENVKAKIQDKEG-IP--PDQQRLIFAGKQLEDGRTLSDYNIHNHSALY   71 (85)
T ss_dssp             --CEEEEECGG------G-CEEEEECCTTCBHHHHHHHHHHHHC-CC--GGGEEEEETBEECCTTCBTTTTTCCTTCEEE
T ss_pred             CeEEEEEEeCC------C-CEEEEEECCCCcHHHHHHHHHHHHC-CC--HHHEEEEECCeECCCCCCHHHCCCCCCCEEE
Confidence            46899998753      3 3578899888999999999988652 11  123466678888764     45688899999


Q ss_pred             EEcCCCCC
Q 034054           98 IIPPISGG  105 (105)
Q Consensus        98 iiPPvsGG  105 (105)
                      ++...-||
T Consensus        72 l~~rl~GG   79 (85)
T 3n3k_B           72 LLLKLRGG   79 (85)
T ss_dssp             EEECCC--
T ss_pred             EEEeccCC
Confidence            99888776

>3a9j_A Ubiquitin; protein complex, cytoplasm, isopeptide bond, metal-binding, zinc; 1.18A {Mus musculus} PDB: 3a1q_B 2znv_B 3a9k_A 3h7p_A 3jsv_A 3dvg_Y 3dvn_Y 3nob_A 2o6v_D* 3jw0_X 3jvz_X 3nhe_B* 1aar_A 1d3z_A 1f9j_A 1fxt_B 1g6j_A 1nbf_C 1cmx_B 1q5w_B ...

Probab=97.60  E-value=0.00079  Score=39.41  Aligned_cols=71  Identities=18%  Similarity=0.252  Sum_probs=53.5

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      |+|+|+...      | ....++++...|+.+|.+.+.+... +.  .....+..+|+....     +.-+.+|+.|.++
T Consensus         1 M~i~vk~~~------g-~~~~i~v~~~~tv~~lK~~i~~~~~-i~--~~~q~L~~~g~~L~d~~tL~~~~i~~g~~i~l~   70 (76)
T 3a9j_A            1 MQIFVKTLT------G-KTITLEVEPSDTIENVKAKIQDKEG-IP--PDQQRLIFAGKQLEDGRTLSDYNIQRESTLHLV   70 (76)
T ss_dssp             CEEEEEETT------S-CEEEEECCTTCBHHHHHHHHHHHHC-CC--GGGEEEEETTEECCTTCBTGGGTCCTTCEEEEE
T ss_pred             CEEEEEcCC------C-CEEEEEECCCCcHHHHHHHHHHHHC-cC--HHHeEEEECCeECCCCCcHHHcCCCCCCEEEEE
Confidence            678887753      3 3578889888999999999988652 11  134566778988754     3457899999999


Q ss_pred             cCCCCC
Q 034054          100 PPISGG  105 (105)
Q Consensus       100 PPvsGG  105 (105)
                      ...-||
T Consensus        71 ~~~~GG   76 (76)
T 3a9j_A           71 LRLRGG   76 (76)
T ss_dssp             ECCCCC
T ss_pred             EeCCCC
Confidence            999998

>3dbh_I NEDD8; cell cycle, activating enzyme, apoptosis, membrane, UBL conjugation pathway, ATP-binding, ligase, nucleotide- binding, polymorphism; 2.85A {Homo sapiens} SCOP: d.15.1.1 PDB: 3dbr_I 3dbl_I

Probab=97.55  E-value=0.00082  Score=40.72  Aligned_cols=75  Identities=13%  Similarity=0.193  Sum_probs=56.6

Q ss_pred             CCCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCE
Q 034054           21 KESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDE   95 (105)
Q Consensus        21 ~~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDe   95 (105)
                      ++.+|+|+|+.+.      | ....++++...||.+|...+.+... +.  .....+..+|+....     ++-+++|+.
T Consensus         9 ~~~~m~i~vk~~~------g-~~~~~~v~~~~tV~~lK~~i~~~~g-ip--~~~qrL~~~G~~L~d~~tL~~~~i~~~~~   78 (88)
T 3dbh_I            9 SGGSMLIKVKTLT------G-KEIEIDIEPTDKVERIKERVEEKEG-IP--PQQQRLIYSGKQMNDEKTAADYKILGGSV   78 (88)
T ss_dssp             CCCCEEEEEECTT------S-CEEEEEECTTCBHHHHHHHHHHHHC-CC--GGGCCEEETTEECCTTSBGGGGTCCTTCE
T ss_pred             CCCcEEEEEEcCC------C-CEEEEEECCCCCHHHHHHHHHHHHC-cC--HHHEEEEECCeECCCCCcHHHcCCCCCCE
Confidence            4556999998763      3 4678899888999999999988752 11  122356678988764     456889999


Q ss_pred             EEEEcCCCCC
Q 034054           96 LAIIPPISGG  105 (105)
Q Consensus        96 VaiiPPvsGG  105 (105)
                      |.++...-||
T Consensus        79 i~l~~rl~GG   88 (88)
T 3dbh_I           79 LHLVLRLRGG   88 (88)
T ss_dssp             EEECCCCCCC
T ss_pred             EEEEEeCCCC
Confidence            9999999998

>1ndd_A NEDD8, protein (ubiquitin-like protein NEDD8); proteolysis, signaling protei; 1.60A {Homo sapiens} SCOP: d.15.1.1 PDB: 1r4m_I 1r4n_I* 1xt9_B 2ko3_A 3gzn_I* 2bkr_B 2nvu_I* 3dqv_A 1bt0_A

Probab=97.46  E-value=0.0012  Score=38.65  Aligned_cols=71  Identities=13%  Similarity=0.199  Sum_probs=51.3

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----CccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----VIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L~dGDeVaii   99 (105)
                      |+|+|+...      | ....++++...|+.+|.+.+.+... +.  .....+..+|+....+     +-+++|+.|.++
T Consensus         1 M~i~vk~~~------g-~~~~~~v~~~~tv~~lK~~i~~~~~-i~--~~~q~L~~~g~~L~d~~tL~~~~i~~g~~i~l~   70 (76)
T 1ndd_A            1 MLIKVKTLT------G-KEIEIDIEPTDKVERIKERVEEKEG-IP--PQQQRLIYSGKQMNDEKTAADYKILGGSVLHLV   70 (76)
T ss_dssp             CEEEEECTT------S-CEEEEECCTTCBHHHHHHHHHHHHC-CC--GGGEEEEETTEECCTTSBGGGGTCCTTCEEEEE
T ss_pred             CEEEEECCC------C-CEEEEEECCCChHHHHHHHHHHHHC-cC--hHHEEEEECCEECCCCCcHHHcCCCCCCEEEEE
Confidence            677777653      3 3568889888999999999987652 11  1345667789888643     557799999999


Q ss_pred             cCCCCC
Q 034054          100 PPISGG  105 (105)
Q Consensus       100 PPvsGG  105 (105)
                      ...-||
T Consensus        71 ~~~~GG   76 (76)
T 1ndd_A           71 LALRGG   76 (76)
T ss_dssp             ECCC--
T ss_pred             EeCCCC
Confidence            999988

>1wh3_A 59 kDa 2'-5'-oligoadenylate synthetase like protein; P59 OASL, ubiquitin family, structural genomics; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=97.41  E-value=0.0015  Score=39.62  Aligned_cols=74  Identities=15%  Similarity=0.096  Sum_probs=55.5

Q ss_pred             CCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----CccCCCCEE
Q 034054           22 ESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----VIVNEKDEL   96 (105)
Q Consensus        22 ~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L~dGDeV   96 (105)
                      +..|+|+|+...      | ....++++...|+.+|.+.+.+... +.  ....++..+|+....+     +-+.+|+.|
T Consensus         5 ~~~m~i~Vk~~~------g-~~~~~~v~~~~tV~~lK~~i~~~~g-i~--~~~qrL~~~Gk~L~d~~tL~~~~i~~g~~i   74 (87)
T 1wh3_A            5 SSGIQVFVKNPD------G-GSYAYAINPNSFILGLKQQIEDQQG-LP--KKQQQLEFQGQVLQDWLGLGIYGIQDSDTL   74 (87)
T ss_dssp             SSSEEEEEEETT------T-EEEEEEECSSSBHHHHHHHHHHHTC-CC--TTTEEEEETTEECCSSSBHHHHTCCTTEEE
T ss_pred             CCCEEEEEEcCC------C-CEEEEEeCCCChHHHHHHHHHHHhC-CC--hHHEEEEECCEEccCCCCHHHCCCCCCCEE
Confidence            356999999753      3 3567889888999999999998762 21  1234667799888654     457799999


Q ss_pred             EEEcCCCCC
Q 034054           97 AIIPPISGG  105 (105)
Q Consensus        97 aiiPPvsGG  105 (105)
                      .++...-||
T Consensus        75 ~l~~~~~GG   83 (87)
T 1wh3_A           75 ILSKKKGSG   83 (87)
T ss_dssp             EEEECSCCC
T ss_pred             EEEEeccCC
Confidence            999888887

>4hcn_B Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidase, NEDD8, protein binding; 2.60A {Saccharomyces cerevisiae}

Probab=97.36  E-value=0.0013  Score=41.26  Aligned_cols=77  Identities=17%  Similarity=0.230  Sum_probs=55.7

Q ss_pred             cCCCCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCC
Q 034054           19 DNKESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEK   93 (105)
Q Consensus        19 ~~~~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dG   93 (105)
                      ...+..|+|.|+...      | ....++++...||.+|.+.|.+... +.  ....++..+|+....     ++-|++|
T Consensus        17 ~~~~~~m~I~Vk~~~------g-~~~~l~v~~~~TV~~LK~~I~~~~g-ip--~~~qrLi~~Gk~L~D~~tL~~~~i~~g   86 (98)
T 4hcn_B           17 YFQGRPMQIFVKTLT------G-KTITLEVESSDTIDNVKSKIQDKEG-IP--PDQQRLIFAGKQLEDGRTLSDYNIQKE   86 (98)
T ss_dssp             -----CCEEEEEETT------C-CEEEEECCTTCBHHHHHHHHHHHHC-CC--GGGCEEEETTEECCTTCBSGGGTCCTT
T ss_pred             CCCCCeEEEEEEeCC------C-CEEEEEECCCCcHHHHHHHHHHHhC-CC--hhHEEEEECCEECCCCCcHHHCCCCCC
Confidence            345566999998763      3 4678899888999999999988753 11  123466679988764     4568899


Q ss_pred             CEEEEEcCCCCC
Q 034054           94 DELAIIPPISGG  105 (105)
Q Consensus        94 DeVaiiPPvsGG  105 (105)
                      +.|.++-..-||
T Consensus        87 ~~i~l~~rl~GG   98 (98)
T 4hcn_B           87 STLHLVLRLRGG   98 (98)
T ss_dssp             EEEEEECBCSCC
T ss_pred             CEEEEEEecCCC
Confidence            999999999998

>2ojr_A Ubiquitin; lanthide-binding TAG, terbium, TB, SAD phasing, protein binding; 2.60A {Homo sapiens}

Probab=97.30  E-value=0.0054  Score=39.27  Aligned_cols=73  Identities=18%  Similarity=0.245  Sum_probs=54.1

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEE
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELA   97 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVa   97 (105)
                      .+|+|+|+...      | ....++++...||.+|...+.+... +.  .....+..+|+....     +.-+++|+.|.
T Consensus        34 ~~m~I~Vk~~~------g-~~~~l~v~~~~TV~~LK~~I~~~~g-ip--~~~qrLi~~Gk~L~D~~tL~~~gI~~gs~I~  103 (111)
T 2ojr_A           34 LAMQIFVKTLT------G-KTITLEVEPSDTIENVKAKIQDKEG-IP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLH  103 (111)
T ss_dssp             SCEEEEEECSS------S-CEEEEEECTTCBHHHHHHHHHHHHC-CC--TTTEEEEETTEECCSSCBTTTTTCCTTCEEE
T ss_pred             CeEEEEEEcCC------C-CEEEEEeCCCCCHHHHHHHHHHHHC-cC--cccEEEEECCEECCCCCcHHHcCCCCCCEEE
Confidence            56999998642      3 4668889888999999999988652 11  123456678888754     45677999999


Q ss_pred             EEcCCCCC
Q 034054           98 IIPPISGG  105 (105)
Q Consensus        98 iiPPvsGG  105 (105)
                      ++...-||
T Consensus       104 l~~rl~GG  111 (111)
T 2ojr_A          104 LVLRLRGG  111 (111)
T ss_dssp             EEECCCC-
T ss_pred             EEEeCCCC
Confidence            99999998

>1yx5_B Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo sapiens} SCOP: d.15.1.1 PDB: 1yx6_B

Probab=97.18  E-value=0.0057  Score=38.04  Aligned_cols=71  Identities=18%  Similarity=0.256  Sum_probs=52.6

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----CccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----VIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L~dGDeVaii   99 (105)
                      |+|+|+...      | ....++++...|+.+|...+..... +.  .....+..+|+....+     +-+.+|+.|.++
T Consensus         1 M~I~Vk~~~------g-~~~~~~v~~~~TV~~LK~~I~~~~g-i~--~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~   70 (98)
T 1yx5_B            1 MQIFVKTLT------G-KTITLEVEPSDTIENVKAKIQDKEG-IP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV   70 (98)
T ss_dssp             CEEEEEETT------S-CEEEEECCTTCBHHHHHHHHHHHTC-CC--GGGEEEEETTEECCTTSBTGGGTCCTTCEEEEE
T ss_pred             CEEEEEeCC------C-CEEEEEECCCCcHHHHHHHHHHHHC-cC--hhhEEEEECCEECCCCCCHHHcCCCCCCEEEEE
Confidence            678888753      3 3568889888999999999998762 21  1335667789887643     457899999998


Q ss_pred             cCCCCC
Q 034054          100 PPISGG  105 (105)
Q Consensus       100 PPvsGG  105 (105)
                      ....||
T Consensus        71 ~~~~gG   76 (98)
T 1yx5_B           71 LRLRGG   76 (98)
T ss_dssp             ECCCCC
T ss_pred             EeCCCC
Confidence            887776

>3k9o_B Ubiquitin, UBB+1; E2-25K, complex structure, ATP-binding, isopeptide BO ligase, nucleotide-binding, UBL conjugation pathway; 1.80A {Homo sapiens} PDB: 2k25_A 2kx0_A

Probab=97.16  E-value=0.004  Score=38.37  Aligned_cols=71  Identities=17%  Similarity=0.207  Sum_probs=53.0

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      |+|+|+...      | ....++++...||.+|.+.+.+... +.  .....+..+|+....     ++-+.+|+.|.++
T Consensus         2 m~i~vk~~~------g-~~~~~~v~~~~TV~~LK~~i~~~~g-ip--~~~qrL~~~G~~L~d~~tL~~~~i~~~~~i~l~   71 (96)
T 3k9o_B            2 MQIFVKTLT------G-KTITLEVEPSDTIENVKAKIQDKEG-IP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV   71 (96)
T ss_dssp             CEEEEEETT------C-CEEEEECCTTCBHHHHHHHHHHHHC-CC--GGGEEEEETTEECCTTSBTGGGTCCTTCEEEEE
T ss_pred             cEEEEEeCC------C-CEEEEEECCCCCHHHHHHHHHhhhC-CC--hhHEEEEECCEECCCCCcHHHcCCCCCCEEEEE
Confidence            788888753      3 4678899888999999999988752 11  123566779988764     4568899999999


Q ss_pred             cCCCCC
Q 034054          100 PPISGG  105 (105)
Q Consensus       100 PPvsGG  105 (105)
                      ...-||
T Consensus        72 ~r~~gG   77 (96)
T 3k9o_B           72 LRLRGY   77 (96)
T ss_dssp             ECCCC-
T ss_pred             EEcCCC
Confidence            888776

>3vdz_A Ubiquitin-40S ribosomal protein S27A; gadolinium, MRI contrast agent, peptide-based contrast agent lanthanide binding TAG; 2.40A {Synthetic construct} PDB: 2ojr_A

Probab=97.08  E-value=0.0061  Score=39.10  Aligned_cols=73  Identities=18%  Similarity=0.245  Sum_probs=54.9

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEE
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELA   97 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVa   97 (105)
                      .+|+|+|+...      | ....++++...||.+|...|..... +.  ....++..+|+....     +.-+++|+.|.
T Consensus        34 ~~m~I~Vk~~~------G-~~~~l~v~~~~TV~~LK~~I~~~~g-ip--~~~QrLi~~Gk~L~D~~tL~~~gI~~gs~I~  103 (111)
T 3vdz_A           34 LAMQIFVKTLT------G-KTITLEVEPSDTIENVKAKIQDKEG-IP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLH  103 (111)
T ss_dssp             GCEEEEEECSS------S-CEEEEEECTTCBHHHHHHHHHHHHC-CC--GGGEEEEETTEECCTTSBTTTTTCCTTCEEE
T ss_pred             ccEEEEEEeCC------C-CEEEEEeCCCCCHHHHHHHHHHHhC-CC--hHHEEEEECCEECCCCCcHHHCCCCCCCEEE
Confidence            45899988653      3 4678899888999999999988752 11  123466779988764     46788999999


Q ss_pred             EEcCCCCC
Q 034054           98 IIPPISGG  105 (105)
Q Consensus        98 iiPPvsGG  105 (105)
                      ++...-||
T Consensus       104 l~~rl~GG  111 (111)
T 3vdz_A          104 LVLRLRGG  111 (111)
T ss_dssp             EEECCCC-
T ss_pred             EEEecCCC
Confidence            99999988

>1wy8_A NP95-like ring finger protein, isoform A; ubiquitin-like domain, NP95/ICBP90-like ring finger (NIRF), ubiquitin ligase, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=97.06  E-value=0.0095  Score=36.10  Aligned_cols=74  Identities=19%  Similarity=0.235  Sum_probs=54.3

Q ss_pred             CceEEEEEecHHhHhhcCCCceEE-EeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----CccCCCCEE
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPL-EVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----VIVNEKDEL   96 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~v-ev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L~dGDeV   96 (105)
                      ..|+|+|+...      |.....+ +++...||.+|.+.+..... +.  .....+..+|+....+     +-+.+|+.|
T Consensus         6 ~~m~i~Vk~~~------g~~~~~l~~v~~~~tV~~lK~~i~~~~g-ip--~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i   76 (89)
T 1wy8_A            6 SGMWIQVRTID------GSKTCTIEDVSRKATIEELRERVWALFD-VR--PECQRLFYRGKQLENGYTLFDYDVGLNDII   76 (89)
T ss_dssp             SCEEEEEEETT------CSCEEEEEEECTTCBHHHHHHHHHHHSC-CC--TTTEEEEETTEECCSSSBHHHHTCCTTCEE
T ss_pred             CcEEEEEEECC------CCceEEEEecCCCCCHHHHHHHHHHHHC-cC--hhhEEEEECCeECCCCCCHHHCCCCCCCEE
Confidence            45899988763      4346788 49888999999999988752 21  1234566789887654     457899999


Q ss_pred             EEEcCCCCC
Q 034054           97 AIIPPISGG  105 (105)
Q Consensus        97 aiiPPvsGG  105 (105)
                      .++...-||
T Consensus        77 ~l~~~~~gG   85 (89)
T 1wy8_A           77 QLLVRPDSG   85 (89)
T ss_dssp             EEEECCCCS
T ss_pred             EEEEeCCCC
Confidence            998887776

>2l7r_A Ubiquitin-like protein FUBI; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; NMR {Homo sapiens}

Probab=97.06  E-value=0.0043  Score=38.53  Aligned_cols=71  Identities=17%  Similarity=0.084  Sum_probs=53.0

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----CccCCCCEEE
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----VIVNEKDELA   97 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L~dGDeVa   97 (105)
                      ..|+|.|+.        | +...++++...|+.+|.+.+.+... +.  ....++..+|+....+     +.+.+|+.|.
T Consensus        18 ~~m~I~Vk~--------g-~~~~l~v~~~~TV~~LK~~I~~~~g-ip--~~~qrLi~~Gk~L~D~~tL~~y~I~~gstI~   85 (93)
T 2l7r_A           18 GSMQLFVRA--------Q-ELHTFEVTGQETVAQIKAHVASLEG-IA--PEDQVVLLAGAPLEDEATLGQCGVEALTTLE   85 (93)
T ss_dssp             --CEEEEES--------S-SEEEEECCSSCBHHHHHHHHHHHHT-CC--GGGCEEEETTEECCTTSBHHHHTCCSSCEEE
T ss_pred             CcEEEEEEC--------C-CEEEEEeCCCCcHHHHHHHHHHHhC-cC--hhHEEEEECCEECCCCCcHHHCCCCCCCEEE
Confidence            348888885        4 4678899888999999999988642 11  1234667789888654     4577999999


Q ss_pred             EEcCCCCC
Q 034054           98 IIPPISGG  105 (105)
Q Consensus        98 iiPPvsGG  105 (105)
                      ++...-||
T Consensus        86 lv~rl~GG   93 (93)
T 2l7r_A           86 VAGRMLGG   93 (93)
T ss_dssp             EECCCCCC
T ss_pred             EEEecCCC
Confidence            99999998

>1wwt_A Threonyl-tRNA synthetase, cytoplasmic; TGS domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, ligase; NMR {Homo sapiens}

Probab=97.03  E-value=0.00086  Score=41.29  Aligned_cols=52  Identities=10%  Similarity=0.100  Sum_probs=40.5

Q ss_pred             EEEeCC-CCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEcC
Q 034054           45 PLEVSC-GSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPP  101 (105)
Q Consensus        45 ~vev~~-~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiPP  101 (105)
                      ..+++. ++|+.|+...+.   +.+.  ...+.+.|||+.++++++|.++++|.|+..
T Consensus        21 ~~~~~~~~~T~~dia~~i~---~~l~--~~~vaakvNg~l~dL~~~l~~d~~ve~vt~   73 (88)
T 1wwt_A           21 QVDAESWKTTPYQIACGIS---QGLA--DNTVIAKVNNVVWDLDRPLEEDCTLELLKF   73 (88)
T ss_dssp             EEEEETTTCCHHHHHHHSS---TTTG--GGCCCEEESSSEECSSSCCCSSEEEEECSS
T ss_pred             EEEcccCCCCHHHHHHHhh---hccc--cceEEEEECCEEECCCcCcCCCCEEEEEeC
Confidence            466676 799999887763   3333  245677899999999999999999998853

>4fbj_B NEDD8; effector-HOST target complex, glutamine deamidase, deamidati bacterial effector, cell cycle-protein binding complex; 1.60A {Homo sapiens} PDB: 4f8c_B

Probab=97.01  E-value=0.0069  Score=37.08  Aligned_cols=71  Identities=13%  Similarity=0.200  Sum_probs=51.0

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      |+|+|+.+.      | ....++++...||.+|.+.+.+... +.  .+..++..+|+....     ++-+.+|+.|.++
T Consensus         1 M~I~Vk~~~------g-~~~~l~v~~~~TV~~LK~~I~~~~g-ip--~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~l~l~   70 (88)
T 4fbj_B            1 MLIKVKTLT------G-KEIEIDIEPTDKVERIKERVEEKEG-IP--PQQQRLIYSGKQMNDEKTAADYKILGGSVLHLV   70 (88)
T ss_dssp             CEEEEEETT------C-CEEEEECCTTCBHHHHHHHHHHHHC-CC--GGGCEEEETTEECCTTSBTTTTTCCTTCEEEEE
T ss_pred             CEEEEEcCC------C-CEEEEEECCCCCHHHHHHHHHHHHC-cC--hhHEEEEECCeECCCCCcHHHcCCCCCCEEEEE
Confidence            677887653      4 4678899888999999999987752 11  123456678988764     4678889999999


Q ss_pred             cCCCCC
Q 034054          100 PPISGG  105 (105)
Q Consensus       100 PPvsGG  105 (105)
                      -..-||
T Consensus        71 ~rl~Gg   76 (88)
T 4fbj_B           71 LALRGG   76 (88)
T ss_dssp             CBCC--
T ss_pred             EECCCC
Confidence            887776

>1sif_A Ubiquitin; hydrophobic mutants, folding, stability, structural protein; 2.18A {Homo sapiens} SCOP: d.15.1.1

Probab=96.98  E-value=0.0061  Score=37.35  Aligned_cols=71  Identities=13%  Similarity=0.221  Sum_probs=49.0

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      |+|.|+.+.      | +...++++...|+.+|.+.+.+... +.  .+..++..+|+....     ++-+.+|+.|.++
T Consensus        10 ~~i~v~~~~------G-~~~~l~v~~~~TV~~LK~~I~~~~g-ip--~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~   79 (88)
T 1sif_A           10 LQLFIKTLT------G-KTFTVEMEPSDTIENLKAKIQDKEG-IP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV   79 (88)
T ss_dssp             CEEEEEETT------S-CEEEEECCTTSBHHHHHHHHHHHHC-CC--GGGCEEEETTEECCTTSBSGGGTCCTTCEEEEE
T ss_pred             eEEEEEeCC------C-CEEEEEECCCChHHHHHHHHHHHHC-cC--hhhEEEEECCEECCCCCcHHHcCCCCCCEEEEE
Confidence            777777665      3 4678899888999999999988652 11  123466678988754     3557899999999


Q ss_pred             cCCCCC
Q 034054          100 PPISGG  105 (105)
Q Consensus       100 PPvsGG  105 (105)
                      ...-||
T Consensus        80 ~r~~GG   85 (88)
T 1sif_A           80 LRLRGG   85 (88)
T ss_dssp             C-----
T ss_pred             EeCCCC
Confidence            888887

>3phx_B Ubiquitin-like protein ISG15; OTU domain, DE-ubiquitinase, DE-isgylase, hydrolase-protein complex; 1.60A {Homo sapiens}

Probab=96.81  E-value=0.014  Score=34.49  Aligned_cols=72  Identities=11%  Similarity=0.045  Sum_probs=52.7

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEE
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELA   97 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVa   97 (105)
                      +.|+|.|+...      | ....++++...|+.+|.+.+..... +.  ....++..+|+....     ++-+++|+.|.
T Consensus         3 ~~m~i~Vk~~~------g-~~~~~~v~~~~tV~~lK~~i~~~~g-ip--~~~qrL~~~G~~L~d~~tL~~~~i~~~~~l~   72 (79)
T 3phx_B            3 EPLSILVRNNK------G-RSSTYEVRLTQTVAHLKQQVSGLEG-VQ--DDLFWLTFEGKPLEDQLPLGEYGLKPLSTVF   72 (79)
T ss_dssp             CCEEEEEECTT------S-CEEEEEECTTSBHHHHHHHHHHHHT-CC--GGGEEEEETTEECCTTSBGGGGTCCTTCEEE
T ss_pred             CCEEEEEEeCC------C-CEEEEEECCcChHHHHHHHHHhhcC-CC--HHHEEEEECCEECCCCCcHHHCCCCCCCEEE
Confidence            45889988653      3 4678899888999999999987642 11  123466779988764     45688899999


Q ss_pred             EEcCCCC
Q 034054           98 IIPPISG  104 (105)
Q Consensus        98 iiPPvsG  104 (105)
                      ++-+.-|
T Consensus        73 l~~rl~G   79 (79)
T 3phx_B           73 MNLRLRG   79 (79)
T ss_dssp             EEECCBC
T ss_pred             EEEecCC
Confidence            9877655

>2hj8_A Interferon-induced 17 kDa protein; HR2873B, human ISG15, structure, northeast structural genomics consortium, protein structure initiative, NESG; NMR {Homo sapiens}

Probab=96.80  E-value=0.0077  Score=36.82  Aligned_cols=72  Identities=13%  Similarity=0.075  Sum_probs=50.1

Q ss_pred             ceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----CccCCCCEEEE
Q 034054           24 SIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----VIVNEKDELAI   98 (105)
Q Consensus        24 ~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L~dGDeVai   98 (105)
                      .|+|.|+...      | ....++++...|+.+|...+..... +.  ....++..+|+....+     +-+++|+.|.+
T Consensus         4 ~m~I~Vk~~~------g-~~~~~~v~~~~TV~~LK~~I~~~~g-ip--~~~qrL~~~Gk~L~D~~tL~~~~I~~g~~i~l   73 (88)
T 2hj8_A            4 PLSILVRNNK------G-RSSTYEVRLTQTVAHLKQQVSGLEG-VQ--DDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFM   73 (88)
T ss_dssp             EEEEEEEETT------S-CEEEEEEESSSBHHHHHHHHHHHTC-SC--TTTEEEESSSSCCCTTSBHHHHHCSTTCEEEE
T ss_pred             cEEEEEECCC------C-CEEEEEECCCCcHHHHHHHHHHHhC-CC--hhHEEEEECCEECCCCCcHHHcCCCCCCEEEE
Confidence            5889888763      4 4667888888999999999988752 21  1234566788877654     45679999999


Q ss_pred             EcCCCCC
Q 034054           99 IPPISGG  105 (105)
Q Consensus        99 iPPvsGG  105 (105)
                      +-...||
T Consensus        74 ~~~~~gg   80 (88)
T 2hj8_A           74 NLRLRGG   80 (88)
T ss_dssp             EEC----
T ss_pred             EEEcCCC
Confidence            8877776

>1wx8_A Riken cDNA 4931431F19; ubiquitin-like domain, ubiquilin 1-like, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.15.1.1

Probab=96.74  E-value=0.011  Score=36.46  Aligned_cols=74  Identities=8%  Similarity=0.050  Sum_probs=53.1

Q ss_pred             CCCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----CccCCCCE
Q 034054           21 KESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----VIVNEKDE   95 (105)
Q Consensus        21 ~~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L~dGDe   95 (105)
                      ....|+|+|+..       | ....++++...||.+|.+.+.+... +..  ...++..+|+....+     +-+++|+.
T Consensus        14 ~~~~m~i~Vk~~-------g-~~~~~~v~~~~TV~~LK~~I~~~~g-ip~--~~qrL~~~Gk~L~D~~tL~~~gi~~g~~   82 (96)
T 1wx8_A           14 SSRIIRVSVKTP-------Q-DCHEFFLAENSNVRRFKKQISKYLH-CNA--DRLVLIFTGKILRDQDILSQRGILDGST   82 (96)
T ss_dssp             CSCEEEEEEECS-------S-SEEEEEEETTCCHHHHHHHHHHHTC-SCT--TTBCCEETTEECCTTSCHHHHTCCTTEE
T ss_pred             CCCcEEEEEEEC-------C-eEEEEEECCCCCHHHHHHHHHHHhC-CCH--HHEEEEECCEECCCcCCHHHCCCCCCCE
Confidence            446688888875       4 3567888888999999999998762 211  223455688887643     45789999


Q ss_pred             EEEEcCCCCC
Q 034054           96 LAIIPPISGG  105 (105)
Q Consensus        96 VaiiPPvsGG  105 (105)
                      |.++-...||
T Consensus        83 i~l~~~~~~g   92 (96)
T 1wx8_A           83 VHVVVRSHSG   92 (96)
T ss_dssp             EECCBCCSSC
T ss_pred             EEEEEeCCCC
Confidence            9888777665

>1wyw_B Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Homo sapiens} SCOP: d.15.1.1 PDB: 1y8r_C* 2asq_A 2pe6_B 1a5r_A 2kqs_A 3kyc_D* 3rzw_C

Probab=96.65  E-value=0.011  Score=36.85  Aligned_cols=75  Identities=12%  Similarity=0.206  Sum_probs=55.9

Q ss_pred             CCCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----CccCCCCE
Q 034054           21 KESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----VIVNEKDE   95 (105)
Q Consensus        21 ~~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L~dGDe   95 (105)
                      ....|+|+|+..      .| ....+++....|+.+|.+.+..+.. +.  ....++..+|+.+..+     +-+.+||.
T Consensus        18 ~~~~m~I~Vk~~------~g-~~~~l~v~~~~tv~~lK~~i~~~~g-ip--~~~qrLif~Gk~L~d~~tl~dy~i~~g~~   87 (97)
T 1wyw_B           18 EGEYIKLKVIGQ------DS-SEIHFKVKMTTHLKKLKESYCQRQG-VP--MNSLRFLFEGQRIADNHTPKELGMEEEDV   87 (97)
T ss_dssp             -CCEEEEEEECT------TC-CEEEEEEETTSCTHHHHHHHHHHHT-CC--GGGEEEEETTEECCTTCCHHHHTCCTTCE
T ss_pred             CCCcEEEEEEeC------CC-CEEEEEECCCCcHHHHHHHHHHHHC-CC--hhhEEEEECCeEcCCCCCHHHCCCCCCCE
Confidence            445588888854      34 4678888888999999999987652 11  1346777899988653     46789999


Q ss_pred             EEEEcCCCCC
Q 034054           96 LAIIPPISGG  105 (105)
Q Consensus        96 VaiiPPvsGG  105 (105)
                      |.++-..-||
T Consensus        88 I~l~~~~~GG   97 (97)
T 1wyw_B           88 IEVYQEQTGG   97 (97)
T ss_dssp             EEEEESSSCC
T ss_pred             EEEEEecCCC
Confidence            9999998888

>2uyz_B Small ubiquitin-related modifier 1; sumoylation, cell division, nuclear protein, ubiquitin-like modifier, UBL conjugation pathway; 1.4A {Homo sapiens} SCOP: d.15.1.1 PDB: 2vrr_B 2iy0_B 2iy1_B 2g4d_B 2las_A 2io2_B 1z5s_B 3uip_B* 1tgz_B* 2bf8_B

Probab=96.63  E-value=0.0094  Score=35.33  Aligned_cols=72  Identities=13%  Similarity=0.212  Sum_probs=53.3

Q ss_pred             ceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----CccCCCCEEEE
Q 034054           24 SIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----VIVNEKDELAI   98 (105)
Q Consensus        24 ~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L~dGDeVai   98 (105)
                      .|+|+|+..      .| +...+++....|+.+|.+.+.++.. +.  .+..++.-+|+....+     +-+.+||.|.+
T Consensus         3 ~m~i~vk~~------~g-~~~~~~v~~~~tv~~lk~~i~~~~g-i~--~~~qrL~~~G~~L~d~~tl~~~~i~~~~~i~l   72 (79)
T 2uyz_B            3 YIKLKVIGQ------DS-SEIHFKVKMTTHLKKLKESYCQRQG-VP--MNSLRFLFEGQRIADNHTPKELGMEEEDVIEV   72 (79)
T ss_dssp             EEEEEEECT------TC-CEEEEEEETTSCTHHHHHHHHHHHT-CC--GGGEEEEETTEECCTTCCHHHHTCCTTEEEEE
T ss_pred             eEEEEEECC------CC-CEEEEEECCCChHHHHHHHHHHHHC-CC--cccEEEEECCEEeCCCCCHHHcCCCCCCEEEE
Confidence            478888753      34 4678888888999999999987642 21  1345677899988654     46779999999


Q ss_pred             EcCCCCC
Q 034054           99 IPPISGG  105 (105)
Q Consensus        99 iPPvsGG  105 (105)
                      +...-||
T Consensus        73 ~~~~~GG   79 (79)
T 2uyz_B           73 YQEQTGG   79 (79)
T ss_dssp             EECCCC-
T ss_pred             EEeccCC
Confidence            9998887

>1v5o_A 1700011N24RIK protein; hypothetical protein, ubiquitin-like fold, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.15.1.1

Probab=96.63  E-value=0.029  Score=35.22  Aligned_cols=76  Identities=11%  Similarity=0.030  Sum_probs=52.1

Q ss_pred             ceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC------CccCCCCEEE
Q 034054           24 SIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS------VIVNEKDELA   97 (105)
Q Consensus        24 ~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d------~~L~dGDeVa   97 (105)
                      .|+|+|+....-   .......++++...||.+|.+.|..... +..  +...+..+|+....+      +-|++|+.|.
T Consensus         7 ~m~I~Vk~~~~~---~~~~~~~i~v~~~~TV~~LK~~I~~~~g-ip~--~~qrL~~~gk~L~D~~~tL~~ygI~~g~~l~   80 (102)
T 1v5o_A            7 GMLITVYCVRRD---LTEVTFSLQVNPDFELSNFRVLCELESG-VPA--EEAQIVYMEQLLTDDHCSLGSYGLKDGDMVV   80 (102)
T ss_dssp             CEEEEEEECCCC---CCCCEEEEEECTTCBHHHHHHHHHHHTC-CCG--GGBCEEETTEEECCSSSBHHHHTCCTTEEEE
T ss_pred             eEEEEEEECCCC---cCceEEEEEcCCCCCHHHHHHHHHHHHC-cCh--HHeEEEECCEECCCCcccHHHCCCCCCCEEE
Confidence            388888875211   1124667899888999999999998753 211  233556788877544      3477999999


Q ss_pred             EEcCCCCC
Q 034054           98 IIPPISGG  105 (105)
Q Consensus        98 iiPPvsGG  105 (105)
                      ++-...||
T Consensus        81 l~~~~~gg   88 (102)
T 1v5o_A           81 LLQKDNVG   88 (102)
T ss_dssp             ECBCCCCC
T ss_pred             EEECCCCC
Confidence            98766665

>1wgd_A Homocysteine-responsive endoplasmic reticulum- resident ubiquitin-like domain member...; ENDPLASMIC reticulum stress, UBL domain; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=96.58  E-value=0.026  Score=34.66  Aligned_cols=77  Identities=13%  Similarity=0.120  Sum_probs=53.9

Q ss_pred             CCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCC-CchhhcceeEEEECCeecCC-----CC--ccCCC
Q 034054           22 ESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFP-NLEEIRGCMVLALNEEYTNA-----SV--IVNEK   93 (105)
Q Consensus        22 ~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p-~l~~~~~~~~vaVNg~~v~~-----d~--~L~dG   93 (105)
                      .+.|+|+|+....-     .....++++...||.+|.+.|.+..| ++..  +..++..+|+....     ++  .+++|
T Consensus         5 ~~~m~i~Vk~~~~~-----~~~~~v~v~~~~TV~~lK~~I~~~~~~~i~~--~~QrLi~~Gk~L~D~~tL~~~~~~i~~~   77 (93)
T 1wgd_A            5 SSGVTLLVKSPNQR-----HRDLELSGDRGWSVGHLKAHLSRVYPERPRP--EDQRLIYSGKLLLDHQCLRDLLPKQEKR   77 (93)
T ss_dssp             SCCCEEEEECSSSS-----CCCEEEECCTTSCHHHHHHHHHHHSTTCCCT--TTCEEEETTEECCSSSCHHHHSCSSSCS
T ss_pred             CcEEEEEEEeCCCC-----eEEEEEecCCCCcHHHHHHHHHHHhcCCCCh--HHeEEEECCEECcCcCCHHHHhcCCCCC
Confidence            34589999976320     12567777788999999999999863 3321  23456678988754     34  67899


Q ss_pred             CEEEEEcCCCCC
Q 034054           94 DELAIIPPISGG  105 (105)
Q Consensus        94 DeVaiiPPvsGG  105 (105)
                      +.|.++-+.-||
T Consensus        78 ~~i~lv~~~~gg   89 (93)
T 1wgd_A           78 HVLHLVCNVKSG   89 (93)
T ss_dssp             EEEEEECCCCCC
T ss_pred             CEEEEEeCCCCC
Confidence            999998766665

>1j8c_A Ubiquitin-like protein hplic-2; ubiquitin-like domain, structural genomics; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=96.58  E-value=0.033  Score=36.55  Aligned_cols=80  Identities=14%  Similarity=0.108  Sum_probs=54.3

Q ss_pred             CccccCCCCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCc
Q 034054           15 SALVDNKESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVI   89 (105)
Q Consensus        15 ~~~~~~~~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~   89 (105)
                      |.-.+.....|+|+|+..       | ....++++...||.+|...|..... +.  ....++..+|+....     ++-
T Consensus        23 s~~~~~~~~~m~I~Vk~~-------g-~~~~l~v~~~~TV~~LK~~I~~~~g-ip--~~~QrLi~~Gk~L~D~~tL~dyg   91 (125)
T 1j8c_A           23 SAAAPAEPKIIKVTVKTP-------K-EKEEFAVPENSSVQQFKEAISKRFK-SQ--TDQLVLIFAGKILKDQDTLIQHG   91 (125)
T ss_dssp             SSSCCCCCCCEEEEEECS-------S-CEEEEEECTTCCHHHHHHHHHHHHC-SC--SSSEEEEETTEEESTTSCGGGTT
T ss_pred             CCcccCCCCcEEEEEEeC-------C-eEEEEEECCCCcHHHHHHHHHHHHC-cC--cceEEEEECCEEcCCCCCHHHcC
Confidence            344444556799999885       3 3578889888999999999988652 11  133466678888754     456


Q ss_pred             cCCCCEEEEEcCCCCC
Q 034054           90 VNEKDELAIIPPISGG  105 (105)
Q Consensus        90 L~dGDeVaiiPPvsGG  105 (105)
                      |++|+.|.++-...||
T Consensus        92 I~~gstI~lv~~~~gg  107 (125)
T 1j8c_A           92 IHDGLTVHLVIKRDPN  107 (125)
T ss_dssp             CSSSEEEEEEEC----
T ss_pred             CCCCCEEEEEeccCCC
Confidence            7899999988766665

>1wx7_A Ubiquilin 3; ubiquitin-like domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=96.52  E-value=0.023  Score=35.82  Aligned_cols=78  Identities=13%  Similarity=0.055  Sum_probs=55.4

Q ss_pred             cccCCCCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----CccC
Q 034054           17 LVDNKESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----VIVN   91 (105)
Q Consensus        17 ~~~~~~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L~   91 (105)
                      =..+.+..|+|+|+...      |+  ..++++...||.+|.+.|.+... +.  ....++..+|+....+     +-|+
T Consensus        10 ~~~~~~~~m~I~Vk~~~------g~--~~l~v~~~~TV~~LK~~I~~~~g-ip--~~~qrLi~~Gk~L~D~~tL~~~gi~   78 (106)
T 1wx7_A           10 APVQDPHLIKVTVKTPK------DK--EDFSVTDTCTIQQLKEEISQRFK-AH--PDQLVLIFAGKILKDPDSLAQCGVR   78 (106)
T ss_dssp             SCCCCSSEEEEEEECSS------CE--EEEEEETTCCHHHHHHHHHHHHT-CC--TTTEEEEETTEECCTTSCHHHHTCC
T ss_pred             CCCCCCceEEEEEEeCC------Cc--EEEEECCCCcHHHHHHHHHHHHC-cC--hhhEEEEECCEECCCcCcHHHcCCC
Confidence            34455677999999854      32  47788888999999999987652 11  1235667789888654     4577


Q ss_pred             CCCEEEEEcCCCCC
Q 034054           92 EKDELAIIPPISGG  105 (105)
Q Consensus        92 dGDeVaiiPPvsGG  105 (105)
                      +|+.|.++-...||
T Consensus        79 ~g~~i~l~~~~~~~   92 (106)
T 1wx7_A           79 DGLTVHLVIKRQHR   92 (106)
T ss_dssp             TTEEEEEEECCCCC
T ss_pred             CCCEEEEEEcCCCC
Confidence            99999998766554

>2wyq_A HHR23A, UV excision repair protein RAD23 homolog A; DNA binding protein, DNA excision repair, proteasomal degrad polyubiquitin; 1.65A {Homo sapiens} PDB: 1p98_A 1p9d_U 1p1a_A

Probab=96.43  E-value=0.06  Score=32.01  Aligned_cols=69  Identities=10%  Similarity=0.100  Sum_probs=49.0

Q ss_pred             CCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhC--CCchhhcceeEEEECCeecCC-----CCccCCCC
Q 034054           22 ESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARF--PNLEEIRGCMVLALNEEYTNA-----SVIVNEKD   94 (105)
Q Consensus        22 ~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~--p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGD   94 (105)
                      +.+|+|+|+...      | ....++++...|+.+|.+.+...+  .++.  .+..++..+|+....     ++-+.+|+
T Consensus         3 ~~~m~i~vk~~~------g-~~~~~~v~~~~TV~~lK~~i~~~~~~~gip--~~~qrLi~~Gk~L~D~~tL~~~~i~~g~   73 (85)
T 2wyq_A            3 PMAVTITLKTLQ------Q-QTFKIRMEPDETVKVLKEKIEAEKGRDAFP--VAGQKLIYAGKILSDDVPIRDYRIDEKN   73 (85)
T ss_dssp             -CCEEEEEEETT------S-CEEEEEECTTSBHHHHHHHHHHHHCTTTCC--GGGEEEEETTEECCTTSBGGGGCCCTTS
T ss_pred             CceEEEEEEECC------C-CEEEEEECCCCCHHHHHHHHHhhccccCCC--HHHeEEEECCEECcCCCCHHHcCCCCCC
Confidence            356889988763      3 356889988899999999999862  2222  123456678988764     35677999


Q ss_pred             EEEEE
Q 034054           95 ELAII   99 (105)
Q Consensus        95 eVaii   99 (105)
                      .|.++
T Consensus        74 ~i~l~   78 (85)
T 2wyq_A           74 FVVVM   78 (85)
T ss_dssp             EEEEE
T ss_pred             EEEEE
Confidence            98876

>2d07_B Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Homo sapiens} SCOP: d.15.1.1 PDB: 2rpq_A 2awt_A 2io3_B 2iyd_B 1u4a_A 2k1f_A

Probab=96.42  E-value=0.032  Score=34.84  Aligned_cols=74  Identities=14%  Similarity=0.246  Sum_probs=53.3

Q ss_pred             CCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEE
Q 034054           22 ESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDEL   96 (105)
Q Consensus        22 ~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeV   96 (105)
                      ...|.|+|+-      ..| ....+.+....++..|++..+++.. +.  ...+++.-+|+.+..     +.-+.+||.|
T Consensus        15 ~~~i~ikV~~------~~g-~~i~~~v~~~t~l~kl~~~y~~~~g-i~--~~~~rf~fdG~~l~~~~Tp~dl~medgD~I   84 (93)
T 2d07_B           15 NDHINLKVAG------QDG-SVVQFKIKRHTPLSKLMKAYCERQG-LS--MRQIRFRFDGQPINETDTPAQLEMEDEDTI   84 (93)
T ss_dssp             CCEEEEEEEC------TTS-CEEEEEEETTSCHHHHHHHHHHHHT-CC--GGGEEEEETTEECCTTCCTTTTTCCTTEEE
T ss_pred             CCeEEEEEEC------CCC-CEEEEEEccCCHHHHHHHHHHHHhC-CC--ccceEEEECCEEcCCCCCHHHcCCCCCCEE
Confidence            3457777662      234 4678888888999999999988753 21  246788899999863     4679999999


Q ss_pred             EEEcCCCCC
Q 034054           97 AIIPPISGG  105 (105)
Q Consensus        97 aiiPPvsGG  105 (105)
                      .++.--.||
T Consensus        85 dv~~~q~GG   93 (93)
T 2d07_B           85 DVFQQQTGG   93 (93)
T ss_dssp             EEEECC---
T ss_pred             EEEeeccCC
Confidence            999988887

>2dzi_A Ubiquitin-like protein 4A; GDX, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=96.39  E-value=0.032  Score=32.85  Aligned_cols=69  Identities=12%  Similarity=0.145  Sum_probs=49.3

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----CccCCCCEEE
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----VIVNEKDELA   97 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L~dGDeVa   97 (105)
                      ..|+|+|+...      | ....++++...|+.+|.+.+.+... +.  .....+..+|+....+     +-+++|+.|.
T Consensus         6 ~~m~i~vk~~~------g-~~~~~~v~~~~tV~~LK~~i~~~~~-i~--~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~   75 (81)
T 2dzi_A            6 SGMQLTVKALQ------G-RECSLQVPEDELVSTLKQLVSEKLN-VP--VRQQRLLFKGKALADGKRLSDYSIGPNSKLN   75 (81)
T ss_dssp             SSEEEEEEETT------S-CEEEEEECSSCBHHHHHHHHHHHTC-CC--TTTCEEEETTEECCTTSBGGGGTCCSSBCCE
T ss_pred             CcEEEEEEeCC------C-CEEEEEECCCCcHHHHHHHHHHHHC-cC--HHHEEEEECCeECCCCCcHHHcCCCCCCEEE
Confidence            45899998642      4 4667889888999999999988762 21  1234566789887643     4567899888


Q ss_pred             EEcC
Q 034054           98 IIPP  101 (105)
Q Consensus        98 iiPP  101 (105)
                      ++..
T Consensus        76 l~~~   79 (81)
T 2dzi_A           76 LVVK   79 (81)
T ss_dssp             EECC
T ss_pred             EEEe
Confidence            7654

>2io1_B Small ubiquitin-related modifier 3 precursor; SUMO, SENP, ULP, complex, protein binding, hydrolase; 2.60A {Homo sapiens} SCOP: d.15.1.1

Probab=96.39  E-value=0.023  Score=35.66  Aligned_cols=74  Identities=14%  Similarity=0.246  Sum_probs=55.2

Q ss_pred             CCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEE
Q 034054           22 ESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDEL   96 (105)
Q Consensus        22 ~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeV   96 (105)
                      ...|+|+|+-      ..| ++..+.+....++..|++..+++.. +.  ...+++.-+|+.+..     |.-+.+||.|
T Consensus         5 ~~~i~ikVk~------~~g-~~i~~~v~~~t~l~kl~~~y~~~~g-i~--~~~~rf~FdG~~l~~~~Tp~dl~medgD~I   74 (94)
T 2io1_B            5 NDHINLKVAG------QDG-SVVQFKIKRHTPLSKLMKAYCERQG-LS--MRQIRFRFDGQPINETDTPAQLEMEDEDTI   74 (94)
T ss_dssp             -CEEEEEEEC------TTS-CEEEEEEETTSCTHHHHHHHHHHHT-CC--GGGEEEEETTEECCTTCCTTTTTCCTTCEE
T ss_pred             CCeEEEEEEC------CCC-CEEEEEECCCCHHHHHHHHHHHHhC-CC--cccEEEEECCEEcCCCCCHHHcCCCCCCEE
Confidence            3457777763      234 4688899888999999999988753 21  245788889999864     5679999999


Q ss_pred             EEEcCCCCC
Q 034054           97 AIIPPISGG  105 (105)
Q Consensus        97 aiiPPvsGG  105 (105)
                      .++.--.||
T Consensus        75 dv~~~~~GG   83 (94)
T 2io1_B           75 DVFQQQTGG   83 (94)
T ss_dssp             EEEECCEES
T ss_pred             EEEEeccCC
Confidence            999877666

>2io0_B Small ubiquitin-related modifier 2 precursor; SUMO, SENP, ULP, complex, protein binding, hydrolase; 2.30A {Homo sapiens} SCOP: d.15.1.1

Probab=96.39  E-value=0.037  Score=34.52  Aligned_cols=72  Identities=14%  Similarity=0.247  Sum_probs=54.5

Q ss_pred             ceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEE
Q 034054           24 SIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAI   98 (105)
Q Consensus        24 ~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVai   98 (105)
                      .|.|+|+-      ..| +...+.+...+++..|.+..+++.. +.  ...+++.-+|+.+..     |.-+.+||.|.+
T Consensus         5 ~i~ikVk~------~~g-~~v~~~vk~~t~l~kl~~~y~~~~g-i~--~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv   74 (91)
T 2io0_B            5 HINLKVAG------QDG-SVVQFKIKRHTPLSKLMKAYCERQG-LS--MRQIRFRFDGQPINETDTPAQLEMEDEDTIDV   74 (91)
T ss_dssp             EEEEEEEC------TTS-CEEEEEEETTSCTHHHHHHHHHHTT-CC--STTEEEEETTEECCTTCCTTTTTCCTTEEEEE
T ss_pred             eEEEEEEC------CCC-CEEEEEECCCChHHHHHHHHHHHhC-CC--cccEEEEECCEEcCCCCCHHHcCCCCCCEEEE
Confidence            46666662      234 4788899888999999999988752 22  245788889999864     467999999999


Q ss_pred             EcCCCCC
Q 034054           99 IPPISGG  105 (105)
Q Consensus        99 iPPvsGG  105 (105)
                      +.--.||
T Consensus        75 ~~~q~gg   81 (91)
T 2io0_B           75 FQQQTGG   81 (91)
T ss_dssp             EECCCCC
T ss_pred             EEeccCC
Confidence            9877776

>1yqb_A Ubiquilin 3; structural genomics consortium, ubiquitin, ubiquitin-like domain, structural genomics, signaling protein SGC; 2.00A {Homo sapiens} SCOP: d.15.1.1

Probab=96.33  E-value=0.03  Score=35.18  Aligned_cols=74  Identities=14%  Similarity=0.080  Sum_probs=52.9

Q ss_pred             CCCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----CccCCCCE
Q 034054           21 KESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----VIVNEKDE   95 (105)
Q Consensus        21 ~~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L~dGDe   95 (105)
                      .+..|+|+|+..+      |+  ..++++...||.+|.+.+.+... +.  ....++..+|+....+     +-+++|+.
T Consensus        19 ~~~~m~I~Vk~~~------g~--~~l~v~~~~TV~~LK~~I~~~~g-ip--~~~QrLi~~Gk~L~D~~tL~~ygI~~gst   87 (100)
T 1yqb_A           19 SPHLIKVTVKTPK------DK--EDFSVTDTCTIQQLKEEISQRFK-AH--PDQLVLIFAGKILKDPDSLAQCGVRDGLT   87 (100)
T ss_dssp             CTTEEEEEEECSS------CE--EEEEEETTCBHHHHHHHHHHHHT-CC--GGGEEEEETTEECCTTSBHHHHTCCTTCE
T ss_pred             CCCeEEEEEEcCC------Cc--EEEEECCCCcHHHHHHHHHHHHC-cC--hhhEEEEECCEECCCcCcHHHCCCCCCCE
Confidence            3455899998854      32  47788888999999999988652 21  1334667789888654     45779999


Q ss_pred             EEEEcCCCCC
Q 034054           96 LAIIPPISGG  105 (105)
Q Consensus        96 VaiiPPvsGG  105 (105)
                      |.++-...||
T Consensus        88 I~l~~r~~~~   97 (100)
T 1yqb_A           88 VHLVIKRQHR   97 (100)
T ss_dssp             EEEEECCCCS
T ss_pred             EEEEEcCCCC
Confidence            9998766654

>3v6c_B Ubiquitin; structural genomics, structural genomics consortium, SGC, UB protease, hydrolase-signaling protein complex; 1.70A {Homo sapiens} PDB: 3v6e_B

Probab=96.33  E-value=0.037  Score=33.73  Aligned_cols=70  Identities=19%  Similarity=0.208  Sum_probs=50.5

Q ss_pred             CCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEE
Q 034054           22 ESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDEL   96 (105)
Q Consensus        22 ~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeV   96 (105)
                      +..|+|+|+...      | ....++++...||.+|.+.+.+... +.  ....++..+|+....     ++-+.+|+.|
T Consensus        15 ~~~m~i~Vk~~~------g-~~~~l~v~~~~TV~~LK~~I~~~~g-ip--~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i   84 (91)
T 3v6c_B           15 RGSMQIFVNTLT------G-THITLEVEPSDTIENVKAKIQDKEG-IP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTL   84 (91)
T ss_dssp             CCSEEEEEECTT------S-CEEEEEECTTCBHHHHHHHHHHHHC-CC--GGGCEEEETTEECCTTCBTGGGTCCTTCEE
T ss_pred             CCeEEEEEEeCC------C-CEEEEEECCCCCHHHHHHHHHhhhC-CC--hhhEEEEECCeECCCcCcHHHCCCCCCCEE
Confidence            445889888653      3 4678899888999999999988652 11  123456678988764     4568889999


Q ss_pred             EEEcC
Q 034054           97 AIIPP  101 (105)
Q Consensus        97 aiiPP  101 (105)
                      .++-.
T Consensus        85 ~l~~r   89 (91)
T 3v6c_B           85 HLVLR   89 (91)
T ss_dssp             EEECC
T ss_pred             EEEEe
Confidence            88743

>2eki_A DRG 1, developmentally-regulated GTP-binding protein 1; protein NEDD3, neural precursor cell expressed developmentally DOWN-regulated protein 3; NMR {Homo sapiens}

Probab=96.29  E-value=0.0079  Score=38.25  Aligned_cols=52  Identities=19%  Similarity=0.238  Sum_probs=39.7

Q ss_pred             eEEEe-CCCCCHHHHHHHHHHhCCCchhhcceeEEEE--------CCeecCCCCccCCCCEEEEEcC
Q 034054           44 MPLEV-SCGSTTQDCLNKLIARFPNLEEIRGCMVLAL--------NEEYTNASVIVNEKDELAIIPP  101 (105)
Q Consensus        44 ~~vev-~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaV--------Ng~~v~~d~~L~dGDeVaiiPP  101 (105)
                      ..+.+ +.+.|+.|+...+-..   +.   +.+.-|+        |++.|+.++.|++||.|.|+.-
T Consensus        27 dpviL~~~GsTv~Dfa~~IH~d---i~---~~fkyA~VwG~saK~~~qrVgldh~L~d~DVV~Iv~~   87 (93)
T 2eki_A           27 SPVVLPYSRTTVEDFCMKIHKN---LI---KEFKYALVWGLSVKHNPQKVGKDHTLEDEDVIQIVKK   87 (93)
T ss_dssp             SCEEEETTSCCHHHHHHHHCTT---CT---TTEEEEEEBSTTSSSSSEEECSSCCCCSSEEECEEEC
T ss_pred             CCEEEecCCCCHHHHHHHHHHH---HH---hhccEEEEecccccCCCEECCCCcEecCCCEEEEEeC
Confidence            45778 8999999998877533   33   2233333        8999999999999999999864

>1v2y_A 3300001G02RIK protein; hypothetical protein, ubiquitin-like fold, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.15.1.1

Probab=96.28  E-value=0.012  Score=37.94  Aligned_cols=76  Identities=18%  Similarity=0.225  Sum_probs=51.9

Q ss_pred             CCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCC--Cchh----------hcceeEEEECCeecC-C--
Q 034054           22 ESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFP--NLEE----------IRGCMVLALNEEYTN-A--   86 (105)
Q Consensus        22 ~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p--~l~~----------~~~~~~vaVNg~~v~-~--   86 (105)
                      +..|+|+|+-      ..| ...+++++...||.+|.+.+.+...  .-..          +.....+.-+|+... .  
T Consensus         5 ~~~M~I~Vk~------l~g-~~~~v~V~~~~TV~dLK~~I~~~~~i~~~~q~g~~~isw~~~w~q~~Li~~Gk~L~dD~~   77 (105)
T 1v2y_A            5 SSGMTVRVCK------MDG-EVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRK   77 (105)
T ss_dssp             CCSEEEEEEC------SSS-CEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSS
T ss_pred             CCcEEEEEEe------cCC-CEEEEEECCCChHHHHHHHHHHHhCCCcccccCcceeeeeecceeEEEEeCCcCccCCcC
Confidence            4459999984      224 5789999999999999999987651  1000          012234446787764 2  


Q ss_pred             ---CCccCCCCEEEEEcCCCC
Q 034054           87 ---SVIVNEKDELAIIPPISG  104 (105)
Q Consensus        87 ---d~~L~dGDeVaiiPPvsG  104 (105)
                         |+-|++|+.|.|+....|
T Consensus        78 tL~dygI~~g~~l~lv~~lr~   98 (105)
T 1v2y_A           78 KLRDYGIRNRDEVSFIKKLGQ   98 (105)
T ss_dssp             BHHHHTCCSSEEEEEEECSCS
T ss_pred             CHHHcCCCCCCEEEEEehhcc
Confidence               347889999999987655

>2kan_A Uncharacterized protein AR3433A; ubiquitin fold, alpha+beta, structural genomics, protein structure initiative; NMR {Arabidopsis thaliana}

Probab=96.26  E-value=0.067  Score=33.15  Aligned_cols=77  Identities=14%  Similarity=0.038  Sum_probs=55.2

Q ss_pred             ccCCCCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-C-----ccC
Q 034054           18 VDNKESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-V-----IVN   91 (105)
Q Consensus        18 ~~~~~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-~-----~L~   91 (105)
                      +-.....|+|.|+..+      |  ...++++...||.+|.+.|..... +.  .+..++..+|+....+ .     -++
T Consensus         9 ~~~~~~~~~I~Vk~~~------~--~~~l~v~~~~TV~~LK~~I~~~~g-ip--~~~QrLi~~Gk~L~D~~~tL~~ygI~   77 (94)
T 2kan_A            9 SHAAVRKIHVTVKFPS------K--QFTVEVDRTETVSSLKDKIHIVEN-TP--IKRMQLYYSGIELADDYRNLNEYGIT   77 (94)
T ss_dssp             SCSSSCCEEEEEECSS------C--EEEEEECTTCBHHHHHHHHHHHSS-SC--TTTEEEEETTEEECCTTSBHHHHTCC
T ss_pred             cccCCCCEEEEEEcCC------c--EEEEEECCCCcHHHHHHHHHHHHC-cC--HHHEEEEECCEECCCCcccHHHCCCC
Confidence            3445566999998643      2  567888888999999999998752 21  1234566788887655 3     467


Q ss_pred             CCCEEEEEcCCCCC
Q 034054           92 EKDELAIIPPISGG  105 (105)
Q Consensus        92 dGDeVaiiPPvsGG  105 (105)
                      +|+.|.++-...||
T Consensus        78 ~gstl~lv~r~~gg   91 (94)
T 2kan_A           78 EFSEIVVFLKSINR   91 (94)
T ss_dssp             TTEEEEEEECCCSS
T ss_pred             CCCEEEEEEeCCCC
Confidence            99999888777776

>3u30_A Ubiquitin, linear DI-ubiquitin; immune system; 2.43A {Homo sapiens}

Probab=96.23  E-value=0.041  Score=37.33  Aligned_cols=76  Identities=18%  Similarity=0.253  Sum_probs=53.8

Q ss_pred             CCCCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCC
Q 034054           20 NKESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKD   94 (105)
Q Consensus        20 ~~~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGD   94 (105)
                      ..+.+|+|+|+.+.      | +...++++...||.+|.+.+..... +.  ...-.+..+|+....     ++-+.+|+
T Consensus        16 ~~~~~m~i~Vk~~~------g-~~~~l~v~~~~tV~~lK~~I~~~~g-ip--~~~QrL~~~g~~L~d~~tL~~~~i~~~~   85 (172)
T 3u30_A           16 PRGSHMQIFVKTLT------G-KTITLEVEPSDTIENVKAKIQDKEG-IP--PDQQRLIFAGKQLEDGRTLSDYNIQKES   85 (172)
T ss_dssp             ---CCEEEEEEETT------T-EEEEEEECTTCBHHHHHHHHHHHHC-CC--GGGEEEEETTEECCTTCBTGGGTCCTTC
T ss_pred             CCCCcEEEEEEeCC------C-CEEEEEECCCCcHHHHHHHHHHHHC-cC--hHHEEEEECCccccccCCHhHcCCcccc
Confidence            44566999998753      3 4678899888999999999988652 11  122355678887754     46688999


Q ss_pred             EEEEEcCCCCC
Q 034054           95 ELAIIPPISGG  105 (105)
Q Consensus        95 eVaiiPPvsGG  105 (105)
                      .|.++-...||
T Consensus        86 ~l~l~~~~~gg   96 (172)
T 3u30_A           86 TLHLVLRLRGG   96 (172)
T ss_dssp             EEEEEECCCCC
T ss_pred             eeeeeeccccc
Confidence            99998777665

>2bwf_A Ubiquitin-like protein DSK2; signaling protein, UBA, signaling proteins; 1.15A {Saccharomyces cerevisiae} SCOP: d.15.1.1 PDB: 2bwe_S

Probab=96.23  E-value=0.044  Score=31.88  Aligned_cols=67  Identities=9%  Similarity=0.069  Sum_probs=47.5

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----CccCCCCEEE
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----VIVNEKDELA   97 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L~dGDeVa   97 (105)
                      ++|+|+|+. .      | ....++++...|+.+|...+..... +.  .....+..+|+....+     +-+++|+.|.
T Consensus         3 M~m~i~vk~-~------g-~~~~~~v~~~~tV~~LK~~i~~~~~-i~--~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~   71 (77)
T 2bwf_A            3 MSLNIHIKS-G------Q-DKWEVNVAPESTVLQFKEAINKANG-IP--VANQRLIYSGKILKDDQTVESYHIQDGHSVH   71 (77)
T ss_dssp             EEEEEEEEE-T------T-EEEEEEECTTCBHHHHHHHHHHHHC-CC--GGGEEEEETTEECCTTSBTGGGTCCTTCEEE
T ss_pred             eEEEEEEEE-C------C-EEEEEEECCCCcHHHHHHHHHHHhC-CC--HHHEEEEECCeEcCCCCCHHHcCCCCCCEEE
Confidence            447777775 2      3 3578889888999999999987652 21  1345667889887643     4567999998


Q ss_pred             EEc
Q 034054           98 IIP  100 (105)
Q Consensus        98 iiP  100 (105)
                      ++.
T Consensus        72 l~~   74 (77)
T 2bwf_A           72 LVK   74 (77)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            764

>1wia_A Hypothetical ubiquitin-like protein (riken cDNA 2010008E23); 'structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.15.1.1

Probab=96.12  E-value=0.033  Score=34.24  Aligned_cols=67  Identities=12%  Similarity=0.076  Sum_probs=48.7

Q ss_pred             CCCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC------CccCCCC
Q 034054           21 KESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS------VIVNEKD   94 (105)
Q Consensus        21 ~~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d------~~L~dGD   94 (105)
                      ++..|+|+|+...      | ....++++...||.+|.+.+....|      ...++..+|+....+      +-+.+|+
T Consensus         4 ~~~~m~i~Vk~~~------g-~~~~~~v~~~~TV~~LK~~i~~~~~------~~qrLi~~Gk~L~D~~~tL~~y~i~~g~   70 (95)
T 1wia_A            4 GSSGINVRLKFLN------D-TEELAVARPEDTVGTLKSKYFPGQE------SQMKLIYQGRLLQDPARTLSSLNITNNC   70 (95)
T ss_dssp             CCCSEEEEEEETT------T-EEEEEEECSSSBHHHHHHHHSSSTT------TTCEEEETTEECCCSSCBTTTTTCCTTE
T ss_pred             CCCeEEEEEEeCC------C-CEEEEEECCCCcHHHHHHHHHhhCc------CcEEEEECCEEccCCcCCHHHcCCCCCC
Confidence            4556999998642      3 3567888888999999999987652      234556788877544      4577999


Q ss_pred             EEEEEc
Q 034054           95 ELAIIP  100 (105)
Q Consensus        95 eVaiiP  100 (105)
                      .|.++-
T Consensus        71 ~i~l~~   76 (95)
T 1wia_A           71 VIHCHR   76 (95)
T ss_dssp             EEEEEC
T ss_pred             EEEEEE
Confidence            998874

>4a20_A Ubiquitin-like protein MDY2; protein binding, GET-pathway, tail-anchored proteins; 1.78A {Saccharomyces cerevisiae} PDB: 2lxc_A 4goc_A

Probab=96.11  E-value=0.058  Score=34.07  Aligned_cols=71  Identities=10%  Similarity=0.140  Sum_probs=47.6

Q ss_pred             CCCCceEEEEEecHHhHhhcCCCceEE--EeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCcc-C
Q 034054           20 NKESSIQIKVLFFARARDLTGLTDMPL--EVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIV-N   91 (105)
Q Consensus        20 ~~~~~m~V~V~~fg~lre~~g~~~~~v--ev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L-~   91 (105)
                      ...++|+|+|+...      |. ...+  +++...|+.+|.+.|.+..+++..  +..++..+|+....     ++-+ +
T Consensus        15 ~~~~~m~I~VKtl~------g~-~~~i~v~v~~~~TV~~lK~~I~~~~~gip~--~~QrLi~~Gk~L~D~~tL~dy~I~~   85 (98)
T 4a20_A           15 MDNAAVHLTLKKIQ------AP-KFSIEHDFSPSDTILQIKQHLISEEKASHI--SEIKLLLKGKVLHDNLFLSDLKVTP   85 (98)
T ss_dssp             ---CCEEEEEEECS------SS-CEEEEEEECTTCBHHHHHHHHHHTTSCSCG--GGEEEEETTEEECTTCBGGGSCCBT
T ss_pred             CCCCCEEEEEEcCC------CC-EEEEEEecCCCChHHHHHHHHHHHhcCCCh--hhEEEEECCEECcCcCCHHHcCcCC
Confidence            35567999998754      32 3444  666889999999999444444321  33466678988764     4678 8


Q ss_pred             CCCEEEEE
Q 034054           92 EKDELAII   99 (105)
Q Consensus        92 dGDeVaii   99 (105)
                      +|+.|.++
T Consensus        86 ~g~ti~lm   93 (98)
T 4a20_A           86 ANSTITVM   93 (98)
T ss_dssp             TBCEEEEE
T ss_pred             CCCEEEEE
Confidence            99998876

>4dwf_A HLA-B-associated transcript 3; ubiquitin-like domain, BAT3 protein, PF00240, structural GEN joint center for structural genomics, JCSG; 1.80A {Homo sapiens} PDB: 1wx9_A

Probab=95.99  E-value=0.063  Score=32.43  Aligned_cols=69  Identities=9%  Similarity=0.083  Sum_probs=48.6

Q ss_pred             CCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----CccCCCCEE
Q 034054           22 ESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----VIVNEKDEL   96 (105)
Q Consensus        22 ~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L~dGDeV   96 (105)
                      +.+|+|+|+...      | ....++++...||.+|.+.+.+... +.  ....++..+|+....+     +-+ +|+.|
T Consensus         3 ~~~m~i~Vk~~~------g-~~~~~~v~~~~tV~~lK~~i~~~~g-ip--~~~qrLi~~Gk~L~d~~tL~~~~i-~g~~i   71 (90)
T 4dwf_A            3 PDSLEVLVKTLD------S-QTRTFIVGAQMNVKEFKEHIAASVS-IP--SEKQRLIYQGRVLQDDKKLQEYNV-GGKVI   71 (90)
T ss_dssp             CCEEEEEEEETT------C-CEEEEEEETTCBHHHHHHHHHHHHT-CC--GGGEEEEETTEECCTTSBGGGGTC-TTEEE
T ss_pred             CcEEEEEEEcCC------C-CEEEEEECCCCCHHHHHHHHHHHhC-CC--HHHEEEEECCeECCCCCCHHHcCC-CCcEE
Confidence            456999998763      3 4678888888999999999988752 11  1234566799887654     456 68888


Q ss_pred             EEEcC
Q 034054           97 AIIPP  101 (105)
Q Consensus        97 aiiPP  101 (105)
                      .++-.
T Consensus        72 ~l~~~   76 (90)
T 4dwf_A           72 HLVER   76 (90)
T ss_dssp             EEEEC
T ss_pred             EEEec
Confidence            77643

>1we6_A Splicing factor, putative; structural genomics, ubiquitin-like domain, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: d.15.1.1

Probab=95.94  E-value=0.071  Score=33.84  Aligned_cols=77  Identities=13%  Similarity=0.109  Sum_probs=54.7

Q ss_pred             CCceEEEEEecHHhHhhcCCCceEEEeCC-CCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCE
Q 034054           22 ESSIQIKVLFFARARDLTGLTDMPLEVSC-GSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDE   95 (105)
Q Consensus        22 ~~~m~V~V~~fg~lre~~g~~~~~vev~~-~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDe   95 (105)
                      +..|+|+|+....-   .| ....++++. ..||.+|...|..... +..  ....+..+|+....     ++-+.+|+.
T Consensus        25 ~~~i~i~Vk~~~~~---~g-~~~~l~v~~l~~TV~~LK~~I~~~~g-ip~--~~QrL~~~Gk~L~D~~tL~~y~I~~g~~   97 (111)
T 1we6_A           25 PGPATIRVSKPNEN---DG-QFMEITVQSLSENVGSLKEKIAGEIQ-IPA--NKQKLSGKAGFLKDNMSLAHYNVGAGEI   97 (111)
T ss_dssp             CSCEEEEECCTTCS---SS-CCEEEEESCSSSBHHHHHHHHHHHTT-CCT--TTSEEECSSSBCCTTSBTTTTTCSSSCE
T ss_pred             CCcEEEEEEecccC---CC-cEEEEEecCCCCcHHHHHHHHHHHHC-CCH--HHeEEEECCEECCCCCcHHHCCCCCCCE
Confidence            34588998876211   24 467899987 8999999999998752 211  22345568877653     466779999


Q ss_pred             EEEEcCCCCC
Q 034054           96 LAIIPPISGG  105 (105)
Q Consensus        96 VaiiPPvsGG  105 (105)
                      |.++-..-||
T Consensus        98 l~l~~r~~GG  107 (111)
T 1we6_A           98 LTLSLRERSG  107 (111)
T ss_dssp             EEEECSSCCS
T ss_pred             EEEEEEcCCC
Confidence            9999888887

>1ttn_A DC-UBP, dendritic cell-derived ubiquitin-like protein; ubiquitin-like domain, solution structure, signaling protein; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=95.86  E-value=0.059  Score=33.98  Aligned_cols=73  Identities=16%  Similarity=0.147  Sum_probs=50.9

Q ss_pred             ccCCCCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCC
Q 034054           18 VDNKESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNE   92 (105)
Q Consensus        18 ~~~~~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~d   92 (105)
                      ..+....|+|+|+..+      | +...++++...||.+|...|..... +.  ....++..+|+....     ++-+.+
T Consensus        17 ~~~~~~~m~I~Vk~~~------g-~~~~l~v~~~~TV~~LK~~I~~~~g-ip--~~~qrLi~~Gk~L~D~~tL~~ygI~~   86 (106)
T 1ttn_A           17 PPNSGYECQLRLRLST------G-KDLKLVVRSTDTVFHMKRRLHAAEG-VE--PGSQRWFFSGRPLTDKMKFEELKIPK   86 (106)
T ss_dssp             ----CCSEEEEEEETT------T-EEEEEEECTTSHHHHHHHHHHHTTC-CC--STTCEEEETTEECCTTSHHHHCCCSS
T ss_pred             CCCCCCeEEEEEEcCC------C-CEEEEEeCCCCcHHHHHHHHHHHHC-cC--cccEEEEECCEECCCCCcHHHcCCCC
Confidence            4455667999999864      3 4567889888999999999988752 21  123456678988864     356789


Q ss_pred             CCEEEEEc
Q 034054           93 KDELAIIP  100 (105)
Q Consensus        93 GDeVaiiP  100 (105)
                      |+.|.++-
T Consensus        87 g~ti~lv~   94 (106)
T 1ttn_A           87 DYVVQVIV   94 (106)
T ss_dssp             SCEEEEEC
T ss_pred             CCEEEEEE
Confidence            99998764

>3l0w_B Monoubiquitinated proliferating cell nuclear antigen, proliferating cell nuclear antigen; replication, DNA damage, DNA repair; 2.80A {Saccharomyces cerevisiae} PDB: 3l10_B

Probab=95.85  E-value=0.06  Score=36.99  Aligned_cols=71  Identities=18%  Similarity=0.273  Sum_probs=52.4

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      |+|.|+...      | +...++++...|+.+|.+.+..... +.  .+..++..+|+....     +.-+++|+.|.++
T Consensus         1 MqI~Vk~~~------G-k~~~l~v~~~~TV~~LK~~I~~~~g-ip--~~~QrLi~~Gk~L~D~~tL~~y~I~~gstI~Lv   70 (169)
T 3l0w_B            1 MQIFVKTLT------G-KTITLEVESSDTIDNVKSKIQDKEG-IP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV   70 (169)
T ss_dssp             CEEEEEETT------S-CEEEEECCTTCBHHHHHHHHHHHHC-CC--TTTEEEEETTEECCTTSBGGGGTCCTTCEEEEE
T ss_pred             CEEEEEeCC------C-CEEEEEeCCCCCHHHHHHHHHHHHC-cC--HHHEEEEECCccccCcCcHHHcCCCCCCEEEEE
Confidence            678887642      4 4678899888999999999988652 11  123466778988764     4568899999999


Q ss_pred             cCCCCC
Q 034054          100 PPISGG  105 (105)
Q Consensus       100 PPvsGG  105 (105)
                      -..-||
T Consensus        71 lrl~GG   76 (169)
T 3l0w_B           71 LRLRGG   76 (169)
T ss_dssp             ECCCC-
T ss_pred             EEeccc
Confidence            888776

>1uel_A HHR23B, UV excision repair protein RAD23 homolog B; UBL, UIM, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=95.85  E-value=0.087  Score=32.44  Aligned_cols=66  Identities=11%  Similarity=0.151  Sum_probs=47.0

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhC--CCchhhcceeEEEECCeecCC-----CCccCCCCEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARF--PNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELA   97 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~--p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVa   97 (105)
                      |+|+|+...      | ....++++...||.+|.+.+...+  .++.  ....++..+|+....     ++-+.+|+.|.
T Consensus         1 M~I~Vk~~~------g-~~~~~~v~~~~TV~~LK~~I~~~~~~~gip--~~~qrLi~~Gk~L~D~~tL~~ygI~~g~~i~   71 (95)
T 1uel_A            1 MQVTLKTLQ------Q-QTFKIDIDPEETVKALKEKIESEKGKDAFP--VAGQKLIYAGKILNDDTALKEYKIDEKNFVV   71 (95)
T ss_dssp             CEEEEEETT------C-CEEEEECCTTSBHHHHHHHHHHHHCTTTCC--TTTEEEEETTEECCTTSBGGGGTCCSSSEEE
T ss_pred             CEEEEEeCC------C-CEEEEEECCCCHHHHHHHHHHhhcccCCCC--hhhEEEEECCEECCCcCcHHHCCCCCCCEEE
Confidence            677887652      3 367889988899999999999873  1221  123466778988764     35677999997


Q ss_pred             EE
Q 034054           98 II   99 (105)
Q Consensus        98 ii   99 (105)
                      ++
T Consensus        72 l~   73 (95)
T 1uel_A           72 VM   73 (95)
T ss_dssp             EE
T ss_pred             EE
Confidence            65

>3m62_B UV excision repair protein RAD23; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=95.81  E-value=0.056  Score=34.18  Aligned_cols=65  Identities=15%  Similarity=0.259  Sum_probs=47.3

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      |+|+|+.+.      | ....++++...||.+|.+.+..... +..  ...++..+|+....     ++-|++|+.|.++
T Consensus         2 m~I~Vk~~~------g-~~~~l~v~~~~TV~~LK~~I~~~~g-ip~--~~QrLi~~Gk~L~D~~tL~~~~i~~g~~i~lv   71 (106)
T 3m62_B            2 VSLTFKNFK------K-EKVPLDLEPSNTILETKTKLAQSIS-CEE--SQIKLIYSGKVLQDSKTVSECGLKDGDQVVFM   71 (106)
T ss_dssp             -CEEEECTT------C-CEEEECCCTTSBHHHHHHHHHHTTT-SCG--GGCEEEETTEECCTTSBTTTTTCCTTCEEEEE
T ss_pred             EEEEEEeCC------C-CEEEEEECCCCcHHHHHHHHHHHHC-CCh--hhEEEEECCEECCCcCCHHHcCCCCCCEEEEE
Confidence            778888543      3 4678888888999999999998763 211  23456678988754     5678899999887

>2eke_C Ubiquitin-like protein SMT3; UBC9, SUMO binding motif, SBM, ligase/protein binding complex; 1.90A {Saccharomyces cerevisiae} SCOP: d.15.1.1

Probab=95.81  E-value=0.11  Score=33.43  Aligned_cols=74  Identities=14%  Similarity=0.166  Sum_probs=53.7

Q ss_pred             CCCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCE
Q 034054           21 KESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDE   95 (105)
Q Consensus        21 ~~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDe   95 (105)
                      ....|.|+|+.       .| ....+.+...+++..|++..+++.. +.  ...+++.-+|+.+..     +.-+.+||.
T Consensus        28 ~~~~I~IkV~~-------~g-~~i~fkIk~tt~l~kL~~ay~ek~g-i~--~~~~rF~FdG~rl~~~~Tp~dl~medgD~   96 (106)
T 2eke_C           28 PETHINLKVSD-------GS-SEIFFKIKKTTPLRRLMEAFAKRQG-KE--MDSLRFLYDGIRIQADQTPEDLDMEDNDI   96 (106)
T ss_dssp             CCSEEEEEEEC-------SS-CEEEEEEETTSCTHHHHHHHHHHHT-CC--GGGEEEEETTEECCTTCCTTTTTCCTTEE
T ss_pred             CCCeEEEEEec-------CC-cEEEEEeCCCCHHHHHHHHHHHHhC-CC--cccEEEEECCeEcCCCCCHHHcCCCCCCE
Confidence            34457777763       24 4678889888999999999988753 21  246788889999863     467999999


Q ss_pred             EEEEcCCCCC
Q 034054           96 LAIIPPISGG  105 (105)
Q Consensus        96 VaiiPPvsGG  105 (105)
                      |.++.--.||
T Consensus        97 Idv~~~q~GG  106 (106)
T 2eke_C           97 IEAHREQIGG  106 (106)
T ss_dssp             EEEEECC---
T ss_pred             EEEEeecccC
Confidence            9999888887

>3b08_A Polyubiquitin-C, ubiquitin; protein complex, signaling protein-metal binding protein COM; HET: TRE; 1.70A {Homo sapiens} PDB: 2w9n_A* 3b0a_A* 3axc_A 2zvn_A 2zvo_A 2y5b_B

Probab=95.76  E-value=0.14  Score=33.34  Aligned_cols=71  Identities=20%  Similarity=0.265  Sum_probs=51.2

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      |.|.|+.+      .| ....++++...|+.+|.+.+..... +.  .+...+..+|+....     ++-+++|+.|.++
T Consensus        77 ~~i~Vk~~------~g-~~~~~~v~~~~tv~~lK~~i~~~~g-i~--~~~qrL~~~g~~L~d~~tL~~~~i~~~~~i~l~  146 (152)
T 3b08_A           77 MQIFVKTL------TG-KTITLEVEPSDTIENVKAKIQDKEG-IP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV  146 (152)
T ss_dssp             EEEEEEES------SS-CEEEEEECTTCBHHHHHHHHHHHHC-CC--GGGEEEEETTEECCTTSBTGGGTCCTTCEEEEE
T ss_pred             cceeeeec------CC-CEEEEEeCCCCcHHHHHHHHHHHhC-cC--hhhEEEEECCEECCCCCCHHHcCCCCCCEEEEE
Confidence            56666543      24 4678899888999999999988642 11  123456678988754     4567899999999


Q ss_pred             cCCCCC
Q 034054          100 PPISGG  105 (105)
Q Consensus       100 PPvsGG  105 (105)
                      ...-||
T Consensus       147 ~r~~GG  152 (152)
T 3b08_A          147 LRLRGG  152 (152)
T ss_dssp             ECCCC-
T ss_pred             EecCCC
Confidence            999888

>2k8h_A Small ubiquitin protein; SUMO, post-translational modifier, signaling protein; NMR {Trypanosoma brucei}

Probab=95.74  E-value=0.057  Score=34.96  Aligned_cols=73  Identities=11%  Similarity=0.276  Sum_probs=55.4

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----CccCCCCEEE
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----VIVNEKDELA   97 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L~dGDeVa   97 (105)
                      ..|.|+|+-      ..| ....+.+...+++..|++..+++.. +.  ...+++..+|+.+..+     .-+.+||.|.
T Consensus        25 ~~I~IkVk~------~~g-~~i~fkVk~~t~l~kL~~ay~ek~g-i~--~~~~rfiFdG~~L~~~~Tp~dl~mEDgD~Id   94 (110)
T 2k8h_A           25 ALVAVKVVN------ADG-AEMFFRIKSRTALKKLIDTYCKKQG-IS--RNSVRFLFDGTPIDETKTPEELGMEDDDVID   94 (110)
T ss_dssp             CCEEEEEEE------TTS-CCEEEEECTTSSHHHHHHHHHHHHT-CC--SSSCEEESSSCBCCSSSHHHHHHCSSEEEEE
T ss_pred             CeEEEEEEC------CCC-CEEEEEECCCChHHHHHHHHHHHhC-CC--cccEEEEECCEEcCCCCCHHHcCCCCCCEEE
Confidence            447777763      234 4688999888999999999988642 21  2457888899998753     4699999999


Q ss_pred             EEcCCCCC
Q 034054           98 IIPPISGG  105 (105)
Q Consensus        98 iiPPvsGG  105 (105)
                      ++..-.||
T Consensus        95 v~~~q~Gg  102 (110)
T 2k8h_A           95 AMVEQTGG  102 (110)
T ss_dssp             EECCCCCC
T ss_pred             EEEcccCc
Confidence            99998887

>3rt3_B Ubiquitin-like protein ISG15; ubiquitin-like domain, isgylation, antiviral protein-viral P complex; 2.01A {Homo sapiens} PDB: 3sdl_C 3r66_C 3pse_B 1z2m_A

Probab=95.65  E-value=0.098  Score=34.79  Aligned_cols=74  Identities=12%  Similarity=0.088  Sum_probs=51.6

Q ss_pred             CCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEE
Q 034054           22 ESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDEL   96 (105)
Q Consensus        22 ~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeV   96 (105)
                      +..|+|.|+..      .| +...++++...|+.+|.+.+..... +.  .+...+..+|+....     ++-+++|+.|
T Consensus        79 ~~~m~i~vk~~------~g-~~~~~~v~~~~tV~~lK~~i~~~~g-ip--~~~q~L~~~G~~L~d~~tL~~y~i~~g~~l  148 (159)
T 3rt3_B           79 DEPLSILVRNN------KG-RSSTYEVRLTQTVAHLKQQVSGLEG-VQ--DDLFWLTFEGKPLEDQLPLGEYGLKPLSTV  148 (159)
T ss_dssp             CCCEEEEEECT------TS-CEEEEEECTTSBHHHHHHHHHHHHT-CC--GGGEEEEETTEECCTTSBGGGGTCCTTCEE
T ss_pred             CCcEEEEEECC------CC-CEEEEEeCCCCCHHHHHHHHHHHHC-CC--HHHEEEEECCeecCCCCCHHHcCCCCCCEE
Confidence            34577776643      24 4678999988999999999987642 11  123456679988764     4678889999


Q ss_pred             EEEcCCCCC
Q 034054           97 AIIPPISGG  105 (105)
Q Consensus        97 aiiPPvsGG  105 (105)
                      .++-..-||
T Consensus       149 ~l~~rl~GG  157 (159)
T 3rt3_B          149 FMNLRLRGG  157 (159)
T ss_dssp             EEEECCC--
T ss_pred             EEEEecCCC
Confidence            999777766

>3q3f_A Ribonuclease/ubiquitin chimeric protein; domain SWAP, oligomerization, ubiquitin insertion, hydrolase binding; 2.17A {Bacillus amyloliquefaciens}

Probab=95.62  E-value=0.061  Score=37.92  Aligned_cols=71  Identities=18%  Similarity=0.225  Sum_probs=52.9

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      |+|.|+...      | ....++++...||.+|.+.|.+... +..  +...+..+|+....     +.-+++|+.|.++
T Consensus       106 MqI~VKtl~------G-kt~~l~V~~s~TV~~LK~kI~~~~g-Ip~--~~QrLi~~Gk~L~D~~tL~dygI~~gstI~Lv  175 (189)
T 3q3f_A          106 GQIFVKTLT------G-KTITLEVEPSDTIENVKAKIQDKEG-IPP--DQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV  175 (189)
T ss_dssp             EEEEEECTT------S-CEEEEEECTTCBHHHHHHHHHHHHC-CCG--GGCCEEETTEECCTTCBGGGGTCCTTCEEEEC
T ss_pred             eeeeeecCC------C-CEEEEEeCCCCcHHHHHHHHHhccC-CCH--HHEEEEECCEECCCCCCHHHCCCCCCCEEEEE
Confidence            888888642      4 4678999888999999999987652 111  22345578888764     4568899999999


Q ss_pred             cCCCCC
Q 034054          100 PPISGG  105 (105)
Q Consensus       100 PPvsGG  105 (105)
                      ...-||
T Consensus       176 lrlrGG  181 (189)
T 3q3f_A          176 LRLRGG  181 (189)
T ss_dssp             CCCCCC
T ss_pred             EEcCCC
Confidence            888887

>3b08_A Polyubiquitin-C, ubiquitin; protein complex, signaling protein-metal binding protein COM; HET: TRE; 1.70A {Homo sapiens} PDB: 2w9n_A* 3b0a_A* 3axc_A 2zvn_A 2zvo_A 2y5b_B

Probab=95.58  E-value=0.12  Score=33.73  Aligned_cols=71  Identities=18%  Similarity=0.256  Sum_probs=50.5

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      |+|+|+...      | ....++++...|+.+|.+.+..... +.  .....+..+|+....     ++-+.+|+.|.++
T Consensus         1 M~i~vk~~~------g-~~~~~~v~~~~tv~~lK~~i~~~~g-ip--~~~q~L~~~g~~L~d~~tL~~~~i~~~~~l~l~   70 (152)
T 3b08_A            1 MQIFVKTLT------G-KTITLEVEPSDTIENVKAKIQDKEG-IP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV   70 (152)
T ss_dssp             CEEEEEETT------S-CEEEEECCTTCBHHHHHHHHHHHHC-CC--GGGEEEEETTEECCTTSBTGGGTCCTTCEEEEE
T ss_pred             CEEEEEeCC------C-CEEEEEECCCCCHHHHHHHHHHHHC-cC--hHHeEEEECCeECcCcccHHHhccCCCCeeEEE
Confidence            677877653      3 3678899888999999999988652 11  123456678887754     4567899999988


Q ss_pred             cCCCCC
Q 034054          100 PPISGG  105 (105)
Q Consensus       100 PPvsGG  105 (105)
                      ....||
T Consensus        71 ~~~~~~   76 (152)
T 3b08_A           71 LRLRGG   76 (152)
T ss_dssp             ECCTTC
T ss_pred             eecccc
Confidence            766554

>2kk8_A Uncharacterized protein AT4G05270; solution arabidopsis thaliana, uncharacterized putative protein, NESG, structural genomics; NMR {Arabidopsis thaliana}

Probab=95.53  E-value=0.084  Score=32.03  Aligned_cols=67  Identities=13%  Similarity=0.111  Sum_probs=49.0

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCee-cCCC-----CccCCCCEE
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEY-TNAS-----VIVNEKDEL   96 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~-v~~d-----~~L~dGDeV   96 (105)
                      +.|+|.|+.+.      | +...++++...|+.+|.+.|..... +.  .+..++..+|+. ...+     +-+++|+.|
T Consensus         9 ~~~~i~vk~l~------g-~~~~l~v~~~~TV~~LK~~I~~~~g-ip--~~~QrLi~~Gk~lL~D~~tL~~y~I~~gs~i   78 (84)
T 2kk8_A            9 SHMKFLVENLN------G-SSFELEVDYRDTLLVVKQKIERSQH-IP--VSKQTLIVDGIVILREDLTVEQCQIVPTSDI   78 (84)
T ss_dssp             CCEEEEEEETT------S-CEEEEEECTTSBHHHHHHHHHHHHT-CC--GGGEEEEETTEECCCSSSBHHHHTCCTTSCE
T ss_pred             CceEEEEEecC------C-cEEEEEECCCChHHHHHHHHHHHHC-cC--hHHEEEEECCEEecCCcCCHHHcCCCCCCEE
Confidence            46999998875      3 4678999988999999999988752 11  123466778988 6543     456789988


Q ss_pred             EEE
Q 034054           97 AII   99 (105)
Q Consensus        97 aii   99 (105)
                      .++
T Consensus        79 ~lv   81 (84)
T 2kk8_A           79 QLE   81 (84)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            764

>2klc_A Ubiquilin-1; ubiquitin-like, structural genomics, PSI-2, protein structur initiative, northeast structural genomics consortium, NESG; NMR {Homo sapiens}

Probab=95.43  E-value=0.25  Score=30.86  Aligned_cols=71  Identities=11%  Similarity=0.111  Sum_probs=50.5

Q ss_pred             CCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEE
Q 034054           22 ESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDEL   96 (105)
Q Consensus        22 ~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeV   96 (105)
                      ...|+|+|+..       | ....++++...||.+|.+.|..... +.  .....+..+|+....     ++-+.+|+.|
T Consensus        23 ~~~m~I~Vk~~-------g-~~~~l~v~~~~TV~~LK~~I~~~~g-ip--~~~qrLi~~Gk~L~D~~tL~~~gI~~g~~I   91 (101)
T 2klc_A           23 PKIMKVTVKTP-------K-EKEEFAVPENSSVQQFKEEISKRFK-SH--TDQLVLIFAGKILKDQDTLSQHGIHDGLTV   91 (101)
T ss_dssp             CCCEEEEEECS-------S-CEEEEEECSCCCHHHHHHHHHHHHT-CC--GGGEEEEETTEEECTTCCTGGGTCCTTCEE
T ss_pred             CCeEEEEEEeC-------C-cEEEEEECCCCCHHHHHHHHHHHHC-cC--hhhEEEEECCEECCCcCcHHHcCCCCCCEE
Confidence            45699999875       3 2568889888999999999987652 11  123456678888754     4567799999


Q ss_pred             EEEcCCC
Q 034054           97 AIIPPIS  103 (105)
Q Consensus        97 aiiPPvs  103 (105)
                      .++-...
T Consensus        92 ~l~~~~~   98 (101)
T 2klc_A           92 HLVIKTQ   98 (101)
T ss_dssp             EEEECCS
T ss_pred             EEEEcCC
Confidence            8875443

>2faz_A Ubiquitin-like containing PHD and ring finger DOM protein 1; cell cycle, DNA damage, DNA repair, DNA-binding, ligase, Met binding, nuclear protein; 2.00A {Homo sapiens} SCOP: d.15.1.1

Probab=95.32  E-value=0.2  Score=29.18  Aligned_cols=69  Identities=17%  Similarity=0.191  Sum_probs=48.4

Q ss_pred             ceEEEEEecHHhHhhcCCCceEEE-eCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEE
Q 034054           24 SIQIKVLFFARARDLTGLTDMPLE-VSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELA   97 (105)
Q Consensus        24 ~m~V~V~~fg~lre~~g~~~~~ve-v~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVa   97 (105)
                      .|+|.|+...      |+.-..++ ++...|+.+|.+.+..... +.  ....++..+|+....     ++-+.+|+.|.
T Consensus         2 ~m~i~Vk~~~------g~~~~~l~~v~~~~tv~~lK~~i~~~~g-ip--~~~qrL~~~g~~L~d~~tL~~~~i~~g~~i~   72 (78)
T 2faz_A            2 SMWIQVRTMD------GRQTHTVDSLSRLTKVEELRRKIQELFH-VE--PGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQ   72 (78)
T ss_dssp             CEEEEEEETT------SSCEEEEEEECTTCBHHHHHHHHHHHHC-CC--GGGEEEEETTEECCTTCBTTTTTCCTTCEEE
T ss_pred             cEEEEEEECC------CCEEEEEeccCCCCCHHHHHHHHHHHHC-cC--hhhEEEEECCEECCCCCCHHHcCCCCCCEEE
Confidence            4888888753      43223788 8888999999999988652 11  123456678988754     45677999998


Q ss_pred             EEcC
Q 034054           98 IIPP  101 (105)
Q Consensus        98 iiPP  101 (105)
                      ++..
T Consensus        73 l~~r   76 (78)
T 2faz_A           73 LLVR   76 (78)
T ss_dssp             EEEC
T ss_pred             EEEe
Confidence            8754

>1tke_A Threonyl-tRNA synthetase; ligase; 1.46A {Escherichia coli} SCOP: d.15.10.1 d.67.1.1 PDB: 1tje_A 1tkg_A* 1tky_A*

Probab=95.22  E-value=0.015  Score=41.36  Aligned_cols=53  Identities=17%  Similarity=0.272  Sum_probs=42.4

Q ss_pred             eEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEcC
Q 034054           44 MPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPP  101 (105)
Q Consensus        44 ~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiPP  101 (105)
                      ...+++.++|+.|+...+...   +.  ...+...|||+.++.+++|.+|++|.|+..
T Consensus        10 ~~~~~~~g~T~~dia~~i~~~---l~--~~~vaakvNg~l~dL~~~l~~~~~ve~it~   62 (224)
T 1tke_A           10 SQRHYDHAVSPMDVALDIGPG---LA--KACIAGRVNGELVDACDLIENDAQLSIITA   62 (224)
T ss_dssp             CEEECSSCBCHHHHHHHHCHH---HH--HHCCEEEETTEEEETTCCBCSCEEEEEECT
T ss_pred             CEEEecCCCCHHHHHHHHhhh---cc--cceEEEEECCEEeccceEcCCCCeEEEEec
Confidence            357889999999998877432   22  235678899999999999999999998753

>1wz0_A Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-like molecule, structural genomics, sentrin2, NPPFSA; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=95.11  E-value=0.13  Score=32.74  Aligned_cols=73  Identities=12%  Similarity=0.217  Sum_probs=54.4

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEE
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELA   97 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVa   97 (105)
                      ..|.|+|+-      ..| ....+.+...+++..|++..+++.. +.  ...+++.-+|+.+..     +.-+.+||.|.
T Consensus        23 ~~I~IkVk~------~~g-~~i~~kVk~~t~l~kL~~~y~ek~g-i~--~~~~rf~FdG~~l~~~~Tp~dl~medgD~Id   92 (104)
T 1wz0_A           23 DHINLKVAG------QDG-SVVQFKIKRHTPLSKLMKAYCERQG-LS--MRQIRFRFDGQPINETDTPAQLEMEDEDTID   92 (104)
T ss_dssp             CCEEEEEEC------SSS-CEEEEEECTTSCHHHHHHHHHHHHT-CC--TTTSCEESSSSBCCTTSCTTTTTCCTTEEEE
T ss_pred             CeEEEEEEC------CCC-CEEEEEEcCCChHHHHHHHHHHHhC-CC--cceEEEEECCEEcCCCCCHHHcCCCCCCEEE
Confidence            457777763      234 4678999888999999999988752 11  235677889988853     46799999999


Q ss_pred             EEcCCCCC
Q 034054           98 IIPPISGG  105 (105)
Q Consensus        98 iiPPvsGG  105 (105)
                      ++.--.||
T Consensus        93 v~~~q~GG  100 (104)
T 1wz0_A           93 VFQQQTSG  100 (104)
T ss_dssp             ECCCCCCC
T ss_pred             EEEeccCC
Confidence            99877776

>2daf_A FLJ35834 protein; hypothetical protein FLJ35834, ubiquitin-like domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=95.02  E-value=0.23  Score=32.67  Aligned_cols=77  Identities=6%  Similarity=0.065  Sum_probs=55.4

Q ss_pred             CCCccccCCCCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----
Q 034054           13 SDSALVDNKESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----   87 (105)
Q Consensus        13 ~~~~~~~~~~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----   87 (105)
                      ++|-...-.++.+.|+|+....      ....+++++...|+++|.+.|...+.--   .+..++.-+|+.+..+     
T Consensus         4 ~~~~~~~~~~~~itvkv~l~~~------~~k~tv~v~~d~TV~dLKe~ls~~~~iP---~e~qrLIy~GKiLKD~eTL~~   74 (118)
T 2daf_A            4 GSSGQESVEDSLATVKVVLIPV------GQEIVIPFKVDTILKYLKDHFSHLLGIP---HSVLQIRYSGKILKNNETLVQ   74 (118)
T ss_dssp             CCCCCCCCCSSCEEEEEEETTT------CCEEEEEECSSSCSHHHHHHHHHHHTCC---TTTEEEEETTEEECSSCCHHH
T ss_pred             chhhhhcccCccEEEEEEEcCC------CcEEEEEeCCCCcHHHHHHHHHhhhCCC---hHHEEEEECCeEcCCcchHHH
Confidence            3455555666778888886653      3568899998999999999999876211   2345677899998653     


Q ss_pred             CccCCCCEEEE
Q 034054           88 VIVNEKDELAI   98 (105)
Q Consensus        88 ~~L~dGDeVai   98 (105)
                      +-+++|..|-+
T Consensus        75 ~gIk~g~TIhL   85 (118)
T 2daf_A           75 HGVKPQEIVQV   85 (118)
T ss_dssp             HSCCSSCEEEE
T ss_pred             cCCCCCCEEEE
Confidence            46788888765

>4eew_A Large proline-rich protein BAG6; ubiquitin-like fold, GP78-binding, chaperone; 1.30A {Homo sapiens}

Probab=94.95  E-value=0.19  Score=30.06  Aligned_cols=69  Identities=9%  Similarity=0.100  Sum_probs=46.9

Q ss_pred             CCCCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----CccCCCC
Q 034054           20 NKESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----VIVNEKD   94 (105)
Q Consensus        20 ~~~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L~dGD   94 (105)
                      ..+..|+|+|+...      | ....++++...|+.+|.+.+..... +.  ....++..+|+....+     +-+ +|+
T Consensus        13 ~~~~~m~i~Vk~~~------g-~~~~~~v~~~~tV~~lK~~i~~~~g-ip--~~~qrLi~~Gk~L~D~~tL~~~~i-~g~   81 (88)
T 4eew_A           13 EEPDSLEVLVKTLD------S-QTRTFIVGAQMNVKEFKEHIAASVS-IP--SEKQRLIYQGRVLQDDKKLQEYNV-GGK   81 (88)
T ss_dssp             --CCEEEEEEEETT------S-CEEEEEEETTCBHHHHHHHHHHHHT-CC--GGGEEEEETTEECCTTSBGGGGTC-TTE
T ss_pred             cCCCeEEEEEEcCC------C-CEEEEEECCCCCHHHHHHHHHHHhC-CC--HHHEEEEECCEECCCCCcHHHcCC-CCc
Confidence            34566999998753      3 4577888888999999999987752 11  1223566689887654     445 688


Q ss_pred             EEEEE
Q 034054           95 ELAII   99 (105)
Q Consensus        95 eVaii   99 (105)
                      .|.++
T Consensus        82 ~i~lv   86 (88)
T 4eew_A           82 VIHLV   86 (88)
T ss_dssp             EEEEE
T ss_pred             EEEEE
Confidence            87765

>1we7_A SF3A1 protein; structural genomics, ubiquitin-like domain, riken structural genomics/proteomics initiative, RSGI, gene regulation; NMR {Mus musculus} SCOP: d.15.1.1 PDB: 1zkh_A

Probab=94.83  E-value=0.14  Score=32.67  Aligned_cols=79  Identities=13%  Similarity=0.102  Sum_probs=56.1

Q ss_pred             CceEEEEEecHHhH----hhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----CccCCC
Q 034054           23 SSIQIKVLFFARAR----DLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----VIVNEK   93 (105)
Q Consensus        23 ~~m~V~V~~fg~lr----e~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L~dG   93 (105)
                      ..++|+|+....-.    .+.| ....++++...||.+|...|..... +.  .....+..+|+....+     +-+.+|
T Consensus        24 ~~i~l~V~~p~~~~~~~~~L~G-~~~~l~v~~~~TV~~LK~~I~~~~g-ip--~~~QrL~~~Gk~L~D~~tL~~y~i~~g   99 (115)
T 1we7_A           24 GPVSIKVQVPNMQDKTEWKLNG-QGLVFTLPLTDQVSVIKVKIHEATG-MP--AGKQKLQYEGIFIKDSNSLAYYNMASG   99 (115)
T ss_dssp             SCEEEEEEECCCSSSCSSCCSS-EEEEEEECSCSBTHHHHHHHHHHSS-CC--TTTEEEEETTEEECTTSBHHHHTCCSS
T ss_pred             CCEEEEEEcCCCccccccccCC-eEEEEEECCCCCHHHHHHHHHHHHC-CC--hHHEEEEECCEECCCCCCHHHCCCCCC
Confidence            46888888765310    1234 4678899888999999999998762 21  1234566688887543     467899


Q ss_pred             CEEEEEcCCCCC
Q 034054           94 DELAIIPPISGG  105 (105)
Q Consensus        94 DeVaiiPPvsGG  105 (105)
                      +.|.++...-||
T Consensus       100 ~~i~lv~rl~GG  111 (115)
T 1we7_A          100 AVIHLALKERSG  111 (115)
T ss_dssp             CEEEEEECCCSC
T ss_pred             CEEEEEEEcCCC
Confidence            999999888887

>3plu_A Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-1, SNU66, peptide binding protein; 1.40A {Saccharomyces cerevisiae} PDB: 3plv_A 1m94_A 1p0r_A

Probab=94.75  E-value=0.3  Score=30.78  Aligned_cols=75  Identities=16%  Similarity=0.140  Sum_probs=48.5

Q ss_pred             CccccCCCCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCc
Q 034054           15 SALVDNKESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVI   89 (105)
Q Consensus        15 ~~~~~~~~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~   89 (105)
                      |-.+...++.|+|.|+..      +| +...+++....||.+|.+.+.++.. +..  +..++.-.|+....     |+.
T Consensus        12 ~~~~~~~~~mIqI~Vk~~------~G-kk~~v~v~p~DTI~~LK~~I~~k~G-ip~--~qQrLif~Gk~LkD~~TL~dY~   81 (93)
T 3plu_A           12 SGLVPRGSHMIEVVVNDR------LG-KKVRVKCLGEDSVGDFKKVLSLQIG-TQP--NKIVLQKGGSVLKDHISLEDYE   81 (93)
T ss_dssp             --------CEEEEEEECT------TS-CEEEEEEETTSBHHHHHHHHHHHHT-CCG--GGEEEEETTEECCTTSBTGGGT
T ss_pred             ccccCCCCceEEEEEECC------CC-CEEEEEECCcCHHHHHHHHHHHHhC-CCH--HHEEEEeCCEEccCcCCHHHcC
Confidence            345566777799998874      56 4788999888999999999987752 111  12233347877653     678


Q ss_pred             cCCCCEEEEE
Q 034054           90 VNEKDELAII   99 (105)
Q Consensus        90 L~dGDeVaii   99 (105)
                      |++|+.|.++
T Consensus        82 I~dgstLhL~   91 (93)
T 3plu_A           82 VHDQTNLELY   91 (93)
T ss_dssp             CCTTCEEEEE
T ss_pred             CCCCCEEEEE
Confidence            9999998875

>3a4r_A Nfatc2-interacting protein; ubiquitin fold, coiled coil, cytoplasm, methylation, nucleus, transcription; 1.00A {Mus musculus} PDB: 3a4s_C 3rd2_A

Probab=94.61  E-value=0.26  Score=29.56  Aligned_cols=68  Identities=7%  Similarity=0.056  Sum_probs=49.2

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----CccCCCCEEE
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----VIVNEKDELA   97 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L~dGDeVa   97 (105)
                      ..|.|+|+-      ..|.....+.+...+++..|.+..+++.. +.  ...+++.-+|+.+..+     .-+.+||.|.
T Consensus         6 ~~i~ikV~~------~~g~~~i~~~i~~~t~l~kl~~~y~~~~g-i~--~~~~rf~fdG~~l~~~~Tp~~l~medgD~Id   76 (79)
T 3a4r_A            6 QELRLRVQG------KEKHQMLEISLSPDSPLKVLMSHYEEAMG-LS--GHKLSFFFDGTKLSGKELPADLGLESGDLIE   76 (79)
T ss_dssp             CCEEEEEEC------SSTTCEEEEEECTTSCHHHHHHHHHHHHT-CT--TCCCEEEETTEECCSCCCHHHHTCCTTCEEE
T ss_pred             CEEEEEEEe------CCCCEEEEEEECCCChHHHHHHHHHHHhC-CC--cccEEEEECCEEcCCCCCHHHcCCCCCCEEE
Confidence            346676653      23433678899888999999999988742 22  2457888899998753     4689999998


Q ss_pred             EE
Q 034054           98 II   99 (105)
Q Consensus        98 ii   99 (105)
                      ++
T Consensus        77 v~   78 (79)
T 3a4r_A           77 VW   78 (79)
T ss_dssp             EE
T ss_pred             Ee
Confidence            86

>2gow_A HCG-1 protein, ubiquitin-like protein 3; BC059385, structural genomics, protein structure initiative, PSI; NMR {Homo sapiens}

Probab=94.52  E-value=0.23  Score=32.66  Aligned_cols=68  Identities=12%  Similarity=0.210  Sum_probs=47.8

Q ss_pred             CCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCc-h-hh---cceeEEEECCeecCCC-----CccC
Q 034054           22 ESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNL-E-EI---RGCMVLALNEEYTNAS-----VIVN   91 (105)
Q Consensus        22 ~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l-~-~~---~~~~~vaVNg~~v~~d-----~~L~   91 (105)
                      .+.|.|+|+.+.      | ....++++...||.+|.+.+...+|.- . .+   .+..++.-+|+...++     +.+.
T Consensus        15 ~~~m~I~vktl~------G-~~~~lev~~s~TV~~lK~~I~~~~p~dwke~ip~~~~~qrLIy~GK~LeD~~TL~~y~I~   87 (125)
T 2gow_A           15 ADMINLRLILVS------G-KTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLP   87 (125)
T ss_dssp             TTCEEEEEECTT------S-CEEEEEECTTSBHHHHHHHHHSSCCCSCCCCTTCCGGGEEEESSSSEEESSCBTGGGCCC
T ss_pred             CCeEEEEEEeCC------C-CEEEEEeCCccHHHHHHHHHHHHCCcccccCCCCChHHEEEEECCcCCCCCCcHHHcCCC
Confidence            344888887663      5 578999998899999999999876531 1 11   2455677788887653     4566


Q ss_pred             CCCEE
Q 034054           92 EKDEL   96 (105)
Q Consensus        92 dGDeV   96 (105)
                      +|+.+
T Consensus        88 ~~~~~   92 (125)
T 2gow_A           88 FGKTT   92 (125)
T ss_dssp             TTSEE
T ss_pred             CCCce
Confidence            78854

>1x1m_A Ubiquitin-like protein SB132; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.15.1.1

Probab=94.47  E-value=0.47  Score=29.76  Aligned_cols=72  Identities=7%  Similarity=0.038  Sum_probs=48.9

Q ss_pred             CCceEEEEEecHHhHhhcCCCceEEEeCC---------CCCHHHHHHHHHHhCC-Cchhhcce-eEEEECCeecCCC---
Q 034054           22 ESSIQIKVLFFARARDLTGLTDMPLEVSC---------GSTTQDCLNKLIARFP-NLEEIRGC-MVLALNEEYTNAS---   87 (105)
Q Consensus        22 ~~~m~V~V~~fg~lre~~g~~~~~vev~~---------~~tv~dLl~~L~~~~p-~l~~~~~~-~~vaVNg~~v~~d---   87 (105)
                      .+.|+|+|+..+.-   .. ....++++.         ..||.+|.+.|....| ++.  ... .++..+|+....+   
T Consensus        10 ~~~~~i~Vk~~~~~---~~-~~~~l~v~~~~~~~v~~~~~TV~~LK~~i~~~~~~gip--~~~~qrLi~~Gk~L~D~~tL   83 (107)
T 1x1m_A           10 LSDWHLAVKLADQP---LA-PKSILQLPETELGEYSLGGYSISFLKQLIAGKLQESVP--DPELIDLIYCGRKLKDDQTL   83 (107)
T ss_dssp             CCSCCEEEEETTCT---TS-CCEEECCCCCSSCSSCCCCCBHHHHHHHHHHHCTTTCC--CSSSEEEEETTEECCTTCBH
T ss_pred             CCceEEEEEeCCCC---Cc-cEEEEEecCccccccCcccCCHHHHHHHHHHHhccCCC--hhhcEEEEECCeECCCCCcH
Confidence            44588999976420   00 345677554         4899999999999875 333  133 4667889888654   


Q ss_pred             --CccCCCCEEEEE
Q 034054           88 --VIVNEKDELAII   99 (105)
Q Consensus        88 --~~L~dGDeVaii   99 (105)
                        +-+++|+.|.++
T Consensus        84 ~~y~i~~g~~i~lv   97 (107)
T 1x1m_A           84 DFYGIQPGSTVHVL   97 (107)
T ss_dssp             HHHTCCTTCEEEEE
T ss_pred             HHcCCCCCCEEEEE
Confidence              456799999876

>2kdi_A Ubiquitin, vacuolar protein sorting-associated protein 27 fusion protein; ubiquitin interacting motif, UIM, protein domain interface; NMR {Saccharomyces cerevisiae}

Probab=94.34  E-value=0.36  Score=30.83  Aligned_cols=71  Identities=17%  Similarity=0.234  Sum_probs=50.9

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      .+|.|+.+.      | ....++++...||.+|...|..... +.  .+..++..+|+....     +.-+.+|+.|.++
T Consensus        10 ~~i~vk~l~------G-~~~~l~v~~~~TV~~LK~~I~~~~g-ip--~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~   79 (114)
T 2kdi_A           10 FQIFAKTLT------G-KTITLEVESSDTIDNVKSKIQDKEG-IP--PDQQRLIWAGKQLEDGRTLSDYNIQRESTLHLV   79 (114)
T ss_dssp             CEEEEEETT------C-CEEEEECCTTCBHHHHHHHHHHHHC-CC--GGGEEEEETTEECCTTCBTTTTTCCSSCEEEEE
T ss_pred             EEEEEEeCC------C-cEEEEEECCCCcHHHHHHHHHHHHC-cC--hHHEEEEECCEECCCCCcHHHCCCCCCCEEEEE
Confidence            456665543      4 4678899888999999999988652 11  123456678888754     4567799999998


Q ss_pred             cCCCCC
Q 034054          100 PPISGG  105 (105)
Q Consensus       100 PPvsGG  105 (105)
                      -...||
T Consensus        80 ~~~~GG   85 (114)
T 2kdi_A           80 LRLRGG   85 (114)
T ss_dssp             ECCCSS
T ss_pred             EEcCCC
Confidence            877776

>1v5t_A 8430435I17RIK protein; hypothetical protein, ubiquitin-like fold, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.15.1.1 PDB: 2kx3_A

Probab=94.27  E-value=0.17  Score=30.89  Aligned_cols=67  Identities=13%  Similarity=0.112  Sum_probs=46.7

Q ss_pred             CceEEEEEecHHhHhhcCCCceEE-EeCCCCCHHHHHHHHHHhCCCchhhcceeEEE---ECCeecCCC-----CccCCC
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPL-EVSCGSTTQDCLNKLIARFPNLEEIRGCMVLA---LNEEYTNAS-----VIVNEK   93 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~v-ev~~~~tv~dLl~~L~~~~p~l~~~~~~~~va---VNg~~v~~d-----~~L~dG   93 (105)
                      ..|+|+|++-       | ....+ +++...|+.+|.+.|.+... +..  +.-.+.   .+|.....+     +-|++|
T Consensus         6 ~~m~i~Vk~~-------g-~~~~i~~v~~~~TV~~lK~~I~~~~g-ip~--~~QkLi~~k~~Gk~L~D~~~L~~~~i~~g   74 (90)
T 1v5t_A            6 SGLPIIVKWG-------G-QEYSVTTLSEDDTVLDLKQFLKTLTG-VLP--ERQKLLGLKVKGKPAENDVKLGALKLKPN   74 (90)
T ss_dssp             CSCCEEEEET-------T-EEEEECSCCSSSBHHHHHHHHHHHTC-CCT--TTCEEESCEETTEECCTTSBHHHHTCCTT
T ss_pred             ceEEEEEEEC-------C-EEEEEEEeCCCCCHHHHHHHHHHHHC-cCH--HHeEEEeeccCCcCcCCCCCHHHcCCCCC
Confidence            4588999862       2 35678 88888999999999998752 211  223445   688887654     356799


Q ss_pred             CEEEEEc
Q 034054           94 DELAIIP  100 (105)
Q Consensus        94 DeVaiiP  100 (105)
                      +.|.++-
T Consensus        75 ~~l~l~~   81 (90)
T 1v5t_A           75 TKIMMMG   81 (90)
T ss_dssp             EEEEEEC
T ss_pred             CEEEEEe
Confidence            9998873

>1wgh_A Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fold, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: d.15.1.1

Probab=94.20  E-value=0.58  Score=30.37  Aligned_cols=69  Identities=13%  Similarity=0.227  Sum_probs=48.4

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCc-h-hh---cceeEEEECCeecCCCC-----ccCC
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNL-E-EI---RGCMVLALNEEYTNASV-----IVNE   92 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l-~-~~---~~~~~vaVNg~~v~~d~-----~L~d   92 (105)
                      ..|.|+|+...      | ....++++...||.+|.+.+...+|.- . .+   .+..++.-.|+....+.     .|..
T Consensus        15 ~~m~I~vKtl~------G-~t~~lev~~s~TV~~lK~kI~~~~p~dwke~~p~p~~qqrLIy~GK~LeD~~TL~~y~I~~   87 (116)
T 1wgh_A           15 DMINLRLILVS------G-KTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPF   87 (116)
T ss_dssp             SSEEEEEECSS------S-CEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTCCS
T ss_pred             CeEEEEEEeCC------C-CEEEEEECCcCHHHHHHHHHHHhcccccccCCCCChHHEEEEECCcCCCCCCcHHHcCCCC
Confidence            44889888754      5 578999998899999999999976531 1 10   24567778899887654     4446


Q ss_pred             CCEEEE
Q 034054           93 KDELAI   98 (105)
Q Consensus        93 GDeVai   98 (105)
                      |+.+.+
T Consensus        88 ~~~~tl   93 (116)
T 1wgh_A           88 GKTTVM   93 (116)
T ss_dssp             SCEEEE
T ss_pred             CCceEE
Confidence            776433

>3goe_A DNA repair protein RAD60; SUMO-like domain, sumoylation, SUMO, genome stability, DNA damage, DNA recombination, nucleus; HET: DNA; 0.97A {Schizosaccharomyces pombe} PDB: 3rcz_A*

Probab=94.17  E-value=0.22  Score=30.78  Aligned_cols=56  Identities=14%  Similarity=0.377  Sum_probs=44.1

Q ss_pred             CceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           42 TDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        42 ~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      ....+.++.++++.+|+...+.+.. +. +...+++..+|..+++     |..+.|||.|.++
T Consensus        20 ~dl~f~I~~~t~v~kLi~ayc~~~~-I~-~~~~IrllFDGdRLdp~~tp~DlemeD~D~IDvm   80 (82)
T 3goe_A           20 EDLRLSIPVDFTVKDLIKRYCTEVK-IS-FHERIRLEFEGEWLDPNDQVQSTELEDEDQVSVV   80 (82)
T ss_dssp             CCEEEEEETTSBHHHHHHHHHHHHT-CC-CCTTCEEEETTEECCTTSBGGGSSCCTTCEEEEE
T ss_pred             CCeEEEecCCCCHHHHHHHHHHHcC-CC-cCceEEEEEcCcccCccCChhhhCCcCCceeeee
Confidence            4578889999999999999887642 11 1236899999999874     6789999999876

>1wgg_A Ubiquitin carboxyl-terminal hydrolase 14; ubiquitin specific protease 14, USP14, ubiquitin-like fold, structural genomics; NMR {Mus musculus} SCOP: d.15.1.1

Probab=93.95  E-value=0.27  Score=30.50  Aligned_cols=66  Identities=8%  Similarity=0.065  Sum_probs=44.2

Q ss_pred             CceEEEEEecHHhHhhcCCCce-EEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC----CccCCCCEEE
Q 034054           23 SSIQIKVLFFARARDLTGLTDM-PLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS----VIVNEKDELA   97 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~-~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d----~~L~dGDeVa   97 (105)
                      .+|+|+|++-       | ... .++++...|+.+|.+.|.+... +..  +.-.+..+|+....+    +-|++|+.|.
T Consensus         6 ~~m~i~Vk~~-------g-~~~~~l~v~~~~TV~~lK~~I~~~tg-ip~--~~QkLi~~Gk~L~D~tL~~~~I~~g~~i~   74 (96)
T 1wgg_A            6 SGYSVTVKWG-------K-EKFEGVELNTDEPPMVFKAQLFALTG-VQP--ARQKVMVKGGTLKDDDWGNIKMKNGMTVL   74 (96)
T ss_dssp             CEEEEEEEET-------T-EEEEEEEEESSSCHHHHHHHHHHHTC-CCT--TTSCCEETTEECCSSCCCSCCCCSSCEEE
T ss_pred             cEEEEEEEEC-------C-EEEEEEEECCCCcHHHHHHHHHHHHC-cCH--HHeEEEECCcCCCCCCHHHCCCCCCCEEE
Confidence            4588999852       2 355 5888888999999999998752 211  112233578776543    4567899887


Q ss_pred             EE
Q 034054           98 II   99 (105)
Q Consensus        98 ii   99 (105)
                      ++
T Consensus        75 l~   76 (96)
T 1wgg_A           75 MM   76 (96)
T ss_dssp             CC
T ss_pred             EE
Confidence            75

>1uh6_A Ubiquitin-like 5; beta-grAsp fold, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: d.15.1.1

Probab=93.81  E-value=0.46  Score=30.17  Aligned_cols=77  Identities=12%  Similarity=0.022  Sum_probs=51.3

Q ss_pred             CCCccccCCCCc-eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC----
Q 034054           13 SDSALVDNKESS-IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS----   87 (105)
Q Consensus        13 ~~~~~~~~~~~~-m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d----   87 (105)
                      +--.|.+-.++. |+|.|+-..      | +...++++...||.+|.+.+.++.. +.  .+..++...|+...++    
T Consensus        16 ~~~~~~~~~~~~mm~I~VKtl~------G-k~i~lev~p~dTV~~lK~~Ia~k~G-ip--~~qQrLi~~Gk~L~D~~TL~   85 (100)
T 1uh6_A           16 SLVPRGSEGAATMIEVVCNDRL------G-KKVRVKCNTDDTIGDLKKLIAAQTG-TR--WNKIVLKKWYTIFKDHVSLG   85 (100)
T ss_dssp             SSCCCCCSSCCCEEEEEEECSS------S-SCEEEEEETTSBHHHHHHHHHHHHC-CC--GGGCEEEETTEECCSSCBHH
T ss_pred             ccccccCCCCCCeEEEEEECCC------C-CEEEEEeCCCCcHHHHHHHHHHHhC-CC--HHHEEEEECCEECCCCCCHH
Confidence            334455544444 778777543      4 4678999888999999999998742 22  1234566778888654    


Q ss_pred             -CccCCCCEEEEE
Q 034054           88 -VIVNEKDELAII   99 (105)
Q Consensus        88 -~~L~dGDeVaii   99 (105)
                       +-|.+|+.|.+.
T Consensus        86 dygI~~gstlhL~   98 (100)
T 1uh6_A           86 DYEIHDGMNLELY   98 (100)
T ss_dssp             HHTCCTTEEEEEE
T ss_pred             HcCCCCCCEEEEE
Confidence             456689887764

>1wm3_A Ubiquitin-like protein SMT3B; ubiquitin fold, half-open barrel, two helices, protein transport; 1.20A {Homo sapiens} SCOP: d.15.1.1 PDB: 1wm2_A 3uin_B 3uio_B 2ckh_B

Probab=93.72  E-value=0.5  Score=27.60  Aligned_cols=65  Identities=12%  Similarity=0.211  Sum_probs=47.8

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      |.|+|+-      ..| +...+.+....++..|.+..+++.. +.  ...+++.-+|+.+..     +.-+.+||.|.++
T Consensus         2 i~lkV~~------~~g-~~v~~~v~~~t~l~kl~~~y~~~~g-i~--~~~~rf~fdG~~l~~~~Tp~~l~medgD~Idv~   71 (72)
T 1wm3_A            2 INLKVAG------QDG-SVVQFKIKRHTPLSKLMKAYCERQG-LS--MRQIRFRFDGQPINETDTPAQLEMEDEDTIDVF   71 (72)
T ss_dssp             EEEEEEC------TTS-CEEEEEECTTSCTHHHHHHHHHHHT-CC--TTTCEEEETTEECCTTCCTTTTTCCTTEEEEEE
T ss_pred             EEEEEEC------CCC-CEEEEEECCCChHHHHHHHHHHHhC-CC--cceEEEEECCEEcCCCCCHHHcCCCCCCEEEEE
Confidence            5566552      334 4788899888999999999987642 21  245788889999864     4568999999886

>3b1l_X E3 ubiquitin-protein ligase parkin; proteasome, ALFA-beta-protein; 1.85A {Mus musculus} PDB: 1mg8_A 2zeq_A 2knb_A 1iyf_A

Probab=92.77  E-value=0.012  Score=34.49  Aligned_cols=70  Identities=9%  Similarity=0.100  Sum_probs=45.8

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      |+|.|+..      .| ....++++...|+.+|.+.+..... +.  .....+..+|+....     ++-+.+|+.|.++
T Consensus         1 M~i~Vk~~------~g-~~~~~~v~~~~tV~~lK~~i~~~~g-i~--~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~   70 (76)
T 3b1l_X            1 MIVFVRFN------SS-YGFPVEVDSDTSILQLKEVVAKQQG-VP--ADQLRVIFAGKELPNHLTVQNCDLEQQSIVHIV   70 (76)
Confidence            56666643      23 3456788778899999999987652 11  123345567776643     4567789999888


Q ss_pred             cCCCC
Q 034054          100 PPISG  104 (105)
Q Consensus       100 PPvsG  104 (105)
                      .+.-|
T Consensus        71 ~rlrg   75 (76)
T 3b1l_X           71 QRPRR   75 (76)
Confidence            76654

>2bps_A YUKD protein; ubiquitin-like protein, ubiquitin; 2.7A {Bacillus subtilis}

Probab=93.64  E-value=0.11  Score=32.05  Aligned_cols=71  Identities=15%  Similarity=0.223  Sum_probs=45.5

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCC-CchhhcceeEEEE-CCeec--C----CCCccCCCC
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFP-NLEEIRGCMVLAL-NEEYT--N----ASVIVNEKD   94 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p-~l~~~~~~~~vaV-Ng~~v--~----~d~~L~dGD   94 (105)
                      +.+.|++.|    +.+.+ +...+.+|...|++.|++.+.+.|. .... .+.+.+.| |...+  +    .|.++.+||
T Consensus         3 ~yI~ITidl----~~y~~-~~~DLRIP~~~tvK~Li~~l~ea~~l~~~~-~~~~~irv~NK~~~L~~~~~L~d~~ItnGD   76 (81)
T 2bps_A            3 SYIDITIDL----KHYNG-SVFDLRLSDYHPVKKVIDIAWQAQSVSMPP-REGHWIRVVNKDKVFSGECKLSDCGITNGD   76 (81)
T ss_dssp             CEEEEEEEC----TTTTC-CEEEEEEETTSBTTHHHHHHHHHSCCCSCC-CTTCEEEEGGGTEEEETTSBTGGGTCCTTC
T ss_pred             cEEEEEEEe----eccCC-ceEEEECCCchhHHHHHHHHHHHhCCCcCC-CCCCEEEEecCCEEEcCCCEEeeCCcCCCC
Confidence            345566654    33445 4789999999999999999999884 2211 12123333 32221  1    378899999


Q ss_pred             EEEEE
Q 034054           95 ELAII   99 (105)
Q Consensus        95 eVaii   99 (105)
                      .+.|+
T Consensus        77 ~Leil   81 (81)
T 2bps_A           77 RLEIL   81 (81)
T ss_dssp             EEEEC
T ss_pred             EEEEC
Confidence            99874

>3u5e_m 60S ribosomal protein L40; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3u5i_m 4b6a_m 4a18_K 4a19_K 4a1b_K 4a1d_K 4adx_5 3izc_p 3izs_p 3iz5_p 3izr_p

Probab=93.50  E-value=0.013  Score=38.35  Aligned_cols=71  Identities=20%  Similarity=0.282  Sum_probs=0.0

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      |+|.|+..      .| ....++++...||.+|...+.+... +.  .+...+..+|+...+     +.-|.+|+.|.++
T Consensus         1 M~I~Vk~~------~G-~~~~l~v~~~~TV~~LK~~I~~~~g-ip--~~~QrLi~~Gk~L~D~~tL~~~~I~~gsti~l~   70 (128)
T 3u5e_m            1 MQIFVKTL------TG-KTITLEVESSDTIDNVKSKIQDKEG-IP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV   70 (128)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CEEEEEeC------CC-CEEEEEeCCCCCHHHHHHHHHHHhC-cC--hHHEEEEECCEECCCCCchhhhccCCCCEEEEE
Confidence            55666543      23 3567888888899999999987642 11  122345567777653     4567889999998


Q ss_pred             cCCCCC
Q 034054          100 PPISGG  105 (105)
Q Consensus       100 PPvsGG  105 (105)
                      ...-||
T Consensus        71 ~rl~GG   76 (128)
T 3u5e_m           71 LRLRGG   76 (128)
T ss_dssp             ------
T ss_pred             EEcCCC
Confidence            877776

>2kdb_A Homocysteine-responsive endoplasmic reticulum- resident ubiquitin-like domain member...; UBL domain, membrane, polymorphism, transmembrane; NMR {Homo sapiens}

Probab=92.86  E-value=0.23  Score=31.24  Aligned_cols=71  Identities=8%  Similarity=0.023  Sum_probs=44.1

Q ss_pred             CCCceEEEEEecHHhHhhcCC-CceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----C--ccCC
Q 034054           21 KESSIQIKVLFFARARDLTGL-TDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----V--IVNE   92 (105)
Q Consensus        21 ~~~~m~V~V~~fg~lre~~g~-~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~--~L~d   92 (105)
                      ++..|+|+|+...      |. ....++++...||.+|.+.|.++.|+.-.. +.-++..+|+....+     +  .+.+
T Consensus        20 ~~~~m~I~VK~~~------g~~~~i~l~v~~~~TV~~LK~~I~~~~~g~pp~-~~QrLIy~Gk~L~D~~tL~~y~~~I~~   92 (99)
T 2kdb_A           20 QGHPVTLIIKAPN------QKYSDQTISCFLNWTVGKLKTHLSNVYPSKPLT-KDQRLVYSGRLLPDHLQLKDILRKQDE   92 (99)
T ss_dssp             ---CEEEEEECTT------SSSCCEEEEECTTSBHHHHHHHHHHHSTTCCCT-TTCCEEETTEEECTTSBTHHHHTTTCS
T ss_pred             CCCeEEEEEEcCC------CCEEEEEEEcCCCCHHHHHHHHHHHHhcCCCCh-hhEEEEECCEECCCCCCHHHHhcCCCC
Confidence            3455899998643      22 246888888899999999999876432111 123455688887654     3  4556


Q ss_pred             CCEEEE
Q 034054           93 KDELAI   98 (105)
Q Consensus        93 GDeVai   98 (105)
                      |+.|-+
T Consensus        93 ~~tihL   98 (99)
T 2kdb_A           93 YHMVHL   98 (99)
T ss_dssp             EEEEEE
T ss_pred             CCEEEe
Confidence            666543

>3u5c_f 40S ribosomal protein S31; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3u5g_f

Probab=92.85  E-value=0.019  Score=39.13  Aligned_cols=71  Identities=20%  Similarity=0.282  Sum_probs=0.0

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      |+|.|+..      .| ....++++...||.+|.+.|.+... +.  .+...+..+|+....     +.-|.+|+.|.++
T Consensus         1 MqI~VK~l------~G-~~~~l~V~~~~TV~~LK~~I~~~~g-ip--~~~QrLi~~Gk~L~D~~tL~dygI~~gstL~Lv   70 (152)
T 3u5c_f            1 MQIFVKTL------TG-KTITLEVESSDTIDNVKSKIQDKEG-IP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV   70 (152)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CEEEEEeC------CC-CEEEEEECCCCCHHHHHHHHHHHhC-CC--HHHEEEEECCEEccccCcHHHcCCCCCCEEEEE
Confidence            55665543      24 3567888888899999999987652 11  122345567777653     4567889999998


Q ss_pred             cCCCCC
Q 034054          100 PPISGG  105 (105)
Q Consensus       100 PPvsGG  105 (105)
                      ...-||
T Consensus        71 lrl~GG   76 (152)
T 3u5c_f           71 LRLRGG   76 (152)
T ss_dssp             ------
T ss_pred             eeccCC
Confidence            888776

>1v86_A DNA segment, CHR 7, wayne state university 128, expressed; ubiquitin fold, structural genomics, D7WSU128E protein; HET: DNA; NMR {Mus musculus} SCOP: d.15.1.1

Probab=92.83  E-value=0.24  Score=30.60  Aligned_cols=69  Identities=12%  Similarity=0.153  Sum_probs=44.9

Q ss_pred             CCCCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC----CCccCCCCE
Q 034054           20 NKESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA----SVIVNEKDE   95 (105)
Q Consensus        20 ~~~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~----d~~L~dGDe   95 (105)
                      ..++.|+|+|++-       | ....++++...||.+|.+.|..... +..  +.-.+..+|+..+.    ++-|++|+.
T Consensus        13 ~~~~~~~i~Vk~~-------g-~~~~i~v~~~~TV~~LK~~I~~~tg-ip~--~~QrL~~~Gk~Ldd~tL~~~~i~~g~~   81 (95)
T 1v86_A           13 VGKELVDLKIIWN-------K-TKHDVKVPLDSTGSELKQKIHSITG-LPP--AMQKVMYKGLVPEDKTLREIKVTSGAK   81 (95)
T ss_dssp             CCCCCEEEEEEET-------T-EEEEEEECTTSBHHHHHHHHHHHHC-SCS--TTCCCBSSSBCCSSSBHHHHCCCTTEE
T ss_pred             CCCceEEEEEEEC-------C-EEEEEEECCCCcHHHHHHHHHHHHC-cCH--HHeEEEECCeeCCcCcHHHCCCCCCCE
Confidence            3445688888843       2 3567899988999999999987642 111  11223356666632    245779999


Q ss_pred             EEEE
Q 034054           96 LAII   99 (105)
Q Consensus        96 Vaii   99 (105)
                      |.++
T Consensus        82 i~lv   85 (95)
T 1v86_A           82 IMVV   85 (95)
T ss_dssp             EEEC
T ss_pred             EEEE
Confidence            8876

>1wxv_A BAG-family molecular chaperone regulator-1; structural genomics, apoptosis, riken structural genomics/proteomics initiative, RSGI, NPPSFA; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=92.65  E-value=0.98  Score=27.18  Aligned_cols=68  Identities=12%  Similarity=0.130  Sum_probs=46.4

Q ss_pred             CCceEEEEEecHHhHhhcCCCceEEEeCCC-----CCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-C-----Ccc
Q 034054           22 ESSIQIKVLFFARARDLTGLTDMPLEVSCG-----STTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-S-----VIV   90 (105)
Q Consensus        22 ~~~m~V~V~~fg~lre~~g~~~~~vev~~~-----~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-d-----~~L   90 (105)
                      +.+|+|+|+.-       | ....++++..     .||.+|.+.|..... +..  ...++..+|+.... +     +-+
T Consensus         5 ~~~~~v~Vk~~-------~-~~~~i~v~~~~~~~~~TV~~LK~~i~~~~g-ip~--~~qrL~~~Gk~L~D~~~~L~~~~i   73 (92)
T 1wxv_A            5 SSGLTVTVTHS-------N-EKHDLHVTSQQGSSEPVVQDLAQVVEEVIG-VPQ--SFQKLIFKGKSLKEMETPLSALGI   73 (92)
T ss_dssp             CSSEEEEEECS-------S-SEEEEEECCCSSSSSCBHHHHHHHHHHHTC-CCT--TTCEEEETTEEECCSSSBHHHHTC
T ss_pred             CCeEEEEEEEC-------C-EEEEEEECCCcCcccCcHHHHHHHHHHHHC-cCH--HHEEEEECCeecCCCcccHHHCCC
Confidence            34688999873       2 2457888774     899999999988752 211  22355678887764 3     346


Q ss_pred             CCCCEEEEEc
Q 034054           91 NEKDELAIIP  100 (105)
Q Consensus        91 ~dGDeVaiiP  100 (105)
                      ++|+.|.++-
T Consensus        74 ~~g~~i~l~~   83 (92)
T 1wxv_A           74 QDGCRVMLIG   83 (92)
T ss_dssp             CSSEEEEEES
T ss_pred             CCCCEEEEEe
Confidence            7899988764

>3m63_B Ubiquitin domain-containing protein DSK2; armadillo-like repeats, UBL conjugation pathway, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=92.47  E-value=0.18  Score=31.53  Aligned_cols=66  Identities=11%  Similarity=0.074  Sum_probs=43.9

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEE
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELA   97 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVa   97 (105)
                      ++|+|+|+.       .| ....++++...||.+|.+.|..... +..  +..++..+|+....     +.-+++|+.|.
T Consensus        27 m~i~I~Vk~-------~g-~~~~l~v~~~~TV~~LK~~I~~~~g-ip~--~~QrLi~~Gk~L~D~~tL~~~gI~~g~tI~   95 (101)
T 3m63_B           27 MSLNIHIKS-------GQ-DKWEVNVAPESTVLQFKEAINKANG-IPV--ANQRLIYSGKILKDDQTVESYHIQDGHSVH   95 (101)
T ss_dssp             --CCEEEEC-------SS-CCCCBCCCTTSBHHHHHHHHHHHHS-CCS--TTCCEEETTEECCTTSBTTTTTCCTTEEEE
T ss_pred             cEEEEEEEE-------CC-EEEEEEeCCCCCHHHHHHHHHHHHC-cCh--HHEEEEECCEECCCcCcHHHCCCCCCCEEE
Confidence            446666663       23 4567888888999999999988752 111  12345568888754     46688899988


Q ss_pred             EE
Q 034054           98 II   99 (105)
Q Consensus        98 ii   99 (105)
                      ++
T Consensus        96 lv   97 (101)
T 3m63_B           96 LV   97 (101)
T ss_dssp             EC
T ss_pred             EE
Confidence            76

>3rt3_B Ubiquitin-like protein ISG15; ubiquitin-like domain, isgylation, antiviral protein-viral P complex; 2.01A {Homo sapiens} PDB: 3sdl_C 3r66_C 3pse_B 1z2m_A

Probab=92.38  E-value=1.2  Score=29.27  Aligned_cols=68  Identities=10%  Similarity=0.122  Sum_probs=47.1

Q ss_pred             ceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEE-E-CCeecCC-----CCccCCCCEE
Q 034054           24 SIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLA-L-NEEYTNA-----SVIVNEKDEL   96 (105)
Q Consensus        24 ~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~va-V-Ng~~v~~-----d~~L~dGDeV   96 (105)
                      +|+|+|+.+.      | ....++++...|+.+|.+.+..... +..  ..-++. . +|+....     ++-+.+|+.|
T Consensus         2 ~m~i~vk~~~------g-~~~~l~v~~~~tV~~lK~~I~~~~g-ip~--~~QrL~~~~~g~~L~d~~tL~~y~i~~~~~l   71 (159)
T 3rt3_B            2 GWDLTVKMLA------G-NEFQVSLSSSMSVSELKAQITQKIG-VHA--FQQRLAVHPSGVALQDRVPLASQGLGPGSTV   71 (159)
T ss_dssp             -CEEEEEETT------S-CEEEEECCTTCCHHHHHHHHHHHHC-CCG--GGEEEEEETTCCBCCTTSCGGGGTCCTTCEE
T ss_pred             ceEEEEEECC------C-CEEEEEeCCCCcHHHHHHHHHHHhC-CCH--HHEEEEEcCCCCCCCCCCCHHHcCCCCCCEE
Confidence            4888888653      4 4678999988999999999988652 111  112333 5 7877654     4678899999


Q ss_pred             EEEcC
Q 034054           97 AIIPP  101 (105)
Q Consensus        97 aiiPP  101 (105)
                      .++-.
T Consensus        72 ~l~~~   76 (159)
T 3rt3_B           72 LLVVD   76 (159)
T ss_dssp             EEEEC
T ss_pred             EEEcc
Confidence            88754

>3u30_A Ubiquitin, linear DI-ubiquitin; immune system; 2.43A {Homo sapiens}

Probab=92.31  E-value=0.73  Score=30.96  Aligned_cols=61  Identities=15%  Similarity=0.223  Sum_probs=41.9

Q ss_pred             CceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEEcCCCCC
Q 034054           42 TDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        42 ~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaiiPPvsGG  105 (105)
                      ....++++...|+.+|...+..+.. +..  +..++..+|+....     ++-+++|+.|.++-..-||
T Consensus       107 ~~~~l~v~~~~tV~~lK~~I~~~~g-ip~--~~q~L~~~g~~L~D~~tL~~y~i~~g~tl~l~~rlrgG  172 (172)
T 3u30_A          107 KTITLEVEPSDTIENVKAKIQDKEG-IPP--DQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG  172 (172)
T ss_dssp             CEEEEEECTTCBHHHHHHHHHHHHC-CCG--GGCCEEETTEECCTTSBSGGGTCCTTCEEEECC-----
T ss_pred             cceeEEecCCCCHHHHHHHHHHHhC-CCc--eeEEEEECCccCCCCCcHHHhCCCCCCEEEEEEecCCC
Confidence            4678899888999999999988752 111  22345568887753     5679999999999988887

>2dzj_A Synaptic glycoprotein SC2; ubiquitin-like fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=92.29  E-value=0.46  Score=29.04  Aligned_cols=69  Identities=14%  Similarity=0.101  Sum_probs=41.4

Q ss_pred             ceEEEEEecHHhHhhcCCCc-eEE-EeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEE
Q 034054           24 SIQIKVLFFARARDLTGLTD-MPL-EVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDEL   96 (105)
Q Consensus        24 ~m~V~V~~fg~lre~~g~~~-~~v-ev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeV   96 (105)
                      .|+|+|+-.      .|... ..+ +++...||.+|.+.+.+..+++..-+..+...-.|+....     ++.|.+|+.|
T Consensus        10 ~M~I~Vk~~------~g~~~~~~l~~v~~~~TV~~lK~~I~~~~~~i~~~~QrL~~~~~Gk~L~D~~tL~~y~i~~~stl   83 (88)
T 2dzj_A           10 HYEVEILDA------KTREKLCFLDKVEPHATIAEIKNLFTKTHPQWYPARQSLRLDPKGKSLKDEDVLQKLPVGTTATL   83 (88)
T ss_dssp             CEEEEEEES------SSCCCCEEEEEECSSCBHHHHHHHHHHHCSSSCTTTCCEESSTTSCCCCTTCBTTTSSCCSEEEE
T ss_pred             EEEEEEECC------CCCEEeeEEeEcCCCCcHHHHHHHHHHHhcCCChHHeEEEecCCCcCcCCCCCHHHcCCCCCCEE
Confidence            388888753      23322 357 8888899999999999865444322222222223656533     4567777776


Q ss_pred             EE
Q 034054           97 AI   98 (105)
Q Consensus        97 ai   98 (105)
                      .|
T Consensus        84 ~~   85 (88)
T 2dzj_A           84 YF   85 (88)
T ss_dssp             EE
T ss_pred             EE
Confidence            54

>2xzm_9 RPS31E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_9

Probab=92.23  E-value=0.026  Score=40.02  Aligned_cols=71  Identities=17%  Similarity=0.221  Sum_probs=0.0

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEcCCCC
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPPISG  104 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiPPvsG  104 (105)
                      |+|.|+.+.      | ....++++...||.+|...|..... +.  .+.-++..+|+...++..|.+++.|.++...-|
T Consensus         1 MqI~VKtL~------G-ktitLeV~~sdTV~~LK~kI~~keG-IP--~~qQRLIf~GK~LeD~~TLs~~STLhLvlRLrG   70 (189)
T 2xzm_9            1 MQVQVKTLE------G-ETKIYTLEQGTSVLDLKSQISQDMG-FE--IDMMTLVNNGFIAPNTELVTDDVTYYLSLKLLG   70 (189)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CEEEEEcCC------C-CEEEEEECCcChHHHHHHHHHHHhC-cC--hhHEEEEecCeECCCCCcccCCCEEEEEEecCC
Confidence            556665442      4 4677888878899999988876541 11  122345568888887778889999999888777


Q ss_pred             C
Q 034054          105 G  105 (105)
Q Consensus       105 G  105 (105)
                      |
T Consensus        71 G   71 (189)
T 2xzm_9           71 G   71 (189)
T ss_dssp             -
T ss_pred             C
Confidence            6

>3kyd_D Small ubiquitin-related modifier 1; SUMO, thioester, adenylation, inhibitor, TETR intermediate, ligase, nucleus, phosphoprotein; HET: VMX; 2.61A {Homo sapiens} SCOP: d.15.1.1

Probab=92.00  E-value=1.4  Score=28.60  Aligned_cols=74  Identities=9%  Similarity=0.145  Sum_probs=51.2

Q ss_pred             cCCCCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCC
Q 034054           19 DNKESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEK   93 (105)
Q Consensus        19 ~~~~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dG   93 (105)
                      +.+...+.|+|+--      -| .+..+.+...+++..|++..+++.. +.  ...+++.-+|+.+..     +.-+.+|
T Consensus        35 k~~~~~I~LKV~~q------dg-~ev~fkIk~tt~L~KLm~aY~er~G-l~--~~~irFlFDG~rI~~~~TP~dL~MEDg  104 (115)
T 3kyd_D           35 KKEGEYIKLKVIGQ------DS-SEIHFKVKMTTHLKKLKESYCQRQG-VP--MNSLRFLFEGQRIADNHTPKELGMEEE  104 (115)
T ss_dssp             ----CEEEEEEECT------TS-CEEEEEEETTSCTHHHHHHHHHHHT-CC--TTSEEEEETTEECCTTCCTTTTTCCTT
T ss_pred             CCCCCeEEEEEEcC------CC-CEEEEEEccCChHHHHHHHHHHHhC-CC--hhhEEEEECCeECCCCCCHHHcCCCCC
Confidence            33344566665422      24 4578888888999999999988753 22  356889999999863     4579999


Q ss_pred             CEEEEEcCC
Q 034054           94 DELAIIPPI  102 (105)
Q Consensus        94 DeVaiiPPv  102 (105)
                      |.|.++.--
T Consensus       105 D~IdV~~~Q  113 (115)
T 3kyd_D          105 DVIEVYQEQ  113 (115)
T ss_dssp             CEEEEEECC
T ss_pred             CEEEEEeec
Confidence            999998643

>2kd0_A LRR repeats and ubiquitin-like domain-containing protein AT2G30105; ubiquitin-like protein, NESG, leucine-rich repeat, structural genomics; NMR {Arabidopsis thaliana}

Probab=91.38  E-value=0.88  Score=27.29  Aligned_cols=56  Identities=18%  Similarity=0.149  Sum_probs=39.2

Q ss_pred             CceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEEc
Q 034054           42 TDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAIIP  100 (105)
Q Consensus        42 ~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaiiP  100 (105)
                      ....++++...|+.+|.+.|..... +..  ....+..+|+....     ++.+++|+.|.++-
T Consensus        22 ~~~~l~v~~~~TV~~LK~~I~~~~g-ip~--~~qrL~~~Gk~L~D~~tL~~~gi~~g~~l~l~~   82 (85)
T 2kd0_A           22 KSIPLSVSPDCTVKDLKSQLQPITN-VLP--RGQKLIFKGKVLVETSTLKQSDVGSGAKLMLMA   82 (85)
T ss_dssp             EEEEEEECTTSBHHHHHHHHHHHHC-CCT--TTCEEEETTEECCTTCBTTTTTCCTTEEEEEEC
T ss_pred             EEEEEEECCCCcHHHHHHHHHHHHC-cCh--HHEEEEECCeECCCcCCHHHCCCCCCCEEEEEE
Confidence            3567888888999999999987642 111  23355678888754     35577899988763

>1oqy_A HHR23A, UV excision repair protein RAD23 homolog A; DNA repair, proteasome-mediated degradation, protein- protein interaction, replication; NMR {Homo sapiens} SCOP: a.5.2.1 a.5.2.1 a.189.1.1 d.15.1.1 PDB: 1qze_A 1tp4_A

Probab=91.10  E-value=0.7  Score=35.57  Aligned_cols=67  Identities=12%  Similarity=0.092  Sum_probs=46.8

Q ss_pred             CCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCC--CchhhcceeEEEECCeecCC-----CCccCCCC
Q 034054           22 ESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFP--NLEEIRGCMVLALNEEYTNA-----SVIVNEKD   94 (105)
Q Consensus        22 ~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p--~l~~~~~~~~vaVNg~~v~~-----d~~L~dGD   94 (105)
                      ...|+|+|+...      | +...++++...||.+|.+.|...++  ++.  ....++..+|+....     ++-|++|+
T Consensus         5 ~~~M~I~VKtl~------G-k~~~leV~~~~TV~~LK~~I~~~~~~~gip--~~~QrLiy~GK~L~D~~tL~dygI~~gs   75 (368)
T 1oqy_A            5 SSAVTITLKTLQ------Q-QTFKIRMEPDETVKVLKEKIEAEKGRDAFP--VAGQKLIYAGKILSDDVPIRDYRIDEKN   75 (368)
T ss_dssp             -CCCCEEEEETT------T-EEEEECCCTTCBHHHHHHHHHHHTCSSSCC--STEEEEESSSSEECSSSBTTTTCCCTTS
T ss_pred             CceEEEEEEeCC------C-CEEEEEeCCCChHHHHHHHHHHHhCcCCCC--hhheEEEECCeecCCcCCHHHcCCCCCC
Confidence            456899999863      3 4567888888999999999998532  121  134566678887753     46678999


Q ss_pred             EEE
Q 034054           95 ELA   97 (105)
Q Consensus        95 eVa   97 (105)
                      .|.
T Consensus        76 tIv   78 (368)
T 1oqy_A           76 FVV   78 (368)
T ss_dssp             CEE
T ss_pred             EEE
Confidence            883

>1wju_A NEDD8 ultimate buster-1; ubiquitin-like domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, protein binding; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=90.83  E-value=2  Score=27.11  Aligned_cols=69  Identities=16%  Similarity=0.170  Sum_probs=47.8

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      ..++|+.-.   +.-+.....++++...|+.+|.+.+.++.. +.  .+...+..+|+...+     |+-|++|..|.++
T Consensus        16 ati~V~~~~---~~~~~~~~~lev~~~~TV~~lK~kI~~k~g-ip--~~qQrLI~~GKiL~D~~TL~~y~I~~gsti~vl   89 (100)
T 1wju_A           16 ATIEVFLPP---RLKKDRKNLLETRLHITGRELRSKIAETFG-LQ--ENYIKIVINKKQLQLGKTLEEQGVAHNVKAMVL   89 (100)
T ss_dssp             EEEEEECCT---TTCCSSSEEEEEESSSBHHHHHHHHHHHTT-CC--STTCEEEETTEECCTTSBHHHHTCCSSEEEEEE
T ss_pred             EEEEEEecC---CCCCCcEEEEEeCCcCHHHHHHHHHHHHHC-cC--HHHeEEEeCCeECCCCCcHHHcCCCCCCEEEEE
Confidence            345555433   233346788999888999999999998863 11  123455678999865     4578899999766

>1se9_A Ubiquitin family; ubiquitin-like, cell-free, wheat GERM, structural genomics, protein structure initiative, CESG; NMR {Arabidopsis thaliana} SCOP: d.15.1.1

Probab=90.73  E-value=2.4  Score=27.87  Aligned_cols=72  Identities=14%  Similarity=0.089  Sum_probs=49.0

Q ss_pred             cccCCCCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCC-chhh---cceeEEEECCeecCC-----C
Q 034054           17 LVDNKESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPN-LEEI---RGCMVLALNEEYTNA-----S   87 (105)
Q Consensus        17 ~~~~~~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~-l~~~---~~~~~vaVNg~~v~~-----d   87 (105)
                      ..+..+..|.|+|+...      |..-..++++...||.+|.+.+...+|. .+.+   .+..++.-+|+....     |
T Consensus         9 ~~~~~~~~~~i~~kt~~------G~~i~~l~v~psdTV~~lK~kI~~~~p~dkegiP~~~~qQrLIy~GK~LeD~~TLsd   82 (126)
T 1se9_A            9 LEAEVHNQLEIKFRLTD------GSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKD   82 (126)
T ss_dssp             -CCSSCCCEEEEEEETT------SCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGG
T ss_pred             hhhhhcccEEEEEEECC------CCEEEeeecCccCHHHHHHHHHHhhcccccccCCCChhhEEEEECCeECcCCCcHHH
Confidence            34445577999987754      4433368888889999999999887763 2111   134577778998865     4


Q ss_pred             CccCCCC
Q 034054           88 VIVNEKD   94 (105)
Q Consensus        88 ~~L~dGD   94 (105)
                      +.+.+|+
T Consensus        83 y~I~~~~   89 (126)
T 1se9_A           83 YRSPVSN   89 (126)
T ss_dssp             GSCCTTS
T ss_pred             cCCCcCC
Confidence            5777885

>3tix_A Ubiquitin-like protein SMT3, RNA-induced transcri silencing complex protein TAS3; PIN, rossmann fold, SPOC, alpha-helical hairpin, heterochrom silencing, RITS, RNAI, argonaute; 2.90A {Saccharomyces cerevisiae}

Probab=90.38  E-value=1.5  Score=31.44  Aligned_cols=63  Identities=10%  Similarity=0.139  Sum_probs=50.4

Q ss_pred             cCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEEcCCCCC
Q 034054           39 TGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        39 ~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaiiPPvsGG  105 (105)
                      .| .+..+.+...+++..|++..+++.. +.  ...+++.-||..+..     +.-+.|||.|.++.--.||
T Consensus        65 dG-~eV~FKIKrtTpL~KLmeAYcERqG-L~--~~sIRFLFDGqRI~~ddTPeDLdMEDGDtIDV~leQ~GG  132 (207)
T 3tix_A           65 GS-SEIFFKIKKTTPLRRLMEAFAKRQG-KE--MDSLTFLYDGIEIQADQTPEDLDMEDNDIIEAHREQIGG  132 (207)
T ss_dssp             SS-CEEEEEEETTSCTHHHHHHHHHHTT-CC--GGGSCEEETTEECCSSCCTTTTTCCTTEEEEECCCCCTT
T ss_pred             CC-CEEEEEEccCChHHHHHHHHHHHhC-CC--cccEEEEECCeecCCCCCHHHcCCCCCCEEEEEEeccCC
Confidence            35 4788999888999999999998863 22  245778889999863     5679999999999888877

>2jxx_A Nfatc2-interacting protein; nuclear factor of activated T-cells, cytoplasmic 2- interacting protein, ubiquitin like homologue; NMR {Homo sapiens}

Probab=90.37  E-value=2.2  Score=26.77  Aligned_cols=54  Identities=7%  Similarity=0.098  Sum_probs=42.4

Q ss_pred             ceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-C----CccCCCCEEEEE
Q 034054           43 DMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-S----VIVNEKDELAII   99 (105)
Q Consensus        43 ~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-d----~~L~dGDeVaii   99 (105)
                      ...+.+...+++.-|+...+++.. +.  ...+++..+|+.+.. +    .-+.|||.|.++
T Consensus        38 ~v~fkIk~~t~l~kLm~aY~~~~g-~~--~~~vrF~FDG~rI~~~~TP~dLdMEDgD~IDv~   96 (97)
T 2jxx_A           38 TLEVSLSRDSPLKTLMSHYEEAMG-LS--GRKLSFFFDGTKLSGRELPADLGMESGDLIEVW   96 (97)
T ss_dssp             EEEEEEETTSCHHHHHHHHHHHTT-CS--SSCCEEEETTEECCSCSCHHHHTCCTTEEEEEE
T ss_pred             EEEEEECCCChHHHHHHHHHHHHC-CC--cccEEEEECCEEcCCCCCHHHcCCCCCCEEEEe
Confidence            467888888899999999988753 22  246889999999875 3    359999999986

>2k6p_A Uncharacterized protein HP_1423; alpha-L motif, RNA-binding, unknown function; NMR {Helicobacter pylori}

Probab=90.24  E-value=0.25  Score=30.17  Aligned_cols=25  Identities=24%  Similarity=0.211  Sum_probs=21.9

Q ss_pred             EEEECCeecCCCCccCCCCEEEEEc
Q 034054           76 VLALNEEYTNASVIVNEKDELAIIP  100 (105)
Q Consensus        76 ~vaVNg~~v~~d~~L~dGDeVaiiP  100 (105)
                      .|.|||+.+...+.|++||.|.|.-
T Consensus        27 ~V~VNg~~~~~~~~v~~gd~I~v~~   51 (92)
T 2k6p_A           27 AVWLNGSCAKASKEVKAGDTISLHY   51 (92)
T ss_dssp             CCEETTEECCTTCBCCTTCEEEECC
T ss_pred             cEEECCEEcCCCCCcCCCCEEEEEe
Confidence            4889999998899999999998853

>1p9k_A ORF, hypothetical protein; alfal motif, RNA-binding protein, E.coli, montreal-kingston structural genomics initiative, BSGI; NMR {Escherichia coli} SCOP: d.66.1.6

Probab=89.61  E-value=0.22  Score=29.72  Aligned_cols=53  Identities=4%  Similarity=-0.137  Sum_probs=35.0

Q ss_pred             EEeC--CCCCHHHHHHHHHHh--CCCchhhcceeEEEECCeec-CCCCccCCCCEEEE
Q 034054           46 LEVS--CGSTTQDCLNKLIAR--FPNLEEIRGCMVLALNEEYT-NASVIVNEKDELAI   98 (105)
Q Consensus        46 vev~--~~~tv~dLl~~L~~~--~p~l~~~~~~~~vaVNg~~v-~~d~~L~dGDeVai   98 (105)
                      +.++  ++..+..++.....-  ....+.+...=.|.|||+.+ ...+.+.+||.|.+
T Consensus        13 ~~v~~~~~~RLdk~L~~~g~~~SR~~a~~lI~~G~V~VNG~~v~~~~~~v~~gd~I~v   70 (79)
T 1p9k_A           13 FSLGKHPHVELCDLLKLEGWSESGAQAKIAIAEGQVKVDGAVETRKRCKIVAGQTVSF   70 (79)
T ss_dssp             EECCSCSCCCHHHHHHHHTSCSSSSTTSHHHHHHHHEETTBCCCCSSCCCCSSEEEEE
T ss_pred             EEECCCCCchHHHHHHHCCCCCCHHHHHHHHHCCEEEECCEEecCCCCCCCCCCEEEE
Confidence            4454  347888888766321  12233444444678999987 57889999998876

>4ejq_A Kinesin-like protein KIF1A; homodimer, FHA domain, transport protein; 1.89A {Homo sapiens} PDB: 2eh0_A 2g1l_A

Probab=89.55  E-value=0.27  Score=33.21  Aligned_cols=24  Identities=8%  Similarity=0.127  Sum_probs=20.9

Q ss_pred             eEEEECCeecCCCCccCCCCEEEE
Q 034054           75 MVLALNEEYTNASVIVNEKDELAI   98 (105)
Q Consensus        75 ~~vaVNg~~v~~d~~L~dGDeVai   98 (105)
                      -.++|||..+...+.|++||+|.|
T Consensus       110 ngt~VNG~~i~~~~~L~~GD~I~~  133 (154)
T 4ejq_A          110 ADTYVNGKKVTEPSILRSGNRIIM  133 (154)
T ss_dssp             CCEEETTEECCSCEECCTTCEEEE
T ss_pred             CceEECCEEcCCceECCCCCEEEE
Confidence            358899999987789999999987

>3pge_A SUMO-modified proliferating cell nuclear antigen; DNA replication, DNA binding protein; 2.80A {Saccharomyces cerevisiae}

Probab=89.20  E-value=3  Score=29.47  Aligned_cols=63  Identities=10%  Similarity=0.133  Sum_probs=50.2

Q ss_pred             cCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEEcCCCCC
Q 034054           39 TGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        39 ~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaiiPPvsGG  105 (105)
                      .| .+..+.+...+++..|+...+++.. +.  ...+++.-+|+.+..     +.-+.+||.|.++.--.||
T Consensus        37 ~g-~~v~fkIk~~t~l~kL~~ay~er~G-i~--~~~~RF~FdG~rI~~~~TP~dL~MEdgD~Idv~~~q~gg  104 (200)
T 3pge_A           37 GS-SEIFFKIKKTTPLRRLMEAFAKRQG-KE--MDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGG  104 (200)
T ss_dssp             SS-CEEEEEECTTSCTHHHHHHHHHHHS-SC--GGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEECCSCC
T ss_pred             CC-CEEEEEEecCCHHHHHHHHHHHHhC-CC--hhhEEEEECCEEcCCCCCHHHcCCCCCCEEEEEeccCcC
Confidence            35 4789999888999999999988753 22  356788999999863     5679999999999887776

>3fm8_A Kinesin-like protein KIF13B; kinesin, GAP, GTPase activation, structural genomics consort ATP-binding, cytoskeleton, microtubule, motor protein, NUCL binding; 2.30A {Homo sapiens} PDB: 3mdb_A*

Probab=89.02  E-value=0.3  Score=32.02  Aligned_cols=24  Identities=8%  Similarity=0.109  Sum_probs=21.3

Q ss_pred             eEEEECCeecCCCCccCCCCEEEE
Q 034054           75 MVLALNEEYTNASVIVNEKDELAI   98 (105)
Q Consensus        75 ~~vaVNg~~v~~d~~L~dGDeVai   98 (105)
                      ..++|||+.+...+.|++||.|.|
T Consensus        90 ngt~VNG~~V~~~~~L~~GD~I~l  113 (124)
T 3fm8_A           90 TRTFVNGSSVSSPIQLHHGDRILW  113 (124)
T ss_dssp             CCEEETTEECCSCEEECTTCEEEE
T ss_pred             CCEEECCEEcCCcEECCCCCEEEE
Confidence            468999999987889999999987

>3ai5_A Yeast enhanced green fluorescent protein, ubiquit; ubiquitin, fusion protein, fluore protein, transcription; HET: CR2; 1.40A {Aequorea victoria} PDB: 3ako_B*

Probab=88.79  E-value=1.8  Score=32.55  Aligned_cols=71  Identities=17%  Similarity=0.184  Sum_probs=49.3

Q ss_pred             CCCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----CccCCCCE
Q 034054           21 KESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----VIVNEKDE   95 (105)
Q Consensus        21 ~~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L~dGDe   95 (105)
                      ....|+|.|+...      | +...++++...||.+|.+.|.+... +.  .+..++..+|+....+     .-|++|+.
T Consensus       230 ~~~~MqI~VKtl~------G-k~~~leV~~s~TV~dLK~kI~~~~G-Ip--~~~QRLi~~Gk~L~D~~TLsdygI~~gst  299 (307)
T 3ai5_A          230 ITGSMQIFVKTLT------G-KTITLEVEPSDTIENVKAKIQDKEG-IP--PDQQRLIFAGKQLEDGRTLSDYNIQKEST  299 (307)
T ss_dssp             SCCCEEEEEECTT------S-CEEEEEECTTCBHHHHHHHHHHHHC-CC--GGGCEEEETTEECCTTSBTGGGTCCTTCE
T ss_pred             CCCeEEEEEEeCC------C-CEEEEEECCCCcHHHHHHHHHHHHC-cC--hHHEEEEeCCeecCCCCCHHHcCCCCCCE
Confidence            4566888888752      3 3578889888999999999987642 11  1234566788887543     45779999


Q ss_pred             EEEEcC
Q 034054           96 LAIIPP  101 (105)
Q Consensus        96 VaiiPP  101 (105)
                      |.++-.
T Consensus       300 L~LvlR  305 (307)
T 3ai5_A          300 LHLVLR  305 (307)
T ss_dssp             EEEEC-
T ss_pred             EEEEEe
Confidence            988643

>1wjn_A Tubulin-folding protein TBCE; ubiquitin-like domain, progressive motor neuropathy, structural genomics; NMR {Mus musculus} SCOP: d.15.1.1

Probab=88.45  E-value=2.9  Score=25.46  Aligned_cols=70  Identities=10%  Similarity=-0.054  Sum_probs=41.2

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEE-----------CCeecCC-CCccCC
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLAL-----------NEEYTNA-SVIVNE   92 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaV-----------Ng~~v~~-d~~L~d   92 (105)
                      ++++|....    .......+..++...||.+|...|...+. +...... +.+.           +.....+ ++.+.+
T Consensus        10 v~l~I~~~~----~~~~~~~e~~l~~~~TV~~LK~~i~~~~g-ip~~~q~-L~~~~~~~~~~~~~L~~d~~~L~~y~i~~   83 (97)
T 1wjn_A           10 LTLKIKCSN----QPERQILEKQLPDSMTVQKVKGLLSRLLK-VPVSELL-LSYESSKMPGREIELENDLQPLQFYSVEN   83 (97)
T ss_dssp             EEEEEEESS----CSSSCCEEEEEETTSBHHHHHHHHHTTTT-CCTTTCE-EEEECTTSCSCEEECCCSSSBSGGGTCCT
T ss_pred             EEEEEEecC----CCCCcEEEEECCCCCCHHHHHHHHHHHHC-CChhHeE-EEEEcCCCCceeeccCCCcccHhhcCCCC
Confidence            555555431    11334677888888999999999998773 1111111 1222           1212222 478999


Q ss_pred             CCEEEEEc
Q 034054           93 KDELAIIP  100 (105)
Q Consensus        93 GDeVaiiP  100 (105)
                      ||+|.+.-
T Consensus        84 G~~I~V~d   91 (97)
T 1wjn_A           84 GDCLLVRW   91 (97)
T ss_dssp             TCEEEEEC
T ss_pred             CCEEEEEe
Confidence            99998864

>4egx_A Kinesin-like protein KIF1A; FHA domain, transport protein; 2.51A {Homo sapiens}

Probab=87.74  E-value=0.4  Score=33.40  Aligned_cols=25  Identities=8%  Similarity=0.096  Sum_probs=22.1

Q ss_pred             eeEEEECCeecCCCCccCCCCEEEE
Q 034054           74 CMVLALNEEYTNASVIVNEKDELAI   98 (105)
Q Consensus        74 ~~~vaVNg~~v~~d~~L~dGDeVai   98 (105)
                      ...++|||..|...+.|+.||.|.|
T Consensus       139 ~a~t~VNG~~I~~~~~L~~GDrI~l  163 (184)
T 4egx_A          139 GADTYVNGKKVTEPSILRSGNRIIM  163 (184)
T ss_dssp             TCCEEETTEECCSCEECCTTCEEEE
T ss_pred             CCeEEEcCEEccccEEcCCCCEEEE
Confidence            3468999999998899999999976

>2fnj_B Transcription elongation factor B polypeptide 2; beta-sandwich, lectin-like, SPRY, protein transport/signaling protein complex; 1.80A {Mus musculus} SCOP: d.15.1.1 PDB: 1lm8_B 1lqb_A 1vcb_A 2c9w_B 2izv_B 2jz3_B 2xai_C 3dcg_A 3zrc_A* 3zrf_A

Probab=87.22  E-value=2.9  Score=27.19  Aligned_cols=62  Identities=6%  Similarity=-0.052  Sum_probs=40.7

Q ss_pred             CCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCc-----cC-------CCCEEEEEcCCCCC
Q 034054           40 GLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVI-----VN-------EKDELAIIPPISGG  105 (105)
Q Consensus        40 g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~-----L~-------dGDeVaiiPPvsGG  105 (105)
                      ++....+++....||.+|.+.+..... +.  .+.-++..+|+....+..     |.       .+..|.+.-. .||
T Consensus        10 ~ktti~lev~~sdTV~~lK~kI~~~eg-IP--~~qQrLi~~Gk~LeD~~TLsdy~I~~~~a~~q~~stL~L~lr-~~g   83 (118)
T 2fnj_B           10 HKTTIFTDAKESSTVFELKRIVEGILK-RP--PEEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAFR-ADD   83 (118)
T ss_dssp             BTEEEEEEEETTSBHHHHHHHHHHHHC-CC--GGGEEEEETTEECCTTSBHHHHTCCTTTSBTTBCEEEEEEEB-SSS
T ss_pred             CCEEEEEEeCCcChHHHHHHHHHHHhC-CC--HHHeEEEECCeECCCCCCHHHcCcccccccCCCCCEEEEEec-CCC
Confidence            334577888888999999999987642 11  122345579998876543     44       6788877655 444

>1dm9_A Hypothetical 15.5 KD protein in MRCA-PCKA intergenic region; heat shock proteins, protein-RNA interactions, ribosome, structural genomics; 2.00A {Escherichia coli} SCOP: d.66.1.3 PDB: 3bbu_A

Probab=87.19  E-value=0.68  Score=30.53  Aligned_cols=26  Identities=19%  Similarity=0.162  Sum_probs=22.5

Q ss_pred             eEEEECCeecCCCCccCCCCEEEEEc
Q 034054           75 MVLALNEEYTNASVIVNEKDELAIIP  100 (105)
Q Consensus        75 ~~vaVNg~~v~~d~~L~dGDeVaiiP  100 (105)
                      =.|.|||..+...+.|+.||+|.|.-
T Consensus        34 G~V~VNG~~vk~s~~V~~GD~I~I~~   59 (133)
T 1dm9_A           34 GKVHYNGQRSKPSKIVELNATLTLRQ   59 (133)
T ss_dssp             TCEEETTEECCTTCBCCTTCEEEEEE
T ss_pred             CcEEECCEEcCCCCEeCCCCEEEEEe
Confidence            35889999998899999999998853

>2lxa_A Ubiquitin-like protein MDY2; ubiquitin-like domain, protein-protein interaction, SGT2 BIN domain, GET pathway, protein binding; NMR {Saccharomyces cerevisiae}

Probab=86.29  E-value=1.1  Score=27.33  Aligned_cols=65  Identities=11%  Similarity=0.150  Sum_probs=41.0

Q ss_pred             eEEEEEecHHhHhhcCCCceEEE--eCCCCCHHHHHHHH-HHhCCCchhhcceeEEEECCeecCCC-----Ccc-CCCCE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLE--VSCGSTTQDCLNKL-IARFPNLEEIRGCMVLALNEEYTNAS-----VIV-NEKDE   95 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~ve--v~~~~tv~dLl~~L-~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L-~dGDe   95 (105)
                      |+|.|+-..      | ....++  ++...|+.+|.+.+ ... .++.  .+..++..+|+...++     +.+ .+|..
T Consensus         2 mqI~VKtl~------g-~~~~i~v~v~~~~TV~~lK~~I~~~~-~gip--~~~QrLi~~Gk~L~D~~tL~~y~I~~~~st   71 (87)
T 2lxa_A            2 VHLTLKKIQ------A-PKFSIEHDFSPSDTILQIKQHLISEE-KASH--ISEIKLLLKGKVLHDNLFLSDLKVTPANST   71 (87)
T ss_dssp             CEEEEEECS------S-SCEECCEECCTTCBHHHHHHHHHHTT-SCSS--STTEEEEETTEECCTTCBHHHHCCCGGGCE
T ss_pred             EEEEEEcCC------C-CEEEEEEcCCCCCcHHHHHHHHHHHh-cCCC--hHHEEEEECCEECcCcCCHHHcCCCCCCCE
Confidence            778777543      3 345555  44788999999999 544 3322  1234566799988654     445 46666


Q ss_pred             EEEE
Q 034054           96 LAII   99 (105)
Q Consensus        96 Vaii   99 (105)
                      |.++
T Consensus        72 l~v~   75 (87)
T 2lxa_A           72 ITVM   75 (87)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            6554

>1oey_A P67-PHOX, neutrophil cytosol factor 2; immune system, PB1 heterodimer/complex, NADPH oxidase, PB1 D heterodimerization; 2.0A {Homo sapiens} SCOP: d.15.2.2

Probab=85.23  E-value=2.8  Score=25.76  Aligned_cols=36  Identities=8%  Similarity=0.131  Sum_probs=29.5

Q ss_pred             CCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCC
Q 034054           22 ESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFP   66 (105)
Q Consensus        22 ~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p   66 (105)
                      +..|+|||.|-         ....+.+|.++++.+|.+.|.++.+
T Consensus         3 ~~~~~VKV~~~---------~tvairvp~~~~y~~L~~~l~~kL~   38 (83)
T 1oey_A            3 HMAYTLKVHYK---------YTVVMKTQPGLPYSQVRDMVSKKLE   38 (83)
T ss_dssp             SSCEEEEEESS---------SEEEEEECTTCCHHHHHHHHHHHTT
T ss_pred             CCcEEEEEEEE---------EEEEEECCCCCCHHHHHHHHHHHhC
Confidence            44577887763         3688999999999999999999875

>1wxq_A GTP-binding protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; 2.60A {Pyrococcus horikoshii} SCOP: c.37.1.8 d.15.10.2

Probab=84.36  E-value=0.58  Score=35.90  Aligned_cols=51  Identities=18%  Similarity=0.141  Sum_probs=38.2

Q ss_pred             eEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEE---EECCeecCCCCccCCCCEEEEEc
Q 034054           44 MPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVL---ALNEEYTNASVIVNEKDELAIIP  100 (105)
Q Consensus        44 ~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~v---aVNg~~v~~d~~L~dGDeVaiiP  100 (105)
                      ..+.++.|+|+.|+-..+...   +.   ..+.-   ..|+..++.++.|++||.|.|+.
T Consensus       341 ~~~~l~~G~t~~d~a~~iH~d---~~---~~f~~a~~~~~~~~~g~~~~l~dgDvv~i~~  394 (397)
T 1wxq_A          341 HVFLMKKGSTPRDLAFKVHTD---LG---KGFLYAINARTKRRVGEDYELQFNDIVKIVS  394 (397)
T ss_dssp             CCEEEETTCCHHHHHHHHCHH---HH---HTEEEEEETTTCSBCCTTCCCCTTEEEEEEE
T ss_pred             eeEEeCCCCCHHHHHHHHhHH---HH---hhhhhhHHhcCCEEcCCCccccCCCEEEEEe
Confidence            567789999999998776432   22   12222   46888899999999999999974

>2kzr_A Ubiquitin thioesterase OTU1; structural genomics, northeast structural genomics consortiu PSI-2, protein structure initiative, hydrolase; NMR {Mus musculus}

Probab=83.84  E-value=3  Score=24.82  Aligned_cols=66  Identities=11%  Similarity=0.125  Sum_probs=38.2

Q ss_pred             eEEEEEecHHhHhhcCCCceEEE-eCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecC--------CCCccCCCCE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLE-VSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTN--------ASVIVNEKDE   95 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~ve-v~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~--------~d~~L~dGDe   95 (105)
                      |+|+|+.-+      |  ...++ ++...||.+|.+.+.+..+ +..-...+...-.++.+.        .+.-|.+|+.
T Consensus         1 m~i~vr~~~------G--~~~v~~l~~~~Tv~~Lk~~I~~~~g-i~~~~qrL~~~~p~k~l~l~~~~~tL~~~gl~~g~~   71 (86)
T 2kzr_A            1 WRVRCKAKG------G--THLLQGLSSRTRLRELQGQIAAITG-IAPGSQRILVGYPPECLDLSDRDITLGDLPIQSGDM   71 (86)
T ss_dssp             CCEEEEETT------E--EEEECSCCTTCBHHHHHHHHHHHTC-CCTTTCCCEESSCCCCCCCCCSSCBTTTSSCCTTCE
T ss_pred             CEEEEEcCC------C--CEEeeecCCCCCHHHHHHHHHHHhC-CCccceEEEeCCCCcccccCCCCCCHHHcCCCCCCE
Confidence            566776654      3  23466 8888999999999998753 211111222111123321        2466888998


Q ss_pred             EEEE
Q 034054           96 LAII   99 (105)
Q Consensus        96 Vaii   99 (105)
                      |.+.
T Consensus        72 l~v~   75 (86)
T 2kzr_A           72 LIVE   75 (86)
T ss_dssp             EECC
T ss_pred             EEEE
Confidence            8764

>1wln_A Afadin; beta sandwich, FHA domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: b.26.1.2

Probab=83.54  E-value=0.73  Score=29.47  Aligned_cols=26  Identities=4%  Similarity=-0.031  Sum_probs=20.9

Q ss_pred             eeEEEECCeecCCCCccCCCCEEEEE
Q 034054           74 CMVLALNEEYTNASVIVNEKDELAII   99 (105)
Q Consensus        74 ~~~vaVNg~~v~~d~~L~dGDeVaii   99 (105)
                      .--++|||+.+...+.|++||.|.|=
T Consensus        79 ~ngt~vNg~~i~~~~~L~~GD~I~iG  104 (120)
T 1wln_A           79 DAETYVDGQRISETTMLQSGMRLQFG  104 (120)
T ss_dssp             SSCEEETSCBCSSCEEECTTCEEEET
T ss_pred             CCCEEECCEEcCCCEECCCCCEEEEC
Confidence            34578899888866799999999873

>1c05_A Ribosomal protein S4 delta 41; two subdomains, unique topology, possible helix-turn-helix motif, ribosome; NMR {Geobacillus stearothermophilus} SCOP: d.66.1.2 PDB: 1c06_A 1eg0_A 1qd7_C

Probab=83.43  E-value=1.1  Score=30.34  Aligned_cols=28  Identities=11%  Similarity=0.006  Sum_probs=23.4

Q ss_pred             eEEEECCeec-CCCCccCCCCEEEEEcCC
Q 034054           75 MVLALNEEYT-NASVIVNEKDELAIIPPI  102 (105)
Q Consensus        75 ~~vaVNg~~v-~~d~~L~dGDeVaiiPPv  102 (105)
                      =.|.|||+.+ .+.+.+++||.|.|-.+.
T Consensus        76 G~V~VNG~~v~~ps~~V~~gD~I~V~~~~  104 (159)
T 1c05_A           76 GHILVDGSRVNIPSYRVKPGQTIAVREKS  104 (159)
T ss_dssp             TCEEETTEECCCSSCBCCTTCEEEECGGG
T ss_pred             CCEEECCEEeCcCCcEeCCCCEEEEeCce
Confidence            3588999999 489999999999997553

>2pie_A E3 ubiquitin-protein ligase RNF8; FHA domain, complex, ligase, signaling protein; HET: TPO; 1.35A {Homo sapiens} SCOP: b.26.1.2

Probab=82.09  E-value=1.5  Score=28.73  Aligned_cols=29  Identities=14%  Similarity=0.166  Sum_probs=22.8

Q ss_pred             EEEECCeecCC--CCccCCCCEEEEEcCCCC
Q 034054           76 VLALNEEYTNA--SVIVNEKDELAIIPPISG  104 (105)
Q Consensus        76 ~vaVNg~~v~~--d~~L~dGDeVaiiPPvsG  104 (105)
                      -.+|||+.+..  ...|++||+|.|=.|..+
T Consensus        76 GT~vNg~~l~~~~~~~L~~GD~I~lG~~~~~  106 (138)
T 2pie_A           76 GVWLNRARLEPLRVYSIHQGDYIQLGVPLEN  106 (138)
T ss_dssp             CEEETTEECCTTCCEECCTTCEEEESCCCTT
T ss_pred             CeEECCEEcCCCCcEECCCCCEEEECCCCCC
Confidence            46778887765  578999999999876544

>4dbg_A Ranbp-type and C3HC4-type zinc finger-containing; ubiquitin fold, ubiquitination, ligase; 2.71A {Homo sapiens} PDB: 2lgy_A

Probab=81.79  E-value=7.7  Score=24.57  Aligned_cols=55  Identities=11%  Similarity=0.080  Sum_probs=38.3

Q ss_pred             CceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCcc-CCCCEEEEE
Q 034054           42 TDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIV-NEKDELAII   99 (105)
Q Consensus        42 ~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L-~dGDeVaii   99 (105)
                      ...++++....|+.+|.+.+.+++. +..-..  ++...++....     ++-+ .+|+.|-++
T Consensus        37 ~~i~l~V~ps~TV~~LK~~I~~k~G-ipp~~Q--Rli~ggkll~D~~TL~~ygI~~~G~t~hL~   97 (105)
T 4dbg_A           37 VTIWLTVRPDMTVASLKDMVFLDYG-FPPVLQ--QWVIGQRLARDQETLHSHGVRQNGDSAYLY   97 (105)
T ss_dssp             EEEEEEECTTCBHHHHHHHHHHHHC-CCGGGE--EEEETTEEECTTCBTGGGTCCSTTCEEEEE
T ss_pred             ceEEEEECCcChHHHHHHHHHHHhC-CCHHHE--EEeccCeEccCcCcHHHcCCCCCCCEEEEE
Confidence            4678888888999999999998862 211112  34556775542     5678 599998876

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	105
d1vjka_	88	d.15.3.1 (A:) Molybdopterin synthase subunit MoaD	5e-18
d1fm0d_	81	d.15.3.1 (D:) Molybdopterin synthase subunit MoaD	1e-17
d1v8ca1	87	d.15.3.1 (A:1-87) MoaD-related protein, N-terminal	8e-15
d1xo3a_	101	d.15.3.3 (A:) C9orf74 homolog {Mouse (Mus musculus	2e-04

>d1vjka_ d.15.3.1 (A:) Molybdopterin synthase subunit MoaD {Pyrococcus furiosus [TaxId: 2261]} Length = 88

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: MoaD
domain: Molybdopterin synthase subunit MoaD
species: Pyrococcus furiosus [TaxId: 2261]

 Score = 70.0 bits (171), Expect = 5e-18
 Identities = 21/88 (23%), Positives = 44/88 (50%), Gaps = 8/88 (9%)

Query: 24  SIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEE--------IRGCM 75
           S+++KV +FAR R L G+ +  +E+  G+  +D + ++  R    +E            +
Sbjct: 1   SVKVKVKYFARFRQLAGVDEEEIELPEGARVRDLIEEIKKRHEKFKEEVFGEGYDEDADV 60

Query: 76  VLALNEEYTNASVIVNEKDELAIIPPIS 103
            +A+N  Y +    + + D + + PP+S
Sbjct: 61  NIAVNGRYVSWDEELKDGDVVGVFPPVS 88

>d1fm0d_ d.15.3.1 (D:) Molybdopterin synthase subunit MoaD {Escherichia coli [TaxId: 562]} Length = 81

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: MoaD
domain: Molybdopterin synthase subunit MoaD
species: Escherichia coli [TaxId: 562]

 Score = 69.2 bits (169), Expect = 1e-17
 Identities = 22/81 (27%), Positives = 38/81 (46%), Gaps = 3/81 (3%)

Query: 27  IKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEI--RGCMVLALNEEYT 84
           IKVLFFA+ R+L G     +      T +     + A+          G ++ A+N+   
Sbjct: 2   IKVLFFAQVRELVGTDATEVAAD-FPTVEALRQHMAAQSDRWALALEDGKLLAAVNQTLV 60

Query: 85  NASVIVNEKDELAIIPPISGG 105
           +    + + DE+A  PP++GG
Sbjct: 61  SFDHPLTDGDEVAFFPPVTGG 81

>d1v8ca1 d.15.3.1 (A:1-87) MoaD-related protein, N-terminal domain {Thermus thermophilus [TaxId: 274]} Length = 87

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: MoaD
domain: MoaD-related protein, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

 Score = 61.9 bits (150), Expect = 8e-15
 Identities = 23/89 (25%), Positives = 39/89 (43%), Gaps = 14/89 (15%)

Query: 28  KVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEE-------IRGCMVLALN 80
           KV  +A  RDLTG + + L    G+T  + L  L+  +P L+E       +   + + L 
Sbjct: 2   KVNLYATFRDLTGKSQLELP---GATVGEVLENLVRAYPALKEELFEGEGLAERVSVFLE 58

Query: 81  EEY----TNASVIVNEKDELAIIPPISGG 105
                     S  ++    L + PP++GG
Sbjct: 59  GRDVRYLQGLSTPLSPGATLDLFPPVAGG 87

>d1xo3a_ d.15.3.3 (A:) C9orf74 homolog {Mouse (Mus musculus) [TaxId: 10090]} Length = 101

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: C9orf74 homolog
domain: C9orf74 homolog
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 35.6 bits (82), Expect = 2e-04
 Identities = 12/99 (12%), Positives = 27/99 (27%), Gaps = 16/99 (16%)

Query: 23  SSIQIKVLFFARARDLTG---LTDMPLEV-SCGSTTQDCLNKLIARFPNL----EEIRGC 74
           + + +KV F   A  L        + L         ++ L  +                 
Sbjct: 3   APLCVKVEFGGGAELLFDGVKKHQVALPGQEEPWDIRNLLVWIKKNLLKERPELFIQGDS 62

Query: 75  MVLALNEEYTNASV--------IVNEKDELAIIPPISGG 105
           +   +     +A           + ++D +  I  + GG
Sbjct: 63  VRPGILVLINDADWELLGELDYQLQDQDSILFISTLHGG 101

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	105
d1vjka_	88	Molybdopterin synthase subunit MoaD {Pyrococcus fu	99.94
d1fm0d_	81	Molybdopterin synthase subunit MoaD {Escherichia c	99.92
d1v8ca1	87	MoaD-related protein, N-terminal domain {Thermus t	99.87
d1xo3a_	101	C9orf74 homolog {Mouse (Mus musculus) [TaxId: 1009	99.86
d1zud21	65	Thiamin biosynthesis sulfur carrier protein ThiS {	99.2
d1rwsa_	68	Hypothetical protein PF1061 {Archaeon Pyrococcus f	98.82
d1tygb_	65	Thiamin biosynthesis sulfur carrier protein ThiS {	98.67
d2cu3a1	63	Uncharacterised protein TTHA0675 {Thermus thermoph	98.62
d2hj1a1	77	Hypothetical protein HI0395 {Haemophilus influenza	98.37
d1ryja_	70	Hypothetical protein MTH1743 {Archaeon Methanobact	97.8
d1tkea1	62	Threonyl-tRNA synthetase (ThrRS), N-terminal 'addi	97.41
d1wxqa2	76	GTP-binding protein PH0525 {Pyrococcus horikoshii	97.16
d1ogwa_	76	Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}	97.1
d1oqya4	77	Ubiquitin-like domain of Rad23 homolog A (Hhr23a)	96.99
d1nyra2	59	Threonyl-tRNA synthetase (ThrRS), N-terminal 'addi	96.77
d1wh3a_	87	2'-5'-oligoadenylate synthetase-like protein, OASL	96.63
d1uela_	95	Ubiquitin-like domain of Rad23 homolog B (Hhr23B)	96.57
d1j8ca_	103	Ubiquitin-like N-terminal domain of PLIC-2 {Human	96.38
d1euvb_	79	SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomy	96.3
d1wjua_	100	NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens	96.26
d1yqba1	84	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	96.16
d1bt0a_	73	Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxI	96.14
d2bwfa1	73	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	95.98
d1uh6a_	100	Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculu	95.89
d1wiaa_	95	Ubiquitin-like protein bab25500 (2010008E23Rik) {M	95.83
d1z2ma2	76	Interferon-induced 15 kDa protein {Human (Homo sap	95.76
d1wgga_	96	Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (M	95.71
d2zeqa1	78	Ubiquitin-like domain of parkin {Mouse (Mus muscul	95.57
d1ttna1	80	Dendritic cell-derived ubiquitin-like protein {Hum	95.56
d1v86a_	95	hypothetical D7wsu128e protein {Mouse (Mus musculu	95.44
d2faza1	76	Ubiquitin-like PHD and RING finger domain-containi	95.3
d1wy8a1	76	Ubiquitin-like PHD and RING finger domain-containi	95.11
d1wgha_	116	Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculu	95.1
d1v5oa_	102	1700011n24rik protein {Mouse (Mus musculus) [TaxId	94.9
d1m94a_	73	Ubiquitin-like modifier protein hub1 {Baker's yeas	94.67
d1wx8a1	83	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	94.64
d2uyzb1	77	SUMO-1 (smt3 homologue) {Human (Homo sapiens) [Tax	94.5
d1se9a_	101	Hypothetical protein At3g01050 {Thale cress (Arabi	94.43
d1wgda_	93	Homocysteine-responsive endoplasmic reticulum-resi	93.43
d1v2ya_	105	Ubiquitin-like protein 3300001g02rik {Mouse (Mus m	92.6
d1wxva1	81	Bag-family molecular chaperone regulator-1 {Human	92.51
d1wm3a_	72	SUMO-2 {Human (Homo sapiens) [TaxId: 9606]}	91.78
d2g1la1	102	Kinesin-like protein kif1c {Human (Homo sapiens) [	91.62
d1wjna_	97	Tubulin-folding protein TbcE {Mouse (Mus musculus)	91.48
d1z2ma1	76	Interferon-induced 15 kDa protein {Human (Homo sap	91.09
d1v5ta_	90	8430435i17rik protein {Mouse (Mus musculus) [TaxId	90.89
d1kf6b2	105	Fumarate reductase iron-sulfur protein, N-terminal	90.87
d2bs2b2	106	Fumarate reductase iron-sulfur protein, N-terminal	90.81
d1c06a_	159	Ribosomal protein S4 {Bacillus stearothermophilus	90.44
d1nekb2	106	Succinate dehydogenase iron-sulfur protein, N-term	90.41
d1wx9a1	73	Large proline-rich protein BAT3 {Human (Homo sapie	90.11
d2gy9d1	204	Ribosomal protein S4 {Escherichia coli [TaxId: 562	89.56
d1dm9a_	104	Heat shock protein 15 kD {Escherichia coli [TaxId:	89.06
d1vioa2	58	Pseudouridine synthase RsuA N-terminal domain {Hae	88.87
d1we6a_	111	Splicing factor 3 subunit 1, C-terminal domain {Th	88.5
d2uubd1	208	Ribosomal protein S4 {Thermus thermophilus [TaxId:	87.46
d1y8xb1	92	UBA3 {Human (Homo sapiens) [TaxId: 9606]}	87.21
d1zkha1	86	Splicing factor 3 subunit 1, C-terminal domain {Hu	86.96
d1kska3	59	Pseudouridine synthase RsuA N-terminal domain {Esc	86.74
d2affa1	98	Antigen ki-67 {Human (Homo sapiens) [TaxId: 9606]}	85.0
d1p9ka_	79	Hypothetical protein YbcJ {Escherichia coli [TaxId	82.42
d1wlna1	107	Afadin {Mouse (Mus musculus) [TaxId: 10090]}	82.05
d2ff4a3	99	Probable regulatory protein EmbR, C-terminal domai	81.22

>d1vjka_ d.15.3.1 (A:) Molybdopterin synthase subunit MoaD {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: MoaD
domain: Molybdopterin synthase subunit MoaD
species: Pyrococcus furiosus [TaxId: 2261]

Probab=99.94  E-value=5.3e-27  Score=147.43  Aligned_cols=80  Identities=26%  Similarity=0.517  Sum_probs=74.7

Q ss_pred             ceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhh--------cceeEEEECCeecCCCCccCCCCE
Q 034054           24 SIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEI--------RGCMVLALNEEYTNASVIVNEKDE   95 (105)
Q Consensus        24 ~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~--------~~~~~vaVNg~~v~~d~~L~dGDe   95 (105)
                      ||+|+|+|||.+|+++|+++++++++++.|+++|++.|..+||++.+.        .+.++++||+++++.|++|++|||
T Consensus         1 smkI~v~~Fa~lre~~G~~~~~~~~~~~~Tv~~l~~~L~~~~~~~~~~l~~~~~~~~~~i~iavN~~~~~~d~~L~~gDe   80 (88)
T d1vjka_           1 SVKVKVKYFARFRQLAGVDEEEIELPEGARVRDLIEEIKKRHEKFKEEVFGEGYDEDADVNIAVNGRYVSWDEELKDGDV   80 (88)
T ss_dssp             CEEEEEEECTHHHHHHSSSEEEEEECTTCBHHHHHHHHHHHCGGGGGSCBCSSSCTTSSBEEEETTBCCCTTCBCCTTCE
T ss_pred             CeEEEEEEhHHHHHHhCCCeEEEECCCCCCHHHHHHHHHHHChHHHHHhhhccccccccEEEEEcceEcCCCcCcCCCCE
Confidence            699999999999999999999999999999999999999999987652        478999999999999999999999


Q ss_pred             EEEEcCCC
Q 034054           96 LAIIPPIS  103 (105)
Q Consensus        96 VaiiPPvs  103 (105)
                      |+||||||
T Consensus        81 vai~PPVs   88 (88)
T d1vjka_          81 VGVFPPVS   88 (88)
T ss_dssp             EEEESCC-
T ss_pred             EEEeCCCC
Confidence            99999997

>d1fm0d_ d.15.3.1 (D:) Molybdopterin synthase subunit MoaD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: MoaD
domain: Molybdopterin synthase subunit MoaD
species: Escherichia coli [TaxId: 562]

Probab=99.92  E-value=8.7e-26  Score=140.58  Aligned_cols=79  Identities=28%  Similarity=0.452  Sum_probs=71.2

Q ss_pred             EEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhh--cceeEEEECCeecCCCCccCCCCEEEEEcCCC
Q 034054           26 QIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEI--RGCMVLALNEEYTNASVIVNEKDELAIIPPIS  103 (105)
Q Consensus        26 ~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~--~~~~~vaVNg~~v~~d~~L~dGDeVaiiPPvs  103 (105)
                      +|+|+|||.+|+.+|+++++++++ +.|+.+|++.|.++||.+...  ...+++++|+++++++++|++||||+||||||
T Consensus         1 Mi~V~~Fa~lre~~G~~~~~~~~~-~~tv~~l~~~L~~~~~~~~~~l~~~~~~vavn~~~~~~~~~l~~gdevAi~PPVs   79 (81)
T d1fm0d_           1 MIKVLFFAQVRELVGTDATEVAAD-FPTVEALRQHMAAQSDRWALALEDGKLLAAVNQTLVSFDHPLTDGDEVAFFPPVT   79 (81)
T ss_dssp             CEEEEECHHHHHHHTCSEEEECSC-CSBHHHHHHHHHTTCHHHHHHHCCTTCEEEETTEECCTTCBCCTTCEEEEECCCC
T ss_pred             CeEEEEeHHHHHHhCCCeEEecCC-CCCHHHHHHHHHHhCchHHHHhcCCcEEEecCceecCCCCCcCCCCEEEEECCCC
Confidence            389999999999999988888765 469999999999999987654  35689999999999999999999999999999


Q ss_pred             CC
Q 034054          104 GG  105 (105)
Q Consensus       104 GG  105 (105)
                      ||
T Consensus        80 GG   81 (81)
T d1fm0d_          80 GG   81 (81)
T ss_dssp             CC
T ss_pred             CC
Confidence            99

>d1v8ca1 d.15.3.1 (A:1-87) MoaD-related protein, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: MoaD
domain: MoaD-related protein, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.87  E-value=6e-23  Score=128.89  Aligned_cols=75  Identities=32%  Similarity=0.547  Sum_probs=66.2

Q ss_pred             EEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhh-------cceeEEEECCeecC----CCCccCCCCEE
Q 034054           28 KVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEI-------RGCMVLALNEEYTN----ASVIVNEKDEL   96 (105)
Q Consensus        28 ~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~-------~~~~~vaVNg~~v~----~d~~L~dGDeV   96 (105)
                      ||+|||.||+++|+++  ++++ +.|++||++.|.++||++++.       ++.+.++|||+++.    ++++|++||||
T Consensus         2 kV~~fa~lr~~~G~~e--~~v~-~~Tv~~ll~~L~~~~p~l~~~l~~~~~~~~~v~i~vng~~i~~~~~~~~~l~~gdeV   78 (87)
T d1v8ca1           2 KVNLYATFRDLTGKSQ--LELP-GATVGEVLENLVRAYPALKEELFEGEGLAERVSVFLEGRDVRYLQGLSTPLSPGATL   78 (87)
T ss_dssp             EEEECTHHHHHHTCSE--EECC-CSBHHHHHHHHHHHCGGGHHHHEETTEECTTCEEEETTEEGGGTTGGGCBCCTTCEE
T ss_pred             EEEEeHHHHHHhCCcE--EEEc-CCCHHHHHHHHHHHCHHHHHHhcccccccceEEEEEcCeeeecccCCcccCCCCCEE
Confidence            6999999999999864  5665 479999999999999998652       46789999999984    58999999999


Q ss_pred             EEEcCCCCC
Q 034054           97 AIIPPISGG  105 (105)
Q Consensus        97 aiiPPvsGG  105 (105)
                      +||||||||
T Consensus        79 ~i~PpvsGG   87 (87)
T d1v8ca1          79 DLFPPVAGG   87 (87)
T ss_dssp             EEECSCCSE
T ss_pred             EEECCCCCC
Confidence            999999998

>d1xo3a_ d.15.3.3 (A:) C9orf74 homolog {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: C9orf74 homolog
domain: C9orf74 homolog
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.86  E-value=1.1e-21  Score=126.44  Aligned_cols=84  Identities=14%  Similarity=0.175  Sum_probs=72.3

Q ss_pred             CCceEEEEEecHHhHhhcCC-CceEEEeC---CCCCHHHHHHHHHHhCCCchh--------hcceeEEEECCeecC----
Q 034054           22 ESSIQIKVLFFARARDLTGL-TDMPLEVS---CGSTTQDCLNKLIARFPNLEE--------IRGCMVLALNEEYTN----   85 (105)
Q Consensus        22 ~~~m~V~V~~fg~lre~~g~-~~~~vev~---~~~tv~dLl~~L~~~~p~l~~--------~~~~~~vaVNg~~v~----   85 (105)
                      .+.|+|+|+|||.|+..++. ++..++++   ++.||++|+++|..+||++.+        +++.++++||++.+.    
T Consensus         2 ~~~m~V~V~F~g~L~~lf~~~r~~~v~l~~~~~~~TV~dll~~L~~~~p~~~~~l~~~~~~lr~~v~v~vN~~di~~l~g   81 (101)
T d1xo3a_           2 AAPLCVKVEFGGGAELLFDGVKKHQVALPGQEEPWDIRNLLVWIKKNLLKERPELFIQGDSVRPGILVLINDADWELLGE   81 (101)
T ss_dssp             CSSCEEEEEECSSGGGGGTTCCCEEEECCSSSCCCCHHHHHHHHHHHHCCSCGGGSCCTTSCCSSEEEEETTEEHHHHTT
T ss_pred             CCCeEEEEEEechHHHHhCCcceEEEEcCCCCCCcCHHHHHHHHHHhCCcchhhhhccCcCeeeeEEEEEcCcceeccCC
Confidence            45699999999999999975 44567665   368999999999999997643        467899999999873    


Q ss_pred             CCCccCCCCEEEEEcCCCCC
Q 034054           86 ASVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        86 ~d~~L~dGDeVaiiPPvsGG  105 (105)
                      ++|+|++||+|+||||++||
T Consensus        82 l~t~l~dgDeV~~~p~v~GG  101 (101)
T d1xo3a_          82 LDYQLQDQDSILFISTLHGG  101 (101)
T ss_dssp             TSCCCCTTCEEEEEETTCCC
T ss_pred             CccCcCCCCEEEEeCCCCCC
Confidence            79999999999999999999

>d1zud21 d.15.3.2 (2:2-66) Thiamin biosynthesis sulfur carrier protein ThiS {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: ThiS
domain: Thiamin biosynthesis sulfur carrier protein ThiS
species: Escherichia coli [TaxId: 562]

Probab=99.20  E-value=1.7e-11  Score=72.50  Aligned_cols=56  Identities=29%  Similarity=0.485  Sum_probs=48.2

Q ss_pred             ceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecC----CCCccCCCCEEEEEcCCCCC
Q 034054           43 DMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTN----ASVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        43 ~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~----~d~~L~dGDeVaiiPPvsGG  105 (105)
                      .+.+++++++|+.+|++.+....       +.++|++|+++++    .++.|++||.|.|++||+||
T Consensus         6 g~~~~~~~~~tl~~ll~~l~~~~-------~~vaV~vN~~ivpk~~~~~~~L~~gD~ieIv~~v~GG   65 (65)
T d1zud21           6 DQAMQCAAGQTVHELLEQLDQRQ-------AGAALAINQQIVPREQWAQHIVQDGDQILLFQVIAGG   65 (65)
T ss_dssp             TEEECCCTTCBHHHHHHHHTCCC-------TTEEEEETTEECCGGGTTTCBCCTTCEEEEEECCCCC
T ss_pred             CEEEEcCCCCcHHHHHHHcCCCC-------CcEEEEECCEEcCHHHHhhccCCCCCEEEEEEEecCC
Confidence            36788899999999999886332       4589999999998    36899999999999999999

>d1rwsa_ d.15.3.2 (A:) Hypothetical protein PF1061 {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: ThiS
domain: Hypothetical protein PF1061
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=98.82  E-value=3.3e-10  Score=66.91  Aligned_cols=57  Identities=21%  Similarity=0.276  Sum_probs=49.3

Q ss_pred             CceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEcCCCCC
Q 034054           42 TDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        42 ~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiPPvsGG  105 (105)
                      .+.++++++++++.|+|+.+.-.       .+.+.+-+||+.++.|.+++|||+|.++|-+|||
T Consensus        12 ~~reiE~~~g~~v~dvL~~~gl~-------~e~~vv~~nG~vv~eDe~v~DGD~vei~PVVSGG   68 (68)
T d1rwsa_          12 IEKEIEWREGMKVRDILRAVGFN-------TESAIAKVNGKVVLEDDEVKDGDFVEVIPVVSGG   68 (68)
T ss_dssp             CCCCCCCCSSCCHHHHHHTTTCS-------SCSSCEEETTEEECSSSCCCSSCCCBCSCCCCCC
T ss_pred             ceeEEEecCCcCHHHHHHHcCCC-------cceEEEEECCEEecCCcccCCCCEEEEEEeecCC
Confidence            34678889999999999987632       2456778899999999999999999999999998

>d1tygb_ d.15.3.2 (B:) Thiamin biosynthesis sulfur carrier protein ThiS {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: ThiS
domain: Thiamin biosynthesis sulfur carrier protein ThiS
species: Bacillus subtilis [TaxId: 1423]

Probab=98.67  E-value=1.4e-08  Score=59.49  Aligned_cols=54  Identities=19%  Similarity=0.239  Sum_probs=44.5

Q ss_pred             eEEEeCCC-CCHHHHHHHHHHhCCCchhhcceeEEEECCeecC----CCCccCCCCEEEEEcCCCC
Q 034054           44 MPLEVSCG-STTQDCLNKLIARFPNLEEIRGCMVLALNEEYTN----ASVIVNEKDELAIIPPISG  104 (105)
Q Consensus        44 ~~vev~~~-~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~----~d~~L~dGDeVaiiPPvsG  104 (105)
                      ..++++.+ .|+.+|++.+.-.       .+.++|++|+++++    .++.|++||.|.|+.+++|
T Consensus         7 ~~~~~~~~~~tl~~LL~~l~~~-------~~~vAVevN~~iv~k~~~~~~~L~~gD~IEIv~~vgG   65 (65)
T d1tygb_           7 KDVKWKKDTGTIQDLLASYQLE-------NKIVIVERNKEIIGKERYHEVELCDRDVIEIVHFVGG   65 (65)
T ss_dssp             EEECCSSSCCBHHHHHHHTTCT-------TSCCEEEETTEEECGGGTTTSBCCSSSEEEEEEECCC
T ss_pred             EEEEcCCCcccHHHHHHHcCCC-------CCcEEEEECCEEcCHHHcCcccCCCCCEEEEEEeecC
Confidence            46777765 5999999988543       24689999999997    3689999999999999977

>d2cu3a1 d.15.3.2 (A:1-63) Uncharacterised protein TTHA0675 {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: ThiS
domain: Uncharacterised protein TTHA0675
species: Thermus thermophilus [TaxId: 274]

Probab=98.62  E-value=2.9e-08  Score=57.89  Aligned_cols=53  Identities=19%  Similarity=0.280  Sum_probs=43.7

Q ss_pred             eEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecC---C-CCccCCCCEEEEEcCCCC
Q 034054           44 MPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTN---A-SVIVNEKDELAIIPPISG  104 (105)
Q Consensus        44 ~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~---~-d~~L~dGDeVaiiPPvsG  104 (105)
                      +..+++ +.|+.+|+..+...       .+.++|++|+++++   | ++.|++||.|.|+.+++|
T Consensus         7 e~~~~~-~~tl~~LL~~l~~~-------~~~vAV~vN~~ivpr~~~~~~~l~~gD~iEIv~~vgG   63 (63)
T d2cu3a1           7 EPRPLE-GKTLKEVLEEMGVE-------LKGVAVLLNEEAFLGLEVPDRPLRDGDVVEVVALMQG   63 (63)
T ss_dssp             EEECCT-TCCHHHHHHHHTBC-------GGGEEEEETTEEEEGGGCCCCCCCTTCEEEEEECCCC
T ss_pred             EEEEcC-CCCHHHHHHHcCCC-------CCcEEEEECCEEcCHHHcCcccCCCCCEEEEEEecCC
Confidence            456675 68999999988532       14689999999996   3 589999999999999988

>d2hj1a1 d.15.3.4 (A:11-87) Hypothetical protein HI0395 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: HI0395-like
domain: Hypothetical protein HI0395
species: Haemophilus influenzae [TaxId: 727]

Probab=98.37  E-value=5.2e-07  Score=54.51  Aligned_cols=73  Identities=18%  Similarity=0.363  Sum_probs=56.0

Q ss_pred             ceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHH--HHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEcC
Q 034054           24 SIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNK--LIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPP  101 (105)
Q Consensus        24 ~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~--L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiPP  101 (105)
                      .|+|+|-|--+=+    .....+++++|+|+.|.+..  +.+.||++.  .....+-|=|+.+.+|++|++||+|.|+-|
T Consensus         2 ~i~VeVvYA~p~~----q~~~~l~v~~GtTv~~Ai~~Sgi~~~fpeid--l~~~~vGIfGk~v~~~~~L~~gDRVEIYRP   75 (77)
T d2hj1a1           2 QINIEIAYAFPER----YYLKSFQVDEGITVQTAITQSGILSQFPEID--LSTNKIGIFSRPIKLTDVLKEGDRIEIYRP   75 (77)
T ss_dssp             EEEEEEEEEETTE----EEEEEEEEETTCBHHHHHHHHTHHHHCTTCC--TTTSEEEEEECSCCTTCBCCTTCEEEECCC
T ss_pred             eeEEEEEEECCCe----eEEEEEECCCCCcHHHHHHHcCcHhhCcccc--cccccEeEECcCcCCCCcCCCCCEEEEeec
Confidence            5888888744322    23457889999999987754  777899864  233467777999999999999999999987


Q ss_pred             C
Q 034054          102 I  102 (105)
Q Consensus       102 v  102 (105)
                      .
T Consensus        76 L   76 (77)
T d2hj1a1          76 L   76 (77)
T ss_dssp             C
T ss_pred             C
Confidence            4

>d1ryja_ d.15.3.2 (A:) Hypothetical protein MTH1743 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: ThiS
domain: Hypothetical protein MTH1743
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=97.80  E-value=3.3e-05  Score=44.62  Aligned_cols=58  Identities=21%  Similarity=0.180  Sum_probs=49.7

Q ss_pred             CCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEcCCCCC
Q 034054           41 LTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        41 ~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiPPvsGG  105 (105)
                      .....++...+.+++|++..|...       .+.+.+-.||+.|-.+..+.+||++.++.-+.||
T Consensus        13 d~~k~~E~~~p~~IkDiL~~lEip-------ieTvVvK~NG~~Vieeeei~dgDeieiI~vIYGG   70 (70)
T d1ryja_          13 DGKKILESGAPRRIKDVLGELEIP-------IETVVVKKNGQIVIDEEEIFDGDIIEVIRVIYGG   70 (70)
T ss_dssp             TEEEEEEESSCCBHHHHHHHTTCC-------TTTEEEEETTEECCTTSBCCTTCEEEEEECTTCC
T ss_pred             CchhhhhcCCChhHHHHhcccccc-------ceEEEEecCCcEEechhhccCCCEEEEEEEEecC
Confidence            345677888889999999877532       3568999999999999999999999999999998

>d1tkea1 d.15.10.1 (A:1-62) Threonyl-tRNA synthetase (ThrRS), N-terminal 'additional' domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: TGS-like
family: TGS domain
domain: Threonyl-tRNA synthetase (ThrRS), N-terminal 'additional' domain
species: Escherichia coli [TaxId: 562]

Probab=97.41  E-value=9.7e-05  Score=42.09  Aligned_cols=53  Identities=19%  Similarity=0.316  Sum_probs=43.9

Q ss_pred             ceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEc
Q 034054           43 DMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIP  100 (105)
Q Consensus        43 ~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiP  100 (105)
                      ....+++.++|..|+...+.   +++++  ..+...|||+.++++++|++++.|.|+.
T Consensus         9 G~~~~~~~g~T~~diA~~I~---~~l~k--~avaa~vng~l~dL~~~l~~d~~veiiT   61 (62)
T d1tkea1           9 GSQRHYDHAVSPMDVALDIG---PGLAK--ACIAGRVNGELVDACDLIENDAQLSIIT   61 (62)
T ss_dssp             SCEEECSSCBCHHHHHHHHC---HHHHH--HCCEEEETTEEEETTCCBCSCEEEEEEC
T ss_pred             CCEEEcCCCCCHHHHHHHHC---chhhh--eEEEEEECCEEeCCCcCcCCCCEEEEEe
Confidence            34778999999999988774   34442  4578889999999999999999999985

>d1wxqa2 d.15.10.2 (A:320-395) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: TGS-like
family: G domain-linked domain
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=97.16  E-value=0.00016  Score=43.01  Aligned_cols=53  Identities=17%  Similarity=0.083  Sum_probs=39.2

Q ss_pred             EEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEEc
Q 034054           45 PLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAIIP  100 (105)
Q Consensus        45 ~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaiiP  100 (105)
                      .+.+|.|+|+.|+-..+-.   ++.+-.-...+.+||+.++.+++|++||.|.|+.
T Consensus        23 ~~~Lp~GsTv~D~A~~IH~---dlg~~~~~A~~~~~g~~v~l~~~L~dgDvVeIiT   75 (76)
T d1wxqa2          23 VFLMKKGSTPRDLAFKVHT---DLGKGFLYAINARTKRRVGEDYELQFNDIVKIVS   75 (76)
T ss_dssp             CEEEETTCCHHHHHHHHCH---HHHHTEEEEEETTTCSBCCTTCCCCTTEEEEEEE
T ss_pred             cEEeCCCCcHHHHHHHHhH---HHHhheEEEEECcCCEECCCCcCccCCCEEEEEE
Confidence            4789999999999877643   2322111223445999999999999999999974

>d1ogwa_ d.15.1.1 (A:) Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.10  E-value=0.0024  Score=36.87  Aligned_cols=71  Identities=18%  Similarity=0.256  Sum_probs=53.8

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      |+|.|+...      | .+..++++...|+.+|.+.+..... +.  .+...+..+|+....     ++-+.+|+.|.++
T Consensus         1 MqI~Vk~l~------G-~~~~l~v~~~~tV~~lK~~I~~~~g-i~--~~~qrL~~~Gk~L~d~~tL~~y~i~~~s~I~L~   70 (76)
T d1ogwa_           1 MQIFVKTLT------G-KTITLEVEPSDTIENVKAKIQDKEG-IP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV   70 (76)
T ss_dssp             CEEEEEETT------S-CEEEEECCTTSBHHHHHHHHHHHHC-CC--GGGEEEEETTEECCTTSBGGGGTCCTTCEEEEE
T ss_pred             CEEEEEcCC------C-CEEEEEECCCCcHHHHHHhhhhhcC-CC--hHHEEeEECCeEcCCCCCHHHcCCCCCCEEEEE
Confidence            677777432      4 4789999888999999999987641 11  134567779988764     4678999999999


Q ss_pred             cCCCCC
Q 034054          100 PPISGG  105 (105)
Q Consensus       100 PPvsGG  105 (105)
                      ...-||
T Consensus        71 ~rlrgG   76 (76)
T d1ogwa_          71 LRLRGG   76 (76)
T ss_dssp             ECTTCC
T ss_pred             EecCCC
Confidence            888888

>d1oqya4 d.15.1.1 (A:1-77) Ubiquitin-like domain of Rad23 homolog A (Hhr23a) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of Rad23 homolog A (Hhr23a)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.99  E-value=0.0013  Score=38.23  Aligned_cols=70  Identities=11%  Similarity=0.059  Sum_probs=50.5

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEE
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELA   97 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVa   97 (105)
                      ++|+|+|+.+.      | ....++++...|+.+|.+.+....+...-..+..++..+|+....     ++-+++|+.|.
T Consensus         1 s~~~i~vk~l~------g-~~~~l~v~~~~TV~~lK~~i~~~~g~~~i~~~~qrLi~~Gk~L~D~~tL~~y~I~~~s~i~   73 (77)
T d1oqya4           1 SAVTITLKTLQ------Q-QTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVV   73 (77)
T ss_dssp             CCCCEEEEETT------T-EEEEECCCTTCBHHHHHHHHHHHTCSSSCCSTEEEEESSSSEECSSSBTTTTCCCTTSCEE
T ss_pred             CcEEEEEECCC------C-CEEEEEECCCCcHHHHHHHHHHhcCCCCCChHHEEeEECCcCccCCCcHHHcCCCCCCEEE
Confidence            35888888554      2 578889988899999999998875421101234567778988763     56788899888


Q ss_pred             EE
Q 034054           98 II   99 (105)
Q Consensus        98 ii   99 (105)
                      ++
T Consensus        74 ~~   75 (77)
T d1oqya4          74 VM   75 (77)
T ss_dssp             EE
T ss_pred             EE
Confidence            76

>d1nyra2 d.15.10.1 (A:4-62) Threonyl-tRNA synthetase (ThrRS), N-terminal 'additional' domain {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: TGS-like
family: TGS domain
domain: Threonyl-tRNA synthetase (ThrRS), N-terminal 'additional' domain
species: Staphylococcus aureus [TaxId: 1280]

Probab=96.77  E-value=0.00015  Score=40.87  Aligned_cols=51  Identities=16%  Similarity=0.273  Sum_probs=41.2

Q ss_pred             eEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCCCccCCCCEEEEE
Q 034054           44 MPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNASVIVNEKDELAII   99 (105)
Q Consensus        44 ~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d~~L~dGDeVaii   99 (105)
                      ...+++.++|..|+...+.   ++++  ...+...|||+.++++++|.+++.|.|+
T Consensus         9 ~~~~~~~g~T~~diA~~I~---~~l~--k~avaa~vNg~~~dL~~~l~~d~~veii   59 (59)
T d1nyra2           9 NKKAFDKGTTTEDIAQSIS---PGLR--KKAVAGKFNGQLVDLTKPLETDGSIEIV   59 (59)
T ss_dssp             CCCBCCTTCCHHHHHHTTC---HHHH--HHCCEEEETTEEECTTSCCCSCBCCCEE
T ss_pred             CEEEcCCCCCHHHHHHHHC---hhhh--heEEEEEECCEEccCCcCcCCCCEEEEC
Confidence            3567788999999987664   3343  2568899999999999999999999875

>d1wh3a_ d.15.1.1 (A:) 2'-5'-oligoadenylate synthetase-like protein, OASL {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 2'-5'-oligoadenylate synthetase-like protein, OASL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.63  E-value=0.0087  Score=35.33  Aligned_cols=75  Identities=15%  Similarity=0.096  Sum_probs=54.9

Q ss_pred             CCCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCE
Q 034054           21 KESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDE   95 (105)
Q Consensus        21 ~~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDe   95 (105)
                      ..+.|+|.|+...      | +...+++....||.+|.+.+..+.. +.  ....++..+|+....     |+-|.+|+.
T Consensus         4 ~s~~mqI~Vk~~~------g-~~~~l~v~~~~tV~~lK~~I~~~~g-ip--~~~qrLi~~Gk~L~d~~tL~~y~I~~~st   73 (87)
T d1wh3a_           4 GSSGIQVFVKNPD------G-GSYAYAINPNSFILGLKQQIEDQQG-LP--KKQQQLEFQGQVLQDWLGLGIYGIQDSDT   73 (87)
T ss_dssp             CSSSEEEEEEETT------T-EEEEEEECSSSBHHHHHHHHHHHTC-CC--TTTEEEEETTEECCSSSBHHHHTCCTTEE
T ss_pred             CCCcEEEEEECCC------C-CEEEEEECCcCcHHHHHHHHHHHHC-cC--hHHeEEEeeceEcCCCCcHHHcCCCCCCE
Confidence            4566999998753      4 4788999888999999999988752 11  123455669998864     467999999


Q ss_pred             EEEEcCCCCC
Q 034054           96 LAIIPPISGG  105 (105)
Q Consensus        96 VaiiPPvsGG  105 (105)
                      |.++....||
T Consensus        74 l~l~~r~~~g   83 (87)
T d1wh3a_          74 LILSKKKGSG   83 (87)
T ss_dssp             EEEEECSCCC
T ss_pred             EEEEecCCCC
Confidence            9998665554

>d1uela_ d.15.1.1 (A:) Ubiquitin-like domain of Rad23 homolog B (Hhr23B) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of Rad23 homolog B (Hhr23B)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.57  E-value=0.0071  Score=36.20  Aligned_cols=69  Identities=10%  Similarity=0.080  Sum_probs=50.1

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      |+|+|+.+      -| ++..+++....||.+|.+.|.++.+...-..+..++.-+|+....     ++-|.+|+.|.++
T Consensus         1 M~I~vk~~------~g-~~~~l~v~~~~TV~~lK~~i~~~~~~~~i~~~~qrLi~~Gk~L~d~~tL~~y~I~~~s~i~lv   73 (95)
T d1uela_           1 MQVTLKTL------QQ-QTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKNFVVVM   73 (95)
T ss_dssp             CEEEEEET------TC-CEEEEECCTTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECCTTSBGGGGTCCSSSEEEEE
T ss_pred             CEEEEEeC------CC-CEEEEEECCCccHHHHHHHHHhhhcccCCCccceEEEECCeEccCCCcHHHcCCCCCCEEEEE
Confidence            78888863      24 578999988899999999998764311000134678889998864     4678899999876


Q ss_pred             c
Q 034054          100 P  100 (105)
Q Consensus       100 P  100 (105)
                      .
T Consensus        74 ~   74 (95)
T d1uela_          74 V   74 (95)
T ss_dssp             E
T ss_pred             E
Confidence            3

>d1j8ca_ d.15.1.1 (A:) Ubiquitin-like N-terminal domain of PLIC-2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like N-terminal domain of PLIC-2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.38  E-value=0.024  Score=34.36  Aligned_cols=69  Identities=13%  Similarity=0.140  Sum_probs=50.2

Q ss_pred             CCCCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCC
Q 034054           20 NKESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKD   94 (105)
Q Consensus        20 ~~~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGD   94 (105)
                      ..+..|+|+|+..       + ....++++...||.+|.+.+...+.--   .+...+..+|+....     ++-|.+|+
T Consensus        28 ~~~~~i~V~Vk~~-------~-~~~~i~V~~~~tV~~LK~~I~~~~gi~---~~~qrLi~~Gk~L~D~~tL~~~~I~~g~   96 (103)
T d1j8ca_          28 AEPKIIKVTVKTP-------K-EKEEFAVPENSSVQQFKEAISKRFKSQ---TDQLVLIFAGKILKDQDTLIQHGIHDGL   96 (103)
T ss_dssp             CCCCCEEEEEECS-------S-CEEEEEECTTCCHHHHHHHHHHHHCSC---SSSEEEEETTEEESTTSCGGGTTCSSSE
T ss_pred             CCCCeEEEEEECC-------C-ccEEEEECCCChHHHHHHHHHHHHCcC---HHHeeeeeeeecccCCCcHHHcCCCCCC
Confidence            3445688888862       3 346889998999999999999876311   134567789988754     46788999


Q ss_pred             EEEEE
Q 034054           95 ELAII   99 (105)
Q Consensus        95 eVaii   99 (105)
                      .|.++
T Consensus        97 ~I~lv  101 (103)
T d1j8ca_          97 TVHLV  101 (103)
T ss_dssp             EEEEE
T ss_pred             EEEEE
Confidence            98775

>d1euvb_ d.15.1.1 (B:) SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomyces cerevisiae), smt3 [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: SUMO-1 (smt3 homologue)
species: Baker's yeast (Saccharomyces cerevisiae), smt3 [TaxId: 4932]

Probab=96.30  E-value=0.014  Score=33.75  Aligned_cols=61  Identities=10%  Similarity=0.141  Sum_probs=49.8

Q ss_pred             CceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEEcCCCCC
Q 034054           42 TDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAIIPPISGG  105 (105)
Q Consensus        42 ~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaiiPPvsGG  105 (105)
                      .+..+.+....+++.|++.++++.. +.  .+.+.+.-||+.+..     |.-|++||.|.++..-.||
T Consensus        14 ~~~~f~v~~~~~~~~l~~~~~~~~~-i~--~~~~~l~f~G~~l~~~~T~~~~~i~dgd~I~v~~~q~GG   79 (79)
T d1euvb_          14 SEIFFKIKKTTPLRRLMEAFAKRQG-KE--MDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGG   79 (79)
T ss_dssp             CEEEEEEETTSCTHHHHHHHHHHTT-CC--GGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEECCBCC
T ss_pred             eEEEEEECCCCcHHHHHHHHHHHhC-CC--hHhEEEEECCEEeCCCCCHHHCCCCCCCEEEEEEeccCC
Confidence            5678888888999999999998763 21  245788889999853     5679999999999999888

>d1wjua_ d.15.1.1 (A:) NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: NEDD8 ultimate buster-1, NUB1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.26  E-value=0.016  Score=35.26  Aligned_cols=69  Identities=16%  Similarity=0.185  Sum_probs=50.0

Q ss_pred             EEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEEc
Q 034054           26 QIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAIIP  100 (105)
Q Consensus        26 ~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaiiP  100 (105)
                      .++|.+  .-+...| +...++++...|+.+|...+.++.. +.  .....+..+|+....     ++-|++|+.|.++.
T Consensus        17 ti~V~~--~~~~~~g-~~~~lev~~~~TV~~LK~~I~~~~g-i~--~~~qkLi~~Gk~L~d~~tL~~~gI~~~s~i~vi~   90 (100)
T d1wjua_          17 TIEVFL--PPRLKKD-RKNLLETRLHITGRELRSKIAETFG-LQ--ENYIKIVINKKQLQLGKTLEEQGVAHNVKAMVLE   90 (100)
T ss_dssp             EEEEEC--CTTTCCS-SSEEEEEESSSBHHHHHHHHHHHTT-CC--STTCEEEETTEECCTTSBHHHHTCCSSEEEEEEC
T ss_pred             EEEEEE--eeccCCC-eEEEEEECCCcHHHHHHHHHHHHHC-CC--CeeEEEEEcccCcCCCcCHHHcCCCCCCEEEEEE
Confidence            444443  3333445 4789999989999999999998763 11  135688899999875     35789999998775

>d1yqba1 d.15.1.1 (A:15-98) Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquilin-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.16  E-value=0.019  Score=33.58  Aligned_cols=68  Identities=15%  Similarity=0.137  Sum_probs=50.9

Q ss_pred             CCCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCE
Q 034054           21 KESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDE   95 (105)
Q Consensus        21 ~~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDe   95 (105)
                      ++.+|+|+|+.-       | ....+++....|+.+|.+.+.++..- .  .+...+..+|+....     ++-|.+|+.
T Consensus         4 ~~~~i~I~Vkt~-------~-~~~~~~V~~~~tV~~lK~~i~~~~gi-~--~~~qrL~~~Gk~L~D~~tL~~y~i~~gst   72 (84)
T d1yqba1           4 SPHLIKVTVKTP-------K-DKEDFSVTDTCTIQQLKEEISQRFKA-H--PDQLVLIFAGKILKDPDSLAQCGVRDGLT   72 (84)
T ss_dssp             CTTEEEEEEECS-------S-CEEEEEEETTCBHHHHHHHHHHHHTC-C--GGGEEEEETTEECCTTSBHHHHTCCTTCE
T ss_pred             CCCEEEEEEEcC-------C-CcEEEEECCCCcHHHHHHHHHHHHCc-C--chhEEEEEeeeeccccCcHHHcCCCCCCE
Confidence            456799999884       3 24688888889999999999887621 1  134567789998864     457899999


Q ss_pred             EEEE
Q 034054           96 LAII   99 (105)
Q Consensus        96 Vaii   99 (105)
                      |.++
T Consensus        73 i~lv   76 (84)
T d1yqba1          73 VHLV   76 (84)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            9875

>d1bt0a_ d.15.1.1 (A:) Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Rub1
species: Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=96.14  E-value=0.022  Score=32.28  Aligned_cols=66  Identities=12%  Similarity=0.123  Sum_probs=48.6

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      |+|+|+..      .| .+..++++...||.+|.+.+.++.. +.  ....++.-+|+....     ++-+++|+.|.++
T Consensus         1 M~I~Vk~~------~G-~~~~l~V~~~~tV~~lK~~i~~~~g-i~--~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lv   70 (73)
T d1bt0a_           1 MLIKVKTL------TG-KEIEIDIEPTDTIDRIKERVEEKEG-IP--PVQQRLIYAGKQLADDKTAKDYNIEGGSVLHLV   70 (73)
T ss_dssp             CEEEEECT------TS-CEEEEECCTTCBHHHHHHHHHHHHC-CC--GGGEEEEETTEECCTTSBTGGGTCCTTCEEEEE
T ss_pred             CEEEEEeC------CC-CEEEEEECCCCcHHHHHHHHHHHhC-CC--hHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEE
Confidence            67777743      35 4789999888999999999988642 11  134567779998764     4678899999876


Q ss_pred             c
Q 034054          100 P  100 (105)
Q Consensus       100 P  100 (105)
                      -
T Consensus        71 l   71 (73)
T d1bt0a_          71 L   71 (73)
T ss_dssp             E
T ss_pred             e
Confidence            4

>d2bwfa1 d.15.1.1 (A:2-74) DSK2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: DSK2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.98  E-value=0.042  Score=31.09  Aligned_cols=66  Identities=11%  Similarity=0.053  Sum_probs=47.7

Q ss_pred             ceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEE
Q 034054           24 SIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAI   98 (105)
Q Consensus        24 ~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVai   98 (105)
                      +|+|+|+.-        ....+++++...|+.+|.+.+..... ..  .....+.-+|+....     ++-+.+|+.|.+
T Consensus         1 si~I~Vk~~--------~~~~~i~v~~~~tV~~lK~~I~~~~g-ip--~~~qrLi~~Gk~L~D~~tL~~~~I~~g~~i~l   69 (73)
T d2bwfa1           1 SLNIHIKSG--------QDKWEVNVAPESTVLQFKEAINKANG-IP--VANQRLIYSGKILKDDQTVESYHIQDGHSVHL   69 (73)
T ss_dssp             EEEEEEEET--------TEEEEEEECTTCBHHHHHHHHHHHHC-CC--GGGEEEEETTEECCTTSBTGGGTCCTTCEEEE
T ss_pred             CEEEEEEeC--------CeEEEEEECCCChHHHHHHHHHHHHC-cC--hHHeEEEECCeEccCCCcHHHCCCCCCCEEEE
Confidence            578888862        23577889888999999999988752 11  123466678988764     467889999877


Q ss_pred             Ec
Q 034054           99 IP  100 (105)
Q Consensus        99 iP  100 (105)
                      +.
T Consensus        70 V~   71 (73)
T d2bwfa1          70 VK   71 (73)
T ss_dssp             EE
T ss_pred             Ee
Confidence            63

>d1uh6a_ d.15.1.1 (A:) Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 5, ubl5
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.89  E-value=0.023  Score=34.62  Aligned_cols=67  Identities=12%  Similarity=0.038  Sum_probs=49.2

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEE
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELA   97 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVa   97 (105)
                      ..++|.|+-.      .|+ ...+++....||.+|.+.+..+..--   .+..++..+|+....     |+-|.+|+.|.
T Consensus        27 ~~i~V~V~~~------~Gk-~~~v~V~p~~TV~~LK~~I~~~~gip---~~~qrLi~~Gk~L~D~~tL~dygI~~GstI~   96 (100)
T d1uh6a_          27 TMIEVVCNDR------LGK-KVRVKCNTDDTIGDLKKLIAAQTGTR---WNKIVLKKWYTIFKDHVSLGDYEIHDGMNLE   96 (100)
T ss_dssp             CEEEEEEECS------SSS-CEEEEEETTSBHHHHHHHHHHHHCCC---GGGCEEEETTEECCSSCBHHHHTCCTTEEEE
T ss_pred             ceEEEEEECC------CCC-EEEEEECCcChHHHHHHHHHHHHCCC---cceEEEEEEeecccCcCCHHHcCCCCCCEEE
Confidence            3356666544      574 68999988899999999998875211   134567779988764     46799999998


Q ss_pred             EE
Q 034054           98 II   99 (105)
Q Consensus        98 ii   99 (105)
                      ++
T Consensus        97 L~   98 (100)
T d1uh6a_          97 LY   98 (100)
T ss_dssp             EE
T ss_pred             EE
Confidence            86

>d1wiaa_ d.15.1.1 (A:) Ubiquitin-like protein bab25500 (2010008E23Rik) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein bab25500 (2010008E23Rik)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.83  E-value=0.037  Score=33.34  Aligned_cols=67  Identities=13%  Similarity=0.085  Sum_probs=50.1

Q ss_pred             CCCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC------CCccCCCC
Q 034054           21 KESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA------SVIVNEKD   94 (105)
Q Consensus        21 ~~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~------d~~L~dGD   94 (105)
                      ..+.|+|+|++.-      | .+..+++....||.+|...+...-|      ....+..+|+....      ++-|.+|+
T Consensus         4 ~~s~m~i~vK~l~------~-~~~~v~v~~~~TV~~lK~~i~~~~~------~~qrLi~~Gk~L~dd~~tL~~y~i~~g~   70 (95)
T d1wiaa_           4 GSSGINVRLKFLN------D-TEELAVARPEDTVGTLKSKYFPGQE------SQMKLIYQGRLLQDPARTLSSLNITNNC   70 (95)
T ss_dssp             CCCSEEEEEEETT------T-EEEEEEECSSSBHHHHHHHHSSSTT------TTCEEEETTEECCCSSCBTTTTTCCTTE
T ss_pred             CCCcEEEEEEcCC------C-CEEEEEECCcCcHHHHHHHHhcCCc------ceeEEEECCEEcccCCCCHHHcCCCCCC
Confidence            4556999998865      3 5788999888999999988754322      23567789988742      46788999


Q ss_pred             EEEEEc
Q 034054           95 ELAIIP  100 (105)
Q Consensus        95 eVaiiP  100 (105)
                      .|.++.
T Consensus        71 ~v~l~~   76 (95)
T d1wiaa_          71 VIHCHR   76 (95)
T ss_dssp             EEEEEC
T ss_pred             EEEEEE
Confidence            998874

>d1z2ma2 d.15.1.1 (A:79-154) Interferon-induced 15 kDa protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Interferon-induced 15 kDa protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.76  E-value=0.053  Score=30.76  Aligned_cols=68  Identities=10%  Similarity=0.010  Sum_probs=50.2

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEE
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELA   97 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVa   97 (105)
                      ..|+|.|+..      .| +...+++....|+.+|.+.+.++.. +.  .+..++..+|+....     ++-+++|+.|.
T Consensus         2 ~~~qi~Vk~~------~G-~~~~l~v~~~~tV~~lK~~I~~~~g-i~--~~~qrL~~~gk~L~d~~tL~~y~I~~~sti~   71 (76)
T d1z2ma2           2 EPLSILVRNN------KG-RSSTYEVRLTQTVAHLKQQVSGLEG-VQ--DDLFWLTFEGKPLEDQLPLGEYGLKPLSTVF   71 (76)
T ss_dssp             CCEEEEEECT------TS-CEEEEEECTTSBHHHHHHHHHHHHT-CC--GGGEEEEETTEECCTTSBGGGGTCCTTCEEE
T ss_pred             CCEEEEEEcC------CC-CEEEEEECCCCcHHHHHHHHHHHhc-CC--hhHeEEEECCeECCCCCcHHHcCCCCCCEEE
Confidence            4588888753      34 4789999988999999999988642 11  134577789988764     56788999998


Q ss_pred             EEc
Q 034054           98 IIP  100 (105)
Q Consensus        98 iiP  100 (105)
                      ++-
T Consensus        72 l~l   74 (76)
T d1z2ma2          72 MNL   74 (76)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            763

>d1wgga_ d.15.1.1 (A:) Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin carboxyl-terminal hydrolase 14
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.71  E-value=0.023  Score=34.17  Aligned_cols=68  Identities=7%  Similarity=-0.005  Sum_probs=48.4

Q ss_pred             CCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC----CCccCCCCEEE
Q 034054           22 ESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA----SVIVNEKDELA   97 (105)
Q Consensus        22 ~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~----d~~L~dGDeVa   97 (105)
                      .++|+|+|++.+.       ....++++...||.+|.+.|.+...=..   +.-.+..+|+....    ++-|++|+.|.
T Consensus         5 s~~~~I~VK~~~~-------~~~~v~v~~~~tV~~lK~~i~~~~gvp~---~~QkLi~~Gk~L~d~tL~~~gi~~g~~i~   74 (96)
T d1wgga_           5 SSGYSVTVKWGKE-------KFEGVELNTDEPPMVFKAQLFALTGVQP---ARQKVMVKGGTLKDDDWGNIKMKNGMTVL   74 (96)
T ss_dssp             CCEEEEEEEETTE-------EEEEEEEESSSCHHHHHHHHHHHTCCCT---TTSCCEETTEECCSSCCCSCCCCSSCEEE
T ss_pred             CCceEEEEEeCCC-------CEEEEEECCCCcHHHHHHHhhhhcCccc---eeeEEeecCcccCCCcHHHCCCCCCCEEE
Confidence            4568999988543       3457888888999999999988762111   12234568887753    45699999999


Q ss_pred             EE
Q 034054           98 II   99 (105)
Q Consensus        98 ii   99 (105)
                      ++
T Consensus        75 lv   76 (96)
T d1wgga_          75 MM   76 (96)
T ss_dssp             CC
T ss_pred             EE
Confidence            87

>d2zeqa1 d.15.1.1 (A:1-78) Ubiquitin-like domain of parkin {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of parkin
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.57  E-value=0.068  Score=30.67  Aligned_cols=69  Identities=10%  Similarity=0.123  Sum_probs=51.0

Q ss_pred             ceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEE
Q 034054           24 SIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAI   98 (105)
Q Consensus        24 ~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVai   98 (105)
                      .|.|.|++..      | .+..++++...|+.+|.+.+.++.. +.  .+...+.-+|+....     ++-|.+|+.|.+
T Consensus         2 ~M~I~Vk~~~------g-~t~~l~v~~~~tV~~lK~~i~~~~g-ip--~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~l   71 (78)
T d2zeqa1           2 GMIVFVRFNS------S-YGFPVEVDSDTSILQLKEVVAKRQG-VP--ADQLRVIFAGKELPNHLTVQNCDLEQQSIVHI   71 (78)
T ss_dssp             CEEEEEESSS------S-SCEEEEECTTCBHHHHHHHHHHHHT-CC--GGGEEEEETTEEECTTCBGGGSSCCTTCEEEE
T ss_pred             ceEEEEEcCC------C-CEEEEEEcccccHHHHHHHHHHHHC-cC--hhHeEEEEeeeEcCCCCCHHHcCCCCCCEEEE
Confidence            5888888754      3 5789999989999999999987641 11  123567788988764     467888999988


Q ss_pred             EcCC
Q 034054           99 IPPI  102 (105)
Q Consensus        99 iPPv  102 (105)
                      +...
T Consensus        72 v~R~   75 (78)
T d2zeqa1          72 VQRP   75 (78)
T ss_dssp             EESS
T ss_pred             Eecc
Confidence            6543

>d1ttna1 d.15.1.1 (A:21-100) Dendritic cell-derived ubiquitin-like protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Dendritic cell-derived ubiquitin-like protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.56  E-value=0.058  Score=31.02  Aligned_cols=68  Identities=16%  Similarity=0.154  Sum_probs=51.8

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEE
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELA   97 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVa   97 (105)
                      ..|+|+|++..      | +...+++....||.+|...+.++.. ..  ....++..+|+....     ++-+++|+.|-
T Consensus         2 ~e~qi~Vk~~~------G-~~~~l~V~~~~tV~~lK~~I~~~~~-ip--~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~   71 (80)
T d1ttna1           2 YECQLRLRLST------G-KDLKLVVRSTDTVFHMKRRLHAAEG-VE--PGSQRWFFSGRPLTDKMKFEELKIPKDYVVQ   71 (80)
T ss_dssp             CSEEEEEEETT------T-EEEEEEECTTSHHHHHHHHHHHTTC-CC--STTCEEEETTEECCTTSHHHHCCCSSSCEEE
T ss_pred             CeEEEEEEcCC------C-CEEEEEECCcCcHHHHHHHHHHHhC-CC--cccEEEEECceEcCCCCcHHHcCCCCCCEEE
Confidence            45888888754      4 4788999888999999999988752 11  134578889999865     46789999998


Q ss_pred             EEc
Q 034054           98 IIP  100 (105)
Q Consensus        98 iiP  100 (105)
                      ++-
T Consensus        72 lvi   74 (80)
T d1ttna1          72 VIV   74 (80)
T ss_dssp             EEC
T ss_pred             EEe
Confidence            764

>d1v86a_ d.15.1.1 (A:) hypothetical D7wsu128e protein {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: hypothetical D7wsu128e protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.44  E-value=0.023  Score=34.11  Aligned_cols=69  Identities=12%  Similarity=0.177  Sum_probs=47.4

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhC--CCchhhcceeEEEECCeecCC----CCccCCCCEE
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARF--PNLEEIRGCMVLALNEEYTNA----SVIVNEKDEL   96 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~--p~l~~~~~~~~vaVNg~~v~~----d~~L~dGDeV   96 (105)
                      ..|.|+|+|        +.+...++++...||.+|.+.|....  |.-     ...+..++..-+.    ++.|++|+.|
T Consensus        16 ~~i~v~V~~--------~~k~~~i~v~~~~TV~~LK~~I~~~tgvp~~-----~q~Li~~g~l~D~~tL~~~~I~~gs~i   82 (95)
T d1v86a_          16 ELVDLKIIW--------NKTKHDVKVPLDSTGSELKQKIHSITGLPPA-----MQKVMYKGLVPEDKTLREIKVTSGAKI   82 (95)
T ss_dssp             CCEEEEEEE--------TTEEEEEEECTTSBHHHHHHHHHHHHCSCST-----TCCCBSSSBCCSSSBHHHHCCCTTEEE
T ss_pred             cEEEEEEEE--------CCEEEEEEECCCCcHHHHHHHHHHHhCCChh-----HEEEEecccccCCCcHHHCCCCCCCEE
Confidence            458899986        33578899999999999999998865  321     1122346653221    4679999999


Q ss_pred             EEEcCCCC
Q 034054           97 AIIPPISG  104 (105)
Q Consensus        97 aiiPPvsG  104 (105)
                      .++-.-.+
T Consensus        83 ~lvgs~~~   90 (95)
T d1v86a_          83 MVVGSTIS   90 (95)
T ss_dssp             EECCSSCC
T ss_pred             EEEecCCC
Confidence            99854433

>d2faza1 d.15.1.1 (A:1-76) Ubiquitin-like PHD and RING finger domain-containing protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like PHD and RING finger domain-containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.30  E-value=0.09  Score=30.04  Aligned_cols=68  Identities=16%  Similarity=0.190  Sum_probs=48.6

Q ss_pred             eEEEEEecHHhHhhcCCCceEEE-eCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLE-VSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAI   98 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~ve-v~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVai   98 (105)
                      |+|.|+-      ..|+....++ ++...||.+|...+.++.. +.  .+..++.-+|+....     |+-+++|+.|.+
T Consensus         1 M~I~Vkt------l~Gk~t~~l~~v~~~~tV~~lK~~I~~~~g-ip--~~~qrLi~~Gk~L~D~~tL~~y~I~~~sti~l   71 (76)
T d2faza1           1 MWIQVRT------MDGRQTHTVDSLSRLTKVEELRRKIQELFH-VE--PGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQL   71 (76)
T ss_dssp             EEEEEEE------TTSSCEEEEEEECTTCBHHHHHHHHHHHHC-CC--GGGEEEEETTEECCTTCBTTTTTCCTTCEEEE
T ss_pred             CEEEEEe------CCCCcEEEEecCCCCCCHHHHHHHHHHHHC-cC--hHHeEEEEeeEeccCCCcHHHcCCCCCCEEEE
Confidence            6677653      4466567775 7777899999999988752 21  134567779998864     577899999988


Q ss_pred             EcC
Q 034054           99 IPP  101 (105)
Q Consensus        99 iPP  101 (105)
                      +..
T Consensus        72 v~r   74 (76)
T d2faza1          72 LVR   74 (76)
T ss_dssp             EEC
T ss_pred             EEE
Confidence            754

>d1wy8a1 d.15.1.1 (A:8-83) Ubiquitin-like PHD and RING finger domain-containing protein 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like PHD and RING finger domain-containing protein 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.11  E-value=0.12  Score=29.50  Aligned_cols=66  Identities=18%  Similarity=0.239  Sum_probs=47.9

Q ss_pred             eEEEEEecHHhHhhcCCCceEE-EeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPL-EVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAI   98 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~v-ev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVai   98 (105)
                      |+|+|+...      |++...+ ++....||.+|...+.++.. +.  .+..++..+|+....     ++-+.+|+.|.+
T Consensus         1 M~I~Vk~l~------G~~t~~~~~v~~~~TV~~lK~~I~~~~g-ip--~~~qrLi~~Gk~L~d~~tL~~y~I~~~s~i~l   71 (76)
T d1wy8a1           1 MWIQVRTID------GSKTCTIEDVSRKATIEELRERVWALFD-VR--PECQRLFYRGKQLENGYTLFDYDVGLNDIIQL   71 (76)
T ss_dssp             EEEEEEETT------CSCEEEEEEECTTCBHHHHHHHHHHHSC-CC--TTTEEEEETTEECCSSSBHHHHTCCTTCEEEE
T ss_pred             CEEEEEeCC------CCceEEEeccCCCChHHHHHHHHHHHHC-CC--chhcEEEEEeeEecCCCCHHHcCCCCCCEEEE
Confidence            677777653      5556666 48888999999999998762 21  134567779998865     457899999987


Q ss_pred             E
Q 034054           99 I   99 (105)
Q Consensus        99 i   99 (105)
                      +
T Consensus        72 v   72 (76)
T d1wy8a1          72 L   72 (76)
T ss_dssp             E
T ss_pred             E
Confidence            5

>d1wgha_ d.15.1.1 (A:) Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 3, Ubl3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.10  E-value=0.13  Score=32.00  Aligned_cols=71  Identities=11%  Similarity=0.229  Sum_probs=52.6

Q ss_pred             CCCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCC-chh----hcceeEEEECCeecCC-----CCcc
Q 034054           21 KESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPN-LEE----IRGCMVLALNEEYTNA-----SVIV   90 (105)
Q Consensus        21 ~~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~-l~~----~~~~~~vaVNg~~v~~-----d~~L   90 (105)
                      .+..|.|+|++.      .| ....+.++...||.+|.+++...+|. +++    --...++.-+|+....     ++.|
T Consensus        13 ~~~~i~i~v~~l------~G-k~~~~~v~p~~TV~~lK~~I~~~~p~~~~e~~~~~~~~qRLiy~Gk~L~D~~tL~~~~i   85 (116)
T d1wgha_          13 PADMINLRLILV------SG-KTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKL   85 (116)
T ss_dssp             CSSSEEEEEECS------SS-CEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTC
T ss_pred             CCCeEEEEEEEc------CC-CEEEEEECCcchHHHHHHHHHhhcccccccccCCChHHeEEEECCEEecCCCCHHHcCC
Confidence            556689999884      36 47899999999999999999877763 221    1246788889998865     4567


Q ss_pred             CCCCEEEE
Q 034054           91 NEKDELAI   98 (105)
Q Consensus        91 ~dGDeVai   98 (105)
                      .+|+.+.+
T Consensus        86 ~~g~~~~l   93 (116)
T d1wgha_          86 PFGKTTVM   93 (116)
T ss_dssp             CSSCEEEE
T ss_pred             CCCCEEEE
Confidence            77987444

>d1v5oa_ d.15.1.1 (A:) 1700011n24rik protein {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 1700011n24rik protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.90  E-value=0.079  Score=32.10  Aligned_cols=74  Identities=16%  Similarity=0.089  Sum_probs=51.7

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC------CCccCCCCEE
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA------SVIVNEKDEL   96 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~------d~~L~dGDeV   96 (105)
                      +.|.|+|.+  ..++.-| ....++++...||.+|...+..+.. +.  .+.-++..||+....      ++-|++||.|
T Consensus         6 ~~m~itV~~--~~~~~~~-~t~~l~V~~~~tV~~LK~~Ie~~~g-ip--~~~Q~Li~~Gk~L~dd~~tL~~~gI~~g~~i   79 (102)
T d1v5oa_           6 SGMLITVYC--VRRDLTE-VTFSLQVNPDFELSNFRVLCELESG-VP--AEEAQIVYMEQLLTDDHCSLGSYGLKDGDMV   79 (102)
T ss_dssp             CCEEEEEEE--CCCCCCC-CEEEEEECTTCBHHHHHHHHHHHTC-CC--GGGBCEEETTEEECCSSSBHHHHTCCTTEEE
T ss_pred             CCEEEEEEe--cccCCCC-CEEEEEECCcccHHHHHHHHHHHhC-CC--cceEEEEeCCeEeecccCCHHHcCCCCCCEE
Confidence            457777644  3445555 4788999999999999999987752 11  123456779988843      3468999999


Q ss_pred             EEEcCC
Q 034054           97 AIIPPI  102 (105)
Q Consensus        97 aiiPPv  102 (105)
                      .++.--
T Consensus        80 ~l~~r~   85 (102)
T d1v5oa_          80 VLLQKD   85 (102)
T ss_dssp             EECBCC
T ss_pred             EEEECC
Confidence            887543

>d1m94a_ d.15.1.1 (A:) Ubiquitin-like modifier protein hub1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like modifier protein hub1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.67  E-value=0.05  Score=30.84  Aligned_cols=65  Identities=14%  Similarity=0.116  Sum_probs=47.7

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      |+|.|+-.      .|+ +..+++....|+.+|.+.+..+..--   .+...+..+|+....     ++-+++|+.|.++
T Consensus         2 i~i~vk~~------~Gk-~~~v~V~~~~tV~~lK~~I~~~~~i~---~~~q~Li~~Gk~L~d~~tL~~y~I~~gstl~L~   71 (73)
T d1m94a_           2 IEVVVNDR------LGK-KVRVKCLAEDSVGDFKKVLSLQIGTQ---PNKIVLQKGGSVLKDHISLEDYEVHDQTNLELY   71 (73)
T ss_dssp             EEEEEEET------TTE-EEEEEECTTSBHHHHHHHHHHHHCCT---TTSEEEESSSCEECTTSBHHHHTCCTTEEEEEE
T ss_pred             eEEEEECC------CCC-EEEEEECCcCcHHHHHHHHHHhhccc---ccEEEEEEEeEEecccCcHHHcCCCCCCEEEEE
Confidence            56666654      464 78899998899999999998875211   134577778888764     4678999999875

>d1wx8a1 d.15.1.1 (A:8-90) 4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 4931431F19Rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.64  E-value=0.036  Score=32.24  Aligned_cols=67  Identities=7%  Similarity=0.026  Sum_probs=46.8

Q ss_pred             CCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC-----CccCCCCEE
Q 034054           22 ESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS-----VIVNEKDEL   96 (105)
Q Consensus        22 ~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d-----~~L~dGDeV   96 (105)
                      ...|+|+|+..+        ...+++++...||.+|.+.+.+...--.   +...+..+|+....+     +-|.+|+.|
T Consensus         8 ~~~i~v~Vk~~~--------~~~~i~v~~~~tV~~lK~~I~~~~~v~~---~~qrL~f~Gk~L~d~~tL~~~gI~~gs~I   76 (83)
T d1wx8a1           8 SRIIRVSVKTPQ--------DCHEFFLAENSNVRRFKKQISKYLHCNA---DRLVLIFTGKILRDQDILSQRGILDGSTV   76 (83)
T ss_dssp             SCEEEEEEECSS--------SEEEEEEETTCCHHHHHHHHHHHTCSCT---TTBCCEETTEECCTTSCHHHHTCCTTEEE
T ss_pred             CCeEEEEEEcCC--------CcEEEEECCCChHHHHHHHHHHHhCCCh---hHEEEEEEhhccccCCcHHHcCCCCCCEE
Confidence            445999999543        2457888888999999999998762111   223455688887643     457889888


Q ss_pred             EEE
Q 034054           97 AII   99 (105)
Q Consensus        97 aii   99 (105)
                      .++
T Consensus        77 ~lv   79 (83)
T d1wx8a1          77 HVV   79 (83)
T ss_dssp             ECC
T ss_pred             EEE
Confidence            754

>d2uyzb1 d.15.1.1 (B:20-96) SUMO-1 (smt3 homologue) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: SUMO-1 (smt3 homologue)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.50  E-value=0.094  Score=29.88  Aligned_cols=60  Identities=8%  Similarity=0.166  Sum_probs=46.2

Q ss_pred             CceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEEcCCCC
Q 034054           42 TDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAIIPPISG  104 (105)
Q Consensus        42 ~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaiiPPvsG  104 (105)
                      ++..+.+...++++.|++..+++.. +.  ...+.+.-||+.+..     +.-+++||.|.++..-.|
T Consensus        13 ~~v~f~v~~~t~l~kl~~~y~~~~~-~~--~~~~~f~fdG~~l~~~~T~~~l~~edgD~Idv~~~q~G   77 (77)
T d2uyzb1          13 SEIHFKVKMTTHLKKLKESYCQRQG-VP--MNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTG   77 (77)
T ss_dssp             CEEEEEEETTSCTHHHHHHHHHHHT-CC--GGGEEEEETTEECCTTCCHHHHTCCTTEEEEEEECCCC
T ss_pred             CEEEEEECCCChHHHHHHHHHHHhC-CC--hhHEEEEECCEECCCCCCHHHcCCCCCCEEEEEEecCC
Confidence            4667888888999999999887653 22  256788899999864     346999999999875544

>d1se9a_ d.15.1.1 (A:) Hypothetical protein At3g01050 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Hypothetical protein At3g01050
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=94.43  E-value=0.26  Score=29.91  Aligned_cols=67  Identities=12%  Similarity=0.075  Sum_probs=48.7

Q ss_pred             CCceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCch-hh---cceeEEEECCeecCC-----CCccCC
Q 034054           22 ESSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLE-EI---RGCMVLALNEEYTNA-----SVIVNE   92 (105)
Q Consensus        22 ~~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~-~~---~~~~~vaVNg~~v~~-----d~~L~d   92 (105)
                      ...|.|+|+++.      |+.-..+.++...||.+|.+.+...+|.-. .+   -+..++.-.|+....     |+.+..
T Consensus         5 ~~~i~I~~r~~~------G~~i~~~~v~~s~TV~~lK~~I~~~~~~~k~~iP~~~~~qRLIf~Gk~L~D~~tL~dy~i~~   78 (101)
T d1se9a_           5 HNQLEIKFRLTD------GSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPV   78 (101)
T ss_dssp             CCCEEEEEEETT------SCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCT
T ss_pred             cceEEEEEEeCC------CCeecceecCccCHHHHHHHHHHHhccccccCCCCCcccEEEEECCeEecCCCCHHHcCCCC
Confidence            455889988875      333236889988999999999999887431 11   235678889999865     456778


Q ss_pred             CC
Q 034054           93 KD   94 (105)
Q Consensus        93 GD   94 (105)
                      |+
T Consensus        79 g~   80 (101)
T d1se9a_          79 SN   80 (101)
T ss_dssp             TS
T ss_pred             CC
Confidence            87

>d1wgda_ d.15.1.1 (A:) Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein, HERPUD1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein, HERPUD1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.43  E-value=0.11  Score=30.87  Aligned_cols=60  Identities=13%  Similarity=0.040  Sum_probs=42.8

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCC-chhhcceeEEEECCeecCCCCc
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPN-LEEIRGCMVLALNEEYTNASVI   89 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~-l~~~~~~~~vaVNg~~v~~d~~   89 (105)
                      +.|+++|+....     ......++++...||.+|.+.+.+.++. ..  .+..++..+|+....+..
T Consensus         6 ~~i~l~Ik~~~~-----~~~~~~~~v~~~~TV~~LK~~I~~~~~~~~~--~~~qrLIy~Gk~L~D~~~   66 (93)
T d1wgda_           6 SGVTLLVKSPNQ-----RHRDLELSGDRGWSVGHLKAHLSRVYPERPR--PEDQRLIYSGKLLLDHQC   66 (93)
T ss_dssp             CCCEEEEECSSS-----SCCCEEEECCTTSCHHHHHHHHHHHSTTCCC--TTTCEEEETTEECCSSSC
T ss_pred             CcEEEEEECCCC-----CceeEEEEcCCCCcHHHHHHHHHHHcCCCCC--hHHEEEEECCeEccCCCC
Confidence            348888887522     1235788888889999999999998753 21  134578889999876543

>d1v2ya_ d.15.1.1 (A:) Ubiquitin-like protein 3300001g02rik {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 3300001g02rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.60  E-value=0.21  Score=30.19  Aligned_cols=71  Identities=18%  Similarity=0.205  Sum_probs=48.2

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhC--CC----------chhhcceeEEEECCeecCC----
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARF--PN----------LEEIRGCMVLALNEEYTNA----   86 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~--p~----------l~~~~~~~~vaVNg~~v~~----   86 (105)
                      +.|+|+|+-.      -| ....++++...||.+|...+..+.  |.          +.-....+.+..+|+....    
T Consensus         6 s~M~v~Vk~~------~G-~~~~v~V~~~~TV~~LK~~I~~~~~ip~~~Qr~~~~~~~~~~~~~~~Li~~G~~L~d~~~t   78 (105)
T d1v2ya_           6 SGMTVRVCKM------DG-EVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKK   78 (105)
T ss_dssp             CSEEEEEECS------SS-CEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSB
T ss_pred             CcEEEEEEeC------CC-CEEEEEECCCChHHHHHHHHHHHHCcCHHHhcccccccccccccceEEEECCEECcccCCC
Confidence            4588998754      24 578999998999999999987754  11          1001123456667776632    


Q ss_pred             --CCccCCCCEEEEEc
Q 034054           87 --SVIVNEKDELAIIP  100 (105)
Q Consensus        87 --d~~L~dGDeVaiiP  100 (105)
                        ++-|.+||.|.++.
T Consensus        79 L~~~gI~~g~~l~lv~   94 (105)
T d1v2ya_          79 LRDYGIRNRDEVSFIK   94 (105)
T ss_dssp             HHHHTCCSSEEEEEEE
T ss_pred             HHHcCCCCCCEEEEEE
Confidence              35688999998864

>d1wxva1 d.15.1.1 (A:7-87) Bag-family molecular chaperone regulator-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Bag-family molecular chaperone regulator-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.51  E-value=0.39  Score=27.44  Aligned_cols=64  Identities=11%  Similarity=0.094  Sum_probs=43.7

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeC-----CCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecC-CC-----CccCCC
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVS-----CGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTN-AS-----VIVNEK   93 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~-----~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~-~d-----~~L~dG   93 (105)
                      |+|+|.+.+        ....++++     ...|+++|.+.+.....--   .+.-.+..+|+... .+     .-+++|
T Consensus         2 i~i~V~~~~--------~~~~i~v~~~~~~~~~Tv~~LK~~I~~~tgvp---~~~QkL~~~G~~L~~d~~tL~~~gi~~g   70 (81)
T d1wxva1           2 LTVTVTHSN--------EKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVP---QSFQKLIFKGKSLKEMETPLSALGIQDG   70 (81)
T ss_dssp             EEEEEECSS--------SEEEEEECCCSSSSSCBHHHHHHHHHHHTCCC---TTTCEEEETTEEECCSSSBHHHHTCCSS
T ss_pred             EEEEEEECC--------eeEEEEEecCCCCCccHHHHHHHHHHHHHCcC---HHHEEeeecCeEeCcCCCChHHCCCCCC
Confidence            667776643        35566664     4679999999998876211   12346778998874 33     347999


Q ss_pred             CEEEEE
Q 034054           94 DELAII   99 (105)
Q Consensus        94 DeVaii   99 (105)
                      +.|.++
T Consensus        71 ~~i~lv   76 (81)
T d1wxva1          71 CRVMLI   76 (81)
T ss_dssp             EEEEEE
T ss_pred             CEEEEE
Confidence            999886

>d1wm3a_ d.15.1.1 (A:) SUMO-2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: SUMO-2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.78  E-value=0.55  Score=26.17  Aligned_cols=55  Identities=7%  Similarity=0.184  Sum_probs=42.3

Q ss_pred             CceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEE
Q 034054           42 TDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        42 ~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaii   99 (105)
                      ++..+.+...+++..|++..+.+. ++.  ...+.+.-||+.+..     +.-+++||.|.++
T Consensus        12 ~~v~f~vk~~t~l~kl~~~y~~~~-~~~--~~~~~f~fdG~~i~~~~Tp~~l~med~D~Idv~   71 (72)
T d1wm3a_          12 SVVQFKIKRHTPLSKLMKAYCERQ-GLS--MRQIRFRFDGQPINETDTPAQLEMEDEDTIDVF   71 (72)
T ss_dssp             CEEEEEECTTSCTHHHHHHHHHHH-TCC--TTTCEEEETTEECCTTCCTTTTTCCTTEEEEEE
T ss_pred             CEEEEEEcCCChHHHHHHHHHHHh-CCC--ccceEEEECCEEcCCCCCHHHcCCCCCCEEEEE
Confidence            467788888889999999887764 222  245788899999853     4569999999987

>d2g1la1 b.26.1.2 (A:498-599) Kinesin-like protein kif1c {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: SMAD/FHA domain
superfamily: SMAD/FHA domain
family: FHA domain
domain: Kinesin-like protein kif1c
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.62  E-value=0.069  Score=31.97  Aligned_cols=25  Identities=4%  Similarity=0.181  Sum_probs=21.7

Q ss_pred             eeEEEECCeecCCCCccCCCCEEEE
Q 034054           74 CMVLALNEEYTNASVIVNEKDELAI   98 (105)
Q Consensus        74 ~~~vaVNg~~v~~d~~L~dGDeVai   98 (105)
                      ...++|||+.+...+.|++||+|.|
T Consensus        68 ~~gt~VNg~~i~~~~~L~~gD~I~~   92 (102)
T d2g1la1          68 GAETYVNGKLVTEPLVLKSGNRIVM   92 (102)
T ss_dssp             TCCEEETTEECCSCEECCTTCEEEE
T ss_pred             CCCeEECCeEccceeEcCCCCEEEE
Confidence            3458999999988899999999987

>d1wjna_ d.15.1.1 (A:) Tubulin-folding protein TbcE {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Tubulin-folding protein TbcE
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.48  E-value=0.54  Score=27.73  Aligned_cols=71  Identities=10%  Similarity=-0.021  Sum_probs=43.1

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCee------cC------CCCcc
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEY------TN------ASVIV   90 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~------v~------~d~~L   90 (105)
                      +.++|+|++-    .....+..++.++...||.+|...|...+.=-.+  ..-+++.+.+.      ..      .++-+
T Consensus         8 ~~iti~i~~~----~~~~~~~~~~kv~~~~TV~~LK~~i~~~~gip~~--~qrL~y~~~~~~~~~~~l~~d~~tL~~YgI   81 (97)
T d1wjna_           8 QLLTLKIKCS----NQPERQILEKQLPDSMTVQKVKGLLSRLLKVPVS--ELLLSYESSKMPGREIELENDLQPLQFYSV   81 (97)
T ss_dssp             CEEEEEEEES----SCSSSCCEEEEEETTSBHHHHHHHHHTTTTCCTT--TCEEEEECTTSCSCEEECCCSSSBSGGGTC
T ss_pred             CeEEEEEEeC----CCCCCceEEEEcCCCCCHHHHHHHHHHHHCcChH--HeEEEecCCCCCcccceecCCCcCHhhccC
Confidence            3455666542    2334456788999999999999999877621111  11233333311      22      14789


Q ss_pred             CCCCEEEEE
Q 034054           91 NEKDELAII   99 (105)
Q Consensus        91 ~dGDeVaii   99 (105)
                      ++||+|.+.
T Consensus        82 ~dg~~I~V~   90 (97)
T d1wjna_          82 ENGDCLLVR   90 (97)
T ss_dssp             CTTCEEEEE
T ss_pred             CCCCEEEEE
Confidence            999999874

>d1z2ma1 d.15.1.1 (A:3-78) Interferon-induced 15 kDa protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Interferon-induced 15 kDa protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.09  E-value=0.68  Score=25.92  Aligned_cols=56  Identities=4%  Similarity=0.046  Sum_probs=39.4

Q ss_pred             CceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEE-CCeecCC-----CCccCCCCEEEEE
Q 034054           42 TDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLAL-NEEYTNA-----SVIVNEKDELAII   99 (105)
Q Consensus        42 ~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaV-Ng~~v~~-----d~~L~dGDeVaii   99 (105)
                      .+..++++...||.+|...+..+.. ... ...-+++. .|+....     ++-|.+|+.|.++
T Consensus        11 ~~~~v~V~~~~tV~~lK~~I~~~~g-ip~-~~QrLi~~~~Gk~L~D~~tL~~y~i~~g~~i~lv   72 (76)
T d1z2ma1          11 NEFQVSLSSSMSVSELKAQITQKIG-VHA-FQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLV   72 (76)
T ss_dssp             CEEEEECCSSCCHHHHHHHHHHHHC-CCG-GGEEEEEETTCCBCCSSSCSGGGTCCTTCEEEEE
T ss_pred             CEEEEEECCCCcHHHHHHHHHHHhc-cCC-ccEEEEEcCCCeeccCCCcHHHcCCCCCCEEEEE
Confidence            5789999988999999999988652 111 11224444 4777653     5678999999876

>d1v5ta_ d.15.1.1 (A:) 8430435i17rik protein {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 8430435i17rik protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.89  E-value=0.15  Score=29.74  Aligned_cols=68  Identities=16%  Similarity=0.168  Sum_probs=45.1

Q ss_pred             CceEEEEEecHHhHhhcCCCceEE-EeCCCCCHHHHHHHHHHhCCCchhhcceeEEE--ECCeecCCC-----CccCCCC
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPL-EVSCGSTTQDCLNKLIARFPNLEEIRGCMVLA--LNEEYTNAS-----VIVNEKD   94 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~v-ev~~~~tv~dLl~~L~~~~p~l~~~~~~~~va--VNg~~v~~d-----~~L~dGD   94 (105)
                      +.|+|+|++.+.        ...+ +++...||.+|.++|.+...-..+ ... +++  ..|+....+     .-|++|+
T Consensus         6 ~~~~i~Vk~~~~--------~~~i~~v~~~~tV~~LK~~i~~~t~vp~~-~Qk-Li~~~~~Gk~L~D~~tL~~~~i~~g~   75 (90)
T d1v5ta_           6 SGLPIIVKWGGQ--------EYSVTTLSEDDTVLDLKQFLKTLTGVLPE-RQK-LLGLKVKGKPAENDVKLGALKLKPNT   75 (90)
T ss_dssp             CSCCEEEEETTE--------EEEECSCCSSSBHHHHHHHHHHHTCCCTT-TCE-EESCEETTEECCTTSBHHHHTCCTTE
T ss_pred             CcEEEEEEECCe--------EEEEEEeCCCCcHHHHHHHHHHHHcCCHH-Hhh-hhhhccCCcCCCCcCcHHHcCCCCCC
Confidence            448899986443        3455 677788999999999987621111 111 222  467776543     5699999


Q ss_pred             EEEEEc
Q 034054           95 ELAIIP  100 (105)
Q Consensus        95 eVaiiP  100 (105)
                      .|.++.
T Consensus        76 ~i~lv~   81 (90)
T d1v5ta_          76 KIMMMG   81 (90)
T ss_dssp             EEEEEC
T ss_pred             EEEEEe
Confidence            999883

>d1kf6b2 d.15.4.2 (B:1-105) Fumarate reductase iron-sulfur protein, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: 2Fe-2S ferredoxin-like
family: 2Fe-2S ferredoxin domains from multidomain proteins
domain: Fumarate reductase iron-sulfur protein, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=90.87  E-value=0.29  Score=29.81  Aligned_cols=76  Identities=16%  Similarity=0.241  Sum_probs=44.8

Q ss_pred             eEEEEEecHHhHhhcCC-CceEEEeCCCCCHHHHHHHHHHhC-CCch-h------hcceeEEEECCeecCC-CCccCC-C
Q 034054           25 IQIKVLFFARARDLTGL-TDMPLEVSCGSTTQDCLNKLIARF-PNLE-E------IRGCMVLALNEEYTNA-SVIVNE-K   93 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~-~~~~vev~~~~tv~dLl~~L~~~~-p~l~-~------~~~~~~vaVNg~~v~~-d~~L~d-G   93 (105)
                      ++++|.=|-+-.+..+. .+.+++++++.|+-|+|.++.+.. |.|+ +      +=..+.+.|||+..-. .+.+.+ +
T Consensus         6 i~~~i~R~dp~~~~~~~~~~y~v~~~~~~tvLd~L~~Ik~~~d~sLsfr~sCr~giCGsCam~ING~~~LAC~t~v~~~~   85 (105)
T d1kf6b2           6 LKIEVVRYNPEVDTAPHSAFYEVPYDATTSLLDALGYIKDNLAPDLSYRWSCRMAICGSCGMMVNNVPKLACKTFLRDYT   85 (105)
T ss_dssp             EEEEEEECCTTTCSSCEEEEEEEEECTTCBHHHHHHHHHHHTCTTCCCCCCCSSSSSCCCEEEETTEEEEGGGCBGGGCT
T ss_pred             EEEEEEEECCCCCCCCeeEEEEEecCCCCcHHHHHHHHHHhcCCcceEEeccCCCCCCCCeEEECCcccccceeEeeccC
Confidence            45555544332233322 345667778899999999998765 5553 1      1246899999998532 333332 3


Q ss_pred             CEEEEEc
Q 034054           94 DELAIIP  100 (105)
Q Consensus        94 DeVaiiP  100 (105)
                      +.+.|=|
T Consensus        86 ~~i~ieP   92 (105)
T d1kf6b2          86 DGMKVEA   92 (105)
T ss_dssp             TCEEEEC
T ss_pred             CCeEEEE
Confidence            4455543

>d2bs2b2 d.15.4.2 (B:1-106) Fumarate reductase iron-sulfur protein, N-terminal domain {Wolinella succinogenes [TaxId: 844]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: 2Fe-2S ferredoxin-like
family: 2Fe-2S ferredoxin domains from multidomain proteins
domain: Fumarate reductase iron-sulfur protein, N-terminal domain
species: Wolinella succinogenes [TaxId: 844]

Probab=90.81  E-value=0.37  Score=29.42  Aligned_cols=77  Identities=18%  Similarity=0.310  Sum_probs=46.9

Q ss_pred             ceEEEEEecHHhHhhc-C-CCceEEEeCCCCCHHHHHHHHHHhC-CCchh-------hcceeEEEECCeecCC-CCccC-
Q 034054           24 SIQIKVLFFARARDLT-G-LTDMPLEVSCGSTTQDCLNKLIARF-PNLEE-------IRGCMVLALNEEYTNA-SVIVN-   91 (105)
Q Consensus        24 ~m~V~V~~fg~lre~~-g-~~~~~vev~~~~tv~dLl~~L~~~~-p~l~~-------~~~~~~vaVNg~~v~~-d~~L~-   91 (105)
                      +++++|+-|-+-.... + -.+.+++...+.|+-++|.++.+.. |.|+-       +=..+.+.|||+..-. .+.+. 
T Consensus         4 ~i~l~I~R~~p~~~~~~~~~~~y~v~~~~~~tvld~L~~Ik~~~D~sl~fr~sCr~giCGsCam~ING~~~lAC~t~v~~   83 (106)
T d2bs2b2           4 MLTIRVFKYDPQSAVSKPHFQEYKIEEAPSMTIFIVLNMIRETYDPDLNFDFVCRAGICGSCGMMINGRPSLACRTLTKD   83 (106)
T ss_dssp             EEEEEEEECCTTCTTCCCEEEEEEEECCTTCBHHHHHHHHHHHTCTTCCCCCSSSSSSSCTTEEEETTEEEEGGGCBGGG
T ss_pred             EEEEEEEEECCCCCCCCceEEEEEecCCCCCcHHHHHHHHHHhcCCcEEEEeCcCCCCCCcceEEECCccccceeeeeec
Confidence            4677777775432211 1 1234555556789999999998876 54541       1246899999998531 23222 


Q ss_pred             -CCCEEEEEc
Q 034054           92 -EKDELAIIP  100 (105)
Q Consensus        92 -dGDeVaiiP  100 (105)
                       .+++|.|-|
T Consensus        84 ~~~~~i~ieP   93 (106)
T d2bs2b2          84 FEDGVITLLP   93 (106)
T ss_dssp             CTTSEEEEEC
T ss_pred             cCCCeEEEEE
Confidence             244787776

>d1c06a_ d.66.1.2 (A:) Ribosomal protein S4 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a+b)
fold: Alpha-L RNA-binding motif
superfamily: Alpha-L RNA-binding motif
family: Ribosomal protein S4
domain: Ribosomal protein S4
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=90.44  E-value=0.25  Score=32.28  Aligned_cols=27  Identities=15%  Similarity=0.094  Sum_probs=23.5

Q ss_pred             ceeEEEECCeecC-CCCccCCCCEEEEE
Q 034054           73 GCMVLALNEEYTN-ASVIVNEKDELAII   99 (105)
Q Consensus        73 ~~~~vaVNg~~v~-~d~~L~dGDeVaii   99 (105)
                      .+=.|.|||+.++ +.+.+++||.|.+=
T Consensus        74 ~Hghi~vNgk~v~iPSy~vk~GDvIsvk  101 (159)
T d1c06a_          74 THGHILVDGSRVNIPSYRVKPGQTIAVR  101 (159)
T ss_dssp             HTSCEEETTEECCCSSCCCCSSCEEEEC
T ss_pred             HhcceEccceEEEecceeecCCcEEeec
Confidence            4557899999998 79999999999874

>d1nekb2 d.15.4.2 (B:1-106) Succinate dehydogenase iron-sulfur protein, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: 2Fe-2S ferredoxin-like
family: 2Fe-2S ferredoxin domains from multidomain proteins
domain: Succinate dehydogenase iron-sulfur protein, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=90.41  E-value=0.65  Score=28.14  Aligned_cols=75  Identities=17%  Similarity=0.160  Sum_probs=45.0

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeC--C--CCCHHHHHHHHHHhCCCchh-------hcceeEEEECCeecCC-----CC
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVS--C--GSTTQDCLNKLIARFPNLEE-------IRGCMVLALNEEYTNA-----SV   88 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~--~--~~tv~dLl~~L~~~~p~l~~-------~~~~~~vaVNg~~v~~-----d~   88 (105)
                      ++++|.=|-+-.+..+. -++++++  .  .+++-+++.++.++-|.|+-       +=..+.+.|||+..-.     +.
T Consensus         3 v~~~I~R~dp~~~~~~~-~~~y~v~~~~~~~~~vl~~L~~i~e~D~sLsfr~sCr~giCGsCam~ING~~~LAC~t~v~~   81 (106)
T d1nekb2           3 LEFSIYRYNPDVDDAPR-MQDYTLEADEGRDMMLLDALIQLKEKDPSLSFRRSCREGVCGSDGLNMNGKNGLACITPISA   81 (106)
T ss_dssp             CEEEEEECCTTTCSSCE-EEEEECCCCSSSCCBHHHHHHHHHHHCTTCCCCCCSSSSCSCTTEEEETTEEEETTSCBTTT
T ss_pred             EEEEEEEcCCCCCCCCE-EEEEEEeecCCccHHHHHHHHHHhccCCCEEEEcCCCCCCCCcceEEEcCccccchheehhH
Confidence            34444444333333332 3556554  3  35788888888777676542       1246789999998532     23


Q ss_pred             ccCCCCEEEEEc
Q 034054           89 IVNEKDELAIIP  100 (105)
Q Consensus        89 ~L~dGDeVaiiP  100 (105)
                      ...+|++|.|-|
T Consensus        82 ~~~~~~~i~IeP   93 (106)
T d1nekb2          82 LNQPGKKIVIRP   93 (106)
T ss_dssp             TCCTTSCEEEEC
T ss_pred             hhCCCCeEEEEE
Confidence            345689998886

>d1wx9a1 d.15.1.1 (A:8-80) Large proline-rich protein BAT3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Large proline-rich protein BAT3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.11  E-value=0.18  Score=28.31  Aligned_cols=53  Identities=8%  Similarity=0.076  Sum_probs=36.8

Q ss_pred             eEEEEEecHHhHhhcCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCCC
Q 034054           25 IQIKVLFFARARDLTGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNAS   87 (105)
Q Consensus        25 m~V~V~~fg~lre~~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~d   87 (105)
                      |+|.|+.+.      | .+..++++...|+.+|.+.+.++.. +.  ....++..+|+....+
T Consensus         1 m~I~Vk~~~------g-~~~~l~V~~~~tV~~lK~~I~~~~g-ip--~~~qrLi~~Gk~L~d~   53 (73)
T d1wx9a1           1 LEVLVKTLD------S-QTRTFIVGAQMNVKEFKEHIAASVS-IP--SEKQRLIYQGRVLQDD   53 (73)
T ss_dssp             EEEEEECTT------S-CEEEEEECTTSBHHHHHHHHHHHHC-CC--TTTCCCEETTEECCSS
T ss_pred             CEEEEEcCC------C-CEEEEEECCCChHHHHHHHHHHHhC-CC--hHHEEEEECCeEccCC
Confidence            677777654      4 4789999988999999999988752 11  1223455688877654

>d2gy9d1 d.66.1.2 (D:2-205) Ribosomal protein S4 {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Alpha-L RNA-binding motif
superfamily: Alpha-L RNA-binding motif
family: Ribosomal protein S4
domain: Ribosomal protein S4
species: Escherichia coli [TaxId: 562]

Probab=89.56  E-value=0.21  Score=33.98  Aligned_cols=29  Identities=24%  Similarity=0.218  Sum_probs=24.3

Q ss_pred             cceeEEEECCeecC-CCCccCCCCEEEEEc
Q 034054           72 RGCMVLALNEEYTN-ASVIVNEKDELAIIP  100 (105)
Q Consensus        72 ~~~~~vaVNg~~v~-~d~~L~dGDeVaiiP  100 (105)
                      ..+=.|.|||+.|+ +.+.|++||.|.|=+
T Consensus       116 v~Hghi~VNgk~VnIPSy~vk~GDvIsvke  145 (204)
T d2gy9d1         116 VSHKAIMVNGRVVNIASYQVSPNDVVSIRE  145 (204)
T ss_dssp             HHTTCEEESSSBCCCTTCBCCTTCBEEECT
T ss_pred             HHhcceecCCEEEEeccEeecCCCEEEecc
Confidence            34557899999998 799999999999843

>d1dm9a_ d.66.1.3 (A:) Heat shock protein 15 kD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Alpha-L RNA-binding motif
superfamily: Alpha-L RNA-binding motif
family: Heat shock protein 15 kD
domain: Heat shock protein 15 kD
species: Escherichia coli [TaxId: 562]

Probab=89.06  E-value=0.2  Score=30.49  Aligned_cols=24  Identities=21%  Similarity=0.227  Sum_probs=21.8

Q ss_pred             EEEECCeecCCCCccCCCCEEEEE
Q 034054           76 VLALNEEYTNASVIVNEKDELAII   99 (105)
Q Consensus        76 ~vaVNg~~v~~d~~L~dGDeVaii   99 (105)
                      .|.|||..+.+.+.++.||.|.|-
T Consensus        31 ~V~vNg~~vKps~~vk~GDvI~i~   54 (104)
T d1dm9a_          31 KVHYNGQRSKPSKIVELNATLTLR   54 (104)
T ss_dssp             CEEETTEECCTTCBCCTTCEEEEE
T ss_pred             CeeeCCeeccccccCCCCCEEEEE
Confidence            678999999899999999999884

>d1vioa2 d.66.1.5 (A:0-57) Pseudouridine synthase RsuA N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a+b)
fold: Alpha-L RNA-binding motif
superfamily: Alpha-L RNA-binding motif
family: Pseudouridine synthase RsuA N-terminal domain
domain: Pseudouridine synthase RsuA N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=88.87  E-value=0.16  Score=27.53  Aligned_cols=26  Identities=23%  Similarity=0.350  Sum_probs=21.9

Q ss_pred             ceeEEEECCeecC-CCCccCCCCEEEE
Q 034054           73 GCMVLALNEEYTN-ASVIVNEKDELAI   98 (105)
Q Consensus        73 ~~~~vaVNg~~v~-~d~~L~dGDeVai   98 (105)
                      ..=.|.|||+.+. +++.+.+||+|.|
T Consensus        24 ~~g~V~Vng~~v~~~~~~v~~~d~I~~   50 (58)
T d1vioa2          24 RQSAVKINGEIVKSGSVQISQEDEIYF   50 (58)
T ss_dssp             HTTCEEETTEECCCTTCEECTTSCEEE
T ss_pred             HcCeEEECCEEeCCCCCCCCCCCEEEE
Confidence            3347899999986 7999999999986

>d1we6a_ d.15.1.1 (A:) Splicing factor 3 subunit 1, C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Splicing factor 3 subunit 1, C-terminal domain
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=88.50  E-value=1.6  Score=26.36  Aligned_cols=76  Identities=12%  Similarity=0.051  Sum_probs=51.1

Q ss_pred             CceEEEEEecHHhHhhcCCCceEEEeCC-CCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEE
Q 034054           23 SSIQIKVLFFARARDLTGLTDMPLEVSC-GSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDEL   96 (105)
Q Consensus        23 ~~m~V~V~~fg~lre~~g~~~~~vev~~-~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeV   96 (105)
                      ..+.++|..--    ........+++.. ..||.+|...+.++.. +.  ....++..+|+....     ++-|.+|+.|
T Consensus        26 g~~ti~V~v~~----~~~G~~i~l~v~~~sdtV~~lK~~I~~~~g-ip--~~~QrLi~~Gk~L~D~~tL~~ynI~~gsti   98 (111)
T d1we6a_          26 GPATIRVSKPN----ENDGQFMEITVQSLSENVGSLKEKIAGEIQ-IP--ANKQKLSGKAGFLKDNMSLAHYNVGAGEIL   98 (111)
T ss_dssp             SCEEEEECCTT----CSSSCCEEEEESCSSSBHHHHHHHHHHHTT-CC--TTTSEEECSSSBCCTTSBTTTTTCSSSCEE
T ss_pred             CCEEEEEEccc----CCCCeEEEEEecCCccHHHHHHHHHHHHHC-CC--ccceEEEEeeEEccccCCHHHcCCCCCCEE
Confidence            34555554432    1223578888864 5799999999998862 11  122355567877653     6789999999


Q ss_pred             EEEcCCCCC
Q 034054           97 AIIPPISGG  105 (105)
Q Consensus        97 aiiPPvsGG  105 (105)
                      .+.-..-||
T Consensus        99 ~L~lr~rGG  107 (111)
T d1we6a_          99 TLSLRERSG  107 (111)
T ss_dssp             EEECSSCCS
T ss_pred             EEEeeCCCC
Confidence            998877776

>d2uubd1 d.66.1.2 (D:2-209) Ribosomal protein S4 {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Alpha-L RNA-binding motif
superfamily: Alpha-L RNA-binding motif
family: Ribosomal protein S4
domain: Ribosomal protein S4
species: Thermus thermophilus [TaxId: 274]

Probab=87.46  E-value=0.54  Score=31.95  Aligned_cols=50  Identities=22%  Similarity=0.246  Sum_probs=34.1

Q ss_pred             CCCHHHHHHHHHHhCC------Cch-------hhcceeEEEECCeecC-CCCccCCCCEEEEEc
Q 034054           51 GSTTQDCLNKLIARFP------NLE-------EIRGCMVLALNEEYTN-ASVIVNEKDELAIIP  100 (105)
Q Consensus        51 ~~tv~dLl~~L~~~~p------~l~-------~~~~~~~vaVNg~~v~-~d~~L~dGDeVaiiP  100 (105)
                      |.|-..|+..|..+-.      +++       .+..+=.|.|||+.|+ +.+.|++||.|.+-+
T Consensus        86 G~tg~~ll~lLE~Rld~vv~r~g~a~t~~~ARQ~v~Hg~i~vNg~~v~ips~~~~~gd~I~vre  149 (208)
T d2uubd1          86 GVTGSVFLGLLESRLDNVVYRLGFAVSRRQARQLVRHGHITVNGRRVDLPSYRVRPGDEIAVAE  149 (208)
T ss_dssp             SCHHHHHHHHHHTBHHHHHHHTTSSSSHHHHHHHHHTTCEEETTEECCCTTCBCCTTCEEEECG
T ss_pred             CCchHHHHHHHHHHHHHHHHhccccccHHHHHHHHHhcCeecCCeEEEeccEEecCCceeehhh
Confidence            4566666666654421      222       1234557899999998 789999999999843

>d1y8xb1 c.111.1.2 (B:349-440) UBA3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Activating enzymes of the ubiquitin-like proteins
superfamily: Activating enzymes of the ubiquitin-like proteins
family: Ubiquitin activating enzymes (UBA)
domain: UBA3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.21  E-value=0.79  Score=27.34  Aligned_cols=56  Identities=16%  Similarity=0.191  Sum_probs=37.9

Q ss_pred             EEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCee----c--C--------------CCCc-cCCCCEEEEEcC
Q 034054           45 PLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEY----T--N--------------ASVI-VNEKDELAIIPP  101 (105)
Q Consensus        45 ~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~----v--~--------------~d~~-L~dGDeVaiiPP  101 (105)
                      .++++...|+.++++.|+++ |++.=-.+.+...++|..    .  +              .... +.+|+||++-=|
T Consensus         4 ~l~~~~~~TL~~li~~L~e~-p~~qlk~Psltt~~~g~~ktLYm~~pp~Lee~Tr~NL~k~L~eLgl~dG~ei~VtD~   80 (92)
T d1y8xb1           4 NIQFSPSAKLQEVLDYLTNS-ASLQMKSPAITATLEGKNRTLYMQSVTSIEERTRPNLSKTLKELGLVDGQELAVADV   80 (92)
T ss_dssp             CEECCTTCBHHHHHHHHHHC-TTCCCSSCEEEEEETTEEEEEECSSCHHHHHHHHHHHHSBSGGGTCCTTCEEEEECT
T ss_pred             eEEcCCCCcHHHHHHHHhhC-hHhhccCCceeeecCCCccEEEecCcHHHHHHhhhccccCHHHhCCcCCCEEEEecC
Confidence            46788889999999999986 333211356667777752    1  1              1223 899999998654

>d1zkha1 d.15.1.1 (A:1-86) Splicing factor 3 subunit 1, C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Splicing factor 3 subunit 1, C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.96  E-value=1.5  Score=25.08  Aligned_cols=60  Identities=7%  Similarity=-0.041  Sum_probs=44.3

Q ss_pred             cCCCceEEEeCCCCCHHHHHHHHHHhCCCchhhcceeEEEECCeecCC-----CCccCCCCEEEEEcCC
Q 034054           39 TGLTDMPLEVSCGSTTQDCLNKLIARFPNLEEIRGCMVLALNEEYTNA-----SVIVNEKDELAIIPPI  102 (105)
Q Consensus        39 ~g~~~~~vev~~~~tv~dLl~~L~~~~p~l~~~~~~~~vaVNg~~v~~-----d~~L~dGDeVaiiPPv  102 (105)
                      .| ....++++...|+++|...+.++..--   .+...+..+|+....     |+-|.+|+.|.++.-.
T Consensus        20 ~G-~~~~l~v~~~~tV~~lK~~I~~~~~ip---~~~q~Li~~Gk~L~D~~tL~dY~I~~gsti~l~~r~   84 (86)
T d1zkha1          20 NG-QVLVFTLPLTDQVSVIKVKIHEATGMP---AGKQKLQYEGIFIKDSNSLAYYNMANGAVIHLALKE   84 (86)
T ss_dssp             SS-CEEEEEECTTSBHHHHHHHHHHHTCCC---TTTEEEEETTEEECTTSBHHHHTCCTTEEEEEEESC
T ss_pred             CC-eEEEEEECCCChHHHHHHHHHhhhcCC---hHHEEEEeCCcCcCCCCCHHHcCCCCCCEEEEEEec
Confidence            35 468899998899999999999876211   134566778888764     4678999999887543

>d1kska3 d.66.1.5 (A:1-59) Pseudouridine synthase RsuA N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Alpha-L RNA-binding motif
superfamily: Alpha-L RNA-binding motif
family: Pseudouridine synthase RsuA N-terminal domain
domain: Pseudouridine synthase RsuA N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=86.74  E-value=0.26  Score=26.64  Aligned_cols=24  Identities=17%  Similarity=0.220  Sum_probs=20.7

Q ss_pred             eEEEECCeec-CCCCccCCCCEEEE
Q 034054           75 MVLALNEEYT-NASVIVNEKDELAI   98 (105)
Q Consensus        75 ~~vaVNg~~v-~~d~~L~dGDeVai   98 (105)
                      =.|.|||+.+ .+.+.+.++|.|.+
T Consensus        25 g~V~Vng~~v~~~~~~V~~~d~I~~   49 (59)
T d1kska3          25 NRVTVDGEIVRNAAFKLLPEHDVAY   49 (59)
T ss_dssp             TCEEETTEECCCTTCEECTTCCEEE
T ss_pred             CcEEECCEEeecCCcCcCCCCEEEE
Confidence            3689999999 47899999999876

>d2affa1 b.26.1.2 (A:3-100) Antigen ki-67 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: SMAD/FHA domain
superfamily: SMAD/FHA domain
family: FHA domain
domain: Antigen ki-67
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.00  E-value=0.25  Score=29.04  Aligned_cols=23  Identities=17%  Similarity=0.229  Sum_probs=19.9

Q ss_pred             EEEECCeecCCCCccCCCCEEEE
Q 034054           76 VLALNEEYTNASVIVNEKDELAI   98 (105)
Q Consensus        76 ~vaVNg~~v~~d~~L~dGDeVai   98 (105)
                      -++|||+.+....+|++||+|.|
T Consensus        66 g~~vNg~~l~~~~~L~~Gd~I~i   88 (98)
T d2affa1          66 PTQVNGSVIDEPVRLKHGDVITI   88 (98)
T ss_dssp             CCEETTEECSSCEEECTTCEEEE
T ss_pred             cceECCEECCCceECCCCCEEEE
Confidence            46789999877789999999987

>d1p9ka_ d.66.1.6 (A:) Hypothetical protein YbcJ {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Alpha-L RNA-binding motif
superfamily: Alpha-L RNA-binding motif
family: YbcJ-like
domain: Hypothetical protein YbcJ
species: Escherichia coli [TaxId: 562]

Probab=82.42  E-value=0.29  Score=28.20  Aligned_cols=48  Identities=4%  Similarity=-0.160  Sum_probs=34.6

Q ss_pred             CCCHHHHHHHHHHh--CCCchhhcceeEEEECCeec-CCCCccCCCCEEEE
Q 034054           51 GSTTQDCLNKLIAR--FPNLEEIRGCMVLALNEEYT-NASVIVNEKDELAI   98 (105)
Q Consensus        51 ~~tv~dLl~~L~~~--~p~l~~~~~~~~vaVNg~~v-~~d~~L~dGDeVai   98 (105)
                      .+.+..+|...+.-  -.+.+.+...=.|.|||+.+ .+...+.+||.|.|
T Consensus        20 ~irL~k~L~~~gl~~Sr~eAk~lI~~G~V~VNG~~~~~p~~~V~~~d~I~v   70 (79)
T d1p9ka_          20 HVELCDLLKLEGWSESGAQAKIAIAEGQVKVDGAVETRKRCKIVAGQTVSF   70 (79)
T ss_dssp             CCCHHHHHHHHTSCSSSSTTSHHHHHHHHEETTBCCCCSSCCCCSSEEEEE
T ss_pred             cEEHHHHHHHCCCccCHHHHHHHHHhCCcccCCEEeccccccCCCCCEEEE
Confidence            37888888776431  22344454455789999998 47899999999876

>d1wlna1 b.26.1.2 (A:8-114) Afadin {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: SMAD/FHA domain
superfamily: SMAD/FHA domain
family: FHA domain
domain: Afadin
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=82.05  E-value=0.43  Score=28.65  Aligned_cols=26  Identities=4%  Similarity=-0.018  Sum_probs=21.9

Q ss_pred             ceeEEEECCeecCCCCccCCCCEEEE
Q 034054           73 GCMVLALNEEYTNASVIVNEKDELAI   98 (105)
Q Consensus        73 ~~~~vaVNg~~v~~d~~L~dGDeVai   98 (105)
                      ....++|||+.+...+.|+.||+|.|
T Consensus        71 s~~gt~vng~~v~~~~~L~~gd~i~i   96 (107)
T d1wlna1          71 MDAETYVDGQRISETTMLQSGMRLQF   96 (107)
T ss_dssp             SSSCEEETSCBCSSCEEECTTCEEEE
T ss_pred             CCcceEEccccccceeECCCCCEEEE
Confidence            33468899999988889999999987

>d2ff4a3 b.26.1.2 (A:284-382) Probable regulatory protein EmbR, C-terminal domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All beta proteins
fold: SMAD/FHA domain
superfamily: SMAD/FHA domain
family: FHA domain
domain: Probable regulatory protein EmbR, C-terminal domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=81.22  E-value=0.37  Score=28.54  Aligned_cols=23  Identities=22%  Similarity=0.372  Sum_probs=19.2

Q ss_pred             EEEECCeecCCCCccCCCCEEEE
Q 034054           76 VLALNEEYTNASVIVNEKDELAI   98 (105)
Q Consensus        76 ~vaVNg~~v~~d~~L~dGDeVai   98 (105)
                      -++|||+.+.....|++||+|.|
T Consensus        66 Gt~vNg~~i~~~~~L~~Gd~i~i   88 (99)
T d2ff4a3          66 GVHVQHERIRSAVTLNDGDHIRI   88 (99)
T ss_dssp             CCEETTEECSSEEEECTTCEEEE
T ss_pred             CCeECCEEcCCceECCCCCEEEE
Confidence            46789988876678999999987