Citrus Sinensis ID: 048514

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------9
Protein Sequence
MEKSPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA
Secondary Structure (PSIPRED)
ccccccccccccEEEEEEEcccccEEEEEEEcccHHHHHHHHHHHHccccccEEEEEEccEEccccccccccccccccEEEEEEEcccc
Secondary Structure Prediction (SSPRO)
ccccccccccccEEEEEEEcccccEEEEEEEccccHHHHHHHHHHHccccccEEEEEEcccEccccccHHHcccccccEEEEEEEcccc
Coil and Loop (DISEMBL)
mekspdnipdqhFINLVVkgqdndplyfEFRRDWEIKKLLITYCEKkdaqygtfpflingnrfphirtpdqlglkdgDEIVATFYAGGA
Flexible Loop (DISEMBL)
mekspdnipdqhfinlvvkgqdnDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPdqlglkdgdEIVATFYAGGA
Low Complexity Region (SEG)
MEKSPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA
Disordered region (IsUnstruct)
***********HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA***
Disordered Region (DISOPRED)
****************VVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGG*
Disordered Region (DISEMBL)
********PDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA
Disordered Region (DISPRO)
**********QHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA***
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEKSPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA
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	89	2.2.26 [Sep-21-2011]
Q9FLP6	103	Small ubiquitin-related m	yes	no	1.0	0.864	0.391	5e-13
P55852	100	Small ubiquitin-related m	no	no	0.808	0.72	0.402	7e-12
P55857	100	Small ubiquitin-related m	no	no	0.853	0.76	0.394	1e-11
B3H5R8	97	Putative small ubiquitin-	no	no	0.831	0.762	0.426	3e-10
O13351	117	Ubiquitin-like protein pm	yes	no	0.910	0.692	0.345	9e-10
Q9FLP5	111	Small ubiquitin-related m	no	no	0.977	0.783	0.352	8e-09
Q3E8A8	95	Putative small ubiquitin-	no	no	0.831	0.778	0.386	1e-07
Q9FKC5	114	Putative small ubiquitin-	no	no	0.865	0.675	0.371	2e-07
Q9PT08	101	Small ubiquitin-related m	N/A	no	0.797	0.702	0.352	1e-06
Q8VZI7	108	Small ubiquitin-related m	no	no	0.955	0.787	0.302	4e-06

>sp|Q9FLP6|SUMO2_ARATH Small ubiquitin-related modifier 2 OS=Arabidopsis thaliana GN=SUMO2 PE=1 SV=1

 Score = 73.2 bits (178), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 36/92 (39%), Positives = 55/92 (59%), Gaps = 3/92 (3%)

Query: 1  MEKSP--DNIPDQ-HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFL 57
          M  +P  D  PDQ   INL VKGQD + ++F  +R  ++KKL+  YC+++   + +  FL
Sbjct: 1  MSATPEEDKKPDQGAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDFNSIAFL 60

Query: 58 INGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89
           +G R    +TPD+L ++DGDEI A  +  G 
Sbjct: 61 FDGRRLRAEQTPDELEMEDGDEIDAMLHQTGG 92

Ubiquitin-like protein which can be covalently attached to target lysines as a monomer. Does not seem to be involved in protein degradation and may function as an antagonist of ubiquitin in the degradation process. Required for the massive protein sumoylation in the nucleus induced by heat shock and controlled by SIZ1.
Arabidopsis thaliana (taxid: 3702)

>sp|P55852|SUMO1_ARATH Small ubiquitin-related modifier 1 OS=Arabidopsis thaliana GN=SUMO1 PE=1 SV=2

 Score = 69.3 bits (168), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 29/72 (40%), Positives = 46/72 (63%)

Query: 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLG 73
          INL VKGQD + ++F  +R  ++KKL+  YC+++     +  FL +G R    +TPD+L 
Sbjct: 18 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDMNSIAFLFDGRRLRAEQTPDELD 77

Query: 74 LKDGDEIVATFY 85
          ++DGDEI A  +
Sbjct: 78 MEDGDEIDAMLH 89

Ubiquitin-like protein which can be covalently attached to target lysines as a monomer. Does not seem to be involved in protein degradation and may function as an antagonist of ubiquitin in the degradation process. Required for the massive protein sumoylation in the nucleus induced by heat shock and controlled by SIZ1. Involved in the regulation of the heat stress transcription factor HSFA2 in acquired thermotolerance.

Arabidopsis thaliana (taxid: 3702)

>sp|P55857|SUMO1_ORYSJ Small ubiquitin-related modifier 1 OS=Oryza sativa subsp. japonica GN=SUMO1 PE=1 SV=1

 Score = 68.2 bits (165), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 30/76 (39%), Positives = 46/76 (60%)

Query: 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLG 73
          INL VKGQD + ++F  +R  ++KKL+  YC+++        FL +G R    +TPD+L 
Sbjct: 21 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDMNAIAFLFDGRRLRGEQTPDELE 80

Query: 74 LKDGDEIVATFYAGGA 89
          ++DGDEI A  +  G 
Sbjct: 81 MEDGDEIDAMLHQTGG 96

Ubiquitin-like protein which can be covalently attached to target lysines as a monomer. Does not seem to be involved in protein degradation and may function as an antagonist of ubiquitin in the degradation process.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|B3H5R8|SUMO8_ARATH Putative small ubiquitin-related modifier 8 OS=Arabidopsis thaliana GN=SUMO8 PE=1 SV=1

 Score = 63.5 bits (153), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 32/75 (42%), Positives = 47/75 (62%), Gaps = 1/75 (1%)

Query: 8  IPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIR 67
          IP  H I + VK QD+  +YF  +RD E++K++  Y +K   +  T  FL +GNR    +
Sbjct: 10 IPSSH-ITVKVKNQDDICVYFRIKRDVELRKMMHAYSDKVGVEMSTLRFLFDGNRIKLNQ 68

Query: 68 TPDQLGLKDGDEIVA 82
          TP++LGL+D DEI A
Sbjct: 69 TPNELGLEDEDEIEA 83

Ubiquitin-like protein which can be covalently attached to target lysines as a monomer. Does not seem to be involved in protein degradation and may function as an antagonist of ubiquitin in the degradation process.

Arabidopsis thaliana (taxid: 3702)

>sp|O13351|PMT3_SCHPO Ubiquitin-like protein pmt3/smt3 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=pmt3 PE=1 SV=2

 Score = 62.0 bits (149), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 28/81 (34%), Positives = 45/81 (55%)

Query: 9   PDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRT 68
           P    INL V GQDN+ ++F+ ++  E  KL+  YC ++     +  FL++G R    +T
Sbjct: 31  PSTEHINLKVVGQDNNEVFFKIKKTTEFSKLMKIYCARQGKSMNSLRFLVDGERIRPDQT 90

Query: 69  PDQLGLKDGDEIVATFYAGGA 89
           P +L ++DGD+I A     G 
Sbjct: 91  PAELDMEDGDQIEAVLEQLGG 111

Required for chromosome segregation where it may be involved in microtubule assembly. Loss of smt3 leads to an increase in telomere length.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q9FLP5|SUMO3_ARATH Small ubiquitin-related modifier 3 OS=Arabidopsis thaliana GN=SUMO3 PE=1 SV=1

 Score = 58.9 bits (141), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 31/88 (35%), Positives = 48/88 (54%), Gaps = 1/88 (1%)

Query: 2  EKSPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN 61
          +K  D   + H I L VK QD D + F+ ++   +KKL+  YC+++  +   F F+ NG 
Sbjct: 7  DKPIDQEQEAHVI-LKVKSQDGDEVLFKNKKSAPLKKLMYVYCDRRGLKLDAFAFIFNGA 65

Query: 62 RFPHIRTPDQLGLKDGDEIVATFYAGGA 89
          R   + TPD+L ++DGD I A     G 
Sbjct: 66 RIGGLETPDELDMEDGDVIDACRAMSGG 93

Ubiquitin-like protein which can be covalently attached to target lysines as a monomer. Does not seem to be involved in protein degradation and may function as an antagonist of ubiquitin in the degradation process.

Arabidopsis thaliana (taxid: 3702)

>sp|Q3E8A8|SUMO7_ARATH Putative small ubiquitin-related modifier 7 OS=Arabidopsis thaliana GN=SUMO7 PE=1 SV=2

 Score = 55.1 bits (131), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 29/75 (38%), Positives = 44/75 (58%), Gaps = 1/75 (1%)

Query: 8  IPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIR 67
          IP  H I + +K QD+  +YF  +RD E++ ++  Y +K   Q   F F  +G R    +
Sbjct: 10 IPPSH-ITIKIKSQDDICVYFRIKRDVELRTMMQAYSDKVGQQMSAFRFHCDGIRIKPNQ 68

Query: 68 TPDQLGLKDGDEIVA 82
          TP++L L+DGDEI A
Sbjct: 69 TPNELDLEDGDEIDA 83

Ubiquitin-like protein which can be covalently attached to target lysines as a monomer. Does not seem to be involved in protein degradation and may function as an antagonist of ubiquitin in the degradation process.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FKC5|SUMO4_ARATH Putative small ubiquitin-related modifier 4 OS=Arabidopsis thaliana GN=SUMO4 PE=1 SV=1

 Score = 54.3 bits (129), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 29/78 (37%), Positives = 44/78 (56%), Gaps = 1/78 (1%)

Query: 8  IPDQHFINLVVKGQDNDPL-YFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHI 66
          + D   + L VKGQD +    F  RR+ ++ K++  Y + +  ++ TF FL +G+R    
Sbjct: 22 VSDPTHVTLKVKGQDEEDFRVFWVRRNAKLLKMMELYTKMRGIEWNTFRFLFDGSRIREY 81

Query: 67 RTPDQLGLKDGDEIVATF 84
           TPD+L  KDGDEI A  
Sbjct: 82 HTPDELERKDGDEIDAML 99

Ubiquitin-like protein which can be covalently attached to target lysines as a monomer. Does not seem to be involved in protein degradation and may function as an antagonist of ubiquitin in the degradation process.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9PT08|SUMO1_ONCMY Small ubiquitin-related modifier 1 OS=Oncorhynchus mykiss GN=sumo1 PE=3 SV=1

 Score = 51.6 bits (122), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 25/71 (35%), Positives = 38/71 (53%)

Query: 10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTP 69
          D  +I L V GQDN  ++F+ +    +KKL  +Y +++     T  FL  G R     TP
Sbjct: 18 DGEYIKLKVIGQDNSEIHFKVKMTTHLKKLKESYSQRQGVHMSTLRFLFEGQRISDNHTP 77

Query: 70 DQLGLKDGDEI 80
           +LG++D D I
Sbjct: 78 KELGMEDEDVI 88

Ubiquitin-like protein that can be covalently attached to proteins as a monomer or a lysine-linked polymer. Covalent attachment via an isopeptide bond to its substrates requires prior activation by the E1 complex sae1-sae2 and linkage to the E2 enzyme ube2i. This post-translational modification on lysine residues of proteins plays a crucial role in a number of cellular processes such as nuclear transport, DNA replication and repair, mitosis and signal transduction. Polymeric sumo1 chains are also susceptible to polyubiquitination which functions as a signal for proteasomal degradation of modified proteins.

Oncorhynchus mykiss (taxid: 8022)

>sp|Q8VZI7|SUMO5_ARATH Small ubiquitin-related modifier 5 OS=Arabidopsis thaliana GN=SUMO5 PE=1 SV=1

 Score = 50.4 bits (119), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 26/86 (30%), Positives = 41/86 (47%), Gaps = 1/86 (1%)

Query: 3   KSPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNR 62
           +SP+  P    + L VK Q      ++      +KKL+  YC K++  Y +  F+ NG  
Sbjct: 18  RSPETSPHMK-VTLKVKNQQGAEDLYKIGTHAHLKKLMSAYCTKRNLDYSSVRFVYNGRE 76

Query: 63  FPHIRTPDQLGLKDGDEIVATFYAGG 88
               +TP QL +++ DEI      GG
Sbjct: 77  IKARQTPAQLHMEEEDEICMVMELGG 102

Ubiquitin-like protein which can be covalently attached to target lysines as a monomer. Does not seem to be involved in protein degradation and may function as an antagonist of ubiquitin in the degradation process.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	89
388494242	103	unknown [Lotus japonicus] gi|388509240|g	0.988	0.854	0.388	7e-12
297796389	102	hypothetical protein ARALYDRAFT_918658 [	0.977	0.852	0.404	1e-11
255577173	99	conserved hypothetical protein [Ricinus	0.977	0.878	0.393	2e-11
359477951	127	PREDICTED: small ubiquitin-related modif	0.887	0.622	0.45	2e-11
15240471	103	small ubiquitin-related modifier 2 [Arab	1.0	0.864	0.391	2e-11
224132216	108	predicted protein [Populus trichocarpa]	0.977	0.805	0.363	2e-11
224131676	103	predicted protein [Populus trichocarpa]	0.853	0.737	0.415	3e-11
298205252	94	unnamed protein product [Vitis vinifera]	0.898	0.851	0.444	3e-11
224064888	103	predicted protein [Populus trichocarpa]	0.853	0.737	0.415	3e-11
255560123	108	conserved hypothetical protein [Ricinus	0.853	0.703	0.381	3e-11

>gi|388494242|gb|AFK35187.1| unknown [Lotus japonicus] gi|388509240|gb|AFK42686.1| unknown [Lotus japonicus]

 Score = 74.7 bits (182), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 35/90 (38%), Positives = 56/90 (62%), Gaps = 2/90 (2%)

Query: 2   EKSPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN 61
           EK P++      INL VKGQD + ++F  +R+ ++KKL+  YC+++  +  +  FL +G 
Sbjct: 11  EKKPNDQSAAPHINLKVKGQDGNEVFFRIKRNTQLKKLMNAYCDRQSVELNSIAFLFDGR 70

Query: 62  RFPHIRTPDQLGLKDGDEIVATFY--AGGA 89
           R    +TPD+L ++DGDEI A  +   GGA
Sbjct: 71  RLRAEQTPDELEMEDGDEIDAMLHQTGGGA 100

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297796389|ref|XP_002866079.1| hypothetical protein ARALYDRAFT_918658 [Arabidopsis lyrata subsp. lyrata] gi|297311914|gb|EFH42338.1| hypothetical protein ARALYDRAFT_918658 [Arabidopsis lyrata subsp. lyrata]

 Score = 73.6 bits (179), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 36/89 (40%), Positives = 55/89 (61%), Gaps = 2/89 (2%)

Query: 3  KSPDNIPDQ-HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN 61
          +  D  PDQ   INL VKGQD + ++F  +R  ++KKL+  YC+++   + +  FL +G 
Sbjct: 5  QEEDKKPDQGAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDFNSIAFLFDGR 64

Query: 62 RFPHIRTPDQLGLKDGDEIVATFY-AGGA 89
          R    +TPD+L ++DGDEI A  +  GGA
Sbjct: 65 RLRAEQTPDELEMEDGDEIDAMLHQTGGA 93

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255577173|ref|XP_002529470.1| conserved hypothetical protein [Ricinus communis] gi|223531086|gb|EEF32936.1| conserved hypothetical protein [Ricinus communis]

 Score = 73.6 bits (179), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 35/89 (39%), Positives = 56/89 (62%), Gaps = 2/89 (2%)

Query: 2  EKSPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN 61
          +K P +    H INL VKGQD + ++F  +R  ++KKL+  YC+++  ++ +  FL +G 
Sbjct: 10 DKKPTDQSAAH-INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEFNSIAFLFDGR 68

Query: 62 RFPHIRTPDQLGLKDGDEIVATFY-AGGA 89
          R    +TPD+L ++DGDEI A  +  GGA
Sbjct: 69 RLRGEQTPDELEMEDGDEIDAMLHQTGGA 97

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359477951|ref|XP_003632045.1| PREDICTED: small ubiquitin-related modifier 2-like [Vitis vinifera]

 Score = 73.2 bits (178), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 36/80 (45%), Positives = 49/80 (61%), Gaps = 1/80 (1%)

Query: 10  DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTP 69
           DQ  I + VK QD   LYF   R   +++LL+ YC++ +  Y T  F+ NGNR    +TP
Sbjct: 43  DQSTIEVKVKSQDGRQLYFRINRSTPLQRLLVAYCQQINIDYKTMQFVYNGNRVTAKQTP 102

Query: 70  DQLGLKDGDEIVA-TFYAGG 88
           +QLG++DGDEI A T   GG
Sbjct: 103 EQLGMEDGDEIDALTHQMGG 122

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15240471|ref|NP_200327.1| small ubiquitin-related modifier 2 [Arabidopsis thaliana] gi|75171511|sp|Q9FLP6.1|SUMO2_ARATH RecName: Full=Small ubiquitin-related modifier 2; Short=AtSUMO2 gi|9758113|dbj|BAB08585.1| ubiquitin-like protein SMT3-like [Arabidopsis thaliana] gi|19715611|gb|AAL91628.1| AT5g55160/MCO15_11 [Arabidopsis thaliana] gi|21360423|gb|AAM47327.1| AT5g55160/MCO15_11 [Arabidopsis thaliana] gi|21537401|gb|AAM61742.1| ubiquitin-like protein SMT3-like [Arabidopsis thaliana] gi|22652844|gb|AAN03846.1| small ubiquitin-like modifier 2 [Arabidopsis thaliana] gi|332009210|gb|AED96593.1| small ubiquitin-related modifier 2 [Arabidopsis thaliana]

 Score = 73.2 bits (178), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 36/92 (39%), Positives = 55/92 (59%), Gaps = 3/92 (3%)

Query: 1  MEKSP--DNIPDQ-HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFL 57
          M  +P  D  PDQ   INL VKGQD + ++F  +R  ++KKL+  YC+++   + +  FL
Sbjct: 1  MSATPEEDKKPDQGAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDFNSIAFL 60

Query: 58 INGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89
           +G R    +TPD+L ++DGDEI A  +  G 
Sbjct: 61 FDGRRLRAEQTPDELEMEDGDEIDAMLHQTGG 92

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224132216|ref|XP_002321284.1| predicted protein [Populus trichocarpa] gi|118487404|gb|ABK95530.1| unknown [Populus trichocarpa] gi|222862057|gb|EEE99599.1| predicted protein [Populus trichocarpa]

 Score = 72.8 bits (177), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 32/88 (36%), Positives = 53/88 (60%), Gaps = 1/88 (1%)

Query: 2   EKSPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN 61
           +K P      H INL VKGQD + ++F  +R  +++KL+  YC+++  ++ +  FL +G 
Sbjct: 16  DKKPGGDQSAH-INLKVKGQDGNEVFFRIKRSTQLRKLMTAYCDRQSVEFNSIAFLFDGR 74

Query: 62  RFPHIRTPDQLGLKDGDEIVATFYAGGA 89
           R    +TPD+L ++DGDEI A  +  G 
Sbjct: 75  RLRGEQTPDELDMEDGDEIDAMLHQTGG 102

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224131676|ref|XP_002321150.1| predicted protein [Populus trichocarpa] gi|222861923|gb|EEE99465.1| predicted protein [Populus trichocarpa]

 Score = 72.4 bits (176), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 32/77 (41%), Positives = 51/77 (66%), Gaps = 1/77 (1%)

Query: 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLG 73
          INL VKGQD + ++F  +R  ++KKL+  YC+++  ++ +  FL +G R    +TPD+L 
Sbjct: 22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEFNSIAFLFDGRRLRGEQTPDELD 81

Query: 74 LKDGDEIVATFY-AGGA 89
          ++DGDEI A  +  GGA
Sbjct: 82 MEDGDEIDAMLHQTGGA 98

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|298205252|emb|CBI17311.3| unnamed protein product [Vitis vinifera]

 Score = 72.4 bits (176), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 36/81 (44%), Positives = 49/81 (60%), Gaps = 1/81 (1%)

Query: 10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTP 69
          DQ  I + VK QD   LYF   R   +++LL+ YC++ +  Y T  F+ NGNR    +TP
Sbjct: 10 DQSTIEVKVKSQDGRQLYFRINRSTPLQRLLVAYCQQINIDYKTMQFVYNGNRVTAKQTP 69

Query: 70 DQLGLKDGDEIVA-TFYAGGA 89
          +QLG++DGDEI A T   GG 
Sbjct: 70 EQLGMEDGDEIDALTHQMGGG 90

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224064888|ref|XP_002301601.1| predicted protein [Populus trichocarpa] gi|222843327|gb|EEE80874.1| predicted protein [Populus trichocarpa]

 Score = 72.4 bits (176), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 32/77 (41%), Positives = 51/77 (66%), Gaps = 1/77 (1%)

Query: 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLG 73
          INL VKGQD + ++F  +R  ++KKL+  YC+++  ++ +  FL +G R    +TPD+L 
Sbjct: 22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEFNSIAFLFDGRRLRGEQTPDELD 81

Query: 74 LKDGDEIVATFY-AGGA 89
          ++DGDEI A  +  GGA
Sbjct: 82 MEDGDEIDAMLHQTGGA 98

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255560123|ref|XP_002521079.1| conserved hypothetical protein [Ricinus communis] gi|223539648|gb|EEF41230.1| conserved hypothetical protein [Ricinus communis]

 Score = 72.4 bits (176), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 29/76 (38%), Positives = 49/76 (64%)

Query: 14  INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLG 73
           INL VKGQD + ++F  +R  +++KL+  YC+++  ++ +  FL +G R    +TPD+L 
Sbjct: 28  INLKVKGQDGNEMFFRIKRSTQLRKLITAYCDRQSVEFNSIAFLFDGRRLRGEQTPDELE 87

Query: 74  LKDGDEIVATFYAGGA 89
           ++DGDEI A  +  G 
Sbjct: 88  MEDGDEIDAMLHQTGG 103

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	89
TAIR|locus:2116332	100	SUMO1 "AT4G26840" [Arabidopsis	0.853	0.76	0.402	2.4e-12
TAIR|locus:4515103735	97	AT5G55856 "AT5G55856" [Arabido	0.887	0.814	0.419	2.2e-11
TAIR|locus:2161695	111	SUMO3 "small ubiquitin-like mo	0.898	0.720	0.370	1.5e-10
TAIR|locus:2161675	116	SUMO2 "small ubiquitin-like mo	1.0	0.767	0.355	2.5e-10
POMBASE|SPBC365.06	117	pmt3 "SUMO" [Schizosaccharomyc	0.898	0.683	0.358	4.1e-10
TAIR|locus:504954849	95	AT5G55855 [Arabidopsis thalian	0.887	0.831	0.382	2.9e-09
TAIR|locus:2156509	114	AT5G48710 [Arabidopsis thalian	0.842	0.657	0.381	4.7e-09
GENEDB_PFALCIPARUM|PFE0285c	100	PFE0285c "ubiquitin-like prote	0.955	0.85	0.333	4.2e-08
UNIPROTKB|Q8I444	100	PfSUMO "Small ubiquitin-relate	0.955	0.85	0.333	4.2e-08
TAIR|locus:2156499	117	AT5G48700 "AT5G48700" [Arabido	0.910	0.692	0.361	2.9e-07

TAIR|locus:2116332 SUMO1 "AT4G26840" [Arabidopsis thaliana (taxid:3702)]

 Score = 165 (63.1 bits), Expect = 2.4e-12, P = 2.4e-12
 Identities = 31/77 (40%), Positives = 49/77 (63%)

Query:    14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLG 73
             INL VKGQD + ++F  +R  ++KKL+  YC+++     +  FL +G R    +TPD+L 
Sbjct:    18 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDMNSIAFLFDGRRLRAEQTPDELD 77

Query:    74 LKDGDEIVATFY-AGGA 89
             ++DGDEI A  +  GG+
Sbjct:    78 MEDGDEIDAMLHQTGGS 94

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0016925 "protein sumoylation" evidence=IEP;RCA;IDA

GO:0031386 "protein tag" evidence=IDA

GO:0009408 "response to heat" evidence=IEP

GO:0005515 "protein binding" evidence=IPI

GO:0010286 "heat acclimation" evidence=IMP

GO:0043433 "negative regulation of sequence-specific DNA binding transcription factor activity" evidence=IMP

GO:0005829 "cytosol" evidence=IDA

GO:0006094 "gluconeogenesis" evidence=RCA

GO:0007010 "cytoskeleton organization" evidence=RCA

GO:0010498 "proteasomal protein catabolic process" evidence=RCA

TAIR|locus:4515103735 AT5G55856 "AT5G55856" [Arabidopsis thaliana (taxid:3702)]

 Score = 156 (60.0 bits), Expect = 2.2e-11, P = 2.2e-11
 Identities = 34/81 (41%), Positives = 50/81 (61%)

Query:     2 EKSPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN 61
             +K P  IP  H I + VK QD+  +YF  +RD E++K++  Y +K   +  T  FL +GN
Sbjct:     5 DKKP-LIPSSH-ITVKVKNQDDICVYFRIKRDVELRKMMHAYSDKVGVEMSTLRFLFDGN 62

Query:    62 RFPHIRTPDQLGLKDGDEIVA 82
             R    +TP++LGL+D DEI A
Sbjct:    63 RIKLNQTPNELGLEDEDEIEA 83

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

TAIR|locus:2161695 SUMO3 "small ubiquitin-like modifier 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 148 (57.2 bits), Expect = 1.5e-10, P = 1.5e-10
 Identities = 30/81 (37%), Positives = 47/81 (58%)

Query:     2 EKSPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN 61
             +K  D   + H I L VK QD D + F+ ++   +KKL+  YC+++  +   F F+ NG 
Sbjct:     7 DKPIDQEQEAHVI-LKVKSQDGDEVLFKNKKSAPLKKLMYVYCDRRGLKLDAFAFIFNGA 65

Query:    62 RFPHIRTPDQLGLKDGDEIVA 82
             R   + TPD+L ++DGD I A
Sbjct:    66 RIGGLETPDELDMEDGDVIDA 86

GO:0005634 "nucleus" evidence=ISM

GO:0016925 "protein sumoylation" evidence=IEP;IDA

GO:0031386 "protein tag" evidence=IDA

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

TAIR|locus:2161675 SUMO2 "small ubiquitin-like modifier 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 146 (56.5 bits), Expect = 2.5e-10, P = 2.5e-10
 Identities = 38/107 (35%), Positives = 57/107 (53%)

Query:     1 MEKSP--DNIPDQH-FINLVVKGQ-------------DNDPLYFEFRRDWEIKKLLITYC 44
             M  +P  D  PDQ   INL VKGQ             D + ++F  +R  ++KKL+  YC
Sbjct:     1 MSATPEEDKKPDQGAHINLKVKGQAFFVVGTWLVIDTDGNEVFFRIKRSTQLKKLMNAYC 60

Query:    45 EKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY--AGGA 89
             +++   + +  FL +G R    +TPD+L ++DGDEI A  +   GGA
Sbjct:    61 DRQSVDFNSIAFLFDGRRLRAEQTPDELEMEDGDEIDAMLHQTGGGA 107

GO:0005737 "cytoplasm" evidence=ISM;IDA

GO:0005634 "nucleus" evidence=IDA

GO:0016925 "protein sumoylation" evidence=IEP;RCA;IDA

GO:0031386 "protein tag" evidence=IDA

GO:0009408 "response to heat" evidence=IEP

GO:0005515 "protein binding" evidence=IPI

GO:0000394 "RNA splicing, via endonucleolytic cleavage and ligation" evidence=RCA

GO:0006094 "gluconeogenesis" evidence=RCA

GO:0007010 "cytoskeleton organization" evidence=RCA

GO:0009086 "methionine biosynthetic process" evidence=RCA

GO:0010498 "proteasomal protein catabolic process" evidence=RCA

POMBASE|SPBC365.06 pmt3 "SUMO" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 144 (55.7 bits), Expect = 4.1e-10, P = 4.1e-10
 Identities = 29/81 (35%), Positives = 46/81 (56%)

Query:     9 PDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRT 68
             P    INL V GQDN+ ++F+ ++  E  KL+  YC ++     +  FL++G R    +T
Sbjct:    31 PSTEHINLKVVGQDNNEVFFKIKKTTEFSKLMKIYCARQGKSMNSLRFLVDGERIRPDQT 90

Query:    69 PDQLGLKDGDEIVATF-YAGG 88
             P +L ++DGD+I A     GG
Sbjct:    91 PAELDMEDGDQIEAVLEQLGG 111

GO:0000070 "mitotic sister chromatid segregation" evidence=IMP

GO:0000723 "telomere maintenance" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0005816 "spindle pole body" evidence=IDA

GO:0016925 "protein sumoylation" evidence=TAS

GO:0030466 "chromatin silencing at silent mating-type cassette" evidence=IMP

GO:0030702 "chromatin silencing at centromere" evidence=IMP

GO:0030998 "linear element" evidence=IDA

GO:0031386 "protein tag" evidence=TAS

GO:0044732 "mitotic spindle pole body" evidence=IDA

GO:0051572 "negative regulation of histone H3-K4 methylation" evidence=IMP

GO:0051573 "negative regulation of histone H3-K9 methylation" evidence=IMP

GO:0071441 "negative regulation of histone H3-K14 acetylation" evidence=IMP

TAIR|locus:504954849 AT5G55855 [Arabidopsis thaliana (taxid:3702)]

 Score = 136 (52.9 bits), Expect = 2.9e-09, P = 2.9e-09
 Identities = 31/81 (38%), Positives = 47/81 (58%)

Query:     2 EKSPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN 61
             +K P  IP  H I + +K QD+  +YF  +RD E++ ++  Y +K   Q   F F  +G 
Sbjct:     5 DKKP-LIPPSH-ITIKIKSQDDICVYFRIKRDVELRTMMQAYSDKVGQQMSAFRFHCDGI 62

Query:    62 RFPHIRTPDQLGLKDGDEIVA 82
             R    +TP++L L+DGDEI A
Sbjct:    63 RIKPNQTPNELDLEDGDEIDA 83

GO:0005634 "nucleus" evidence=ISM

TAIR|locus:2156509 AT5G48710 [Arabidopsis thaliana (taxid:3702)]

 Score = 134 (52.2 bits), Expect = 4.7e-09, P = 4.7e-09
 Identities = 29/76 (38%), Positives = 44/76 (57%)

Query:     8 IPDQHFINLVVKGQDNDPL-YFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHI 66
             + D   + L VKGQD +    F  RR+ ++ K++  Y + +  ++ TF FL +G+R    
Sbjct:    22 VSDPTHVTLKVKGQDEEDFRVFWVRRNAKLLKMMELYTKMRGIEWNTFRFLFDGSRIREY 81

Query:    67 RTPDQLGLKDGDEIVA 82
              TPD+L  KDGDEI A
Sbjct:    82 HTPDELERKDGDEIDA 97

GO:0005634 "nucleus" evidence=ISM

GENEDB_PFALCIPARUM|PFE0285c PFE0285c "ubiquitin-like protein, putative" [Plasmodium falciparum (taxid:5833)]

 Score = 125 (49.1 bits), Expect = 4.2e-08, P = 4.2e-08
 Identities = 29/87 (33%), Positives = 47/87 (54%)

Query:     4 SPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRF 63
             SP N   +H I + V+  D   ++F+ +R  +++KL+  YC +         FL +G+R 
Sbjct:    14 SPVNNQGEH-IQVKVRSPDGAEVFFKIKRKTKLEKLMEVYCNRLGQSMEAVRFLYDGDRI 72

Query:    64 PHIRTPDQLGLKDGDEIVATFY-AGGA 89
                 TP+QLG++DGD I A     GG+
Sbjct:    73 HGDNTPEQLGIEDGDVIDAMVQQTGGS 99

GO:0042787 "protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=ISS

UNIPROTKB|Q8I444 PfSUMO "Small ubiquitin-related modifier, putative" [Plasmodium falciparum 3D7 (taxid:36329)]

 Score = 125 (49.1 bits), Expect = 4.2e-08, P = 4.2e-08
 Identities = 29/87 (33%), Positives = 47/87 (54%)

Query:     4 SPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRF 63
             SP N   +H I + V+  D   ++F+ +R  +++KL+  YC +         FL +G+R 
Sbjct:    14 SPVNNQGEH-IQVKVRSPDGAEVFFKIKRKTKLEKLMEVYCNRLGQSMEAVRFLYDGDRI 72

Query:    64 PHIRTPDQLGLKDGDEIVATFY-AGGA 89
                 TP+QLG++DGD I A     GG+
Sbjct:    73 HGDNTPEQLGIEDGDVIDAMVQQTGGS 99

GO:0042787 "protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=ISS

TAIR|locus:2156499 AT5G48700 "AT5G48700" [Arabidopsis thaliana (taxid:3702)]

 Score = 117 (46.2 bits), Expect = 2.9e-07, P = 2.9e-07
 Identities = 30/83 (36%), Positives = 44/83 (53%)

Query:     2 EKSPDNIPDQHFINLVVKGQDNDPL-YFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN- 59
             EK  D   +   + L VKGQD + +  F  RR   + KL+  Y + +  ++ TF FL + 
Sbjct:    19 EKRKDVESESTHVTLNVKGQDEEGVKVFRVRRKARLLKLMEYYAKMRGIEWNTFRFLSDD 78

Query:    60 GNRFPHIRTPDQLGLKDGDEIVA 82
             G+R     T D + LKDGD+I A
Sbjct:    79 GSRIREYHTADDMELKDGDQIDA 101

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

---

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)
Q9FLP6	SUMO2_ARATH	No assigned EC number	0.3913	1.0	0.8640	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!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	89
cd01763	87	cd01763, Sumo, Small ubiquitin-related modifier (S	8e-15
COG5227	103	COG5227, SMT3, Ubiquitin-like protein (sentrin) [P	3e-11
pfam11976	72	pfam11976, Rad60-SLD, Ubiquitin-2 like Rad60 SUMO-	2e-06
cd00196	69	cd00196, UBQ, Ubiquitin-like proteins	0.004

>gnl|CDD|176359 cd01763, Sumo, Small ubiquitin-related modifier (SUMO)

 Score = 63.0 bits (154), Expect = 8e-15
 Identities = 33/79 (41%), Positives = 49/79 (62%), Gaps = 1/79 (1%)

Query: 2  EKSPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN 61
          EKS      +H INL VKGQD + ++F+ +R   +KKL+  YC+++     +  FL +G 
Sbjct: 1  EKSGKGEISEH-INLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQ 59

Query: 62 RFPHIRTPDQLGLKDGDEI 80
          R    +TPD LG++DGDEI
Sbjct: 60 RIRDNQTPDDLGMEDGDEI 78

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. Length = 87

>gnl|CDD|227552 COG5227, SMT3, Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]

 Score = 54.2 bits (130), Expect = 3e-11
 Identities = 28/89 (31%), Positives = 43/89 (48%), Gaps = 1/89 (1%)

Query: 2   EKSPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN 61
            ++P   P    INL V  QD   L+F+ ++    KKL+  +  ++     +  FL +G 
Sbjct: 13  NENPLVKPITKHINLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGK 72

Query: 62  RFPHIRTPDQLGLKDGDEI-VATFYAGGA 89
           R    +TP  L ++D DEI   T   GGA
Sbjct: 73  RIDLDQTPGDLDMEDNDEIEAVTEQVGGA 101

Length = 103

>gnl|CDD|192903 pfam11976, Rad60-SLD, Ubiquitin-2 like Rad60 SUMO-like

 Score = 41.0 bits (97), Expect = 2e-06
 Identities = 15/68 (22%), Positives = 30/68 (44%), Gaps = 1/68 (1%)

Query: 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKD-AQYGTFPFLINGNRFPHIRTPDQL 72
          I + +KG+D   ++ + +    + KL+  Y +K+          + +G R     T    
Sbjct: 1  IRIKLKGKDGKEVFIKVKPTTTLSKLINAYRKKRGIPADQQVRLIFDGERLDPNDTVADY 60

Query: 73 GLKDGDEI 80
           ++DGD I
Sbjct: 61 DIEDGDTI 68

The small ubiquitin-related modifier SUMO-1 is a Ub/Ubl family member, and although SUMO-1 shares structural similarity to Ub, SUMO's cellular functions remain distinct insomuch as SUMO modification alters protein function through changes in activity, cellular localisation, or by protecting substrates from ubiquitination. Rad60 family members contain functionally enigmatic, integral SUMO-like domains (SLDs). Despite their divergence from SUMO, each Rad60 SLD interacts with a subset of SUMO pathway enzymes: SLD2 specifically binds the SUMO E2 conjugating enzyme (Ubc9)), whereas SLD1 binds the SUMO E1 (Fub2, also called Uba2) activating and E3 (Pli1, also called Siz1 and Siz2) specificity enzymes. Structural analysis of PDB:2uyz reveals a mechanistic basis for the near-synonymous roles of Rad60 and SUMO in survival of genotoxic stress and suggest unprecedented DNA-damage-response functions for SLDs in regulating SUMOylation. The Rad60 branch of this family is also known as RENi (Rad60-Esc2-Nip45), and biologically it should be two distinct families SUMO and RENi (Rad60-Esc2-Nip45). Length = 72

>gnl|CDD|176352 cd00196, UBQ, Ubiquitin-like proteins

 Score = 32.5 bits (74), Expect = 0.004
 Identities = 17/64 (26%), Positives = 24/64 (37%)

Query: 18 VKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDG 77
          VK  D   +         +  L     +K          L+NG   P   T +  GL+DG
Sbjct: 2  VKLNDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYGLQDG 61

Query: 78 DEIV 81
          DE+V
Sbjct: 62 DELV 65

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. Length = 69

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	89
KOG1769	99	consensus Ubiquitin-like proteins [Posttranslation	100.0
COG5227	103	SMT3 Ubiquitin-like protein (sentrin) [Posttransla	99.97
cd01763	87	Sumo Small ubiquitin-related modifier (SUMO). Smal	99.96
PF11976	72	Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; Inter	99.92
cd01806	76	Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also kn	99.69
PTZ00044	76	ubiquitin; Provisional	99.54
cd01803	76	Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40	99.54
cd01810	74	ISG15_repeat2 ISG15 ubiquitin-like protein, second	99.49
cd01802	103	AN1_N ubiquitin-like domain of AN1. AN1 (also know	99.48
cd01793	74	Fubi Fubi ubiquitin-like protein. Fubi is a ubiqui	99.46
cd01804	78	midnolin_N Ubiquitin-like domain of midnolin. midn	99.45
cd01807	74	GDX_N ubiquitin-like domain of GDX. GDX contains a	99.45
cd01809	72	Scythe_N Ubiquitin-like domain of Scythe protein.	99.43
PF00240	69	ubiquitin: Ubiquitin family; InterPro: IPR000626 U	99.41
cd01791	73	Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also know	99.37
cd01805	77	RAD23_N Ubiquitin-like domain of RAD23. RAD23 belo	99.37
cd01798	70	parkin_N amino-terminal ubiquitin-like of parkin p	99.34
cd01797	78	NIRF_N amino-terminal ubiquitin-like domain of Np9	99.32
cd01812	71	BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-ter	99.32
cd01792	80	ISG15_repeat1 ISG15 ubiquitin-like protein, first	99.26
cd01794	70	DC_UbP_C dendritic cell derived ubiquitin-like pro	99.26
cd01808	71	hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC	99.26
cd01800	76	SF3a120_C Ubiquitin-like domain of Mammalian splic	99.25
smart00213	64	UBQ Ubiquitin homologues. Ubiquitin-mediated prote	99.18
cd01769	69	UBL Ubiquitin-like domain of UBL. UBLs function by	99.1
KOG0005	70	consensus Ubiquitin-like protein [Cell cycle contr	99.1
cd01796	71	DDI1_N DNA damage inducible protein 1 ubiquitin-li	99.08
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	98.89
cd01799	75	Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HO	98.87
KOG0003	128	consensus Ubiquitin/60s ribosomal protein L40 fusi	98.84
cd01790	79	Herp_N Homocysteine-responsive endoplasmic reticul	98.83
cd01813	74	UBP_N UBP ubiquitin processing protease. The UBP (	98.77
KOG0010	493	consensus Ubiquitin-like protein [Posttranslationa	98.67
cd01815	75	BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC	98.51
cd00196	69	UBQ Ubiquitin-like proteins. Ubiquitin homologs; I	98.46
cd01814	113	NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and AT	98.44
cd01789	84	Alp11_N Ubiquitin-like domain of Alp11 tubulin-fol	98.41
PF11543	80	UN_NPL4: Nuclear pore localisation protein NPL4; I	98.38
KOG0004	156	consensus Ubiquitin/40S ribosomal protein S27a fus	98.28
PF14560	87	Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2K	98.13
PLN02560	308	enoyl-CoA reductase	98.09
KOG0011	340	consensus Nucleotide excision repair factor NEF2,	98.02
PF11470	65	TUG-UBL1: GLUT4 regulating protein TUG; InterPro:	97.92
cd01801	77	Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-	97.83
PF13881	111	Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB	97.72
cd01795	107	USP48_C USP ubiquitin-specific protease. The USP (	97.71
KOG4248	1143	consensus Ubiquitin-like protein, regulator of apo	97.69
KOG0001	75	consensus Ubiquitin and ubiquitin-like proteins [P	97.68
PF00789	82	UBX: UBX domain; InterPro: IPR001012 The UBX domai	97.52
PF08817	79	YukD: WXG100 protein secretion system (Wss), prote	97.48
PRK08364	70	sulfur carrier protein ThiS; Provisional	97.22
PRK07440	70	hypothetical protein; Provisional	96.83
PRK06488	65	sulfur carrier protein ThiS; Validated	96.74
PRK06437	67	hypothetical protein; Provisional	96.74
cd00754	80	MoaD Ubiquitin domain of MoaD-like proteins. MoaD	96.72
cd01774	85	Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 i	96.67
PRK05659	66	sulfur carrier protein ThiS; Validated	96.53
smart00166	80	UBX Domain present in ubiquitin-regulatory protein	96.48
PRK06944	65	sulfur carrier protein ThiS; Provisional	96.43
PRK05863	65	sulfur carrier protein ThiS; Provisional	96.32
COG5417	81	Uncharacterized small protein [Function unknown]	96.26
KOG0006	446	consensus E3 ubiquitin-protein ligase (Parkin prot	96.24
smart00455	70	RBD Raf-like Ras-binding domain.	96.18
PRK06083	84	sulfur carrier protein ThiS; Provisional	96.1
cd01767	77	UBX UBX (ubiquitin regulatory X) domain. The UBX (	96.01
PRK08053	66	sulfur carrier protein ThiS; Provisional	95.98
TIGR01687	88	moaD_arch MoaD family protein, archaeal. Members o	95.83
PF13019	162	Telomere_Sde2: Telomere stability and silencing	95.68
PRK07696	67	sulfur carrier protein ThiS; Provisional	95.67
cd01771	80	Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated fac	95.48
cd06409	86	PB1_MUG70 The MUG70 protein is a product of the me	95.47
cd01770	79	p47_UBX p47-like ubiquitin domain. p47_UBX p47 is	95.45
cd00565	65	ThiS ThiaminS ubiquitin-like sulfur carrier protei	95.29
PF12436	249	USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-sp	95.11
cd01811	80	OASL_repeat1 2'-5' oligoadenylate synthetase-like	95.02
TIGR01683	64	thiS thiamine biosynthesis protein ThiS. This mode	95.01
TIGR01682	80	moaD molybdopterin converting factor, subunit 1, n	94.98
cd01760	72	RBD Ubiquitin-like domain of RBD-like S/T kinases.	94.91
PLN02799	82	Molybdopterin synthase sulfur carrier subunit	94.87
KOG3493	73	consensus Ubiquitin-like protein [Posttranslationa	94.83
cd01788	119	ElonginB Ubiquitin-like domain of Elongin B. Elong	94.65
PF02597	77	ThiS: ThiS family; InterPro: IPR003749 ThiS (thiam	94.56
cd06407	82	PB1_NLP A PB1 domain is present in NIN like protei	94.51
smart00666	81	PB1 PB1 domain. Phox and Bem1p domain, present in	94.44
cd01772	79	SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-subst	94.44
cd06406	80	PB1_P67 A PB1 domain is present in p67 proteins wh	93.94
cd01773	82	Faf1_like1_UBX Faf1 ike-1 UBX domain. Faf1_like1 i	93.82
cd06408	86	PB1_NoxR The PB1 domain is present in the Epichloe	93.17
cd01777	87	SNX27_RA Ubiquitin domain of SNX27 (sorting nexin	92.94
KOG3439	116	consensus Protein conjugation factor involved in a	92.7
cd06396	81	PB1_NBR1 The PB1 domain is an essential part of NB	92.6
PRK11840	326	bifunctional sulfur carrier protein/thiazole synth	92.58
PF02196	71	RBD: Raf-like Ras-binding domain; InterPro: IPR003	92.54
PF12754	309	Blt1: Cell-cycle control medial ring component; In	92.21
PF00564	84	PB1: PB1 domain; InterPro: IPR000270 The Phox and	91.99
smart00295	207	B41 Band 4.1 homologues. Also known as ezrin/radix	91.96
PF10302	97	DUF2407: DUF2407 ubiquitin-like domain; InterPro:	91.84
cd05992	81	PB1 The PB1 domain is a modular domain mediating s	91.82
cd01766	82	Ufm1 Urm1-like ubiquitin domain. Ufm1 (ubiquitin-f	91.42
PF08825	84	E2_bind: E2 binding domain; InterPro: IPR014929 E1	91.35
PF03671	76	Ufm1: Ubiquitin fold modifier 1 protein; InterPro:	91.21
PF09379	80	FERM_N: FERM N-terminal domain ; InterPro: IPR0189	91.09
cd01817	73	RGS12_RBD Ubiquitin domain of RGS12 and RGS14. RGS	90.5
PRK11130	81	moaD molybdopterin synthase small subunit; Provisi	90.1
PF15044	76	CLU_N: Mitochondrial function, CLU-N-term	89.85
COG2104	68	ThiS Sulfur transfer protein involved in thiamine	87.85
cd01818	77	TIAM1_RBD Ubiquitin domain of Tiam1 guanine nucleo	86.26
cd06398	91	PB1_Joka2 The PB1 domain is present in the Nicotia	85.78
PF04110	87	APG12: Ubiquitin-like autophagy protein Apg12 ; In	85.1
PF00788	93	RA: Ras association (RalGDS/AF-6) domain; InterPro	84.9
PF11620	88	GABP-alpha: GA-binding protein alpha chain; InterP	84.78
TIGR02958	452	sec_mycoba_snm4 secretion protein snm4. Members of	83.31
cd01612	87	APG12_C Ubiquitin-like domain of APG12. APG12_C Th	82.37
PF06234	85	TmoB: Toluene-4-monooxygenase system protein B (Tm	80.24

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

Probab=100.00  E-value=7.1e-35  Score=181.40  Aligned_cols=79  Identities=37%  Similarity=0.652  Sum_probs=77.8

Q ss_pred             CCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           11 QHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        11 ~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +.+|+|+|+++++.++.|+|++++||+|||++||++.|++.+++||+|||++|.+++||++|+|||||+|+|+.+|+||
T Consensus        18 ~~hi~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~~q~gG   96 (99)
T KOG1769|consen   18 SEHINLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQEQTGG   96 (99)
T ss_pred             cceEEEEEecCCCCEEEEEeecCChHHHHHHHHHHHcCCccceEEEEECCcCcCCCCChhhhCCcCCcEEEEEeecccC
Confidence            5899999999999999999999999999999999999999999999999999999999999999999999999999998

>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]

Probab=99.97  E-value=3.4e-32  Score=167.11  Aligned_cols=86  Identities=30%  Similarity=0.489  Sum_probs=83.3

Q ss_pred             CCCCCCCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEE
Q 048514            4 SPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVAT   83 (89)
Q Consensus         4 ~~~~~~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~   83 (89)
                      .|++.|...+|.|+|.+++|.++.|+|+.+|+|+|||++||.+.|.+.+++||+|||++|..++||.+|+|||+|+|+|+
T Consensus        15 ~p~vkp~t~hinLkvv~qd~telfFkiKktT~f~klm~af~~rqGK~m~slRfL~dG~rI~~dqTP~dldmEdnd~iEav   94 (103)
T COG5227          15 NPLVKPITKHINLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRIDLDQTPGDLDMEDNDEIEAV   94 (103)
T ss_pred             CccccccccccceEEecCCCCEEEEEEeccchHHHHHHHHHHHhCcCcceeEEEEcceecCCCCChhhcCCccchHHHHH
Confidence            45777888999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeecCC
Q 048514           84 FYAGGA   89 (89)
Q Consensus        84 ~~q~GG   89 (89)
                      .+|+||
T Consensus        95 ~eQvGG  100 (103)
T COG5227          95 TEQVGG  100 (103)
T ss_pred             HHHhcC
Confidence            999998

>cd01763 Sumo Small ubiquitin-related modifier (SUMO)

Probab=99.96  E-value=5e-29  Score=152.71  Aligned_cols=83  Identities=36%  Similarity=0.669  Sum_probs=80.2

Q ss_pred             CCCCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514            7 NIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus         7 ~~~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      .+.++.+|+|+|++++|+.+.|+|+++++|++||++||++.|++++++||+|+|++|.+++||++|+|+|||+|+|+++|
T Consensus         5 ~~~~~~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l~l   84 (87)
T cd01763           5 KGEISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLEQ   84 (87)
T ss_pred             CCCCCCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeECCCCCCHHHcCCCCCCEEEEEEec
Confidence            34578899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCC
Q 048514           87 GGA   89 (89)
Q Consensus        87 ~GG   89 (89)
                      .||
T Consensus        85 ~GG   87 (87)
T cd01763          85 TGG   87 (87)
T ss_pred             ccC
Confidence            998

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.

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

Probab=99.92  E-value=5.9e-25  Score=129.38  Aligned_cols=71  Identities=31%  Similarity=0.596  Sum_probs=66.6

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC-CcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY-GTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~-~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   84 (89)
                      |+|+|++++|+.+.|+|++++++++|+++||++.|++. ++++|+|||++|.+++||+++||+|||+|||++
T Consensus         1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~T~~~~~ied~d~Idv~I   72 (72)
T PF11976_consen    1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPNDTPEDLGIEDGDTIDVII   72 (72)
T ss_dssp             EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTSCHHHHT-STTEEEEEE-
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCCCHHHCCCCCCCEEEEEC
Confidence            78999999999999999999999999999999999999 999999999999999999999999999999975

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 ....

>cd01806 Nedd8 Nebb8-like ubiquitin protein

Probab=99.69  E-value=3.9e-16  Score=91.91  Aligned_cols=76  Identities=12%  Similarity=0.162  Sum_probs=73.3

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ++|.|++.+|+.+.+.+.++++++.|++.++++.|++++.+||+|+|+.|.++.|..++++++|++|++..++.||
T Consensus         1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~g~~L~d~~tl~~~~i~~g~~i~l~~~~~gg   76 (76)
T cd01806           1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLVLALRGG   76 (76)
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCeEccCCCCHHHcCCCCCCEEEEEEEccCC
Confidence            4688888999999999999999999999999999999999999999999999999999999999999999999998

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.

>PTZ00044 ubiquitin; Provisional

Probab=99.54  E-value=9.7e-14  Score=82.08  Aligned_cols=76  Identities=13%  Similarity=0.254  Sum_probs=73.0

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +.|.|++.+|+.+.+.+.+++++..|+...+++.|+|++++|++|+|+.+.++.|.+++++++|++|++.+...||
T Consensus         1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~l~~~~i~~~~~i~l~~~~~gg   76 (76)
T PTZ00044          1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMVLQLRGG   76 (76)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEEccCCCcHHHcCCCCCCEEEEEEEccCC
Confidence            4678888899999999999999999999999999999999999999999999999999999999999999999998

>cd01803 Ubiquitin Ubiquitin

Probab=99.54  E-value=1.1e-13  Score=81.44  Aligned_cols=76  Identities=12%  Similarity=0.184  Sum_probs=72.8

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ++|.|++.+|+.+.+.+.++.++..|++.++++.|++++.++|+|+|+.+.++.|..++++++|++|++..+..||
T Consensus         1 m~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~i~l~~~~~gg   76 (76)
T cd01803           1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG   76 (76)
T ss_pred             CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCcHHHcCCCCCCEEEEEEEccCC
Confidence            4678888889999999999999999999999999999999999999999999999999999999999999999998

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

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

Probab=99.49  E-value=4e-13  Score=79.50  Aligned_cols=74  Identities=15%  Similarity=0.257  Sum_probs=70.8

Q ss_pred             EEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           16 LVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        16 i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      |.|++..|+.+.+.|.++.++..|++..++..|++.+.++++|+|+.|.++.|..+++++++++|++..+..||
T Consensus         1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~D~~tL~~~~i~~~~tl~l~~~l~gg   74 (74)
T cd01810           1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNLRLRGG   74 (74)
T ss_pred             CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCCHHHcCCCCCCEEEEEEEccCC
Confidence            45778889999999999999999999999999999999999999999999999999999999999999999998

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.

>cd01802 AN1_N ubiquitin-like domain of AN1

Probab=99.48  E-value=6.2e-13  Score=83.85  Aligned_cols=80  Identities=5%  Similarity=-0.002  Sum_probs=76.5

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      -.+.+.|.|+...|+.+.+.|.+++++..|++..+++.|++.+.++++|.|+.|.++.|.+++++++|++|++.++..||
T Consensus        24 ~~~~M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~~Gk~L~D~~tL~dy~I~~~stL~l~~~l~GG  103 (103)
T cd01802          24 FYDTMELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEYCLNDYNISEGCTLKLVLAMRGG  103 (103)
T ss_pred             cCCCEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEecCCC
Confidence            34579999999999999999999999999999999999999999999999999999999999999999999999999998

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.

>cd01793 Fubi Fubi ubiquitin-like protein

Probab=99.46  E-value=8.6e-13  Score=78.09  Aligned_cols=74  Identities=12%  Similarity=0.096  Sum_probs=69.0

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ++|.|++  ++...+.|.++++.+.|+...+++.|++.++++++|.|+.|.++.|.++++++++++|++..+..||
T Consensus         1 mqi~vk~--~~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~Gk~L~D~~tL~~~~i~~~~tl~l~~~l~GG   74 (74)
T cd01793           1 MQLFVRA--QNTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAGRLLGG   74 (74)
T ss_pred             CEEEEEC--CCEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCeECCCCCCHHHcCCCCCCEEEEEEecCCC
Confidence            3567776  3678899999999999999999999999999999999999999999999999999999999999998

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.

>cd01804 midnolin_N Ubiquitin-like domain of midnolin

Probab=99.45  E-value=1.3e-12  Score=78.34  Aligned_cols=76  Identities=14%  Similarity=0.180  Sum_probs=72.1

Q ss_pred             cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      .++|.|++..|+...+.+.++.+...|++..+++.+++++.+||+|.|+.|.++ |.+++|++||++|+++..+.||
T Consensus         1 ~m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~~~~~   76 (78)
T cd01804           1 PMNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPTVEAG   76 (78)
T ss_pred             CeEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEeecccc
Confidence            368888888899999999999999999999999999999999999999999988 9999999999999999999987

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.

>cd01807 GDX_N ubiquitin-like domain of GDX

Probab=99.45  E-value=1e-12  Score=77.66  Aligned_cols=73  Identities=10%  Similarity=0.072  Sum_probs=68.9

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      ++|.|+..+|+.+.+.|.+++++..|++..+++.|++.++++++|+|+.|.++.|..++++.++++|+++.++
T Consensus         1 m~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~l~l~~~~   73 (74)
T cd01807           1 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDKRLSDYSIGPNAKLNLVVRP   73 (74)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCCHHHCCCCCCCEEEEEEcC
Confidence            4677888889999999999999999999999999999999999999999999999999999999999998765

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

>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein

Probab=99.43  E-value=1.9e-12  Score=75.31  Aligned_cols=71  Identities=17%  Similarity=0.192  Sum_probs=67.6

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   84 (89)
                      |+|.|+..+|+.+.+.+.++.++..|++.+++..|++++.++++|+|+.+.++.|.+++++.+|++|++..
T Consensus         1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~l~l~~   71 (72)
T cd01809           1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDETLSEYKVEDGHTIHLVK   71 (72)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCEECCCcCcHHHCCCCCCCEEEEEe
Confidence            57888888999999999999999999999999999999999999999999999999999999999999875

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.

>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=99.41  E-value=2.2e-12  Score=74.80  Aligned_cols=68  Identities=18%  Similarity=0.216  Sum_probs=64.5

Q ss_pred             ecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeec
Q 048514           20 GQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAG   87 (89)
Q Consensus        20 ~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~   87 (89)
                      +.+|+.+.+.|.+++++..|++..++..+++++.++|+|+|+.|.++.|..++++.+|++|.+++++.
T Consensus         2 ~~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L~d~~tL~~~~i~~~~~I~l~~k~~   69 (69)
T PF00240_consen    2 TLSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKELDDDKTLSDYGIKDGSTIHLVIKPR   69 (69)
T ss_dssp             ETTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEESTTSBTGGGTTSTTEEEEEEESSE
T ss_pred             CCCCcEEEEEECCCCCHHHhhhhcccccccccccceeeeeeecccCcCcHHHcCCCCCCEEEEEEecC
Confidence            45788899999999999999999999999999999999999999999999999999999999998763

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 ....

>cd01791 Ubl5 UBL5 ubiquitin-like modifier

Probab=99.37  E-value=6.5e-12  Score=74.74  Aligned_cols=71  Identities=11%  Similarity=0.070  Sum_probs=67.8

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   84 (89)
                      |.|.|++..|+.+.+.+.++.+...|++.++++.|++++.+||+|.|..|.++.|.+++|+.+|.+|+++.
T Consensus         2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~Gk~L~D~~tL~~ygi~~~stv~l~~   72 (73)
T cd01791           2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHISLGDYEIHDGMNLELYY   72 (73)
T ss_pred             EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEeCCcCCCCCCCHHHcCCCCCCEEEEEe
Confidence            68899998899999999999999999999999999999999999999999999999999999999999875

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.

>cd01805 RAD23_N Ubiquitin-like domain of RAD23

Probab=99.37  E-value=9.6e-12  Score=73.54  Aligned_cols=73  Identities=14%  Similarity=0.150  Sum_probs=68.5

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCC--CCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDA--QYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~--~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      +.|.|++.+|+.+.+.+.++++...|++.++++.|+  +++.++++|+|+.|.++.|.+++++.+|++|.+.+.+
T Consensus         1 m~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~i~~~~~~   75 (77)
T cd01805           1 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDTTLEEYKIDEKDFVVVMVSK   75 (77)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCEEccCCCCHHHcCCCCCCEEEEEEec
Confidence            467788888999999999999999999999999999  9999999999999999999999999999999998875

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).

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

Probab=99.34  E-value=1.1e-11  Score=72.48  Aligned_cols=69  Identities=14%  Similarity=0.186  Sum_probs=64.9

Q ss_pred             EEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514           16 LVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus        16 i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   84 (89)
                      |.|+...|+.+.+.+.+++++..|++..+++.|++.+.++++|.|+.|.++.|..++++.+|.+|++..
T Consensus         1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li~~G~~L~d~~~l~~~~i~~~stl~l~~   69 (70)
T cd01798           1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGKELRNTTTIQECDLGQQSILHAVR   69 (70)
T ss_pred             CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence            356677899999999999999999999999999999999999999999999999999999999999875

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.

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

Probab=99.32  E-value=1.6e-11  Score=73.73  Aligned_cols=74  Identities=12%  Similarity=0.041  Sum_probs=68.0

Q ss_pred             EEEEEEecCCCE-EEEE-EeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeec
Q 048514           14 INLVVKGQDNDP-LYFE-FRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAG   87 (89)
Q Consensus        14 I~i~v~~~~~~~-~~f~-i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~   87 (89)
                      +.|.|++..|+. +.+. +.++.+++.|++..+++.|++.+++|++|.|+.|.++.|.+++++.+|++|++.++|-
T Consensus         1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk~L~D~~tL~~y~i~~~~~i~l~~~~~   76 (78)
T cd01797           1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQMEDGHTLFDYNVGLNDIIQLLVRQD   76 (78)
T ss_pred             CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCEECCCCCCHHHcCCCCCCEEEEEEecC
Confidence            467888888987 4785 8999999999999999999999999999999999999999999999999999998873

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.

>cd01812 BAG1_N Ubiquitin-like domain of BAG1

Probab=99.32  E-value=1.3e-11  Score=71.82  Aligned_cols=70  Identities=16%  Similarity=0.168  Sum_probs=64.7

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   84 (89)
                      |+|.|+.. |+...+.+.++.++..|++..+++.|++++.++++|+|..+.++.|..++++.+|++|.+..
T Consensus         1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~l~d~~~L~~~~i~~g~~l~v~~   70 (71)
T cd01812           1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAETLDMSGVKDGSKVMLLE   70 (71)
T ss_pred             CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCcccCccCcHHHcCCCCCCEEEEec
Confidence            57788874 77788999999999999999999999999999999999999999999999999999998863

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).

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

Probab=99.26  E-value=4.8e-11  Score=71.61  Aligned_cols=73  Identities=14%  Similarity=0.086  Sum_probs=68.9

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeE--EECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPF--LINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF--~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      |.|.|+...|+.+.+.+.++.+...|++..+++.|++.+.+||  .|+|+.|.++.|..++|+++|++|++.++.
T Consensus         3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~l~l~~~~   77 (80)
T cd01792           3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLLVVQN   77 (80)
T ss_pred             eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEEEEEc
Confidence            7888888889999999999999999999999999999999999  899999999999999999999999998874

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.

>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein

Probab=99.26  E-value=4.9e-11  Score=70.31  Aligned_cols=69  Identities=6%  Similarity=0.036  Sum_probs=65.4

Q ss_pred             EEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514           16 LVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus        16 i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   84 (89)
                      ++|+...|+.+.+.+.++++...|+...+++.|++.+.++++|.|+.|.++.|..++++++|.+|+|.+
T Consensus         1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~~L~D~~~l~~~~i~~~~tv~~~~   69 (70)
T cd01794           1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGKLLTDKTRLQETKIQKDYVVQVIV   69 (70)
T ss_pred             CeEEcCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCCCHHHcCCCCCCEEEEEe
Confidence            467777899999999999999999999999999999999999999999999999999999999999975

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.

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

Probab=99.26  E-value=6.3e-11  Score=69.46  Aligned_cols=71  Identities=20%  Similarity=0.223  Sum_probs=64.8

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      |+|.|++..|. ..+.+.++.+...|++..+++.|++...++++|+|+.|.++.|..++++++|++|++.++
T Consensus         1 ~~i~vk~~~g~-~~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li~~Gk~L~d~~tL~~~~i~~~stl~l~~~   71 (71)
T cd01808           1 IKVTVKTPKDK-EEIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGKILKDTDTLTQHNIKDGLTVHLVIK   71 (71)
T ss_pred             CEEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEEC
Confidence            45777777776 489999999999999999999999999999999999999999999999999999998763

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.

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

Probab=99.25  E-value=5.5e-11  Score=70.74  Aligned_cols=68  Identities=15%  Similarity=0.155  Sum_probs=65.4

Q ss_pred             CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +|+.+.+.+.+++++..|++......|+++++++++|.|..+.++.|..++++.+|++|++..++.||
T Consensus         6 ~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~~~~gg   73 (76)
T cd01800           6 NGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQLKERGG   73 (76)
T ss_pred             CCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEEecCCC
Confidence            67888899999999999999999999999999999999999999999999999999999999999987

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.

>smart00213 UBQ Ubiquitin homologues

Probab=99.18  E-value=1.7e-10  Score=65.10  Aligned_cols=64  Identities=20%  Similarity=0.265  Sum_probs=58.8

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCC
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGD   78 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD   78 (89)
                      |.|.|++.+ ....+.|.++++++.|+..++++.|++++.++++|+|..|.++.|..++++.+|+
T Consensus         1 ~~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~~g~~L~d~~tL~~~~i~~~~   64 (64)
T smart00213        1 IELTVKTLD-GTITLEVKPSDTVSELKEKIAELTGIPVEQQRLIYKGKVLEDDRTLADYNIQDGS   64 (64)
T ss_pred             CEEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEECCCCCCHHHcCCcCCC
Confidence            467777766 6778999999999999999999999999999999999999999999999999985

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

>cd01769 UBL Ubiquitin-like domain of UBL

Probab=99.10  E-value=9.8e-10  Score=62.69  Aligned_cols=67  Identities=16%  Similarity=0.228  Sum_probs=62.4

Q ss_pred             EEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514           18 VKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus        18 v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   84 (89)
                      |+..+|..+.+.+.+++++..|++.+++..|++.+.++|+|+|+.+.++.|..++++.+++.|.|..
T Consensus         2 v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~~g~~l~d~~~l~~~~v~~~~~i~v~~   68 (69)
T cd01769           2 VKTLTGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKDDKTLSDYGIQDGSTLHLVL   68 (69)
T ss_pred             eEccCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCcCCCCcCCHHHCCCCCCCEEEEEE
Confidence            4555788899999999999999999999999999999999999999999999999999999999864

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.

>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.10  E-value=1.5e-10  Score=66.62  Aligned_cols=69  Identities=12%  Similarity=0.142  Sum_probs=65.7

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEE
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVA   82 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv   82 (89)
                      +.|+|+...|+++.+.|.+++++.++.+...++.|+|+.+.|++|.|+++.++.|++++.++-|.+++.
T Consensus         1 m~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp~qqrli~~gkqm~DD~tA~~Y~~~~GSVlHl   69 (70)
T KOG0005|consen    1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYAGKQMNDDKTAAHYNLLGGSVLHL   69 (70)
T ss_pred             CeeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhhhccccccccccHHHhhhccceeEee
Confidence            357888889999999999999999999999999999999999999999999999999999999999875

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

Probab=99.08  E-value=8.9e-10  Score=64.81  Aligned_cols=67  Identities=18%  Similarity=0.249  Sum_probs=60.5

Q ss_pred             EEEec-CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCC-CCccccCCCCCCEEEEE
Q 048514           17 VVKGQ-DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHI-RTPDQLGLKDGDEIVAT   83 (89)
Q Consensus        17 ~v~~~-~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~-~Tp~~l~medgD~Idv~   83 (89)
                      .|+.. .|+.+.+.+.++.++..|+...+++.|+|.+.++++|+|+.|.++ .|.+++++++|++|.+.
T Consensus         2 ~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~l~l~   70 (71)
T cd01796           2 TVYTARSETTFSLDVDPDLELENFKALCEAESGIPASQQQLIYNGRELVDNKRLLALYGVKDGDLVVLR   70 (71)
T ss_pred             EEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEECCeEccCCcccHHHcCCCCCCEEEEe
Confidence            44555 688889999999999999999999999999999999999999887 57899999999999864

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.

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=98.89  E-value=1.1e-08  Score=76.92  Aligned_cols=73  Identities=14%  Similarity=0.181  Sum_probs=68.2

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhC---CCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKD---AQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g---~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      |+|.|++..|+.+.+.|.++.++..|++..++..|   ++.+.+||+|.|+.|.++.|..++++.++|+|.+++..
T Consensus         1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd~tL~dy~I~e~~~Ivvmv~k   76 (378)
T TIGR00601         1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVREYKIKEKDFVVVMVSK   76 (378)
T ss_pred             CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCCCcHHHcCCCCCCEEEEEecc
Confidence            46888888999999999999999999999999998   99999999999999999999999999999999988764

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).

>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1

Probab=98.87  E-value=2.2e-08  Score=59.78  Aligned_cols=62  Identities=15%  Similarity=0.205  Sum_probs=57.1

Q ss_pred             CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecC-CCCCccccCCC-CCCEEEEEe
Q 048514           22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFP-HIRTPDQLGLK-DGDEIVATF   84 (89)
Q Consensus        22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~-~~~Tp~~l~me-dgD~Idv~~   84 (89)
                      .+..+.+.+.++++++.|+...+++.|+|++++|+ |+|.++. ++.|..+++++ +||++.+++
T Consensus        11 ~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~~   74 (75)
T cd01799          11 HTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLYI   74 (75)
T ss_pred             CCCeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEEe
Confidence            46778899999999999999999999999999999 9999996 66899999999 889998875

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.

>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]

Probab=98.84  E-value=5.9e-10  Score=70.94  Aligned_cols=74  Identities=12%  Similarity=0.168  Sum_probs=70.5

Q ss_pred             EEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           16 LVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        16 i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +.+....|+.+++.+.+++++..|.....++.|+|++..++.|+|+.|.+..|..+++|.-.|+|+++.+..||
T Consensus         3 ~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~~~~rL~GG   76 (128)
T KOG0003|consen    3 IFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (128)
T ss_pred             EEEEEeeCceEEEEecccchHHHHHHHhccccCCCHHHHHHHhcccccccCCcccccCccchhhhhhhHHHhcC
Confidence            45666789999999999999999999999999999999999999999999999999999999999999999998

>cd01790 Herp_N Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein

Probab=98.83  E-value=3.1e-08  Score=59.87  Aligned_cols=72  Identities=8%  Similarity=0.065  Sum_probs=63.3

Q ss_pred             cEEEEEEecCCCEEEEEE--eccchHHHHHHHHHhhhC--CCCCcEeEEECCeecCCCCCccccC--CCCCCEEEEEe
Q 048514           13 FINLVVKGQDNDPLYFEF--RRDWEIKKLLITYCEKKD--AQYGTFPFLINGNRFPHIRTPDQLG--LKDGDEIVATF   84 (89)
Q Consensus        13 ~I~i~v~~~~~~~~~f~i--~~~t~l~kL~~~y~~~~g--~~~~~~rF~fdG~~l~~~~Tp~~l~--medgD~Idv~~   84 (89)
                      .|+|.|++.+++...|.|  .++++...|++..++..+  .+++.+||+|.|+-|.+++|.+++.  +.+|-+|+++.
T Consensus         1 ~i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~tL~~~~~~~~~~~tiHLV~   78 (79)
T cd01790           1 PVTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHLKLRDVLRKQDEYHMVHLVC   78 (79)
T ss_pred             CeEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchhhHHHHhhcccCCceEEEEe
Confidence            378999998888866666  899999999999998875  3579999999999999999999996  99999999864

Herp (Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein) , is an integral membrane protein that is induced by the endoplasmic reticulum (ER) stress response pathway and is involved in improving the balance of folding capacity and protein loads in the ER. Herp has an N-terminal ubiquitin-like domain that is involved in Herp degradation, but is not necessary for its enhancement of amyloid beta-protein generation.

>cd01813 UBP_N UBP ubiquitin processing protease

Probab=98.77  E-value=6.5e-08  Score=57.46  Aligned_cols=69  Identities=13%  Similarity=0.004  Sum_probs=61.6

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEE---CCeecCCCCCccccCCCCCCEEEEE
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLI---NGNRFPHIRTPDQLGLKDGDEIVAT   83 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~f---dG~~l~~~~Tp~~l~medgD~Idv~   83 (89)
                      |+|.|+. .|+.+.+.+.+++++..|++..++..|++++.++++|   .|..+.++.|..++++.+|+.|.++
T Consensus         1 ~~i~vk~-~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g~~i~lm   72 (74)
T cd01813           1 VPVIVKW-GGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDVKISALKLKPNTKIMMM   72 (74)
T ss_pred             CEEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCcCHHHcCCCCCCEEEEE
Confidence            3455553 6777889999999999999999999999999999996   8999999999999999999998875

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.

>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]

Probab=98.67  E-value=1.2e-07  Score=72.96  Aligned_cols=74  Identities=16%  Similarity=0.214  Sum_probs=69.2

Q ss_pred             CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      ..|+|+|++.+. ...|.|..+..+..|++..+.+++.+.+.++++|.|+.|.+.+|...+|+.||-+|++++..
T Consensus        14 ~~irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrILKD~dTL~~~gI~Dg~TvHLVik~   87 (493)
T KOG0010|consen   14 SLIRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGRILKDDDTLKQYGIQDGHTVHLVIKS   87 (493)
T ss_pred             ceeEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCccccChhhHHHcCCCCCcEEEEEecc
Confidence            468999998766 67899999999999999999999999999999999999999999999999999999998864

>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP

Probab=98.51  E-value=3e-07  Score=55.13  Aligned_cols=53  Identities=13%  Similarity=0.182  Sum_probs=48.1

Q ss_pred             ccchHHHHHHHHHhhh--CC-CCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514           32 RDWEIKKLLITYCEKK--DA-QYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus        32 ~~t~l~kL~~~y~~~~--g~-~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   84 (89)
                      -+++...|++..+++.  |+ +.+++|++|.|+.|.++.|.+++++.+|++|+++.
T Consensus        19 ~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~TL~dygI~~gstlhLv~   74 (75)
T cd01815          19 GGYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQTLDFYGIQSGSTIHILR   74 (75)
T ss_pred             ccCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCCcHHHcCCCCCCEEEEEe
Confidence            3678999999999996  46 48999999999999999999999999999999875

BMSC_UbP (bone marrow stromal cell-derived ubiquitin-like protein) has an N-terminal ubiquitin-like (UBQ) domain and a C-terminal ubiquitin-associated (UBA) domain, a domain architecture similar to those of the UBIN, Chap1, and ubiquilin proteins. This CD represents the N-terminal ubiquitin-like domain.

>cd00196 UBQ Ubiquitin-like proteins

Probab=98.46  E-value=2.1e-06  Score=45.73  Aligned_cols=63  Identities=24%  Similarity=0.302  Sum_probs=58.7

Q ss_pred             CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514           22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus        22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   84 (89)
                      ++....+.+.+.+++..|++..+++.|.+++.++|.++|..+....+..+..+.+++.|++..
T Consensus         6 ~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~   68 (69)
T cd00196           6 DGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVP   68 (69)
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence            678888999999999999999999999999999999999999999988899999999998864

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.

>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4

Probab=98.44  E-value=8.1e-07  Score=56.91  Aligned_cols=75  Identities=7%  Similarity=-0.016  Sum_probs=63.7

Q ss_pred             CcEEEEEEecCCCEE-EEEEeccchHHHHHHHHHhhh-----CC--CCCcEeEEECCeecCCCCCccccC------CCCC
Q 048514           12 HFINLVVKGQDNDPL-YFEFRRDWEIKKLLITYCEKK-----DA--QYGTFPFLINGNRFPHIRTPDQLG------LKDG   77 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~-~f~i~~~t~l~kL~~~y~~~~-----g~--~~~~~rF~fdG~~l~~~~Tp~~l~------medg   77 (89)
                      +.|.|+++-.+|..+ .|++.++++...|++...+..     ++  +.+.++|+|.|+.|.++.|.++++      ..-.
T Consensus         3 ~~~e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~TL~d~~~p~g~~~~~~   82 (113)
T cd01814           3 EQIEIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSKTVGECRSPVGDIAGGV   82 (113)
T ss_pred             ccEEEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCCcHHHhCCcccccCCCc
Confidence            567888888899877 799999999999999999555     34  489999999999999999999999      6666


Q ss_pred             CEEEEEeee
Q 048514           78 DEIVATFYA   86 (89)
Q Consensus        78 D~Idv~~~q   86 (89)
                      -+++|+++.
T Consensus        83 ~TmHvvlr~   91 (113)
T cd01814          83 ITMHVVVQP   91 (113)
T ss_pred             eEEEEEecC
Confidence            777777653

NTGP5 and ATGP4 are plant-specific isoprenylated GTP-binding proteins with a single fold that resembles ubiquitin. The function of these proteins is unknown.

>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B

Probab=98.41  E-value=3.6e-06  Score=51.02  Aligned_cols=71  Identities=13%  Similarity=0.152  Sum_probs=58.8

Q ss_pred             EEEEEEec-CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeE-EECCe-----ec-CCCCCccccCCCCCCEEEEEe
Q 048514           14 INLVVKGQ-DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPF-LINGN-----RF-PHIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus        14 I~i~v~~~-~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF-~fdG~-----~l-~~~~Tp~~l~medgD~Idv~~   84 (89)
                      ++|.|.+. +......++.++.++..|++......|++++.+|+ +|+|.     .+ .+..+..+++++||..|+|.-
T Consensus         2 v~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVvD   80 (84)
T cd01789           2 VTVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVID   80 (84)
T ss_pred             EEEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEEe
Confidence            45555543 24456788999999999999999999999999999 58888     35 578899999999999999863

Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.

>PF11543 UN_NPL4: Nuclear pore localisation protein NPL4; InterPro: IPR024682 Npl4, along with Ufd1, forms the heterodimer adaptor complex UN, which is involved in the recruitment of p97, an AAA ATPase, for tasks involving the ubiquitin pathway

Probab=98.38  E-value=8.2e-07  Score=53.64  Aligned_cols=70  Identities=19%  Similarity=0.199  Sum_probs=44.3

Q ss_pred             CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC---Ceec--CCCCCccccCCCCCCEEEE
Q 048514           12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN---GNRF--PHIRTPDQLGLKDGDEIVA   82 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd---G~~l--~~~~Tp~~l~medgD~Idv   82 (89)
                      ..|-|+|++.+|-. .+.+.+++++..|++..++..+++.+++.++.+   ...+  ..+.|..+||+..||+|-+
T Consensus         3 ~~milRvrS~dG~~-Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmlyL   77 (80)
T PF11543_consen    3 SSMILRVRSKDGMK-RIEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLYL   77 (80)
T ss_dssp             ---EEEEE-SSEEE-EEEE-TTSBHHHHHHHHHHHS---TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE-
T ss_pred             ccEEEEEECCCCCE-EEEcCCcccHHHHHHHHHHHcCCCCcceEEEecCCCCcccccCCcCCHHHcCCCCccEEEE
Confidence            46889999998864 678999999999999999999999888877654   3455  4689999999999999865

Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.

>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]

Probab=98.28  E-value=1.1e-06  Score=58.94  Aligned_cols=75  Identities=12%  Similarity=0.181  Sum_probs=71.2

Q ss_pred             EEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           15 NLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        15 ~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      .|.|+...++.+.+.+.++.++..+.....+..|+|+++.|++|.|++|.+..|..|+++.-..+|.++.+..||
T Consensus         2 ~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~egIp~dqqrlifag~qLedgrtlSDY~Iqkestl~l~l~l~Gg   76 (156)
T KOG0004|consen    2 QIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG   76 (156)
T ss_pred             ccchhhccccceeeeecccccHHHHHHhhhcccCCCchhhhhhhhhcccccCCccccccccccceEEEEEEecCC
Confidence            466777788899999999999999999999999999999999999999999999999999999999999999998

>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A

Probab=98.13  E-value=2.7e-05  Score=47.10  Aligned_cols=70  Identities=13%  Similarity=0.213  Sum_probs=57.0

Q ss_pred             EEEEEEecCC--CEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC----Ceec----CCCCCccccCCCCCCEEEEE
Q 048514           14 INLVVKGQDN--DPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN----GNRF----PHIRTPDQLGLKDGDEIVAT   83 (89)
Q Consensus        14 I~i~v~~~~~--~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd----G~~l----~~~~Tp~~l~medgD~Idv~   83 (89)
                      |+|.|.+...  .....++.++.++..|+.......|++++.+++.+-    |..+    .+..|..++|++||++|+|.
T Consensus         2 v~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~i~V~   81 (87)
T PF14560_consen    2 VKLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMRIHVV   81 (87)
T ss_dssp             EEEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEEEEEE
T ss_pred             EEEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCEEEEE
Confidence            6777776544  477899999999999999999999999999988875    3333    36889999999999999986

>PLN02560 enoyl-CoA reductase

Probab=98.09  E-value=2e-05  Score=58.06  Aligned_cols=70  Identities=14%  Similarity=0.220  Sum_probs=59.1

Q ss_pred             EEEEEEecCCCEE---EEEEeccchHHHHHHHHHhhhCC-CCCcEeEEEC---Ce----ecCCCCCccccCCCCCCEEEE
Q 048514           14 INLVVKGQDNDPL---YFEFRRDWEIKKLLITYCEKKDA-QYGTFPFLIN---GN----RFPHIRTPDQLGLKDGDEIVA   82 (89)
Q Consensus        14 I~i~v~~~~~~~~---~f~i~~~t~l~kL~~~y~~~~g~-~~~~~rF~fd---G~----~l~~~~Tp~~l~medgD~Idv   82 (89)
                      |+|.|+..+|+.+   .+.+.++++++.|+++++++.+. +++.+|++++   |+    .+.++.|..++|+++|++|.|
T Consensus         1 M~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gstLy~   80 (308)
T PLN02560          1 MKVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTVVF   80 (308)
T ss_pred             CEEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCCCHHhcCCCCCceEEE
Confidence            3566666778776   68999999999999999999886 8899999983   43    778899999999999999876


Q ss_pred             E
Q 048514           83 T   83 (89)
Q Consensus        83 ~   83 (89)
                      .
T Consensus        81 k   81 (308)
T PLN02560         81 K   81 (308)
T ss_pred             E
Confidence            3

>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]

Probab=98.02  E-value=2.5e-05  Score=58.01  Aligned_cols=74  Identities=14%  Similarity=0.137  Sum_probs=68.5

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhC--CCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeec
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKD--AQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAG   87 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g--~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~   87 (89)
                      ++|.|++..+..+.+.+++++++..++.+.+...|  .+.+..+++|+|+-|.++.|..++++.+++.|-|++++.
T Consensus         1 m~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~tv~Eykv~E~~fiVvMlsK~   76 (340)
T KOG0011|consen    1 MKLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDETTVGEYKVKEKKFIVVMLSKD   76 (340)
T ss_pred             CeeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceeccCCcchhhhccccCceEEEEEecC
Confidence            46777888889999999999999999999999998  788999999999999999999999999999999998874

>PF11470 TUG-UBL1: GLUT4 regulating protein TUG; InterPro: IPR021569 TUG is a GLUT4 regulating protein and functions to retain membrane vesicles containing GLUT4 intracellularly

Probab=97.92  E-value=5.1e-05  Score=44.25  Aligned_cols=64  Identities=9%  Similarity=0.073  Sum_probs=46.2

Q ss_pred             EEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEE
Q 048514           18 VKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIV   81 (89)
Q Consensus        18 v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Id   81 (89)
                      +.+.+++...+++.++++|..+.+.-|+++|++.++..+.++++.|..+.+-.-.|+-+|..++
T Consensus         1 vi~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h~~k~ldlslp~R~snL~n~akLe   64 (65)
T PF11470_consen    1 VICYNFRRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLKHNNKPLDLSLPFRLSNLPNNAKLE   64 (65)
T ss_dssp             EE-TTS-EEEE---TTSBHHHHHHHHHHHTT--GGG-EEEETTEEESSS-BHHHH---SS-EEE
T ss_pred             CCccCCcEEEEEECCCCCHHHHHHHHHHHcCCCccceEEEECCEEeccccceeecCCCCCCEEe
Confidence            3457889999999999999999999999999999999999999999999888888888877665

TUG releases the GLUT4 containing vesicles to the cellular exocytic machinery in response to insulin stimulation which allows translocation to the plasma membrane []. TUG has an N-terminal ubiquitin-like domain (UBL1) which in similar proteins appears to participate in protein-protein interactions []. The region does have a area of negative electrostatic potential and increased backbone motility which leads to suggestions of a potential protein-protein interaction site []. ; PDB: 2AL3_A.

>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13

Probab=97.83  E-value=9.8e-05  Score=43.75  Aligned_cols=53  Identities=15%  Similarity=0.125  Sum_probs=45.9

Q ss_pred             eccchHHHHHHHHHhhhCC-CCCcEeEE--ECCeecCCCCCccccCCCCCCEEEEE
Q 048514           31 RRDWEIKKLLITYCEKKDA-QYGTFPFL--INGNRFPHIRTPDQLGLKDGDEIVAT   83 (89)
Q Consensus        31 ~~~t~l~kL~~~y~~~~g~-~~~~~rF~--fdG~~l~~~~Tp~~l~medgD~Idv~   83 (89)
                      .++.++..|++++++..+. +.+.+|+.  +.|..|.++.|..++|+.+|.+|.|.
T Consensus        20 ~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~d~~tL~~~gv~~g~~lyvK   75 (77)
T cd01801          20 SGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKDDDTLVDLGVGAGATLYVR   75 (77)
T ss_pred             CCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccCCcccHhhcCCCCCCEEEEe
Confidence            4778999999999998764 67887775  78999999999999999999998763

Tsc13_N N-terminal domain of Tsc13. Tsc13 is an enoyl reductase involved in elongation of long chain fatty acids that localizes to the endoplasmic reticulum and is highly enriched in a novel structure marking nuclear-vacuolar junctions.

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

Probab=97.72  E-value=0.00072  Score=43.15  Aligned_cols=74  Identities=14%  Similarity=0.109  Sum_probs=56.2

Q ss_pred             CcEEEEEEecCCC-EEEEEEeccchHHHHHHHHHhhhC-------CCCCcEeEEECCeecCCCCCccccCCCCCCE----
Q 048514           12 HFINLVVKGQDND-PLYFEFRRDWEIKKLLITYCEKKD-------AQYGTFPFLINGNRFPHIRTPDQLGLKDGDE----   79 (89)
Q Consensus        12 ~~I~i~v~~~~~~-~~~f~i~~~t~l~kL~~~y~~~~g-------~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~----   79 (89)
                      +.|.|+++-.+|. ...|...++++...|++..-...-       .+.+.+|++|.|+-|.++.|..++.+--|+.    
T Consensus         1 ~~i~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~~~~~~~~~~~~   80 (111)
T PF13881_consen    1 DKIELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDCRLPSGETPGGP   80 (111)
T ss_dssp             TSEEEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGGT--TTSETT--
T ss_pred             CeEEEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHhCCCCCCCCCCC
Confidence            3588888888998 668999999999999998875431       1467899999999999999999999998884    


Q ss_pred             --EEEEee
Q 048514           80 --IVATFY   85 (89)
Q Consensus        80 --Idv~~~   85 (89)
                        ++++++
T Consensus        81 ~vmHlvvr   88 (111)
T PF13881_consen   81 TVMHLVVR   88 (111)
T ss_dssp             EEEEEEE-
T ss_pred             EEEEEEec
Confidence              566554

>cd01795 USP48_C USP ubiquitin-specific protease

Probab=97.71  E-value=0.00023  Score=44.92  Aligned_cols=62  Identities=15%  Similarity=0.053  Sum_probs=56.9

Q ss_pred             CEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCC-CCCccccCCCCCCEEEEEee
Q 048514           24 DPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPH-IRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        24 ~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~-~~Tp~~l~medgD~Idv~~~   85 (89)
                      .+....|.+++++..|+.....++++++...+++|||+.|.+ ..|..+||+-.+.+|.+.+.
T Consensus        15 ~~~~L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~Llid   77 (107)
T cd01795          15 GEKALLVSANQTLKELKIQIMHAFSVAPFDQNLSIDGKILSDDCATLGTLGVIPESVILLKAD   77 (107)
T ss_pred             CCceEEeCccccHHHHHHHHHHHhcCCcccceeeecCceeccCCccHHhcCCCCCCEEEEEec
Confidence            467889999999999999999999999999999999998886 67999999999999988773

The USP (ubiquitin-specific protease) family is one of at least seven deubiquitylating enzyme (DUB) families capable of deconjugating ubiquitin and ubiquitin-like adducts. While the USP's have a conserved catalytic core domain, they differ in their domain architectures. This subfamily, which includes USP31, and USP48, has a carboxy-terminal ubiquitin-like domain in addition to a DUSP (domain of ubiquitin-specific proteases) domain,

>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]

Probab=97.69  E-value=0.00011  Score=61.09  Aligned_cols=70  Identities=16%  Similarity=0.144  Sum_probs=66.4

Q ss_pred             EEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514           15 NLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        15 ~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      +++|++.|.++.+|.|..-.+++.+++..++..+++.+..|++|.|+-|.++++...+++ ||-+|+++-+
T Consensus         4 ~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~ni~s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlver   73 (1143)
T KOG4248|consen    4 NVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVNIPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVER   73 (1143)
T ss_pred             ceeeeecccceeEEEechHHHHHHHHHHHHHhcccccccceeeecceeeccchhhhhccC-CCeEEEeecc
Confidence            478888899999999999999999999999999999999999999999999999999999 9999999754

>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]

Probab=97.68  E-value=0.0019  Score=35.85  Aligned_cols=72  Identities=15%  Similarity=0.214  Sum_probs=65.0

Q ss_pred             EEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecC
Q 048514           17 VVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGG   88 (89)
Q Consensus        17 ~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   88 (89)
                      .+....|+.+.+.+.+..++..+....+...+++....++.+.|..+.+..|..++++..+..+++.....+
T Consensus         3 ~~~~~~gk~~~~~~~~~~~i~~~k~~i~~~~~~~~~~q~~~~~~~~l~d~~~l~~~~i~~~~~~~l~~~~~~   74 (75)
T KOG0001|consen    3 FVKTLDGKTITLEVSPSDTIEVVKAKIRDKEGIPVDQQRLIFGGKPLEDGRTLADYNIQEGSTLHLVLSLRG   74 (75)
T ss_pred             EEEecCCCEEEEEecCCCHHHHHHHHHHhhcCCCCeeEEEEECCEECcCCCcHHHhCCCCCCEEEEEEecCC
Confidence            455567899999999999999999999999999999999999999999999999999999999998876543

>PF00789 UBX: UBX domain; InterPro: IPR001012 The UBX domain is found in ubiquitin-regulatory proteins, which are members of the ubiquitination pathway, as well as a number of other proteins including FAF-1 (FAS-associated factor 1), the human Rep-8 reproduction protein and several hypothetical proteins from yeast

Probab=97.52  E-value=0.0023  Score=37.84  Aligned_cols=73  Identities=12%  Similarity=0.177  Sum_probs=59.9

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCc-EeEE--ECCeecCCCC--CccccCCCCCCEEEE
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGT-FPFL--INGNRFPHIR--TPDQLGLKDGDEIVA   82 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~-~rF~--fdG~~l~~~~--Tp~~l~medgD~Idv   82 (89)
                      +...++|.|+-.+|..+.-+..++++++.|++........+... +.|.  |--+.+..++  |.+++|+-.+.+|.|
T Consensus         3 ~~~~~~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v   80 (82)
T PF00789_consen    3 ESDVVRIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIV   80 (82)
T ss_dssp             TSSEEEEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEE
T ss_pred             CCCEEEEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEE
Confidence            45678899999999999999999999999998877766665554 7775  4577787765  999999999988766

The function of the UBX domain is not known although the fragment of avian FAF-1 containing the UBX domain causes apoptosis of transfected cells.; GO: 0005515 protein binding; PDB: 3QX1_A 1H8C_A 3QCA_B 3QQ8_B 3QC8_B 3R3M_A 3QWZ_B 1S3S_H 1JRU_A 1I42_A ....

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

Probab=97.48  E-value=0.00048  Score=40.98  Aligned_cols=70  Identities=16%  Similarity=0.230  Sum_probs=51.5

Q ss_pred             cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC---C---cEeEE-ECCeecCCCCCccccCCCCCCEEEE
Q 048514           13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY---G---TFPFL-INGNRFPHIRTPDQLGLKDGDEIVA   82 (89)
Q Consensus        13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~---~---~~rF~-fdG~~l~~~~Tp~~l~medgD~Idv   82 (89)
                      .++|.|...++..+-+.+-.+.|++.|+....+..+.+.   .   .++|. -+|.+|++++|..++|+.|||++..
T Consensus         2 ~~rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~g~~L~~~~tL~~~gV~dGd~L~L   78 (79)
T PF08817_consen    2 LCRVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARAGGRPLDPDQTLADAGVRDGDVLVL   78 (79)
T ss_dssp             EEEEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-GGTEEEETTSBCGGGT--TT-EEEE
T ss_pred             EEEEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEecCCcccCCcCcHhHcCCCCCCEEEe
Confidence            567777765568889999999999999999999888732   2   36676 7899999999999999999999865

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.

>PRK08364 sulfur carrier protein ThiS; Provisional

Probab=97.22  E-value=0.0058  Score=35.62  Aligned_cols=66  Identities=20%  Similarity=0.222  Sum_probs=50.9

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      |+|++-+. ..+..+.+...+++..|.+..    +++...+....||+.+.     .+--+.+||.|+++.--.||
T Consensus         5 m~v~vng~-~~~~~~~~~~~~tv~~ll~~l----~~~~~~v~v~vNg~iv~-----~~~~l~~gD~Veii~~V~GG   70 (70)
T PRK08364          5 IRVKVIGR-GIEKEIEWRKGMKVADILRAV----GFNTESAIAKVNGKVAL-----EDDPVKDGDYVEVIPVVSGG   70 (70)
T ss_pred             EEEEEecc-ccceEEEcCCCCcHHHHHHHc----CCCCccEEEEECCEECC-----CCcCcCCCCEEEEEccccCC
Confidence            56666432 235567778888898888655    77788899999999994     45669999999999888777

>PRK07440 hypothetical protein; Provisional

Probab=96.83  E-value=0.016  Score=33.84  Aligned_cols=68  Identities=18%  Similarity=0.169  Sum_probs=51.8

Q ss_pred             CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ++|+|.|   +|+.  +.+....++..|.+    ..+++.+.+-.-.||+-|..++= ++.-+.+||.|+++.--.||
T Consensus         3 ~~m~i~v---NG~~--~~~~~~~tl~~lL~----~l~~~~~~vav~~N~~iv~r~~w-~~~~L~~gD~IEIv~~v~GG   70 (70)
T PRK07440          3 NPITLQV---NGET--RTCSSGTSLPDLLQ----QLGFNPRLVAVEYNGEILHRQFW-EQTQVQPGDRLEIVTIVGGG   70 (70)
T ss_pred             CceEEEE---CCEE--EEcCCCCCHHHHHH----HcCCCCCeEEEEECCEEeCHHHc-CceecCCCCEEEEEEEecCC
Confidence            3577776   5665  55566777887775    56888999999999999985433 33459999999999988887

>PRK06488 sulfur carrier protein ThiS; Validated

Probab=96.74  E-value=0.015  Score=33.18  Aligned_cols=60  Identities=20%  Similarity=0.183  Sum_probs=45.0

Q ss_pred             CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +|+.+.+  . .+++..|.+.+    +++.+.+..-.||+-+...+ -.+.-+.|||.|+++.--.||
T Consensus         6 Ng~~~~~--~-~~tl~~Ll~~l----~~~~~~vavavN~~iv~~~~-~~~~~L~dgD~Ieiv~~V~GG   65 (65)
T PRK06488          6 NGETLQT--E-ATTLALLLAEL----DYEGNWLATAVNGELVHKEA-RAQFVLHEGDRIEILSPMQGG   65 (65)
T ss_pred             CCeEEEc--C-cCcHHHHHHHc----CCCCCeEEEEECCEEcCHHH-cCccccCCCCEEEEEEeccCC
Confidence            6776665  3 45788887654    67777888999999998432 234569999999999988887

>PRK06437 hypothetical protein; Provisional

Probab=96.74  E-value=0.02  Score=33.14  Aligned_cols=58  Identities=10%  Similarity=0.215  Sum_probs=48.1

Q ss_pred             CCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           23 NDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        23 ~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +++..+.+...++++.|.+.    .|++.+.+-...||..+.     .+.-+.+||.|+++.--.||
T Consensus        10 ~~~~~~~i~~~~tv~dLL~~----Lgi~~~~vaV~vNg~iv~-----~~~~L~dgD~Veiv~~V~GG   67 (67)
T PRK06437         10 HINKTIEIDHELTVNDIIKD----LGLDEEEYVVIVNGSPVL-----EDHNVKKEDDVLILEVFSGG   67 (67)
T ss_pred             CcceEEEcCCCCcHHHHHHH----cCCCCccEEEEECCEECC-----CceEcCCCCEEEEEecccCC
Confidence            35567888888888888865    488889999999999996     56678899999999888887

>cd00754 MoaD Ubiquitin domain of MoaD-like proteins

Probab=96.72  E-value=0.012  Score=34.28  Aligned_cols=60  Identities=20%  Similarity=0.200  Sum_probs=49.2

Q ss_pred             EEEEEEeccchHHHHHHHHHhhhCC----CCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           25 PLYFEFRRDWEIKKLLITYCEKKDA----QYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        25 ~~~f~i~~~t~l~kL~~~y~~~~g~----~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ...+.+...+++..|.+..+++++-    ....+.+..||+.+.     .+.-+.|||.|.++.--.||
T Consensus        17 ~~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~-----~~~~l~~gD~v~i~ppv~GG   80 (80)
T cd00754          17 EEELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVR-----LDTPLKDGDEVAIIPPVSGG   80 (80)
T ss_pred             eEEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcC-----CCcccCCCCEEEEeCCCCCC
Confidence            4566776788999999999988653    456889999999998     34459999999999988887

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.

>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain

Probab=96.67  E-value=0.047  Score=33.08  Aligned_cols=72  Identities=13%  Similarity=0.101  Sum_probs=55.8

Q ss_pred             CCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECC--eecC--------CCCCccccCCCCCCEE
Q 048514           11 QHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLING--NRFP--------HIRTPDQLGLKDGDEI   80 (89)
Q Consensus        11 ~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG--~~l~--------~~~Tp~~l~medgD~I   80 (89)
                      +..++|.++-.+|..+.-+...+++++.|++.... .+..+..+.+..+=  +.+.        .+.|.+++||....++
T Consensus         2 ~~~~~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~-~~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~L   80 (85)
T cd01774           2 PDTVKIVFKLPNGTRVERRFLFTQSLRVIHDFLFS-LKETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEVL   80 (85)
T ss_pred             CceEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-CCCCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccEE
Confidence            35677888889999999999999999999998853 44455778877753  5554        3679999999988877


Q ss_pred             EEE
Q 048514           81 VAT   83 (89)
Q Consensus        81 dv~   83 (89)
                      -|.
T Consensus        81 ~V~   83 (85)
T cd01774          81 FVQ   83 (85)
T ss_pred             EEe
Confidence            653

Faf1_like2 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.

>PRK05659 sulfur carrier protein ThiS; Validated

Probab=96.53  E-value=0.028  Score=31.90  Aligned_cols=61  Identities=20%  Similarity=0.333  Sum_probs=46.2

Q ss_pred             CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +|+.  +.+...+++..|.+.    .+++...+-...||.-+....-+ +--++|||.|+++.--.||
T Consensus         6 NG~~--~~~~~~~tl~~lL~~----l~~~~~~vav~vNg~iv~r~~~~-~~~l~~gD~vei~~~vgGG   66 (66)
T PRK05659          6 NGEP--RELPDGESVAALLAR----EGLAGRRVAVEVNGEIVPRSQHA-STALREGDVVEIVHALGGG   66 (66)
T ss_pred             CCeE--EEcCCCCCHHHHHHh----cCCCCCeEEEEECCeEeCHHHcC-cccCCCCCEEEEEEEecCC
Confidence            5665  455566778777754    68888888899999888865433 3449999999999888887

>smart00166 UBX Domain present in ubiquitin-regulatory proteins

Probab=96.48  E-value=0.065  Score=31.64  Aligned_cols=71  Identities=14%  Similarity=0.113  Sum_probs=54.9

Q ss_pred             CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC--CeecCC---CCCccccCCCCCCEEEE
Q 048514           12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN--GNRFPH---IRTPDQLGLKDGDEIVA   82 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l~~---~~Tp~~l~medgD~Idv   82 (89)
                      +..+|.|+-.+|..+.-+...+++++.|++......+.....+.|.-.  -+.+..   +.|..++|+-...++-|
T Consensus         3 ~~~~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~~~~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p~~~l~v   78 (80)
T smart00166        3 DQCRLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALTDGNDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLVL   78 (80)
T ss_pred             CeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHcccCCCCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEEE
Confidence            456778887999999999999999999999986666666666776543  555553   46999999988877765

Present in FAF1 and Shp1p.

>PRK06944 sulfur carrier protein ThiS; Provisional

Probab=96.43  E-value=0.044  Score=30.94  Aligned_cols=60  Identities=17%  Similarity=0.281  Sum_probs=42.8

Q ss_pred             CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +|+.  +.+...+++..|.+.+.    +. ..+.+..||..+...+ -.+--+.+||.|+++.--.||
T Consensus         6 Ng~~--~~~~~~~tl~~ll~~l~----~~-~~~~v~vN~~~v~~~~-~~~~~L~~gD~vei~~~v~GG   65 (65)
T PRK06944          6 NQQT--LSLPDGATVADALAAYG----AR-PPFAVAVNGDFVARTQ-HAARALAAGDRLDLVQPVAGG   65 (65)
T ss_pred             CCEE--EECCCCCcHHHHHHhhC----CC-CCeEEEECCEEcCchh-cccccCCCCCEEEEEeeccCC
Confidence            5555  45556678888887663    32 4578899999987542 222339999999999888887

>PRK05863 sulfur carrier protein ThiS; Provisional

Probab=96.32  E-value=0.029  Score=32.15  Aligned_cols=60  Identities=13%  Similarity=0.166  Sum_probs=45.5

Q ss_pred             CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +|+.  +.+....++..|.+.    .+++.+.+-..++|.-|...+=.. . +.|||.|+++.--.||
T Consensus         6 NG~~--~~~~~~~tl~~ll~~----l~~~~~~vav~~N~~iv~r~~~~~-~-L~~gD~ieIv~~VgGG   65 (65)
T PRK05863          6 NEEQ--VEVDEQTTVAALLDS----LGFPEKGIAVAVDWSVLPRSDWAT-K-LRDGARLEVVTAVQGG   65 (65)
T ss_pred             CCEE--EEcCCCCcHHHHHHH----cCCCCCcEEEEECCcCcChhHhhh-h-cCCCCEEEEEeeccCC
Confidence            5665  444566777777764    588999999999999777544332 3 8999999999888887

>COG5417 Uncharacterized small protein [Function unknown]

Probab=96.26  E-value=0.073  Score=32.00  Aligned_cols=69  Identities=12%  Similarity=0.089  Sum_probs=57.2

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC-----CcEeEEECCeecCCCCCccccCCCCCCEEEE
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY-----GTFPFLINGNRFPHIRTPDQLGLKDGDEIVA   82 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~-----~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv   82 (89)
                      +++-+...+|.+.-+++.-.-|.++|.+-..+...++.     ..+|..-.++-+++++-..+.++.|||.++.
T Consensus         7 VTvD~t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Lei   80 (81)
T COG5417           7 VTVDFTNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI   80 (81)
T ss_pred             EEEEeEecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEe
Confidence            44445667889999999999999999998887666642     4578888899999999999999999998874

>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]

Probab=96.24  E-value=0.014  Score=43.90  Aligned_cols=57  Identities=14%  Similarity=0.137  Sum_probs=48.4

Q ss_pred             EEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEE
Q 048514           25 PLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIV   81 (89)
Q Consensus        25 ~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Id   81 (89)
                      .+.+.|+.++.+..|.+..+.+.|++.+.++.+|.|+.|+.+-|.+.-+|.---..+
T Consensus        15 ~l~v~v~~~t~I~~lke~Vak~~gvp~D~L~viFaGKeLs~~ttv~~cDL~qqs~~h   71 (446)
T KOG0006|consen   15 GLPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELSNDTTVQNCDLSQQSATH   71 (446)
T ss_pred             ceeEEEecCCCHHHHHHHHHHhhCCChhheEEEEeccccccCceeecccccccchhh
Confidence            467889999999999999999999999999999999999999999944444333333

>smart00455 RBD Raf-like Ras-binding domain

Probab=96.18  E-value=0.05  Score=31.86  Aligned_cols=57  Identities=14%  Similarity=0.097  Sum_probs=44.3

Q ss_pred             EEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECC--eecCCCCCcccc
Q 048514           16 LVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLING--NRFPHIRTPDQL   72 (89)
Q Consensus        16 i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG--~~l~~~~Tp~~l   72 (89)
                      .+|.-++|+.....+++..++..+...-|+++|+.+..+.++.-|  ++|.-++-...|
T Consensus         2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~l~~~~~~v~~~g~~k~ldl~~~~~~l   60 (70)
T smart00455        2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKKRGLNPECCVVRLRGEKKPLDLNQPISSL   60 (70)
T ss_pred             eEEECCCCCEEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCcceecCCccccc
Confidence            345557999999999999999999999999999999888877754  344433333333

>PRK06083 sulfur carrier protein ThiS; Provisional

Probab=96.10  E-value=0.072  Score=32.33  Aligned_cols=67  Identities=15%  Similarity=0.189  Sum_probs=50.6

Q ss_pred             cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      .|+|.|   +|+.  +.+....++..|.+.    .+++...+-.-.||.-|... .-++.-+.+||.|+++.--.||
T Consensus        18 ~m~I~V---NG~~--~~~~~~~tl~~LL~~----l~~~~~~vAVevNg~iVpr~-~w~~t~L~egD~IEIv~~VgGG   84 (84)
T PRK06083         18 LITISI---NDQS--IQVDISSSLAQIIAQ----LSLPELGCVFAINNQVVPRS-EWQSTVLSSGDAISLFQAIAGG   84 (84)
T ss_pred             eEEEEE---CCeE--EEcCCCCcHHHHHHH----cCCCCceEEEEECCEEeCHH-HcCcccCCCCCEEEEEEEecCC
Confidence            344444   6766  445666778888775    47888999999999999743 3445569999999999988887

>cd01767 UBX UBX (ubiquitin regulatory X) domain

Probab=96.01  E-value=0.14  Score=29.94  Aligned_cols=67  Identities=10%  Similarity=0.069  Sum_probs=49.3

Q ss_pred             cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC--CeecC---CCCCccccCCCCCCEE
Q 048514           13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN--GNRFP---HIRTPDQLGLKDGDEI   80 (89)
Q Consensus        13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l~---~~~Tp~~l~medgD~I   80 (89)
                      ..+|.|+-.+|..+.-+...+++++.|++....... +...+.|+-.  .+.+.   .+.|.+++|+...-++
T Consensus         2 ~t~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~-~~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~~s~~~   73 (77)
T cd01767           2 TTKIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGP-PAEPFTLMTSFPRRVLTDLDYELTLQEAGLVNEVVF   73 (77)
T ss_pred             cEEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCC-CCCCEEEEeCCCCccCCCCCccCcHHHcCCccceEE
Confidence            456778888999998999999999999987754433 2556666644  55554   4789999999954433

The UBX (ubiquitin regulatory X) domain has a beta-grasp fold that is structurally quite similar to ubiquitin although UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins. Most UBX-containing proteins including p47, FAF1, and SAKS1 (Y33K) also contain a UBA (ubiquitin-associated) domain and are thought to serve as adaptor molecules that shuttle proteins to the proteasome for degradation.

>PRK08053 sulfur carrier protein ThiS; Provisional

Probab=95.98  E-value=0.092  Score=30.02  Aligned_cols=61  Identities=20%  Similarity=0.239  Sum_probs=45.4

Q ss_pred             CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +|+.  +.+....++..|.+.    .+.+...+.+-.||+-|..+ .-++.-+.+||.|+++.--.||
T Consensus         6 Ng~~--~~~~~~~tl~~ll~~----l~~~~~~vaVavN~~iv~r~-~w~~~~L~~gD~Ieii~~v~GG   66 (66)
T PRK08053          6 NDQP--MQCAAGQTVHELLEQ----LNQLQPGAALAINQQIIPRE-QWAQHIVQDGDQILLFQVIAGG   66 (66)
T ss_pred             CCeE--EEcCCCCCHHHHHHH----cCCCCCcEEEEECCEEeChH-HcCccccCCCCEEEEEEEccCC
Confidence            6665  444566678887754    56667789999999999743 2333459999999999988887

>TIGR01687 moaD_arch MoaD family protein, archaeal

Probab=95.83  E-value=0.092  Score=31.30  Aligned_cols=62  Identities=19%  Similarity=0.152  Sum_probs=47.7

Q ss_pred             CEEEEEEeccchHHHHHHHHHhhhCC-----------CCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           24 DPLYFEFRRDWEIKKLLITYCEKKDA-----------QYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        24 ~~~~f~i~~~t~l~kL~~~y~~~~g~-----------~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      .+..+.+. .++++.|++..++++.-           ....+.+..||+.+..++.   .-++|||+|.++.--.||
T Consensus        16 ~~~~v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~~~~---~~l~dgdev~i~PpvsGG   88 (88)
T TIGR01687        16 KSEEIEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDWGLG---TELKDGDVVAIFPPVSGG   88 (88)
T ss_pred             ceEEEEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCccCC---CCCCCCCEEEEeCCCcCC
Confidence            34566665 78999999999887642           0135889999999986532   569999999999888887

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.

>PF13019 Telomere_Sde2: Telomere stability and silencing

Probab=95.68  E-value=0.1  Score=35.45  Aligned_cols=76  Identities=16%  Similarity=0.190  Sum_probs=56.0

Q ss_pred             EEEEEEecCC----CEEEEEEeccchHHHHHHHHHhhhCCCCCc-EeEEEC-CeecCC-CCCc-cccCCCCCC----EEE
Q 048514           14 INLVVKGQDN----DPLYFEFRRDWEIKKLLITYCEKKDAQYGT-FPFLIN-GNRFPH-IRTP-DQLGLKDGD----EIV   81 (89)
Q Consensus        14 I~i~v~~~~~----~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~-~rF~fd-G~~l~~-~~Tp-~~l~medgD----~Id   81 (89)
                      |+|-|.+.+|    ..+.|.+..++++..|++...+..+++... +.|++. |..|.. .+++ .++.-.+.|    .+.
T Consensus         1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~~~~~~~~l~   80 (162)
T PF13019_consen    1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTNSNGQLSPSSDIPLSSLLSSSQDSDFITLR   80 (162)
T ss_pred             CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEeCCCeeCCCccccHHhhccCcCCCCceEEE
Confidence            5788888888    578999999999999999999999998765 556664 555543 3333 344444444    478


Q ss_pred             EEeeecCC
Q 048514           82 ATFYAGGA   89 (89)
Q Consensus        82 v~~~q~GG   89 (89)
                      +.....||
T Consensus        81 l~~rl~GG   88 (162)
T PF13019_consen   81 LSLRLRGG   88 (162)
T ss_pred             EEEeccCC
Confidence            88888887

>PRK07696 sulfur carrier protein ThiS; Provisional

Probab=95.67  E-value=0.14  Score=29.47  Aligned_cols=61  Identities=16%  Similarity=0.245  Sum_probs=45.1

Q ss_pred             CCCEEEEEEecc-chHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           22 DNDPLYFEFRRD-WEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        22 ~~~~~~f~i~~~-t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +|+..  .+... +++..|.+    ..+++...+-.-.||+-|..++= ++.-+.+||.|+++.--.||
T Consensus         6 NG~~~--~~~~~~~tv~~lL~----~l~~~~~~vav~vN~~iv~r~~w-~~~~L~~gD~iEIv~~VgGG   67 (67)
T PRK07696          6 NGNQI--EVPESVKTVAELLT----HLELDNKIVVVERNKDILQKDDH-TDTSVFDGDQIEIVTFVGGG   67 (67)
T ss_pred             CCEEE--EcCCCcccHHHHHH----HcCCCCCeEEEEECCEEeCHHHc-CceecCCCCEEEEEEEecCC
Confidence            56654  44444 46766664    56888899999999999986532 23448999999999988887

>cd01771 Faf1_UBX Faf1 UBX domain

Probab=95.48  E-value=0.25  Score=29.56  Aligned_cols=71  Identities=18%  Similarity=0.128  Sum_probs=54.5

Q ss_pred             CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC--Ceec---CCCCCccccCCCCCCEEEEE
Q 048514           12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN--GNRF---PHIRTPDQLGLKDGDEIVAT   83 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l---~~~~Tp~~l~medgD~Idv~   83 (89)
                      +.++|.++-.+|..+.-+...+++|+.|++.... .|.+...+++.-.  =+.+   ..+.|.+++||-...++-|-
T Consensus         3 ~~~~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~-~~~~~~~f~L~t~fPRk~~~~~d~~~TL~e~gL~p~~~L~Ve   78 (80)
T cd01771           3 PISKLRVRTPSGDFLERRFLGDTPLQVLLNFVAS-KGYPIDEYKLLSSWPRRDLTQLDPNFTLLELKLYPQETLILE   78 (80)
T ss_pred             CeEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCCCCcCCCCCCcHHHcCCCCCcEEEEE
Confidence            4677888889999999999999999999988865 3666677777533  2333   34579999999988887663

Faf1 (fas-associated factor1) is a nucleolar protein that was first identified as an interaction partner of the death receptor Fas. Faf1 contains N-terminal UAS (ubiquitin-associated) and C-terminal UBX (ubiquitin-like) domains and is closely related to other UBA/UBX-containing proteins like p47, Rep8 and SAKS1. Faf1 is thought to be involved in 18S rRNA synthesis and/or 40S ribosomal subunit assembly. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.

>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain

Probab=95.47  E-value=0.068  Score=32.73  Aligned_cols=50  Identities=10%  Similarity=0.133  Sum_probs=42.1

Q ss_pred             EEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC---CcEeEEE---CCeecC
Q 048514           15 NLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY---GTFPFLI---NGNRFP   64 (89)
Q Consensus        15 ~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~---~~~rF~f---dG~~l~   64 (89)
                      ..|+++..|+.+.|++.++..+..|+...+++.|++.   +.+.+.|   +|..+.
T Consensus         2 ~FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~YlDDEgD~Vl   57 (86)
T cd06409           2 AFKFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSYVDDEGDIVL   57 (86)
T ss_pred             cEEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEEEcCCCCEEE
Confidence            3677888999999999999999999999999999986   5778877   355443

The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is

>cd01770 p47_UBX p47-like ubiquitin domain

Probab=95.45  E-value=0.22  Score=29.70  Aligned_cols=68  Identities=9%  Similarity=0.111  Sum_probs=51.1

Q ss_pred             cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCC-CCCcEeEE--ECCeecCC-CCCccccCCCCCCEE
Q 048514           13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDA-QYGTFPFL--INGNRFPH-IRTPDQLGLKDGDEI   80 (89)
Q Consensus        13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~-~~~~~rF~--fdG~~l~~-~~Tp~~l~medgD~I   80 (89)
                      ..+|.|+-.||+.+.-++..+++++.|++......+. ....+.+.  |=.+.+.+ +.|.+++||.+.-++
T Consensus         4 ~t~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s~v~   75 (79)
T cd01770           4 TTSIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKELSDESLTLKEANLLNAVIV   75 (79)
T ss_pred             eeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcccCCCCCcHHHCCCcCcEEE
Confidence            4667777789999999999999999999887765533 34566665  55666664 779999999875443

p47_UBX p47 is an adaptor molecule of the cytosolic AAA ATPase p97. The principal role of the p97-p47 complex is to regulate membrane fusion events. Mono-ubiquitin recognition by p47 is crucial for p97-p47-mediated Golgi membrane fusion events. p47 has carboxy-terminal SEP and UBX domains. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.

>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein

Probab=95.29  E-value=0.098  Score=29.71  Aligned_cols=61  Identities=23%  Similarity=0.318  Sum_probs=44.8

Q ss_pred             CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +|+.  +.+....++..|.+.+    +++.+.+....||+.+..++= .+.-+.+||.|+++.--.||
T Consensus         5 Ng~~--~~~~~~~tv~~ll~~l----~~~~~~i~V~vNg~~v~~~~~-~~~~L~~gD~V~ii~~v~GG   65 (65)
T cd00565           5 NGEP--REVEEGATLAELLEEL----GLDPRGVAVALNGEIVPRSEW-ASTPLQDGDRIEIVTAVGGG   65 (65)
T ss_pred             CCeE--EEcCCCCCHHHHHHHc----CCCCCcEEEEECCEEcCHHHc-CceecCCCCEEEEEEeccCC
Confidence            4544  4555667788777655    577888999999999976531 12349999999999888887

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.

>PF12436 USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-specific protease 7; InterPro: IPR024729 This domain is found in eukaryotes, and is approximately 40 amino acids in length

Probab=95.11  E-value=0.073  Score=38.01  Aligned_cols=76  Identities=18%  Similarity=0.116  Sum_probs=51.3

Q ss_pred             CCCcEEEEEEe--cCCCEE----EEEEeccchHHHHHHHHHhhhCCCCCcEeEEECC------eecCCCCCccccCCCCC
Q 048514           10 DQHFINLVVKG--QDNDPL----YFEFRRDWEIKKLLITYCEKKDAQYGTFPFLING------NRFPHIRTPDQLGLKDG   77 (89)
Q Consensus        10 ~~~~I~i~v~~--~~~~~~----~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG------~~l~~~~Tp~~l~medg   77 (89)
                      ....|.|.++-  ...+.+    ++-|..+++++.|....+++.|++.++=-.+|.-      +.|..+.|....++.||
T Consensus        65 ~~~~iLlFlK~fDp~~q~L~~iGh~~v~~~~~v~~l~~~i~~~~g~p~~t~l~lyEEi~~~~ie~i~~~~t~~~~el~~G  144 (249)
T PF12436_consen   65 PSDDILLFLKYFDPETQTLRYIGHVYVPKNDKVSELVPLINERAGLPPDTPLLLYEEIKPNMIEPIDPNQTFEKAELQDG  144 (249)
T ss_dssp             TTTEEEEEEEEEETTTTEEEEEEEEEEETT-BGGGTHHHHHHHHT--TT--EEEEEEEETTEEEE--SSSBHHHTT--TT
T ss_pred             CCCcEEEEEEeeCCCCCEEEEEeEEEECCCCCHHHHHHHHHHHcCCCCCCceEEEEEeccceeeEcCCCCchhhcccCCC
Confidence            34466666654  445555    7899999999999999999999987654444542      56789999999999999


Q ss_pred             CEEEEEee
Q 048514           78 DEIVATFY   85 (89)
Q Consensus        78 D~Idv~~~   85 (89)
                      |+|-+...
T Consensus       145 dIi~fQ~~  152 (249)
T PF12436_consen  145 DIICFQRA  152 (249)
T ss_dssp             EEEEEEE-
T ss_pred             CEEEEEec
Confidence            99877654

It is found in proteins of the peptidase C19 family, which contains contains ubiquitinyl hydrolases like ubiquitin-specific protease 7 (USP7). USP7 regulates the turnover of p53 [].; PDB: 2KVR_A 2YLM_A.

>cd01811 OASL_repeat1 2'-5' oligoadenylate synthetase-like protein, repeat 1 of 2

Probab=95.02  E-value=0.32  Score=29.24  Aligned_cols=69  Identities=10%  Similarity=0.108  Sum_probs=53.2

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC---Ce--ecCCCCCccccCCCCCCEEEEE
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN---GN--RFPHIRTPDQLGLKDGDEIVAT   83 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd---G~--~l~~~~Tp~~l~medgD~Idv~   83 (89)
                      |.+.|.--......++|+|.+|+.||.+......+.+- ..|+.|.   |+  .|+...|.+++|+=..-.|-+.
T Consensus         1 iqVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~~~g-~qrLsfQepgg~rqlL~s~~sLA~yGiFs~~~i~ll   74 (80)
T cd01811           1 IQVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRNCSG-LQRLSFQEPGGERQLLSSRKSLADYGIFSKTNICLL   74 (80)
T ss_pred             CEEEeeecCCCceEEEeCCcchHHHHHHHHHHhhCccc-ceEEEeecCCcccccccccccHhhhcceeccEEEEE
Confidence            35566543456789999999999999999999999866 7788884   33  4667889999998776666543

OASL_repeat1 (2'-5' oligoadenylate synthetase-like protein) belongs to a family of interferon-induced 2'-5' oligoadenylate synthetases which are important for the antiviral activity of interferons. While each member of this famliy has a conserved N-terminal OAS catalytic domain, only OASL has two tandem ubiquitin-like repeats located at the C-terminus and this CD represents one of those repeats.

>TIGR01683 thiS thiamine biosynthesis protein ThiS

Probab=95.01  E-value=0.19  Score=28.47  Aligned_cols=61  Identities=25%  Similarity=0.389  Sum_probs=45.2

Q ss_pred             CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +|+.  +.+...+++..|.+.    .+++++.+.+..||+-+..++ ..+.-+.|||.|+++.--.||
T Consensus         4 Ng~~--~~~~~~~tv~~ll~~----l~~~~~~v~v~vN~~iv~~~~-~~~~~L~~gD~veii~~V~GG   64 (64)
T TIGR01683         4 NGEP--VEVEDGLTLAALLES----LGLDPRRVAVAVNGEIVPRSE-WDDTILKEGDRIEIVTFVGGG   64 (64)
T ss_pred             CCeE--EEcCCCCcHHHHHHH----cCCCCCeEEEEECCEEcCHHH-cCceecCCCCEEEEEEeccCC
Confidence            4554  444566678777764    467778899999999997443 233469999999999888887

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.

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

Probab=94.98  E-value=0.3  Score=28.64  Aligned_cols=60  Identities=15%  Similarity=0.160  Sum_probs=47.7

Q ss_pred             EEEEEEecc-chHHHHHHHHHhhhC-C--CCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           25 PLYFEFRRD-WEIKKLLITYCEKKD-A--QYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        25 ~~~f~i~~~-t~l~kL~~~y~~~~g-~--~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ...+.+... +++..|.+..++++. +  ..+.+++..||+.+..     +.-++|||+|.++.--.||
T Consensus        17 ~~~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~~-----~~~l~dgDevai~PpvsGG   80 (80)
T TIGR01682        17 EETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVTD-----DALLNEGDEVAFIPPVSGG   80 (80)
T ss_pred             eEEEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcCC-----CcCcCCCCEEEEeCCCCCC
Confidence            346777766 899999999998875 2  2356789999999884     5689999999999887777

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

>cd01760 RBD Ubiquitin-like domain of RBD-like S/T kinases

Probab=94.91  E-value=0.26  Score=29.05  Aligned_cols=44  Identities=11%  Similarity=0.151  Sum_probs=37.5

Q ss_pred             EEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC
Q 048514           16 LVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN   59 (89)
Q Consensus        16 i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd   59 (89)
                      ++|.-+||+.....+++..++..+...-|+++|++++...+++-
T Consensus         2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~l~~~~~~v~~~   45 (72)
T cd01760           2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRGLNPECCDVFLL   45 (72)
T ss_pred             EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEe
Confidence            35556899999999999999999999999999999877655554

The ras-binding domain (RBD) of the serine/threonine kinase raf is structurally quite similar to the beta-grasp fold of ubiquitin. A raf-like RBD is also present in RGS12 and other members of a family of GTPase activating proteins and TIAM1, a guanine nucleotide exchange protein.

>PLN02799 Molybdopterin synthase sulfur carrier subunit

Probab=94.87  E-value=0.14  Score=30.24  Aligned_cols=61  Identities=18%  Similarity=0.193  Sum_probs=45.7

Q ss_pred             CEEEEEEeccchHHHHHHHHHhhh-CCC--CCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           24 DPLYFEFRRDWEIKKLLITYCEKK-DAQ--YGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        24 ~~~~f~i~~~t~l~kL~~~y~~~~-g~~--~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +...+.+...+++..|.+....++ ++.  ...+.+..||+.+.     .+.-++|||+|.++.--.||
T Consensus        19 ~~~~~~~~~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~~v~-----~~~~l~dgDeVai~PpvsGG   82 (82)
T PLN02799         19 SDMTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEEYTT-----ESAALKDGDELAIIPPISGG   82 (82)
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHChhHHHHhhCcEEEECCEEcC-----CCcCcCCCCEEEEeCCCCCC
Confidence            456777778889999999887765 222  14467888999874     44468999999999887777

>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]

Probab=94.83  E-value=0.016  Score=33.95  Aligned_cols=71  Identities=13%  Similarity=0.088  Sum_probs=59.9

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   84 (89)
                      |.+.+.+.=|+.+.++..+++++..+....|.+.|-.++.+++.=-+.-+.+.-|.++++|.||--++.+.
T Consensus         2 iev~~nDrLGKKVRvKCn~dDtiGD~KKliaaQtGT~~~kivl~k~~~i~kd~I~L~dyeihdg~~lelyy   72 (73)
T KOG3493|consen    2 IEVVLNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHITLSDYEIHDGMNLELYY   72 (73)
T ss_pred             ceehhhhhcCceEEEEeCCcccccCHHHHHHHhhCCChhHhHHHhhhhhhhcccceeeEEeccCccEEEee
Confidence            44555566689999999999999999999999999999988887556667788899999999998887764

>cd01788 ElonginB Ubiquitin-like domain of Elongin B

Probab=94.65  E-value=0.41  Score=30.92  Aligned_cols=60  Identities=7%  Similarity=0.077  Sum_probs=52.9

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCC
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGL   74 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~m   74 (89)
                      +.|.|+ .....++...+.+++.-.|++....-...+++..|++-+++-|.++.|..+.|.
T Consensus         3 vFlmIr-R~KTTiF~dakes~tVlelK~~iegI~k~pp~dQrL~kd~qvLeD~kTL~d~g~   62 (119)
T cd01788           3 VFLMIR-RHKTTIFTDAKESTTVYELKRIVEGILKRPPEDQRLYKDDQLLDDGKTLGDCGF   62 (119)
T ss_pred             eEEEEE-ecceEEEeecCCcccHHHHHHHHHHHhcCChhHheeecCceeecccccHHHcCc
Confidence            345555 356678899999999999999999999999999999988899999999999999

Elongin B is part of an E3 ubiquitin ligase complex called VEC that activates ubiquitylation by the E2 ubiquitin-conjugating enzyme Ubc5. VEC is composed of von Hippel-Lindau tumor suppressor protein (pVHL), elongin C, cullin 2, NEDD8, and Rbx1. ElonginB binds elonginC to form the elonginBC complex which is a positive regulator of RNA polymerase II elongation factor Elongin A. The BC complex then binds VHL (von Hippel-Lindau) tumour suppressor protein to form a VCB ternary complex. Elongin B has a ubiquitin-llike domain.

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

Probab=94.56  E-value=0.13  Score=29.50  Aligned_cols=63  Identities=22%  Similarity=0.256  Sum_probs=52.2

Q ss_pred             EEEEEEeccchHHHHHHHHHhhhCC--CCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           25 PLYFEFRRDWEIKKLLITYCEKKDA--QYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        25 ~~~f~i~~~t~l~kL~~~y~~~~g~--~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      .....+....+++.|.+..+.++.-  ....+.+..||+.+..  .-.+.-+.+||.|.++.--.||
T Consensus        13 ~~~~~~~~~~tv~~ll~~l~~~~p~~~~~~~~~v~vN~~~v~~--~~~~~~l~~gD~V~i~ppvsGG   77 (77)
T PF02597_consen   13 EEEIEVPEGSTVRDLLEALAERYPELALRDRVAVAVNGEIVPD--DGLDTPLKDGDEVAILPPVSGG   77 (77)
T ss_dssp             EEEEEESSTSBHHHHHHHHCHHTGGGHTTTTEEEEETTEEEGG--GTTTSBEETTEEEEEEESTSTS
T ss_pred             CeEEecCCCCcHHHHHHHHHhhccccccCccEEEEECCEEcCC--ccCCcCcCCCCEEEEECCCCCC
Confidence            5677888899999999999887742  3478999999999998  3556677999999999888887

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 ....

>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium)

Probab=94.51  E-value=0.2  Score=30.18  Aligned_cols=44  Identities=9%  Similarity=0.260  Sum_probs=37.4

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC-CcEeEEE
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY-GTFPFLI   58 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~-~~~rF~f   58 (89)
                      ++||+. .++..+.|++.++..+..|.+..+++++++. ..+.+.|
T Consensus         1 ~~vK~~-~~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY   45 (82)
T cd06407           1 VRVKAT-YGEEKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKY   45 (82)
T ss_pred             CEEEEE-eCCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEE
Confidence            356665 4677889999999999999999999999975 7888888

The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-inte

>smart00666 PB1 PB1 domain

Probab=94.44  E-value=0.25  Score=28.80  Aligned_cols=45  Identities=9%  Similarity=0.173  Sum_probs=38.3

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN   59 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd   59 (89)
                      +++++.. .+....|.+.+..++..|..+.+++++++.+.+++.|-
T Consensus         2 ~~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~   46 (81)
T smart00666        2 VDVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQ   46 (81)
T ss_pred             ccEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEE
Confidence            5677764 56667899999999999999999999998788888885

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.

>cd01772 SAKS1_UBX SAKS1-like UBX domain

Probab=94.44  E-value=0.56  Score=27.72  Aligned_cols=70  Identities=14%  Similarity=0.198  Sum_probs=52.5

Q ss_pred             cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC--CeecCC---CCCccccCCCCCCEEEEE
Q 048514           13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN--GNRFPH---IRTPDQLGLKDGDEIVAT   83 (89)
Q Consensus        13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l~~---~~Tp~~l~medgD~Idv~   83 (89)
                      ..+|.|+-.+|..+.-+...+++++.|++......+- ...+.|.-.  -+.+..   +.|.+++||-...++-|.
T Consensus         4 ~~~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~~-~~~f~L~t~fPrk~~~~~d~~~TL~elgL~Psa~L~v~   78 (79)
T cd01772           4 ETRIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTGN-GGPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIVT   78 (79)
T ss_pred             EEEEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCCC-CCCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEEe
Confidence            4567777789999988999999999999988765443 245555544  555543   579999999988877653

SAKS1 (SAPK-substrate-1), also known as Y33K, is a widely expressed protein containing N-terminal UBA (ubiquitin-associated) and C-terminal UBX (ubiqiutin-like) domains that was identified as a substrate of stress-activated protein kinases (SAPKs). SAKS1 is related evolutionarily to two other UBA/UBX-containing proteins, p47 and Faf1. The UBA and UBX domains of SAKS1 bind ubiquitin tetramers and valosin-containing protein (VCP), respectively suggesting a role for SAKS1 as an adaptor that directs VCP to polyubiquitinated proteins facilitating its destruction by the proteasome. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.

>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis

Probab=93.94  E-value=0.18  Score=30.51  Aligned_cols=45  Identities=11%  Similarity=0.059  Sum_probs=38.6

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECC
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLING   60 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG   60 (89)
                      ..|||.-. . .+.++|.+.-+++.|.++.+++.+++.+.+.+.|.-
T Consensus         3 ~vvKV~f~-~-tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYkd   47 (80)
T cd06406           3 YVVKVHFK-Y-TVAIQVARGLSYATLLQKISSKLELPAEHITLSYKS   47 (80)
T ss_pred             eEEEEEEE-E-EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEecc
Confidence            45666643 3 789999999999999999999999999999999964

PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes . A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The p67 proteins contain

>cd01773 Faf1_like1_UBX Faf1 ike-1 UBX domain

Probab=93.82  E-value=0.86  Score=27.58  Aligned_cols=72  Identities=14%  Similarity=0.113  Sum_probs=54.6

Q ss_pred             CCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC--Ceec---CCCCCccccCCCCCCEEEEE
Q 048514           11 QHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN--GNRF---PHIRTPDQLGLKDGDEIVAT   83 (89)
Q Consensus        11 ~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l---~~~~Tp~~l~medgD~Idv~   83 (89)
                      .+.-+|.|+-.+|+.+.-+...+++|+.|+..... .|.+...+.++-+  =+.+   ..+.|.+++||-.-.++-|.
T Consensus         3 ~~~t~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~-~g~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~~~LfVq   79 (82)
T cd01773           3 GPKARLMLRYPDGKREQIALPEQAKLLALVRHVQS-KGYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQ   79 (82)
T ss_pred             CCeeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEEEe
Confidence            34556777778999999999999999999986655 6777787877744  2222   23479999999999988764

Faf1_like1 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.

>cd06408 PB1_NoxR The PB1 domain is present in the Epichloe festucae NoxR protein (NADPH oxidase regulator), a key regulator of NADPH oxidase isoform, NoxA

Probab=93.17  E-value=0.7  Score=28.29  Aligned_cols=45  Identities=13%  Similarity=0.113  Sum_probs=38.3

Q ss_pred             cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC
Q 048514           13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN   59 (89)
Q Consensus        13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd   59 (89)
                      .|+|+|. ..+..+.+.|.++..|+.|.+...+++++. ..+++.|-
T Consensus         2 ~ikVKv~-~~~Dv~~i~v~~~i~f~dL~~kIrdkf~~~-~~~~iKyk   46 (86)
T cd06408           2 KIRVKVH-AQDDTRYIMIGPDTGFADFEDKIRDKFGFK-RRLKIKMK   46 (86)
T ss_pred             cEEEEEE-ecCcEEEEEcCCCCCHHHHHHHHHHHhCCC-CceEEEEE
Confidence            5788887 477888999999999999999999999995 56766664

NoxA is essential for growth control of the fungal endophyte in plant tissue in the process of symbiotic interaction between a fungi and its plant host. The Epichloe festucae p67(phox)-like regulator, NoxR, dispensable in culture but essential in plants for the symbiotic interaction. Plants infected with a noxR deletion mutant show severe stunting and premature senescence, whereas hyphae in the meristematic tissues show increased branching leading to increased fungal colonization of pseudostem and leaf blade tissue. The PB1 domain is a modular domain mediating specific protein-protein interactions which a play role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is

>cd01777 SNX27_RA Ubiquitin domain of SNX27 (sorting nexin protein 27)

Probab=92.94  E-value=0.28  Score=30.12  Aligned_cols=60  Identities=13%  Similarity=0.137  Sum_probs=45.0

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEe----EEEC----CeecCCCCCccccC
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFP----FLIN----GNRFPHIRTPDQLG   73 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~r----F~fd----G~~l~~~~Tp~~l~   73 (89)
                      +.|.|.-+||..+.++|+++..-+.++++-|.+.|+|.+..+    |...    =++|.+.+.|-.|-
T Consensus         2 V~L~V~Lpdg~~i~V~v~~s~~a~~Vleav~~kl~L~~e~~~YFaLFev~~~~f~RKL~dfE~Ph~ly   69 (87)
T cd01777           2 VELRIALPDKATVTVRVRKNATTDQVYQALVAKAGMDSYTQNYFALFEVINHSFVRKLAPNEFPHKLY   69 (87)
T ss_pred             eEEEEEccCCCEEEEEEEEcccHHHHHHHHHHHhCCCHHHHhheeeeEEecceEEEeccCccCCceEE
Confidence            567777789999999999999999999999999999865432    1111    24566666665543

SNX27_RA SNX27 (sorting nexin protein 27) belongs to a large family of endosome-localized proteins related to sorting nexin1 which is implicated in regulating membrane traffic. The domain architecture of SNX27 includes an amino-terminal PDZ domain, a PX (PhoX homologous) domain, and a carboxy-terminal RA (RAS-associated) domain.

>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]

Probab=92.70  E-value=1  Score=29.00  Aligned_cols=64  Identities=14%  Similarity=0.122  Sum_probs=47.5

Q ss_pred             CCcEEEEEEecCCCE----EEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecC--CCCCccccCC
Q 048514           11 QHFINLVVKGQDNDP----LYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFP--HIRTPDQLGL   74 (89)
Q Consensus        11 ~~~I~i~v~~~~~~~----~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~--~~~Tp~~l~m   74 (89)
                      ..+|+|+++--.+..    -.|+|.++.+++++.....+..+++.+.--|+|=.....  ++++...|-+
T Consensus        28 ~~kV~i~l~aiG~~PilK~~k~~i~~t~tfa~vi~Flkk~Lkl~as~slflYVN~sFAPsPDq~v~~Ly~   97 (116)
T KOG3439|consen   28 IRKVQIRLRAIGDAPILKKSKFKINPTQTFAKVILFLKKFLKLQASDSLFLYVNNSFAPSPDQIVGNLYE   97 (116)
T ss_pred             cceEEEEEeccCCCcceecceEEeCcchhhHHHHHHHHHHhCCcccCeEEEEEcCccCCCchhHHHHHHH
Confidence            368999988543333    379999999999999999999999887776776544443  4666665544

>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62

Probab=92.60  E-value=0.63  Score=28.19  Aligned_cols=42  Identities=10%  Similarity=0.008  Sum_probs=35.3

Q ss_pred             EEEEEEecCCCEEEEEEec--cchHHHHHHHHHhhhCCCCCcEeEEE
Q 048514           14 INLVVKGQDNDPLYFEFRR--DWEIKKLLITYCEKKDAQYGTFPFLI   58 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~--~t~l~kL~~~y~~~~g~~~~~~rF~f   58 (89)
                      |+||+. ..|..+.|++.+  +..+..|....+++++++  .+.+.|
T Consensus         1 V~vKat-y~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~--~f~lKY   44 (81)
T cd06396           1 VNLKVT-YNGESQSFLVSDSENTTWASVEAMVKVSFGLN--DIQIKY   44 (81)
T ss_pred             CEEEEE-ECCeEEEEEecCCCCCCHHHHHHHHHHHhCCC--cceeEE
Confidence            466765 578899999999  889999999999999998  665555

A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The NBR1 protein contains a type I PB1 domain.

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

Probab=92.58  E-value=0.76  Score=34.47  Aligned_cols=61  Identities=21%  Similarity=0.307  Sum_probs=47.0

Q ss_pred             CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ||+.  +.+....++..|.+.    .+++.+.+-..+||+-|..++ -.+.-+.|||.|+++.--.||
T Consensus         6 NGk~--~el~e~~TL~dLL~~----L~i~~~~VAVeVNgeIVpr~~-w~~t~LkeGD~IEII~~VgGG   66 (326)
T PRK11840          6 NGEP--RQVPAGLTIAALLAE----LGLAPKKVAVERNLEIVPRSE-YGQVALEEGDELEIVHFVGGG   66 (326)
T ss_pred             CCEE--EecCCCCcHHHHHHH----cCCCCCeEEEEECCEECCHHH-cCccccCCCCEEEEEEEecCC
Confidence            5654  555667788887764    588999999999999997433 233459999999999888887

>PF02196 RBD: Raf-like Ras-binding domain; InterPro: IPR003116 This is the Ras-binding domain found in proteins related to Ras

Probab=92.54  E-value=0.76  Score=26.78  Aligned_cols=57  Identities=12%  Similarity=0.118  Sum_probs=40.2

Q ss_pred             EEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC--CeecCCCCCcccc
Q 048514           16 LVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN--GNRFPHIRTPDQL   72 (89)
Q Consensus        16 i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l~~~~Tp~~l   72 (89)
                      ++|.-++|+.....+++..+++.....-|+++|++++.+..+.-  .++|.-++....|
T Consensus         3 ~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~~~~V~~~~~~k~l~~~~d~~~L   61 (71)
T PF02196_consen    3 CRVHLPNGQRTVVQVRPGMTIRDALSKACKKRGLNPECCDVRLVGEKKPLDWDQDSSSL   61 (71)
T ss_dssp             EEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT--CCCEEEEEEEEEEEE-TTSBGGGG
T ss_pred             EEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCccccCCCceeee
Confidence            45555899999999999999999999999999999887755543  4445444444444

It is found in association with the PE-bind and pkinase domains.; GO: 0005057 receptor signaling protein activity, 0007165 signal transduction; PDB: 1RFA_A 1C1Y_B 3KUD_B 1GUA_B 3KUC_B 2L05_A 3NY5_D 1RRB_A 1WFY_A 1WXM_A.

>PF12754 Blt1: Cell-cycle control medial ring component; InterPro: IPR024737 During size-dependent cell cycle transitions controlled by the ubiquitous cyclin-dependent kinase Cdk1, Blt1 has been shown to co-localise with Cdr2 in the medial interphase nodes, as well as with Mid1 which was previously shown to localise to similar interphase structures

Probab=92.21  E-value=0.041  Score=40.82  Aligned_cols=66  Identities=12%  Similarity=0.117  Sum_probs=0.0

Q ss_pred             CCCcEEEEEEecCCCEEEEEEe---c--cchHHHHHHHHHh----------hhCCCCCcEe-----EEECCeecCCCCCc
Q 048514           10 DQHFINLVVKGQDNDPLYFEFR---R--DWEIKKLLITYCE----------KKDAQYGTFP-----FLINGNRFPHIRTP   69 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~---~--~t~l~kL~~~y~~----------~~g~~~~~~r-----F~fdG~~l~~~~Tp   69 (89)
                      ....|+|.+++..+..+.+++.   +  ++.+..|.+++|.          ..+++.+.++     ++|+-+++.+..|.
T Consensus        75 s~~sItV~Lks~rnp~l~i~L~~~~plattSv~dlk~~v~~rv~~~~~~~~~~~vp~dKik~~~~~lL~~kkPv~~~ktl  154 (309)
T PF12754_consen   75 SSKSITVHLKSLRNPPLDISLPNVPPLATTSVQDLKDAVQQRVHPSQATYDETRVPLDKIKNFRCRLLYKKKPVGDSKTL  154 (309)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCceEEEEeecCCCCCceeEeCCCCcCCcCcHHHHHHHHHhhhcccccccccccCCHHHhhhhhhhheecCccCCCcCcH
Confidence            4567999998876655544432   3  5888999999999          8899999999     99999999989999


Q ss_pred             cccCCC
Q 048514           70 DQLGLK   75 (89)
Q Consensus        70 ~~l~me   75 (89)
                      .++.=+
T Consensus       155 ~e~l~~  160 (309)
T PF12754_consen  155 AEVLAD  160 (309)
T ss_dssp             ------
T ss_pred             HHHHhc
Confidence            887655

Physical interactions between Blt1-Mid1, Blt1-Cdr2 and Cdr2-Mid1 were detected, indicating that medial cortical nodes are formed by the ordered, Cdr2-dependent assembly of multiple interacting proteins during interphase[].; PDB: 2LO0_A.

>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins

Probab=91.99  E-value=1.3  Score=25.66  Aligned_cols=44  Identities=16%  Similarity=0.086  Sum_probs=36.8

Q ss_pred             EEEEEEecCCCEEE-EEEeccchHHHHHHHHHhhhCCCCCcEeEEE
Q 048514           14 INLVVKGQDNDPLY-FEFRRDWEIKKLLITYCEKKDAQYGTFPFLI   58 (89)
Q Consensus        14 I~i~v~~~~~~~~~-f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~f   58 (89)
                      +.+|+.- .+.... +.+.+..++..|....+++++.+...+++.|
T Consensus         2 ~~vK~~~-~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y   46 (84)
T PF00564_consen    2 VRVKVRY-GGDIRRIISLPSDVSFDDLRSKIREKFGLLDEDFQLKY   46 (84)
T ss_dssp             EEEEEEE-TTEEEEEEEECSTSHHHHHHHHHHHHHTTSTSSEEEEE
T ss_pred             EEEEEEE-CCeeEEEEEcCCCCCHHHHHHHHHHHhCCCCccEEEEe
Confidence            5667664 455455 8999999999999999999999988999988

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.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....

>smart00295 B41 Band 4

Probab=91.96  E-value=1.1  Score=29.77  Aligned_cols=47  Identities=26%  Similarity=0.193  Sum_probs=38.5

Q ss_pred             CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC-CcEeEEE
Q 048514           12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY-GTFPFLI   58 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~-~~~rF~f   58 (89)
                      ..+.++|.-.||....+.+..+++.+.|++.-|++.|+.. .-+.+.+
T Consensus         2 ~~~~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~   49 (207)
T smart00295        2 KPRVLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQF   49 (207)
T ss_pred             CcEEEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEE
Confidence            4567788778999999999999999999999999999953 3344443

1 homologues. Also known as ezrin/radixin/moesin (ERM) protein domains. Present in myosins, ezrin, radixin, moesin, protein tyrosine phosphatases. Plasma membrane-binding domain. These proteins play structural and regulatory roles in the assembly and stabilization of specialized plasmamembrane domains. Some PDZ domain containing proteins bind one or more of this family. Now includes JAKs.

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

Probab=91.84  E-value=0.65  Score=28.86  Aligned_cols=55  Identities=7%  Similarity=0.101  Sum_probs=41.4

Q ss_pred             cEEEEEEecCCCEEEEEEe--ccchHHHHHHHHHhhh--CCCCCcEeEEECCeecCCCCC
Q 048514           13 FINLVVKGQDNDPLYFEFR--RDWEIKKLLITYCEKK--DAQYGTFPFLINGNRFPHIRT   68 (89)
Q Consensus        13 ~I~i~v~~~~~~~~~f~i~--~~t~l~kL~~~y~~~~--g~~~~~~rF~fdG~~l~~~~T   68 (89)
                      .|+|++.+ .-..+.+.|.  .+++..-|+....++.  ..+...+||+|+|+-|.+...
T Consensus         2 ~l~IRFs~-sipDl~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t~   60 (97)
T PF10302_consen    2 YLTIRFSD-SIPDLPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHTD   60 (97)
T ss_pred             eEEEEECC-CCCCceeecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccch
Confidence            46677755 2233567777  8899999999998887  346688999999999996443

They contain a characteristic GFDRL sequence motif.

>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity

Probab=91.82  E-value=1  Score=26.00  Aligned_cols=44  Identities=18%  Similarity=0.131  Sum_probs=36.0

Q ss_pred             EEEEEEecCCCEEEEEEe-ccchHHHHHHHHHhhhCCCCCcEeEEE
Q 048514           14 INLVVKGQDNDPLYFEFR-RDWEIKKLLITYCEKKDAQYGTFPFLI   58 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~-~~t~l~kL~~~y~~~~g~~~~~~rF~f   58 (89)
                      +++|+.- .|....|.+. +...+..|....+++++.+...+++.|
T Consensus         1 ~~vK~~~-~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y   45 (81)
T cd05992           1 VRVKVKY-GGEIRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKY   45 (81)
T ss_pred             CcEEEEe-cCCCEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEe
Confidence            3566664 4667789999 999999999999999999767777777

A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.

>cd01766 Ufm1 Urm1-like ubiquitin domain

Probab=91.42  E-value=1.6  Score=26.19  Aligned_cols=60  Identities=15%  Similarity=0.051  Sum_probs=51.4

Q ss_pred             EEEEeccchHHHHHHHHHhhhCCCCCc-EeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           27 YFEFRRDWEIKKLLITYCEKKDAQYGT-FPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        27 ~f~i~~~t~l~kL~~~y~~~~g~~~~~-~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      .++|-..+||..+.+.-|+.++++... --..-||.=|++.+|....-|+.|..+.+.-+-
T Consensus        19 vlsVpE~aPftAvlkfaAEeFkv~~~TsAiiTndGvGINP~qtAGnvflkhgselrliPRD   79 (82)
T cd01766          19 VLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRLIPRD   79 (82)
T ss_pred             EEeccccCchHHHHHHHHHhcCCCccceeEEecCccccChhhcccceeeecCCEeeecccc
Confidence            568889999999999999999998754 456668999999999999999999988776543

Ufm1 (ubiquitin-fold modifier 1) is a post-translational UBL (ubiquitin-like) modifier with a tertiary structure similar to that of ubiquitin. Ufm1 is initially expressed as a precursor which undergoes C-terminal cleavage to expose a conserved glycine residue that is required for the conjugation reactions involving Ufm1.

>PF08825 E2_bind: E2 binding domain; InterPro: IPR014929 E1 and E2 enzymes play a central role in ubiquitin and ubiquitin-like protein transfer cascades

Probab=91.35  E-value=0.17  Score=30.77  Aligned_cols=55  Identities=25%  Similarity=0.455  Sum_probs=38.7

Q ss_pred             EEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecC--------------CCCCccccCCCCCCEEEEE
Q 048514           28 FEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFP--------------HIRTPDQLGLKDGDEIVAT   83 (89)
Q Consensus        28 f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~--------------~~~Tp~~l~medgD~Idv~   83 (89)
                      +.+.++++|+.+++..|++......+=.+...|+.|.              -+.+..+| +.+|+.|-|.
T Consensus         1 i~v~~~~TL~~lid~L~~~~~~qlk~PSlt~~~k~LYm~~pp~Lee~Tr~NL~k~l~eL-~~~g~ei~Vt   69 (84)
T PF08825_consen    1 IEVSPSWTLQDLIDSLCEKPEFQLKKPSLTTANKTLYMQSPPSLEEATRPNLSKKLKEL-LSDGEEITVT   69 (84)
T ss_dssp             EEESTTSBSHHHHHHHHHSTTT--SS-EEESSEEEEEESSSHHHHHHTGGGGSSBTTTT-HHSSEEEEEE
T ss_pred             CCcCccchHHHHHHHHHhChhhhcCCCcccCCCceEEEeCCHHHHHHhhhhhhhhHHHH-hcCCCEEEEE
Confidence            4678999999999999998655444433445555554              35667788 9999998774

This is an E2 binding domain that is found on NEDD8 activating E1 enzyme. The protein resembles ubiquitin, and recruits the catalytic core of the E2 enzyme Ubc12 in a similar manner to that in which ubiquitin interacts with ubiquitin binding domains []. ; GO: 0005524 ATP binding, 0016881 acid-amino acid ligase activity, 0045116 protein neddylation; PDB: 3GZN_D 3DBL_F 1R4N_H 1R4M_D 2NVU_B 1TT5_D 3DBR_D 3DBH_H 1YOV_B 3FN1_A ....

>PF03671 Ufm1: Ubiquitin fold modifier 1 protein; InterPro: IPR005375 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=91.21  E-value=1.2  Score=26.57  Aligned_cols=69  Identities=14%  Similarity=0.117  Sum_probs=48.1

Q ss_pred             cEEEEEEe-cC-CCEE-EEEEeccchHHHHHHHHHhhhCCCCC-cEeEEECCeecCCCCCccccCCCCCCEEE
Q 048514           13 FINLVVKG-QD-NDPL-YFEFRRDWEIKKLLITYCEKKDAQYG-TFPFLINGNRFPHIRTPDQLGLKDGDEIV   81 (89)
Q Consensus        13 ~I~i~v~~-~~-~~~~-~f~i~~~t~l~kL~~~y~~~~g~~~~-~~rF~fdG~~l~~~~Tp~~l~medgD~Id   81 (89)
                      ++++++.- .| .... .++|-..+||..+.+.-|+.+.++.. +.-..-||.-|++.+|..+.=|+.|-.+.
T Consensus         2 kvtfKI~ltsDp~~p~kv~sVPE~apftaVlkfaAeeF~vp~~tsaiItndG~GInP~QTag~vflKhGseLr   74 (76)
T PF03671_consen    2 KVTFKITLTSDPKLPYKVISVPEEAPFTAVLKFAAEEFKVPPATSAIITNDGVGINPQQTAGNVFLKHGSELR   74 (76)
T ss_dssp             EEEEEEEESTSSTS-EEEEEEETTSBHHHHHHHHHHHTTS-SSSEEEEESSS-EE-TTSBHHHHHHHT-SEEE
T ss_pred             cEEEEEEEccCCCCcceEEecCCCCchHHHHHHHHHHcCCCCceEEEEecCCcccccchhhhhhHhhcCcEee
Confidence            34555532 23 3333 68999999999999999999999765 45566679999999999887777776654

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-like molecules (UBLs) can be divided into two subclasses: type-1 UBLs, which ligate to target proteins in a manner similar, but not identical, to the ubiquitylation pathway, such as SUMO, NEDD8, and UCRP/ISG15, and type-2 UBLs (also called UDPs, ubiquitin-domain proteins), which contain ubiquitin-like structure embedded in a variety of different classes of large proteins with apparently distinct functions, such as Rad23, Elongin B, Scythe, Parkin, and HOIL-1. This entry represents Ufm1 (ubiquitin-fold modifier), which is a ubiquitin-like protein with structural similarities to ubiquitin [, ]. Ufm1 is one of a number of ubiquitin-like modifiers that conjugate to target proteins in cells through Uba5 (E1) and Ufc1 (E2). The Ufm1-system is conserved in metazoa and plants, suggesting it has a potential role in multicellular organisms []. Human Ufm1 is synthesized as a precursor consisting of 85 amino-acid residues. Prior to activation by Uba5, the extra amino acids at the C-terminal region of Ufm1 are removed to expose Gly, which is necessary for conjugation to target molecule(s). C-terminal processing of Ufm1 requires two specific cysteine peptidases (IPR012462 from INTERPRO): UfSP1 and UfSP2; both peptidases are also able to release Ufm1 from Ufm1-conjugated cellular proteins. UfSP2 is present in most, if not all, of multi-cellular organisms including plant, nematode, fly, and mammal, whereas UfSP1 is not present in plants and nematodes []. For further information on ubiquitin, please see Protein of the Month [].; PDB: 1J0G_A 1WXS_A 1L7Y_A.

>PF09379 FERM_N: FERM N-terminal domain ; InterPro: IPR018979 This domain is the N-terminal ubiquitin-like structural domain of the FERM domain

Probab=91.09  E-value=0.93  Score=26.12  Aligned_cols=40  Identities=20%  Similarity=0.185  Sum_probs=34.0

Q ss_pred             EecCCCEEEEEEeccchHHHHHHHHHhhhCCC-CCcEeEEE
Q 048514           19 KGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQ-YGTFPFLI   58 (89)
Q Consensus        19 ~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~-~~~~rF~f   58 (89)
                      .-.||....|.|.++++-+.|++..|++.|+. ..-+-+.|
T Consensus         2 ~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~   42 (80)
T PF09379_consen    2 RLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQY   42 (80)
T ss_dssp             EESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE
T ss_pred             CCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEE
Confidence            34688899999999999999999999999995 45566666

The FERM domain (F for 4.1 protein, E for ezrin, R for radixin and M for moesin) is a widespread protein module involved in localising proteins to the plasma membrane []. FERM domains are found in a number of cytoskeletal-associated proteins that associate with various proteins at the interface between the plasma membrane and the cytoskeleton. The FERM domain is located at the N terminus of the majority of FERM-containing proteins [, ], which includes: Band 4.1, which links the spectrin-actin cytoskeleton of erythrocytes to the plasma membrane. Ezrin, a component of the undercoat of the microvilli plasma membrane. Moesin, which is probably involved in binding major cytoskeletal structures to the plasma membrane. Radixin, which is involved in the binding of the barbed end of actin filaments to the plasma membrane in the undercoat of the cell- to-cell adherens junction. Talin, a cytoskeletal protein concentrated in regions of cell-substratum contact and, in lymphocytes, of cell-cell contacts. Filopodin, a slime mold protein that binds actin and which is involved in the control of cell motility and chemotaxis. Merlin (or schwannomin). Protein NBL4. Unconventional myosins X, VIIa and XV, which are mutated in congenital deafness. Focal-adhesion kinases (FAKs), cytoplasmic protein tyrosine kinases involved in signalling through integrins. Janus tyrosine kinases (JAKs), cytoplasmic tyrosine kinases that are non-covalently associated with the cytoplasmic tails of receptors for cytokines or polypeptidic hormones. Non-receptor tyrosine-protein kinase TYK2. Protein-tyrosine phosphatases PTPN3 and PTPN4, enzyme that appear to act at junctions between the membrane and the cytoskeleton. Protein-tyrosine phosphatases PTPN14 and PTP-D1, PTP-RL10 and PTP2E. Caenorhabditis elegans protein phosphatase ptp-1. Ezrin, moesin, and radixin are highly related proteins (ERM protein family), but the other proteins in which the FERM domain is found do not share any region of similarity outside of this domain. ERM proteins are made of three domains, the FERM domain, a central helical domain and a C-terminal tail domain, which binds F-actin. The amino-acid sequence of the FERM domain is highly conserved among ERM proteins and is responsible for membrane association by direct binding to the cytoplasmic domain or tail of integral membrane proteins. ERM proteins are regulated by an intramolecular association of the FERM and C-terminal tail domains that masks their binding sites for other molecules. For cytoskeleton-membrane cross-linking, the dormant molecules becomes activated and the FERM domain attaches to the membrane by binding specific membrane proteins, while the last 34 residues of the tail bind actin filaments. Aside from binding to membranes, the activated FERM domain of ERM proteins can also bind the guanine nucleotide dissociation inhibitor of Rho GTPase (RhoDGI), which suggests that in addition to functioning as a cross-linker, ERM proteins may influence Rho signalling pathways. The crystal structure of the FERM domain reveals that it is composed of three structural modules (F1, F2, and F3) that together form a compact clover-shaped structure []. The FERM domain has also been called the amino-terminal domain, the 30kDa domain, 4.1N30, the membrane-cytoskeletal-linking domain, the ERM-like domain, the ezrin-like domain of the band 4.1 superfamily, the conserved N-terminal region, and the membrane attachment domain [].; PDB: 1EF1_B 1SGH_A 1E5W_A 2KC2_A 2KMA_A 3IVF_A 1H4R_B 3U8Z_A 1ISN_A 3BIN_A ....

>cd01817 RGS12_RBD Ubiquitin domain of RGS12 and RGS14

Probab=90.50  E-value=2  Score=25.54  Aligned_cols=52  Identities=25%  Similarity=0.366  Sum_probs=40.6

Q ss_pred             EEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcE-eEEECCeecCCCCCc
Q 048514           18 VKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTF-PFLINGNRFPHIRTP   69 (89)
Q Consensus        18 v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~-rF~fdG~~l~~~~Tp   69 (89)
                      |.-+||..-...+++..++..+...-|++.|+.++.+ .|...|+..-+++|.
T Consensus         4 V~LPdg~~T~V~vrpG~ti~d~L~kllekRgl~~~~~~vf~~g~~k~l~~~qD   56 (73)
T cd01817           4 VILPDGSTTVVPTRPGESIRDLLSGLCEKRGINYAAVDLFLVGGDKPLVLDQD   56 (73)
T ss_pred             EECCCCCeEEEEecCCCCHHHHHHHHHHHcCCChhHEEEEEecCCcccccCCc
Confidence            3346888889999999999999999999999998877 555555444445544

RGS12 (regulator of G signalling 12), and RGS14, are members of a family of GTPase-activating proteins (GAP's) specific for the G-alpha subunit, which act as key inhibitors of G-protein-mediated cell responses in eukaryotes. Their domain architecture includes tandem RBD domains as well as PDZ , PTB, and RGS, and GoLoco domains.

>PRK11130 moaD molybdopterin synthase small subunit; Provisional

Probab=90.10  E-value=2  Score=25.24  Aligned_cols=52  Identities=21%  Similarity=0.185  Sum_probs=38.4

Q ss_pred             cchHHHHHHHHHhhhC-----CCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           33 DWEIKKLLITYCEKKD-----AQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        33 ~t~l~kL~~~y~~~~g-----~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      .++++.|.+..++++.     +..+.+++..|+.-.. .+|    -+.|||+|-++.--.||
T Consensus        25 ~~tv~~l~~~L~~~~~~~~~~~~~~~~~~aVN~~~~~-~~~----~l~dgDeVai~PPVsGG   81 (81)
T PRK11130         25 FPTVEALRQHLAQKGDRWALALEDGKLLAAVNQTLVS-FDH----PLTDGDEVAFFPPVTGG   81 (81)
T ss_pred             CCCHHHHHHHHHHhCccHHhhhcCCCEEEEECCEEcC-CCC----CCCCCCEEEEeCCCCCC
Confidence            4688888888887753     2346678888886543 444    49999999999887777

>PF15044 CLU_N: Mitochondrial function, CLU-N-term

Probab=89.85  E-value=1.1  Score=26.56  Aligned_cols=57  Identities=14%  Similarity=0.174  Sum_probs=45.1

Q ss_pred             EeccchHHHHHHHHHhhhCC-CCCcEeEEECCeecCCCCCccccC-CCCCCEEEEEeee
Q 048514           30 FRRDWEIKKLLITYCEKKDA-QYGTFPFLINGNRFPHIRTPDQLG-LKDGDEIVATFYA   86 (89)
Q Consensus        30 i~~~t~l~kL~~~y~~~~g~-~~~~~rF~fdG~~l~~~~Tp~~l~-medgD~Idv~~~q   86 (89)
                      |.+++++..|.+..+..... ...++.|.++|.+|.+.....++. +++|..+.+..+.
T Consensus         1 v~~~d~v~dvrq~L~~~~~t~~~Tn~~L~~~g~~L~~~~el~~i~~~~~~~~L~lve~p   59 (76)
T PF15044_consen    1 VSPTDTVQDVRQVLAESPETCYLTNFSLEHNGQRLDDFVELSEIEGIKDGCVLELVEEP   59 (76)
T ss_pred             CChhhHHHHHHHHHHhCccccceeEEEEEECCCccCCchhhhhhhCCCCCcEEEEEecC
Confidence            34677888888888877654 568899999999999888887774 8889988887653

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

Probab=87.85  E-value=3.3  Score=24.06  Aligned_cols=61  Identities=21%  Similarity=0.277  Sum_probs=46.3

Q ss_pred             CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +|+.  ..+...+++..|.+    ..+++...+-...||+.+..++ -++.-+++||.|+++.--.||
T Consensus         8 ng~~--~e~~~~~tv~dLL~----~l~~~~~~vav~vNg~iVpr~~-~~~~~l~~gD~ievv~~v~GG   68 (68)
T COG2104           8 NGKE--VEIAEGTTVADLLA----QLGLNPEGVAVAVNGEIVPRSQ-WADTILKEGDRIEVVRVVGGG   68 (68)
T ss_pred             CCEE--EEcCCCCcHHHHHH----HhCCCCceEEEEECCEEccchh-hhhccccCCCEEEEEEeecCC
Confidence            4555  44555577777765    4688889999999999997433 245678999999999988887

>cd01818 TIAM1_RBD Ubiquitin domain of Tiam1 guanine nucleotide exchange factor

Probab=86.26  E-value=2.2  Score=25.61  Aligned_cols=43  Identities=19%  Similarity=0.230  Sum_probs=35.7

Q ss_pred             EEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCC--cEeEEEC
Q 048514           17 VVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYG--TFPFLIN   59 (89)
Q Consensus        17 ~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~--~~rF~fd   59 (89)
                      +|.-+||......|++.+++..+.+.-|+++++++.  -+|+.+-
T Consensus         3 ~V~lPn~~~~~v~vrp~~tv~dvLe~aCk~~~ldp~eh~Lrlk~~   47 (77)
T cd01818           3 WVCLPDNQPVLTYLRPGMSVEDFLESACKRKQLDPMEHYLRLKFL   47 (77)
T ss_pred             EEECCCCceEEEEECCCCCHHHHHHHHHHhcCCChhHheeEEEEE
Confidence            455578999999999999999999999999999764  3555554

Tiam1 (T lymphoma invasion and metastasis 1) a guanine nucleotide exchange factor that activates Rac, is an important regulator of Rho GTPase functions in tumor cells including regulation of cell shape and invasiveness in epithelial cells and fibroblasts. TIAM1 has an RBD (Ras-binding domain) similar to that of Raf kinase as well as PH (pleckstrin homology), PDZ, and RhoGEF domains.

>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein

Probab=85.78  E-value=4.8  Score=24.65  Aligned_cols=44  Identities=16%  Similarity=0.062  Sum_probs=35.6

Q ss_pred             EEEEEecCCCEEEEEEec-----cchHHHHHHHHHhhhCCCC-CcEeEEEC
Q 048514           15 NLVVKGQDNDPLYFEFRR-----DWEIKKLLITYCEKKDAQY-GTFPFLIN   59 (89)
Q Consensus        15 ~i~v~~~~~~~~~f~i~~-----~t~l~kL~~~y~~~~g~~~-~~~rF~fd   59 (89)
                      .||+. .++..+.|++..     +..+..|.+..++.++++. ..+.+.|-
T Consensus         2 ~vKv~-y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~   51 (91)
T cd06398           2 VVKVK-YGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYT   51 (91)
T ss_pred             EEEEE-eCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEE
Confidence            46665 467777899984     7999999999999999976 77888773

The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module

>PF04110 APG12: Ubiquitin-like autophagy protein Apg12 ; InterPro: IPR007242 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=85.10  E-value=3.2  Score=25.40  Aligned_cols=60  Identities=13%  Similarity=0.109  Sum_probs=37.3

Q ss_pred             cEEEEEEecCCCE----EEEEEeccchHHHHHHHHHhhhCCCC-CcEeEEECCeec-CCCCCcccc
Q 048514           13 FINLVVKGQDNDP----LYFEFRRDWEIKKLLITYCEKKDAQY-GTFPFLINGNRF-PHIRTPDQL   72 (89)
Q Consensus        13 ~I~i~v~~~~~~~----~~f~i~~~t~l~kL~~~y~~~~g~~~-~~~rF~fdG~~l-~~~~Tp~~l   72 (89)
                      +|+|+++...+.+    -.|+|..+.+++.+.+..+++.++.. +++-++.+..-- ++++|..+|
T Consensus         1 KV~v~fk~iG~aPilk~~k~kI~~~~~f~~vi~fLrk~Lk~~~~~slFlYin~sFaPspDe~vg~L   66 (87)
T PF04110_consen    1 KVTVRFKAIGSAPILKQKKFKISASQTFATVIAFLRKKLKLKPSDSLFLYINNSFAPSPDETVGDL   66 (87)
T ss_dssp             EEEEEEEEETT----S--EEEEETTSBTHHHHHHHHHHCT----SS-EEEEEEEE---TTSBHHHH
T ss_pred             CEEEEEEecCCCccccCcEEEECCCCchHHHHHHHHHHhCCccCCeEEEEEcCccCCCchhHHHHH
Confidence            3666776543333    37999999999999999999999854 455555544332 467776654

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents Apg12, which is covalently bound to Apg5 [].; GO: 0000045 autophagic vacuole assembly, 0005737 cytoplasm; PDB: 1WZ3_B.

>PF00788 RA: Ras association (RalGDS/AF-6) domain; InterPro: IPR000159 Proteins with this domain are mostly RasGTP effectors and include guanine-nucleotide releasing factor in mammals []

Probab=84.90  E-value=5.7  Score=23.08  Aligned_cols=60  Identities=12%  Similarity=0.050  Sum_probs=43.8

Q ss_pred             EEEEEEecCCC----EEEEEEeccchHHHHHHHHHhhhCC--CCCcEeEE-EC-----CeecCCCCCccccC
Q 048514           14 INLVVKGQDND----PLYFEFRRDWEIKKLLITYCEKKDA--QYGTFPFL-IN-----GNRFPHIRTPDQLG   73 (89)
Q Consensus        14 I~i~v~~~~~~----~~~f~i~~~t~l~kL~~~y~~~~g~--~~~~~rF~-fd-----G~~l~~~~Tp~~l~   73 (89)
                      -.|+|-..++.    ...++|.++++-+.|..+.++++++  +++.+.++ +.     -..|.+++-|-.+-
T Consensus         3 ~~lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L~~~~~~~~~er~L~~~E~pl~i~   74 (93)
T PF00788_consen    3 GVLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLVEVEESGGEERPLDDDECPLQIQ   74 (93)
T ss_dssp             EEEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEEEEECTTTEEEEETTTSBHHHHH
T ss_pred             eEEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEEEEEcCCCEEEEcCCCCchHHHH
Confidence            35677666766    7899999999999999999999999  45667764 21     23455666665443

This factor stimulates the dissociation of GDP from the Ras-related RALA and RALB GTPases, which allows GTP binding and activation of the GTPases. It interacts and acts as an effector molecule for R-ras, K-Ras and Rap []. The domain is also present in a number of other proteins among them the sexual differentiation protein in yeast that is essential for mating and meiosis and yeast adenylate cyclase. These proteins contain repeated leucine-rich (LRR) segments.; GO: 0007165 signal transduction; PDB: 3EC8_A 2C5L_D 2BYF_A 2CS4_A 3KH0_A 2B3A_A 1RAX_A 2RGF_A 1WGR_A 1WXA_A ....

>PF11620 GABP-alpha: GA-binding protein alpha chain; InterPro: IPR024668 GA-binding protein alpha is a transcription factor capable of interacting with purine rich repeats (GA repeats)

Probab=84.78  E-value=4.3  Score=24.93  Aligned_cols=60  Identities=3%  Similarity=0.005  Sum_probs=42.4

Q ss_pred             EEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514           26 LYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        26 ~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      +.-.|.-.+||+.|.+-...+.+++.+...|+.....|.++.|.-+-+.+-.-.+.+.++
T Consensus         5 I~q~mDI~epl~~Lk~lLe~Rl~~~L~~~~f~LQD~~L~~~k~L~dQcVqgeGlVQlnvQ   64 (88)
T PF11620_consen    5 IMQHMDIREPLSTLKKLLERRLGISLSDYEFWLQDIQLEPHKSLVDQCVQGEGLVQLNVQ   64 (88)
T ss_dssp             EEEEEESSSBGGGHHHHSHHHH-S--SS-EEEETTEE--TTSBTTTSS----SEEEEEEE
T ss_pred             EEEEEecCCcHHHHHHHHHHhhCCCcCCCeEEeccceecCCccHHHhhccccCEEEEEEE
Confidence            445666779999999999999999999999999998899999999999988887766543

This N-terminal domain found in the transcription factor GABP alpha consists of a five-stranded beta-sheet crossed by a distorted helix and has been termed OST domain. The surface of the GABP alpha OST domain contains two clusters of negatively-charged residues suggesting there are positively-charged partner proteins. The OST domain binds to the CH1 and CH3 domains of the co-activator histone acetyltransferase CBP/p300 [].; PDB: 2JUO_A.

>TIGR02958 sec_mycoba_snm4 secretion protein snm4

Probab=83.31  E-value=11  Score=29.28  Aligned_cols=70  Identities=13%  Similarity=0.191  Sum_probs=53.5

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCC------CCcEeEE-ECCeecCCCCCccccCCCCCCEEEEEe
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQ------YGTFPFL-INGNRFPHIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~------~~~~rF~-fdG~~l~~~~Tp~~l~medgD~Idv~~   84 (89)
                      .++.|... .+.+-.-+--+.|+..|+...-+..+-.      ....+|. -+|.+|+.+.|+.+.++.|||++....
T Consensus         3 ~RVtV~~~-~~~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r~gG~pL~~~~sL~~~gV~DG~~L~L~p   79 (452)
T TIGR02958         3 CRVTVLAG-RRAVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALARAGGSPLDPDASLAEAGVRDGELLVLVP   79 (452)
T ss_pred             EEEEEeeC-CeeeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEecCCCCCCCCCCCHHHcCCCCCCeEEEee
Confidence            45666653 4457888899999999998888777652      1233332 479999999999999999999987764

Members of this family are the 12-transmembrane domain protein snm4, where snm stands for secretion in mycocbacteria. This system acts on Mycobacterium tuberculosis related pair of virulence factors ESAT-6 and CFP-10 and on other homologs. The system is conserved in many Actinobacteria, including the non-pathogenic Mycobacterium smegmatis.

>cd01612 APG12_C Ubiquitin-like domain of APG12

Probab=82.37  E-value=6.8  Score=23.74  Aligned_cols=59  Identities=10%  Similarity=0.056  Sum_probs=39.0

Q ss_pred             EEEEEEecCC----CEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCee--cCCCCCcccc
Q 048514           14 INLVVKGQDN----DPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNR--FPHIRTPDQL   72 (89)
Q Consensus        14 I~i~v~~~~~----~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~--l~~~~Tp~~l   72 (89)
                      |+|+++.-..    +...|.|..+.++..++....++.+++.+.=-|+|=+..  .+.++|..+|
T Consensus         2 v~i~~~~~g~~p~l~k~kflv~~~~tv~~~~~~lrk~L~l~~~~slflyvnn~f~p~~d~~~g~L   66 (87)
T cd01612           2 VTIRFKPIGSAPILKQKVFKISATQSFQAVIDFLRKRLKLKASDSLFLYINNSFAPSPDENVGNL   66 (87)
T ss_pred             eEEEEEECCCCccccccEEEeCCCCCHHHHHHHHHHHhCCCccCeEEEEECCccCCCchhHHHHH
Confidence            5666664222    223799999999999999999999997665444443433  2334555543

APG12_C The carboxy-terminal ubiquitin-like domain of APG12. Autophagy is a process in which cytoplasmic components are delivered to the lysosome/vacuole for degradation. Autophagy requires a ubiquitin-like protein conjugation system, in which APG12 is covalently bound to APG5.

>PF06234 TmoB: Toluene-4-monooxygenase system protein B (TmoB); InterPro: IPR009355 This family consists of several Toluene-4-monooxygenase system protein B (TmoB) sequences

Probab=80.24  E-value=11  Score=23.05  Aligned_cols=61  Identities=11%  Similarity=0.120  Sum_probs=46.1

Q ss_pred             EEEEEEeccchHHHHHHHHHhhh-CC-----CCCcEeEEECC--eecCCCCCccccCCCCCCEEEEEee
Q 048514           25 PLYFEFRRDWEIKKLLITYCEKK-DA-----QYGTFPFLING--NRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        25 ~~~f~i~~~t~l~kL~~~y~~~~-g~-----~~~~~rF~fdG--~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      ..-+-|...+++..+-++.|.+- |.     +-..+|+...|  +.+..+.|..+-||..-|.|||+.+
T Consensus        16 ~~Lv~VDt~dTmdqVA~k~A~HsVGrRV~~~pg~~lrVr~~g~~~~~p~~~tVaeagl~P~e~vev~~~   84 (85)
T PF06234_consen   16 LQLVPVDTEDTMDQVAAKVAHHSVGRRVAPRPGAPLRVRRQGDTQPFPRSMTVAEAGLQPMEWVEVRFE   84 (85)
T ss_dssp             EEEEEEETT-BHHHHHHHHHTTTTTTSS---TTSEEEEEETTTSSEE-TT-BGGGHT--TTEEEEEEEE
T ss_pred             EEEEEeCCCCcHHHHHHHHhhhhcceecCCCCCCEEEEEecCCCccCCCccEehhcCCCcceEEEEEEc
Confidence            34678899999999999888642 33     23478999999  9999999999999999999999865

Pseudomonas mendocina KR1 metabolises toluene as a carbon source. The initial step of the pathway is hydroxylation of toluene to form p-cresol by a multicomponent toluene-4-monooxygenase (T4MO) system [].; PDB: 3N1Y_C 3RNG_C 3RNA_C 3RN9_C 3RNC_C 3N1X_C 3RNE_C 3RNF_C 3N1Z_C 3N20_C ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	89
1a5r_A	103	Structure Determination Of The Small Ubiquitin-Rela		6e-07
2iy0_B	82	Senp1 (Mutant) Sumo1 Rangap Length = 82		6e-07
2iy1_B	83	Senp1 (Mutant) Full Length Sumo1 Length = 83		7e-07
3kyd_D	115	Human Sumo E1~sumo1-amp Tetrahedral Intermediate Mi		7e-07
2kqs_A	99	Phosphorylation Of Sumo-Interacting Motif By Ck2 En		7e-07
2uyz_B	79	Non-Covalent Complex Between Ubc9 And Sumo1 Length		7e-07
1y8r_C	97	Sumo E1 Activating Enzyme Sae1-Sae2-Sumo1-Mg-Atp Co		7e-07
1z5s_B	82	Crystal Structure Of A Complex Between Ubc9, Sumo-1		7e-07
2bf8_B	77	Crystal Structure Of Sumo Modified Ubiquitin Conjug		7e-07
2g4d_B	78	Crystal Structure Of Human Senp1 Mutant (C603s) In		8e-07
1tgz_B	80	Structure Of Human Senp2 In Complex With Sumo-1 Len		8e-07
3kyc_D	97	Human Sumo E1 Complex With A Sumo1-Amp Mimic Length		8e-07
2k8h_A	110	Solution Structure Of Sumo From Trypanosoma Brucei		6e-06
3rzw_C	99	Crystal Structure Of The Monobody Ysmb-9 Bound To H		9e-06
1wz0_A	104	Solution Structure Of Human Sumo-2 (Smt3b), A Ubiqu		1e-05
2io1_B	94	Crystal Structure Of Human Senp2 In Complex With Pr		1e-05
2io3_B	81	Crystal Structure Of Human Senp2 In Complex With Ra		1e-05
2io0_B	91	Crystal Structure Of Human Senp2 In Complex With Pr		1e-05
2awt_A	95	Solution Structure Of Human Small Ubiquitin-Like Mo		1e-05
2d07_B	93	Crystal Structure Of Sumo-3-Modified Thymine-Dna Gl		1e-05
2ckh_B	79	Senp1-sumo2 Complex Length = 79		1e-05
1wm3_A	72	Crystal Structure Of Human Sumo-2 Protein Length =		1e-05
3uin_B	80	Complex Between Human Rangap1-Sumo2, Ubc9 And The I		1e-05
2iyd_B	81	Senp1 Covalent Complex With Sumo-2 Length = 81		1e-05
1wm2_A	78	Crystal Structure Of Human Sumo-2 Protein Length =		1e-05
2k1f_A	88	Sumo-3 From Drosophila Melanogaster (Dsmt3) Length		1e-04
1u4a_A	87	Solution Structure Of Human Sumo-3 C47s Length = 87		2e-04

>pdb|1A5R|A Chain A, Structure Determination Of The Small Ubiquitin-Related Modifier Sumo-1, Nmr, 10 Structures Length = 103

Iteration: 1
 Score = 49.3 bits (116), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 22/68 (32%), Positives = 38/68 (55%)
Query: 13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQL 72
          +I L V GQD+  ++F+ +    +KKL  +YC+++     +  FL  G R     TP +L
Sbjct: 23 YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKEL 82
Query: 73 GLKDGDEI 80
          G+++ D I
Sbjct: 83 GMEEEDVI 90

>pdb|2IY0|B Chain B, Senp1 (Mutant) Sumo1 Rangap Length = 82

Iteration: 1
 Score = 49.3 bits (116), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 22/68 (32%), Positives = 38/68 (55%)
Query: 13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQL 72
          +I L V GQD+  ++F+ +    +KKL  +YC+++     +  FL  G R     TP +L
Sbjct: 2  YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKEL 61
Query: 73 GLKDGDEI 80
          G+++ D I
Sbjct: 62 GMEEEDVI 69

>pdb|2IY1|B Chain B, Senp1 (Mutant) Full Length Sumo1 Length = 83

Iteration: 1
 Score = 48.9 bits (115), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 22/68 (32%), Positives = 38/68 (55%)
Query: 13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQL 72
          +I L V GQD+  ++F+ +    +KKL  +YC+++     +  FL  G R     TP +L
Sbjct: 2  YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKEL 61
Query: 73 GLKDGDEI 80
          G+++ D I
Sbjct: 62 GMEEEDVI 69

>pdb|3KYD|D Chain D, Human Sumo E1~sumo1-amp Tetrahedral Intermediate Mimic Length = 115

Iteration: 1
 Score = 48.9 bits (115), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 22/68 (32%), Positives = 38/68 (55%)
Query: 13  FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQL 72
           +I L V GQD+  ++F+ +    +KKL  +YC+++     +  FL  G R     TP +L
Sbjct: 40  YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKEL 99
Query: 73  GLKDGDEI 80
           G+++ D I
Sbjct: 100 GMEEEDVI 107

>pdb|2KQS|A Chain A, Phosphorylation Of Sumo-Interacting Motif By Ck2 Enhances Daxx Sumo Binding Activity Length = 99

Iteration: 1
 Score = 48.9 bits (115), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 22/68 (32%), Positives = 38/68 (55%)
Query: 13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQL 72
          +I L V GQD+  ++F+ +    +KKL  +YC+++     +  FL  G R     TP +L
Sbjct: 23 YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKEL 82
Query: 73 GLKDGDEI 80
          G+++ D I
Sbjct: 83 GMEEEDVI 90

>pdb|2UYZ|B Chain B, Non-Covalent Complex Between Ubc9 And Sumo1 Length = 79

Iteration: 1
 Score = 48.9 bits (115), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 22/68 (32%), Positives = 38/68 (55%)
Query: 13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQL 72
          +I L V GQD+  ++F+ +    +KKL  +YC+++     +  FL  G R     TP +L
Sbjct: 3  YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKEL 62
Query: 73 GLKDGDEI 80
          G+++ D I
Sbjct: 63 GMEEEDVI 70

>pdb|1Y8R|C Chain C, Sumo E1 Activating Enzyme Sae1-Sae2-Sumo1-Mg-Atp Complex Length = 97

Iteration: 1
 Score = 48.9 bits (115), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 22/68 (32%), Positives = 38/68 (55%)
Query: 13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQL 72
          +I L V GQD+  ++F+ +    +KKL  +YC+++     +  FL  G R     TP +L
Sbjct: 21 YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKEL 80
Query: 73 GLKDGDEI 80
          G+++ D I
Sbjct: 81 GMEEEDVI 88

>pdb|1Z5S|B Chain B, Crystal Structure Of A Complex Between Ubc9, Sumo-1, Rangap1 And Nup358RANBP2 Length = 82

Iteration: 1
 Score = 48.9 bits (115), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 22/68 (32%), Positives = 38/68 (55%)
Query: 13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQL 72
          +I L V GQD+  ++F+ +    +KKL  +YC+++     +  FL  G R     TP +L
Sbjct: 6  YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKEL 65
Query: 73 GLKDGDEI 80
          G+++ D I
Sbjct: 66 GMEEEDVI 73

>pdb|2BF8|B Chain B, Crystal Structure Of Sumo Modified Ubiquitin Conjugating Enzyme E2-25k Length = 77

Iteration: 1
 Score = 48.9 bits (115), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 22/68 (32%), Positives = 38/68 (55%)
Query: 13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQL 72
          +I L V GQD+  ++F+ +    +KKL  +YC+++     +  FL  G R     TP +L
Sbjct: 1  YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKEL 60
Query: 73 GLKDGDEI 80
          G+++ D I
Sbjct: 61 GMEEEDVI 68

>pdb|2G4D|B Chain B, Crystal Structure Of Human Senp1 Mutant (C603s) In Complex With Sumo-1 Length = 78

Iteration: 1
 Score = 48.9 bits (115), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 22/68 (32%), Positives = 38/68 (55%)
Query: 13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQL 72
          +I L V GQD+  ++F+ +    +KKL  +YC+++     +  FL  G R     TP +L
Sbjct: 2  YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKEL 61
Query: 73 GLKDGDEI 80
          G+++ D I
Sbjct: 62 GMEEEDVI 69

>pdb|1TGZ|B Chain B, Structure Of Human Senp2 In Complex With Sumo-1 Length = 80

Iteration: 1
 Score = 48.9 bits (115), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 22/68 (32%), Positives = 38/68 (55%)
Query: 13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQL 72
          +I L V GQD+  ++F+ +    +KKL  +YC+++     +  FL  G R     TP +L
Sbjct: 4  YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKEL 63
Query: 73 GLKDGDEI 80
          G+++ D I
Sbjct: 64 GMEEEDVI 71

>pdb|3KYC|D Chain D, Human Sumo E1 Complex With A Sumo1-Amp Mimic Length = 97

Iteration: 1
 Score = 48.9 bits (115), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 22/68 (32%), Positives = 38/68 (55%)
Query: 13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQL 72
          +I L V GQD+  ++F+ +    +KKL  +YC+++     +  FL  G R     TP +L
Sbjct: 21 YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKEL 80
Query: 73 GLKDGDEI 80
          G+++ D I
Sbjct: 81 GMEEEDVI 88

>pdb|2K8H|A Chain A, Solution Structure Of Sumo From Trypanosoma Brucei Length = 110

Iteration: 1
 Score = 45.8 bits (107), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 22/80 (27%), Positives = 39/80 (48%)
Query: 10  DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTP 69
           +   + + V   D   ++F  +    +KKL+ TYC+K+     +  FL +G      +TP
Sbjct: 23  ETALVAVKVVNADGAEMFFRIKSRTALKKLIDTYCKKQGISRNSVRFLFDGTPIDETKTP 82
Query: 70  DQLGLKDGDEIVATFYAGGA 89
           ++LG++D D I A     G 
Sbjct: 83  EELGMEDDDVIDAMVEQTGG 102

>pdb|3RZW|C Chain C, Crystal Structure Of The Monobody Ysmb-9 Bound To Human Sumo1 Length = 99

Iteration: 1
 Score = 45.4 bits (106), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 21/68 (30%), Positives = 37/68 (54%)
Query: 13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQL 72
          +I L V GQD+  ++F+ +    +KKL  +Y +++     +  FL  G R     TP +L
Sbjct: 23 YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYAQRQGVPMNSLRFLFEGQRIADNHTPKEL 82
Query: 73 GLKDGDEI 80
          G+++ D I
Sbjct: 83 GMEEEDVI 90

>pdb|1WZ0|A Chain A, Solution Structure Of Human Sumo-2 (Smt3b), A Ubiquitin- Like Protein Length = 104

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 33/67 (49%)
Query: 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLG 73
          INL V GQD   + F+ +R   + KL+  YCE++        F  +G       TP QL 
Sbjct: 25 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 84
Query: 74 LKDGDEI 80
          ++D D I
Sbjct: 85 MEDEDTI 91

>pdb|2IO1|B Chain B, Crystal Structure Of Human Senp2 In Complex With Presumo-3 Length = 94

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 33/67 (49%)
Query: 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLG 73
          INL V GQD   + F+ +R   + KL+  YCE++        F  +G       TP QL 
Sbjct: 8  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 67
Query: 74 LKDGDEI 80
          ++D D I
Sbjct: 68 MEDEDTI 74

>pdb|2IO3|B Chain B, Crystal Structure Of Human Senp2 In Complex With Rangap1- Sumo-2 Length = 81

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 33/67 (49%)
Query: 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLG 73
          INL V GQD   + F+ +R   + KL+  YCE++        F  +G       TP QL 
Sbjct: 6  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 65
Query: 74 LKDGDEI 80
          ++D D I
Sbjct: 66 MEDEDTI 72

>pdb|2IO0|B Chain B, Crystal Structure Of Human Senp2 In Complex With Presumo-2 Length = 91

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 33/67 (49%)
Query: 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLG 73
          INL V GQD   + F+ +R   + KL+  YCE++        F  +G       TP QL 
Sbjct: 6  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 65
Query: 74 LKDGDEI 80
          ++D D I
Sbjct: 66 MEDEDTI 72

>pdb|2AWT|A Chain A, Solution Structure Of Human Small Ubiquitin-Like Modifier Protein Isoform 2 (Sumo-2) Length = 95

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 33/67 (49%)
Query: 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLG 73
          INL V GQD   + F+ +R   + KL+  YCE++        F  +G       TP QL 
Sbjct: 18 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 77
Query: 74 LKDGDEI 80
          ++D D I
Sbjct: 78 MEDEDTI 84

>pdb|2D07|B Chain B, Crystal Structure Of Sumo-3-Modified Thymine-Dna Glycosylase Length = 93

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 33/67 (49%)
Query: 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLG 73
          INL V GQD   + F+ +R   + KL+  YCE++        F  +G       TP QL 
Sbjct: 18 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 77
Query: 74 LKDGDEI 80
          ++D D I
Sbjct: 78 MEDEDTI 84

>pdb|2CKH|B Chain B, Senp1-sumo2 Complex Length = 79

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 33/67 (49%)
Query: 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLG 73
          INL V GQD   + F+ +R   + KL+  YCE++        F  +G       TP QL 
Sbjct: 4  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 63
Query: 74 LKDGDEI 80
          ++D D I
Sbjct: 64 MEDEDTI 70

>pdb|1WM3|A Chain A, Crystal Structure Of Human Sumo-2 Protein Length = 72

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 33/67 (49%)
Query: 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLG 73
          INL V GQD   + F+ +R   + KL+  YCE++        F  +G       TP QL 
Sbjct: 2  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 61
Query: 74 LKDGDEI 80
          ++D D I
Sbjct: 62 MEDEDTI 68

>pdb|3UIN|B Chain B, Complex Between Human Rangap1-Sumo2, Ubc9 And The Ir1 Domain From Ranbp2 Length = 80

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 33/67 (49%)
Query: 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLG 73
          INL V GQD   + F+ +R   + KL+  YCE++        F  +G       TP QL 
Sbjct: 5  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 64
Query: 74 LKDGDEI 80
          ++D D I
Sbjct: 65 MEDEDTI 71

>pdb|2IYD|B Chain B, Senp1 Covalent Complex With Sumo-2 Length = 81

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 33/67 (49%)
Query: 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLG 73
          INL V GQD   + F+ +R   + KL+  YCE++        F  +G       TP QL 
Sbjct: 4  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 63
Query: 74 LKDGDEI 80
          ++D D I
Sbjct: 64 MEDEDTI 70

>pdb|1WM2|A Chain A, Crystal Structure Of Human Sumo-2 Protein Length = 78

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 33/67 (49%)
Query: 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLG 73
          INL V GQD   + F+ +R   + KL+  YCE++        F  +G       TP QL 
Sbjct: 7  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 66
Query: 74 LKDGDEI 80
          ++D D I
Sbjct: 67 MEDEDTI 73

>pdb|2K1F|A Chain A, Sumo-3 From Drosophila Melanogaster (Dsmt3) Length = 88

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 21/67 (31%), Positives = 34/67 (50%)
Query: 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLG 73
          INL V GQDN  + F+ ++   ++KL+  YC++         F  +G       TP  L 
Sbjct: 13 INLKVLGQDNAVVQFKIKKHTPLRKLMNAYCDRAGLSMQVVRFRFDGQPINENDTPTSLE 72
Query: 74 LKDGDEI 80
          +++GD I
Sbjct: 73 MEEGDTI 79

>pdb|1U4A|A Chain A, Solution Structure Of Human Sumo-3 C47s Length = 87

Iteration: 1
 Score = 40.8 bits (94), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/67 (32%), Positives = 32/67 (47%)
Query: 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLG 73
          INL V GQD   + F+ +R   + KL+  Y E++        F  +G       TP QL 
Sbjct: 4  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYSERQGLSMRQIRFRFDGQPINETDTPAQLE 63
Query: 74 LKDGDEI 80
          ++D D I
Sbjct: 64 MEDEDTI 70

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	89
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	3e-16
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	5e-16
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	7e-16
3kyd_D	115	Small ubiquitin-related modifier 1; SUMO, thioeste	9e-16
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	1e-15
2d07_B	93	Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Ho	1e-15
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	3e-15
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	3e-15
1wm3_A	72	Ubiquitin-like protein SMT3B; ubiquitin fold, half	4e-15
3tix_A	207	Ubiquitin-like protein SMT3, RNA-induced transcri	2e-14
3v7o_A	227	Minor nucleoprotein VP30; ssgcid, seattle structur	2e-14
2eke_C	106	Ubiquitin-like protein SMT3; UBC9, SUMO binding mo	3e-14
2jxx_A	97	Nfatc2-interacting protein; nuclear factor of acti	9e-14
3a4r_A	79	Nfatc2-interacting protein; ubiquitin fold, coiled	2e-13
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	5e-07
2l76_A	95	Nfatc2-interacting protein; ubiquitin-like domain,	1e-06

>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 Length = 97

 Score = 66.5 bits (162), Expect = 3e-16
 Identities = 24/79 (30%), Positives = 41/79 (51%), Gaps = 1/79 (1%)

Query: 2  EKSPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN 61
          E   D    ++ I L V GQD+  ++F+ +    +KKL  +YC+++     +  FL  G 
Sbjct: 11 EDLGDKKEGEY-IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQ 69

Query: 62 RFPHIRTPDQLGLKDGDEI 80
          R     TP +LG+++ D I
Sbjct: 70 RIADNHTPKELGMEEEDVI 88

>1wz0_A Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-like molecule, structural genomics, sentrin2, NPPFSA; NMR {Homo sapiens} SCOP: d.15.1.1 Length = 104

 Score = 66.0 bits (161), Expect = 5e-16
 Identities = 24/79 (30%), Positives = 37/79 (46%), Gaps = 1/79 (1%)

Query: 2  EKSPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN 61
          ++      + H INL V GQD   + F+ +R   + KL+  YCE++        F  +G 
Sbjct: 14 KEGVKTENNDH-INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQ 72

Query: 62 RFPHIRTPDQLGLKDGDEI 80
                TP QL ++D D I
Sbjct: 73 PINETDTPAQLEMEDEDTI 91

>2io0_B Small ubiquitin-related modifier 2 precursor; SUMO, SENP, ULP, complex, protein binding, hydrolase; 2.30A {Homo sapiens} SCOP: d.15.1.1 Length = 91

 Score = 65.2 bits (159), Expect = 7e-16
 Identities = 24/73 (32%), Positives = 36/73 (49%), Gaps = 1/73 (1%)

Query: 8  IPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIR 67
          + + H INL V GQD   + F+ +R   + KL+  YCE++        F  +G       
Sbjct: 1  MANDH-INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETD 59

Query: 68 TPDQLGLKDGDEI 80
          TP QL ++D D I
Sbjct: 60 TPAQLEMEDEDTI 72

>3kyd_D Small ubiquitin-related modifier 1; SUMO, thioester, adenylation, inhibitor, TETR intermediate, ligase, nucleus, phosphoprotein; HET: VMX; 2.61A {Homo sapiens} Length = 115

 Score = 65.8 bits (160), Expect = 9e-16
 Identities = 24/79 (30%), Positives = 41/79 (51%), Gaps = 1/79 (1%)

Query: 2   EKSPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN 61
           E   D    ++ I L V GQD+  ++F+ +    +KKL  +YC+++     +  FL  G 
Sbjct: 30  EDLGDKKEGEY-IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQ 88

Query: 62  RFPHIRTPDQLGLKDGDEI 80
           R     TP +LG+++ D I
Sbjct: 89  RIADNHTPKELGMEEEDVI 107

>2k8h_A Small ubiquitin protein; SUMO, post-translational modifier, signaling protein; NMR {Trypanosoma brucei} Length = 110

 Score = 65.4 bits (159), Expect = 1e-15
 Identities = 20/79 (25%), Positives = 37/79 (46%)

Query: 2  EKSPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN 61
                  +   + + V   D   ++F  +    +KKL+ TYC+K+     +  FL +G 
Sbjct: 15 GAEGTCKEETALVAVKVVNADGAEMFFRIKSRTALKKLIDTYCKKQGISRNSVRFLFDGT 74

Query: 62 RFPHIRTPDQLGLKDGDEI 80
               +TP++LG++D D I
Sbjct: 75 PIDETKTPEELGMEDDDVI 93

>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 Length = 93

 Score = 64.9 bits (158), Expect = 1e-15
 Identities = 24/79 (30%), Positives = 35/79 (44%)

Query: 2  EKSPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN 61
           K      +   INL V GQD   + F+ +R   + KL+  YCE++        F  +G 
Sbjct: 6  PKEGVKTENNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQ 65

Query: 62 RFPHIRTPDQLGLKDGDEI 80
                TP QL ++D D I
Sbjct: 66 PINETDTPAQLEMEDEDTI 84

>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 Length = 79

 Score = 63.2 bits (154), Expect = 3e-15
 Identities = 22/67 (32%), Positives = 37/67 (55%)

Query: 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLG 73
          I L V GQD+  ++F+ +    +KKL  +YC+++     +  FL  G R     TP +LG
Sbjct: 4  IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELG 63

Query: 74 LKDGDEI 80
          +++ D I
Sbjct: 64 MEEEDVI 70

>2io1_B Small ubiquitin-related modifier 3 precursor; SUMO, SENP, ULP, complex, protein binding, hydrolase; 2.60A {Homo sapiens} SCOP: d.15.1.1 Length = 94

 Score = 63.7 bits (155), Expect = 3e-15
 Identities = 23/67 (34%), Positives = 33/67 (49%)

Query: 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLG 73
          INL V GQD   + F+ +R   + KL+  YCE++        F  +G       TP QL 
Sbjct: 8  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 67

Query: 74 LKDGDEI 80
          ++D D I
Sbjct: 68 MEDEDTI 74

>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 Length = 72

 Score = 62.9 bits (153), Expect = 4e-15
 Identities = 23/67 (34%), Positives = 33/67 (49%)

Query: 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLG 73
          INL V GQD   + F+ +R   + KL+  YCE++        F  +G       TP QL 
Sbjct: 2  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 61

Query: 74 LKDGDEI 80
          ++D D I
Sbjct: 62 MEDEDTI 68

>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} Length = 207

 Score = 64.0 bits (155), Expect = 2e-14
 Identities = 19/79 (24%), Positives = 42/79 (53%), Gaps = 2/79 (2%)

Query: 2   EKSPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN 61
           E  P+  P+ H INL V    +  ++F+ ++   +++L+  + +++  +  +  FL +G 
Sbjct: 47  EVKPEVKPETH-INLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLTFLYDGI 104

Query: 62  RFPHIRTPDQLGLKDGDEI 80
                +TP+ L ++D D I
Sbjct: 105 EIQADQTPEDLDMEDNDII 123

>3v7o_A Minor nucleoprotein VP30; ssgcid, seattle structural genomics center for infectious disease, SMT, transcription; 2.25A {Reston ebolavirus} Length = 227

 Score = 64.4 bits (156), Expect = 2e-14
 Identities = 20/79 (25%), Positives = 43/79 (54%), Gaps = 2/79 (2%)

Query: 2  EKSPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN 61
          E  P+  P+ H INL V    +  ++F+ ++   +++L+  + +++  +  +  FL +G 
Sbjct: 11 EVKPEVKPETH-INLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 68

Query: 62 RFPHIRTPDQLGLKDGDEI 80
          R    +TP+ L ++D D I
Sbjct: 69 RIQADQTPEDLDMEDNDII 87

>2eke_C Ubiquitin-like protein SMT3; UBC9, SUMO binding motif, SBM, ligase/protein binding complex; 1.90A {Saccharomyces cerevisiae} SCOP: d.15.1.1 Length = 106

 Score = 61.5 bits (149), Expect = 3e-14
 Identities = 20/79 (25%), Positives = 43/79 (54%), Gaps = 2/79 (2%)

Query: 2  EKSPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN 61
          E  P+  P+ H INL V    +  ++F+ ++   +++L+  + +++  +  +  FL +G 
Sbjct: 21 EVKPEVKPETH-INLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 78

Query: 62 RFPHIRTPDQLGLKDGDEI 80
          R    +TP+ L ++D D I
Sbjct: 79 RIQADQTPEDLDMEDNDII 97

>2jxx_A Nfatc2-interacting protein; nuclear factor of activated T-cells, cytoplasmic 2- interacting protein, ubiquitin like homologue; NMR {Homo sapiens} Length = 97

 Score = 60.0 bits (145), Expect = 9e-14
 Identities = 19/81 (23%), Positives = 31/81 (38%), Gaps = 2/81 (2%)

Query: 1  MEKSPDNIPDQHFINLVVKGQD-NDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN 59
          +         Q  + L V+G++ +  L     RD  +K L+  Y E          F  +
Sbjct: 14 LVPRGSTETSQQ-LQLRVQGKEKHQTLEVSLSRDSPLKTLMSHYEEAMGLSGRKLSFFFD 72

Query: 60 GNRFPHIRTPDQLGLKDGDEI 80
          G +      P  LG++ GD I
Sbjct: 73 GTKLSGRELPADLGMESGDLI 93

>3a4r_A Nfatc2-interacting protein; ubiquitin fold, coiled coil, cytoplasm, methylation, nucleus, transcription; 1.00A {Mus musculus} PDB: 3a4s_C 3rd2_A Length = 79

 Score = 58.7 bits (142), Expect = 2e-13
 Identities = 18/68 (26%), Positives = 28/68 (41%), Gaps = 1/68 (1%)

Query: 14 INLVVKGQD-NDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQL 72
          + L V+G++ +  L      D  +K L+  Y E          F  +G +      P  L
Sbjct: 8  LRLRVQGKEKHQMLEISLSPDSPLKVLMSHYEEAMGLSGHKLSFFFDGTKLSGKELPADL 67

Query: 73 GLKDGDEI 80
          GL+ GD I
Sbjct: 68 GLESGDLI 75

>3pge_A SUMO-modified proliferating cell nuclear antigen; DNA replication, DNA binding protein; 2.80A {Saccharomyces cerevisiae} Length = 200

 Score = 44.1 bits (103), Expect = 5e-07
 Identities = 21/81 (25%), Positives = 44/81 (54%), Gaps = 2/81 (2%)

Query: 2  EKSPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN 61
          E  P+  P+ H INL V    +  ++F+ ++   +++L+  + +++  +  +  FL +G 
Sbjct: 19 EVKPEVKPETH-INLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 76

Query: 62 RFPHIRTPDQLGLKDGDEIVA 82
          R    +TP+ L ++D D I A
Sbjct: 77 RIQADQTPEDLDMEDNDIIEA 97

>2l76_A Nfatc2-interacting protein; ubiquitin-like domain, structural genomics, PSI-biology, Pro structure initiative; NMR {Homo sapiens} Length = 95

 Score = 41.9 bits (98), Expect = 1e-06
 Identities = 11/77 (14%), Positives = 19/77 (24%), Gaps = 1/77 (1%)

Query: 4  SPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRF 63
           P          L ++ +  D +    R    ++ ++                L      
Sbjct: 12 GPTLPETPRLFPLKIRCR-ADLVRLPLRMSEPLQSVVDHMATHLGVSPSRILLLFGETEL 70

Query: 64 PHIRTPDQLGLKDGDEI 80
              TP  L L   D I
Sbjct: 71 SPTATPRTLKLGVADII 87

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	89
3kyd_D	115	Small ubiquitin-related modifier 1; SUMO, thioeste	100.0
2eke_C	106	Ubiquitin-like protein SMT3; UBC9, SUMO binding mo	100.0
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	100.0
2d07_B	93	Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Ho	99.98
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	99.97
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	99.97
2l76_A	95	Nfatc2-interacting protein; ubiquitin-like domain,	99.97
2jxx_A	97	Nfatc2-interacting protein; nuclear factor of acti	99.97
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	99.97
3tix_A	207	Ubiquitin-like protein SMT3, RNA-induced transcri	99.97
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	99.96
3a4r_A	79	Nfatc2-interacting protein; ubiquitin fold, coiled	99.96
1wm3_A	72	Ubiquitin-like protein SMT3B; ubiquitin fold, half	99.96
3v7o_A	227	Minor nucleoprotein VP30; ssgcid, seattle structur	99.96
3uf8_A	209	Ubiquitin-like protein SMT3, peptidyl-prolyl CIS-	99.94
3ix6_A	360	TS, tsase, thymidylate synthase; niaid, ssgcid, se	99.93
4da1_A	389	Protein phosphatase 1K, mitochondrial; metal-ION-a	99.93
3goe_A	82	DNA repair protein RAD60; SUMO-like domain, sumoyl	99.91
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	99.87
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	99.87
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	99.71
4hcn_B	98	Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidas	99.69
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	99.67
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	99.66
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	99.66
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	99.65
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	99.65
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	99.65
3vdz_A	111	Ubiquitin-40S ribosomal protein S27A; gadolinium,	99.65
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	99.62
3v6c_B	91	Ubiquitin; structural genomics, structural genomic	99.61
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	99.6
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	99.6
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	99.59
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	99.58
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	99.57
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	99.57
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	99.56
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	99.55
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	99.55
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	99.55
3plu_A	93	Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-	99.54
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	99.52
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	99.5
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	99.49
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	99.49
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	99.49
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	99.49
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	99.48
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	99.47
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	99.47
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	99.46
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	99.46
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	99.45
1we6_A	111	Splicing factor, putative; structural genomics, ub	99.43
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	99.43
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	99.42
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	99.42
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	99.42
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	99.41
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	99.41
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	99.11
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	99.39
1uh6_A	100	Ubiquitin-like 5; beta-grAsp fold, structural geno	99.38
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	99.38
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	99.37
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	99.36
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	99.35
1wia_A	95	Hypothetical ubiquitin-like protein (riken cDNA 20	99.35
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	99.34
4a20_A	98	Ubiquitin-like protein MDY2; protein binding, GET-	99.34
3u5c_f	152	40S ribosomal protein S31; translation, ribosome,	99.33
2daf_A	118	FLJ35834 protein; hypothetical protein FLJ35834, u	99.31
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	99.3
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	99.26
1v2y_A	105	3300001G02RIK protein; hypothetical protein, ubiqu	99.25
1wju_A	100	NEDD8 ultimate buster-1; ubiquitin-like domain, st	99.24
2gow_A	125	HCG-1 protein, ubiquitin-like protein 3; BC059385,	99.21
2lxa_A	87	Ubiquitin-like protein MDY2; ubiquitin-like domain	99.18
1se9_A	126	Ubiquitin family; ubiquitin-like, cell-free, wheat	99.17
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	99.15
4dbg_A	105	Ranbp-type and C3HC4-type zinc finger-containing;	99.14
1x1m_A	107	Ubiquitin-like protein SB132; structural genomics,	99.14
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	99.13
1wgh_A	116	Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fo	99.12
2fnj_B	118	Transcription elongation factor B polypeptide 2; b	99.1
2kdb_A	99	Homocysteine-responsive endoplasmic reticulum- res	99.08
1wxv_A	92	BAG-family molecular chaperone regulator-1; struct	99.08
2kjr_A	95	CG11242; UBL, ubiquitin, ubiquitin-like, structura	99.06
1wgg_A	96	Ubiquitin carboxyl-terminal hydrolase 14; ubiquiti	99.05
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	99.04
1v5t_A	90	8430435I17RIK protein; hypothetical protein, ubiqu	99.03
4ajy_B	118	Transcription elongation factor B polypeptide 2; E	98.99
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	98.98
2kj6_A	97	Tubulin folding cofactor B; methods development, N	98.93
1wf9_A	107	NPL4 family protein; beta-grAsp fold like domain,	98.92
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	98.89
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	98.88
1v6e_A	95	Cytoskeleton-associated protein 1; tubulin-specifi	98.86
1t0y_A	122	Tubulin folding cofactor B; ubiquitin-like, cytosk	98.86
2dzj_A	88	Synaptic glycoprotein SC2; ubiquitin-like fold, st	98.84
4b6w_A	86	Tubulin-specific chaperone; CAP-Gly, ubiquitin-lik	98.78
2kzr_A	86	Ubiquitin thioesterase OTU1; structural genomics,	98.77
1wjn_A	97	Tubulin-folding protein TBCE; ubiquitin-like domai	98.64
3shq_A	320	UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila	98.48
2dzm_A	100	FAS-associated factor 1; ubiquitin-like domain, HF	98.48
2pjh_A	80	Protein NPL4, nuclear protein localization protein	98.12
2al3_A	90	TUG long isoform; TUG UBL1 insulin, endocytosis/ex	98.07
2bps_A	81	YUKD protein; ubiquitin-like protein, ubiquitin; 2	97.56
4efo_A	94	Serine/threonine-protein kinase TBK1; ubiquitin li	97.44
3qx1_A	84	FAS-associated factor 1; UBX, protein binding, P97	97.26
2daj_A	91	KIAA0977 protein, COBL-like 1; ubiquitin-like doma	97.19
1ryj_A	70	Unknown; beta/alpha protein, structural genomics,	97.06
3rpf_C	74	Molybdopterin converting factor, subunit 1 (MOAD);	96.88
3jyu_A	231	Ubiquitin carboxyl-terminal hydrolase; domain in u	96.74
1wj4_A	124	KIAA0794 protein; UBX domain, beta-grAsp fold, str	96.73
4a3p_A	217	Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {H	96.63
2cr5_A	109	Reproduction 8; UBX domain, D0H8S2298E protein, st	96.6
2dzk_A	109	UBX domain-containing protein 2; ubiquitin-like fo	96.37
1tyg_B	87	YJBS; alpha beta barrel, protein-protein complex,	96.31
2kc2_A	128	Talin-1, F1; FERM, adhesion, cell membrane, cell p	96.18
1f0z_A	66	THis protein; ubiquitin fold, transport protein; N	95.88
1oey_A	83	P67-PHOX, neutrophil cytosol factor 2; immune syst	95.73
3po0_A	89	Small archaeal modifier protein 1; ubiquitin-like	95.69
2kvr_A	130	Ubiquitin carboxyl-terminal hydrolase 7; USP7, ubi	95.58
2kl0_A	73	Putative thiamin biosynthesis THis; structural gen	95.27
2l32_A	74	Small archaeal modifier protein 2; protein BIN; NM	95.17
1h4r_A	314	Merlin; FERM, neurofibromatosis, NF2, structural p	95.09
2k5p_A	78	THis protein, thiamine-biosynthesis protein; NESG,	94.86
1vd2_A	89	Protein kinase C, IOTA type; PB1 domain, OPCA moti	94.76
1vjk_A	98	Molybdopterin converting factor, subunit 1; struct	94.73
2cu3_A	64	Unknown function protein; thermus thermophilus HB8	94.71
1fm0_D	81	Molybdopterin convertin factor, subunit 1; molybde	94.7
2q5w_D	77	Molybdopterin converting factor, subunit 1; MOCO,	94.59
1y8x_B	98	Ubiquitin-activating enzyme E1C; ubiquitin-conjuga	94.34
2g1e_A	90	Hypothetical protein TA0895; MOAD, molybdopterin,	94.19
1j0g_A	92	Hypothetical protein 1810045K17; ubiquitin-like fo	93.85
1s3s_G	127	P47 protein; AAA ATPase, protein-protein complex,	93.81
3dwg_C	93	9.5 kDa culture filtrate antigen CFP10A; sulfur ca	92.89
2ylm_A	530	Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70	92.62
2ylm_A	530	Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70	92.61
1ef1_A	294	Moesin; membrane, FERM domain, tail domain, membra	92.1
1rws_A	77	Hypothetical protein PF1061; residual dipolar coup	91.29
2hj1_A	97	Hypothetical protein; structural genomics, PSI, pr	91.11
1wz3_A	96	Autophagy 12B, ATG12B, APG12B; ubiquitin-fold, pla	91.1
2qjl_A	99	URM1, ubiquitin-related modifier 1; ubiquitin-like	91.1
3u7z_A	101	Putative metal binding protein rumgna_00854; the b	90.74
2i1j_A	575	Moesin; FERM, coiled-coil, C-ermad, ERM, radixin,	89.7
3qij_A	296	Protein 4.1; cytoskeleton, structural genomics, st	89.4
2inc_C	83	TOUB protein; DIIRON, 4-helix bundle, carboxylate	89.14
3ivf_A	371	Talin-1; FERM domain, cell membrane, cell projecti	89.12
3w1s_C	91	Ubiquitin-like protein ATG12; ubiquitin fold, E3-l	88.86
2juo_A	89	GA-binding protein alpha chain; OST, ubiquitin, tr	88.55
2l52_A	99	Methanosarcina acetivorans SAMP1 homolog; beta-grA	87.92
3ivf_A	371	Talin-1; FERM domain, cell membrane, cell projecti	87.6
1ip9_A	85	BEM1 protein; ubiquitin alpha/beta roll, signaling	85.13
3ge3_C	84	Toluene-4-monooxygenase system protein B; DIIRON h	83.82
1v8c_A	168	MOAD related protein; riken structural genomics/pr	83.27
4gdk_A	91	Ubiquitin-like protein ATG12; protein-protein conj	82.98
3hvz_A	78	Uncharacterized protein; alpha-beta protein, struc	82.41
2kmm_A	73	Guanosine-3',5'-BIS(diphosphate) 3'- pyrophosphohy	82.35
1wgk_A	114	Riken cDNA 2900073H19 protein; THis domain, ubiqut	81.56

>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=100.00  E-value=5e-33  Score=177.65  Aligned_cols=81  Identities=28%  Similarity=0.527  Sum_probs=76.3

Q ss_pred             CCCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeec
Q 048514            8 IPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAG   87 (89)
Q Consensus         8 ~~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~   87 (89)
                      +.++++|+|+|++++|.+++|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|||||+|||+++|+
T Consensus        35 k~~~~~I~LKV~~qdg~ev~fkIk~tt~L~KLm~aY~er~Gl~~~~irFlFDG~rI~~~~TP~dL~MEDgD~IdV~~~Q~  114 (115)
T 3kyd_D           35 KKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQC  114 (115)
T ss_dssp             ----CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHHTCCTTSEEEEETTEECCTTCCTTTTTCCTTCEEEEEECCC
T ss_pred             CCCCCeEEEEEEcCCCCEEEEEEccCChHHHHHHHHHHHhCCChhhEEEEECCeECCCCCCHHHcCCCCCCEEEEEeecc
Confidence            44678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             C
Q 048514           88 G   88 (89)
Q Consensus        88 G   88 (89)
                      |
T Consensus       115 G  115 (115)
T 3kyd_D          115 G  115 (115)
T ss_dssp             C
T ss_pred             C
Confidence            8

>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=100.00  E-value=2.3e-32  Score=172.51  Aligned_cols=83  Identities=22%  Similarity=0.453  Sum_probs=76.6

Q ss_pred             CCCCCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514            6 DNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus         6 ~~~~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      +.++++.+|+|+|++ +|++++|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|||||+|+|+++
T Consensus        24 ~~~~~~~~I~IkV~~-~g~~i~fkIk~tt~l~kL~~ay~ek~gi~~~~~rF~FdG~rl~~~~Tp~dl~medgD~Idv~~~  102 (106)
T 2eke_C           24 PEVKPETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHRE  102 (106)
T ss_dssp             CCCCCCSEEEEEEEC-SSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEEC
T ss_pred             CCCCCCCeEEEEEec-CCcEEEEEeCCCCHHHHHHHHHHHHhCCCcccEEEEECCeEcCCCCCHHHcCCCCCCEEEEEee
Confidence            344577899999999 9999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ecCC
Q 048514           86 AGGA   89 (89)
Q Consensus        86 q~GG   89 (89)
                      |+||
T Consensus       103 q~GG  106 (106)
T 2eke_C          103 QIGG  106 (106)
T ss_dssp             C---
T ss_pred             cccC
Confidence            9998

>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=100.00  E-value=2e-32  Score=168.56  Aligned_cols=80  Identities=30%  Similarity=0.498  Sum_probs=77.0

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ++++|+|+|++++|+++.|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|||||+|||+++|+||
T Consensus         2 ~~~~i~ikVk~~~g~~v~~~vk~~t~l~kl~~~y~~~~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~q~gg   81 (91)
T 2io0_B            2 ANDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQQTGG   81 (91)
T ss_dssp             --CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHTTCCSTTEEEEETTEECCTTCCTTTTTCCTTEEEEEEECCCCC
T ss_pred             CCCeEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEeccCC
Confidence            36789999999999999999999999999999999999999999999999999999999999999999999999999998

>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=99.98  E-value=2.8e-32  Score=168.19  Aligned_cols=81  Identities=30%  Similarity=0.500  Sum_probs=75.1

Q ss_pred             CCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecC
Q 048514            9 PDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGG   88 (89)
Q Consensus         9 ~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   88 (89)
                      .++.+|+|+|++++|++++|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|+|||+|||+++|+|
T Consensus        13 ~~~~~i~ikV~~~~g~~i~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~dl~medgD~Idv~~~q~G   92 (93)
T 2d07_B           13 ENNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQQTG   92 (93)
T ss_dssp             --CCEEEEEEECTTSCEEEEEEETTSCHHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEECC--
T ss_pred             CCCCeEEEEEECCCCCEEEEEEccCCHHHHHHHHHHHHhCCCccceEEEECCEEcCCCCCHHHcCCCCCCEEEEEeeccC
Confidence            35789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             C
Q 048514           89 A   89 (89)
Q Consensus        89 G   89 (89)
                      |
T Consensus        93 G   93 (93)
T 2d07_B           93 G   93 (93)
T ss_dssp             -
T ss_pred             C
Confidence            8

>1wz0_A Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-like molecule, structural genomics, sentrin2, NPPFSA; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=99.97  E-value=5.8e-32  Score=170.05  Aligned_cols=81  Identities=28%  Similarity=0.474  Sum_probs=78.8

Q ss_pred             CCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecC
Q 048514            9 PDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGG   88 (89)
Q Consensus         9 ~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   88 (89)
                      .++.+|+|+|++++|++++|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|||||+|||+++|+|
T Consensus        20 ~~~~~I~IkVk~~~g~~i~~kVk~~t~l~kL~~~y~ek~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~q~G   99 (104)
T 1wz0_A           20 ENNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQQTS   99 (104)
T ss_dssp             SCSCCEEEEEECSSSCEEEEEECTTSCHHHHHHHHHHHHTCCTTTSCEESSSSBCCTTSCTTTTTCCTTEEEEECCCCCC
T ss_pred             CCCCeEEEEEECCCCCEEEEEEcCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEeccC
Confidence            35689999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             C
Q 048514           89 A   89 (89)
Q Consensus        89 G   89 (89)
                      |
T Consensus       100 G  100 (104)
T 1wz0_A          100 G  100 (104)
T ss_dssp             C
T ss_pred             C
Confidence            8

>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=99.97  E-value=1.5e-31  Score=165.30  Aligned_cols=80  Identities=30%  Similarity=0.486  Sum_probs=77.1

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ++++|+|+|++++|++++|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|||||+|||+++|+||
T Consensus         4 ~~~~i~ikVk~~~g~~i~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~~~GG   83 (94)
T 2io1_B            4 MNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQQTGG   83 (94)
T ss_dssp             --CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTCEEEEEECCEES
T ss_pred             CCCeEEEEEECCCCCEEEEEECCCCHHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEeccCC
Confidence            56789999999999999999999999999999999999999999999999999999999999999999999999999998

>2l76_A Nfatc2-interacting protein; ubiquitin-like domain, structural genomics, PSI-biology, Pro structure initiative; NMR {Homo sapiens}

Probab=99.97  E-value=2.6e-31  Score=164.24  Aligned_cols=78  Identities=13%  Similarity=0.129  Sum_probs=73.8

Q ss_pred             CCCCCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514            6 DNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus         6 ~~~~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   84 (89)
                      ..++.+.+|+|+|++ +|.+++|+|+++|+|+|||++||++.|++++++||+|||.||++++||++|+|||||+|||++
T Consensus        14 ~~~~~~~~IniKV~~-~g~ev~FkIK~tt~l~KL~~aYc~r~gv~~~sirFlfDG~rI~~~~TP~~L~meD~DiID~~~   91 (95)
T 2l76_A           14 TLPETPRLFPLKIRC-RADLVRLPLRMSEPLQSVVDHMATHLGVSPSRILLLFGETELSPTATPRTLKLGVADIIDCVV   91 (95)
T ss_dssp             CCCSCCCCEEEEEEC-SSSEEEEEECSSSCTHHHHHHHHHHHTSCGGGEEEEETTEECCTTSCHHHHTCCSSCEEEEEE
T ss_pred             CCCCCCCeEEEEEEc-CCcEEEEEEecCChHHHHHHHHHhhcCCChhhEEEEECCcCCCCCCCHhHcCCCCCCEEEEEE
Confidence            345678899999995 799999999999999999999999999999999999999999999999999999999999986

>2jxx_A Nfatc2-interacting protein; nuclear factor of activated T-cells, cytoplasmic 2- interacting protein, ubiquitin like homologue; NMR {Homo sapiens}

Probab=99.97  E-value=5.4e-31  Score=163.93  Aligned_cols=80  Identities=23%  Similarity=0.392  Sum_probs=73.5

Q ss_pred             CCCCCCCCCcEEEEEEecCCC-EEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEE
Q 048514            4 SPDNIPDQHFINLVVKGQDND-PLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVA   82 (89)
Q Consensus         4 ~~~~~~~~~~I~i~v~~~~~~-~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv   82 (89)
                      +|..++++++|+|+|++++|. +++|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|||||+|||
T Consensus        16 ~~~~~~~~~~I~LkV~~~dg~~~v~fkIk~~t~l~kLm~aY~~~~g~~~~~vrF~FDG~rI~~~~TP~dLdMEDgD~IDv   95 (97)
T 2jxx_A           16 PRGSTETSQQLQLRVQGKEKHQTLEVSLSRDSPLKTLMSHYEEAMGLSGRKLSFFFDGTKLSGRELPADLGMESGDLIEV   95 (97)
T ss_dssp             ----CCSCSEEEEEEEESSSSCEEEEEEETTSCHHHHHHHHHHHTTCSSSCCEEEETTEECCSCSCHHHHTCCTTEEEEE
T ss_pred             CCCCCCCCCeEEEEEEcCCCCEEEEEEECCCChHHHHHHHHHHHHCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEE
Confidence            346667889999999999995 8999999999999999999999999999999999999999999999999999999999


Q ss_pred             E
Q 048514           83 T   83 (89)
Q Consensus        83 ~   83 (89)
                      +
T Consensus        96 ~   96 (97)
T 2jxx_A           96 W   96 (97)
T ss_dssp             E
T ss_pred             e
Confidence            7

>2k8h_A Small ubiquitin protein; SUMO, post-translational modifier, signaling protein; NMR {Trypanosoma brucei}

Probab=99.97  E-value=1.8e-31  Score=169.28  Aligned_cols=83  Identities=27%  Similarity=0.516  Sum_probs=79.8

Q ss_pred             CCCCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514            7 NIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus         7 ~~~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      ...++.+|+|+|++++|+++.|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|||||+|||+++|
T Consensus        20 ~~~~~~~I~IkVk~~~g~~i~fkVk~~t~l~kL~~ay~ek~gi~~~~~rfiFdG~~L~~~~Tp~dl~mEDgD~Idv~~~q   99 (110)
T 2k8h_A           20 CKEETALVAVKVVNADGAEMFFRIKSRTALKKLIDTYCKKQGISRNSVRFLFDGTPIDETKTPEELGMEDDDVIDAMVEQ   99 (110)
T ss_dssp             CCCCCCCEEEEEEETTSCCEEEEECTTSSHHHHHHHHHHHHTCCSSSCEEESSSCBCCSSSHHHHHHCSSEEEEEEECCC
T ss_pred             CCCCCCeEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEcc
Confidence            34467899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCC
Q 048514           87 GGA   89 (89)
Q Consensus        87 ~GG   89 (89)
                      +||
T Consensus       100 ~Gg  102 (110)
T 2k8h_A          100 TGG  102 (110)
T ss_dssp             CCC
T ss_pred             cCc
Confidence            998

>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=99.97  E-value=6e-31  Score=180.42  Aligned_cols=79  Identities=22%  Similarity=0.454  Sum_probs=76.2

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ++.+|+|+|. ++|.+++|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|||||+|||+++|+||
T Consensus        54 p~e~InLKVk-~dG~eV~FKIKrtTpL~KLmeAYcERqGL~~~sIRFLFDGqRI~~ddTPeDLdMEDGDtIDV~leQ~GG  132 (207)
T 3tix_A           54 PETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLTFLYDGIEIQADQTPEDLDMEDNDIIEAHREQIGG  132 (207)
T ss_dssp             -CCEEEEEEE-CSSCEEEEEEETTSCTHHHHHHHHHHTTCCGGGSCEEETTEECCSSCCTTTTTCCTTEEEEECCCCCTT
T ss_pred             CCCcEEEEEe-cCCCEEEEEEccCChHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCHHHcCCCCCCEEEEEEeccCC
Confidence            4689999997 599999999999999999999999999999999999999999999999999999999999999999998

>3pge_A SUMO-modified proliferating cell nuclear antigen; DNA replication, DNA binding protein; 2.80A {Saccharomyces cerevisiae}

Probab=99.96  E-value=4.5e-30  Score=177.08  Aligned_cols=79  Identities=23%  Similarity=0.468  Sum_probs=76.7

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ++.+|+|+|+ ++|.+++|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|||||+|+|+++|+||
T Consensus        26 ~~~~I~LkV~-~~g~~v~fkIk~~t~l~kL~~ay~er~Gi~~~~~RF~FdG~rI~~~~TP~dL~MEdgD~Idv~~~q~gg  104 (200)
T 3pge_A           26 PETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGG  104 (200)
T ss_dssp             CCCCEEEEEE-CSSCEEEEEECTTSCTHHHHHHHHHHHSSCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEECCSCC
T ss_pred             CCCeEEEEEe-cCCCEEEEEEecCCHHHHHHHHHHHHhCCChhhEEEEECCEEcCCCCCHHHcCCCCCCEEEEEeccCcC
Confidence            5789999997 499999999999999999999999999999999999999999999999999999999999999999998

>3a4r_A Nfatc2-interacting protein; ubiquitin fold, coiled coil, cytoplasm, methylation, nucleus, transcription; 1.00A {Mus musculus} PDB: 3a4s_C 3rd2_A

Probab=99.96  E-value=1.7e-29  Score=151.48  Aligned_cols=76  Identities=24%  Similarity=0.353  Sum_probs=73.1

Q ss_pred             CCCCCcEEEEEEecCCC-EEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEE
Q 048514            8 IPDQHFINLVVKGQDND-PLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVAT   83 (89)
Q Consensus         8 ~~~~~~I~i~v~~~~~~-~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~   83 (89)
                      |.++++|+|+|++++|+ +++|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|||||+|||+
T Consensus         2 p~~~~~i~ikV~~~~g~~~i~~~i~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~~l~medgD~Idv~   78 (79)
T 3a4r_A            2 PLGSQELRLRVQGKEKHQMLEISLSPDSPLKVLMSHYEEAMGLSGHKLSFFFDGTKLSGKELPADLGLESGDLIEVW   78 (79)
T ss_dssp             TTCCCCEEEEEECSSTTCEEEEEECTTSCHHHHHHHHHHHHTCTTCCCEEEETTEECCSCCCHHHHTCCTTCEEEEE
T ss_pred             CCCCCEEEEEEEeCCCCEEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEe
Confidence            45778999999999996 89999999999999999999999999999999999999999999999999999999997

>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=99.96  E-value=1.6e-29  Score=148.96  Aligned_cols=72  Identities=32%  Similarity=0.530  Sum_probs=70.1

Q ss_pred             cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514           13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus        13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   84 (89)
                      +|+|+|++++|++++|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|||||+|||++
T Consensus         1 ~i~lkV~~~~g~~v~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~~l~medgD~Idv~~   72 (72)
T 1wm3_A            1 HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQ   72 (72)
T ss_dssp             CEEEEEECTTSCEEEEEECTTSCTHHHHHHHHHHHTCCTTTCEEEETTEECCTTCCTTTTTCCTTEEEEEEC
T ss_pred             CEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEEC
Confidence            589999999999999999999999999999999999999999999999999999999999999999999974

>3v7o_A Minor nucleoprotein VP30; ssgcid, seattle structural genomics center for infectious disease, SMT, transcription; 2.25A {Reston ebolavirus}

Probab=99.96  E-value=1.8e-31  Score=185.08  Aligned_cols=80  Identities=23%  Similarity=0.461  Sum_probs=0.9

Q ss_pred             CCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecC
Q 048514            9 PDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGG   88 (89)
Q Consensus         9 ~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   88 (89)
                      +++++|+|+| +++|++++|+|++++||+|||++||++.|++++++||+|||++|.+++||++|+|||||+|||+++|+|
T Consensus        17 ~p~e~InLKV-~qdGseV~FKIKrtTpL~KLM~AYcERqGLs~~siRFLFDGqRI~dddTPadL~MEDGDtIDV~leQ~G   95 (227)
T 3v7o_A           17 KPETHINLKV-SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIG   95 (227)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCCCeEEEEE-eCCCCEEEEEEccCChHHHHHHHHHHHhCCCccceEEEECCEecCCCCCHHHcCCCCCCEEEEEecccC
Confidence            3578999999 889999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             C
Q 048514           89 A   89 (89)
Q Consensus        89 G   89 (89)
                      |
T Consensus        96 G   96 (227)
T 3v7o_A           96 G   96 (227)
T ss_dssp             C
T ss_pred             C
Confidence            8

>3uf8_A Ubiquitin-like protein SMT3, peptidyl-prolyl CIS- isomerase; ssgcid, seattle structural genomics center for in disease; HET: FK5; 1.50A {Burkholderia pseudomallei} PDB: 4ggq_C* 3vaw_A* 3uqa_A* 4g50_A* 4fn2_A* 3uqb_A* 4giv_A* 1euv_B 3v60_A 3v61_A 3v62_A*

Probab=99.94  E-value=2.8e-27  Score=163.48  Aligned_cols=80  Identities=23%  Similarity=0.456  Sum_probs=77.3

Q ss_pred             CCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecC
Q 048514            9 PDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGG   88 (89)
Q Consensus         9 ~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   88 (89)
                      .++++|+|+|++ ++++++|+|+++++|++||++||++.|++.+++||+|||++|++++||++|.|||+|+|||+.+|+|
T Consensus        17 ~~~~~i~ikv~~-~~~~v~~~i~~~~~l~kl~~~y~~~~g~~~~~~~f~fdG~~i~~~~Tpk~L~~ed~d~I~~~~eq~G   95 (209)
T 3uf8_A           17 KPETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIG   95 (209)
T ss_dssp             -CCSEEEEEEEC-SSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGCEEEETTEECCTTCCTTTTTCCTTEEEEEECSCTT
T ss_pred             CCCCcEEEEEEc-CCCEEEEEEeeCCHHHHHHHHHHHhhCCChheEEEEECCEeccCCCChHHhhhcccccchhhccccc
Confidence            478999999998 8889999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             C
Q 048514           89 A   89 (89)
Q Consensus        89 G   89 (89)
                      |
T Consensus        96 g   96 (209)
T 3uf8_A           96 G   96 (209)
T ss_dssp             C
T ss_pred             c
Confidence            7

>3ix6_A TS, tsase, thymidylate synthase; niaid, ssgcid, seattle structural center for infectious DISE brucellosis, orchitis, epididymitis, mastitis; 2.20A {Brucella melitensis}

Probab=99.93  E-value=5.7e-28  Score=178.22  Aligned_cols=79  Identities=23%  Similarity=0.465  Sum_probs=0.0

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ++++|+|+|++ +|++++|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|||||+|||+++|+||
T Consensus        18 ~~~~I~LKV~~-~g~~v~FkIk~~t~l~kLm~aY~~r~G~~~~~~rFlFdG~rI~~~~TP~~L~MEDgD~Idv~~~Q~g~   96 (360)
T 3ix6_A           18 PETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGG   96 (360)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCCeEEEEEec-CCcEEEEEEecCChHHHHHHHHHHHhCCCcceEEEEECCeECCCCCChHHcCCCccchhhhhhccCch
Confidence            67899999997 68899999999999999999999999999999999999999999999999999999999999999998

>4da1_A Protein phosphatase 1K, mitochondrial; metal-ION-assisted catalysis, dehydrogenase phosphatase, hydrolase; 2.38A {Homo sapiens} PDB: 3qht_A 1l2n_A

Probab=99.93  E-value=1.8e-27  Score=175.71  Aligned_cols=79  Identities=22%  Similarity=0.457  Sum_probs=0.0

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ++++|+|+|++ ++.+++|+|++++||++||++||++.|++.+++||+|||++|.+++||++|+|||||+|+|+++|+||
T Consensus        27 ~~~~i~lkv~~-~~~~~~~~i~~~~~~~~l~~~y~~~~g~~~~~~~f~f~G~~i~~~~Tp~~l~med~d~i~~~~~q~gg  105 (389)
T 4da1_A           27 PETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQAPEDLDMEDNDIIEAHREQIGG  105 (389)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCCcEEEEEec-CCcEEEEEECCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEeeeeeccccc
Confidence            55799999998 78899999999999999999999999999999999999999999999999999999999999999998

>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=99.91  E-value=5.2e-24  Score=127.23  Aligned_cols=74  Identities=16%  Similarity=0.379  Sum_probs=69.4

Q ss_pred             CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCC-cEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514           12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYG-TFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~-~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      .-|++-+++.....+.|+|++++++++||.+||.+.|++++ ++||.|||.||.+++||++|+|+|||.|||++.
T Consensus         8 ~~~~~~~~~~~~~dl~f~I~~~t~v~kLi~ayc~~~~I~~~~~IrllFDGdRLdp~~tp~DlemeD~D~IDvmL~   82 (82)
T 3goe_A            8 KLITLLLRSSKSEDLRLSIPVDFTVKDLIKRYCTEVKISFHERIRLEFEGEWLDPNDQVQSTELEDEDQVSVVLD   82 (82)
T ss_dssp             CEEEEEEEESSSCCEEEEEETTSBHHHHHHHHHHHHTCCCCTTCEEEETTEECCTTSBGGGSSCCTTCEEEEEC-
T ss_pred             HHHHHhhhccCCCCeEEEecCCCCHHHHHHHHHHHcCCCcCceEEEEEcCcccCccCChhhhCCcCCceeeeeeC
Confidence            45889999877788999999999999999999999999998 999999999999999999999999999999863

>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=99.87  E-value=7e-22  Score=116.68  Aligned_cols=78  Identities=29%  Similarity=0.558  Sum_probs=75.1

Q ss_pred             CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +.|+|.|++.+|+.+.|+|.+++++..|+++|+++.|++++++||+|+|++|.++.|+++++|++||+|++++++.||
T Consensus         2 ~~m~i~vk~~~g~~~~~~v~~~~tv~~lk~~i~~~~gi~~~~qrL~~~G~~L~d~~tl~~~~i~~~~~i~l~~~~~GG   79 (79)
T 2uyz_B            2 EYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTGG   79 (79)
T ss_dssp             CEEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCHHHHTCCTTEEEEEEECCCC-
T ss_pred             CeEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHHCCCcccEEEEECCEEeCCCCCHHHcCCCCCCEEEEEEeccCC
Confidence            368999999999999999999999999999999999999999999999999999999999999999999999999998

>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=99.87  E-value=1.2e-21  Score=120.69  Aligned_cols=81  Identities=28%  Similarity=0.541  Sum_probs=77.4

Q ss_pred             CCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecC
Q 048514            9 PDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGG   88 (89)
Q Consensus         9 ~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   88 (89)
                      .++..|+|+|++.+|+.+.|.|.+++++..|+++|+++.|++++++||+|+|++|.++.|+++++|++||+|++++++.|
T Consensus        17 ~~~~~m~I~Vk~~~g~~~~l~v~~~~tv~~lK~~i~~~~gip~~~qrLif~Gk~L~d~~tl~dy~i~~g~~I~l~~~~~G   96 (97)
T 1wyw_B           17 KEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTG   96 (97)
T ss_dssp             --CCEEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCHHHHTCCTTCEEEEEESSSC
T ss_pred             CCCCcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCChhhEEEEECCeEcCCCCCHHHCCCCCCCEEEEEEecCC
Confidence            46678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             C
Q 048514           89 A   89 (89)
Q Consensus        89 G   89 (89)
                      |
T Consensus        97 G   97 (97)
T 1wyw_B           97 G   97 (97)
T ss_dssp             C
T ss_pred             C
Confidence            8

>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=99.71  E-value=1.7e-16  Score=94.64  Aligned_cols=82  Identities=10%  Similarity=0.125  Sum_probs=78.3

Q ss_pred             CCCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeec
Q 048514            8 IPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAG   87 (89)
Q Consensus         8 ~~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~   87 (89)
                      +.+...|.|.|++.+|+.+.+.|.+++++..|++.++++.|++++.+||+|+|+.|.++.|..++++++|++|++++++.
T Consensus         7 ~~~~~~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~i~l~~rl~   86 (88)
T 3dbh_I            7 VGSGGSMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLRLR   86 (88)
T ss_dssp             SSCCCCEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTSBGGGGTCCTTCEEEECCCCC
T ss_pred             CCCCCcEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcCHHHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEeCC
Confidence            34567899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CC
Q 048514           88 GA   89 (89)
Q Consensus        88 GG   89 (89)
                      ||
T Consensus        87 GG   88 (88)
T 3dbh_I           87 GG   88 (88)
T ss_dssp             CC
T ss_pred             CC
Confidence            98

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

Probab=99.69  E-value=2.1e-16  Score=97.00  Aligned_cols=83  Identities=11%  Similarity=0.121  Sum_probs=75.5

Q ss_pred             CCCCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514            7 NIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus         7 ~~~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      .++.+..|+|.|++.+|+.+.+.|.+++++..|++.++++.|++++.+||+|+|+.|.++.|..++++++|++|++++++
T Consensus        16 ~~~~~~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~i~l~~rl   95 (98)
T 4hcn_B           16 LYFQGRPMQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL   95 (98)
T ss_dssp             ------CCEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTCBSGGGTCCTTEEEEEECBC
T ss_pred             CCCCCCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEec
Confidence            33466789999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCC
Q 048514           87 GGA   89 (89)
Q Consensus        87 ~GG   89 (89)
                      .||
T Consensus        96 ~GG   98 (98)
T 4hcn_B           96 RGG   98 (98)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            998

>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=99.67  E-value=4.5e-16  Score=92.17  Aligned_cols=78  Identities=13%  Similarity=0.178  Sum_probs=72.3

Q ss_pred             CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ..|+|.|++.+|+.+.+.|.+++++..|++.++++.++|++.+||+|+|+.|.++.|..+++++++++|++++++.||
T Consensus         2 s~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~ip~~~qrL~~~g~~L~d~~tL~~~~i~~~~~i~l~~rl~GG   79 (85)
T 3n3k_B            2 SHMRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIHNHSALYLLLKLRGG   79 (85)
T ss_dssp             --CEEEEECGGGCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETBEECCTTCBTTTTTCCTTCEEEEEECCC--
T ss_pred             CeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCeECCCCCCHHHCCCCCCCEEEEEEeccCC
Confidence            368899999899999999999999999999999999999999999999999999999999999999999999999997

>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=99.66  E-value=1e-15  Score=88.51  Aligned_cols=76  Identities=11%  Similarity=0.147  Sum_probs=71.3

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ++|.|++.+|+.+.+.+.+++++..|++.++++.|++++.+|++|+|+.|.++.|..++++++|++|++..++.||
T Consensus         1 M~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~~i~~~~q~L~~~g~~L~d~~tL~~~~i~~g~~i~l~~~~~GG   76 (76)
T 1ndd_A            1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRGG   76 (76)
T ss_dssp             CEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECCC--
T ss_pred             CEEEEECCCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeCCCC
Confidence            4688888889999999999999999999999999999999999999999999999999999999999999999998

>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=99.66  E-value=1.5e-15  Score=87.86  Aligned_cols=76  Identities=12%  Similarity=0.180  Sum_probs=72.9

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ++|.|++.+|+.+.+.+.+++++..|++.+++..|++++.++++|+|+.|.++.|.+++++.+|++|++..++.||
T Consensus         1 M~i~vk~~~g~~~~i~v~~~~tv~~lK~~i~~~~~i~~~~q~L~~~g~~L~d~~tL~~~~i~~g~~i~l~~~~~GG   76 (76)
T 3a9j_A            1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQRESTLHLVLRLRGG   76 (76)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTGGGTCCTTCEEEEEECCCCC
T ss_pred             CEEEEEcCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEEeCCCC
Confidence            4688888889999999999999999999999999999999999999999999999999999999999999999998

>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=99.65  E-value=1.8e-15  Score=89.39  Aligned_cols=78  Identities=12%  Similarity=0.168  Sum_probs=74.9

Q ss_pred             CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ..|+|.|++.+|+.+.+.+.+++++..|++.++++.+++++.+||+|+|+.|.++.|..+++++++++|++++++.||
T Consensus         2 s~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~i~~~~qrL~~~g~~L~d~~tL~~~~i~~~~~l~l~~r~~GG   79 (85)
T 3mtn_B            2 SHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKWSTLFLLLRLRGG   79 (85)
T ss_dssp             -CEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTGGGTCCTTCEEEEECCCCCC
T ss_pred             CeEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcChHHEEEEECCEECCCCCCHHHcCCCCCCEEEEEEECcCC
Confidence            468999999999999999999999999999999999999999999999999999999999999999999999999997

>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=99.65  E-value=1.4e-15  Score=90.71  Aligned_cols=80  Identities=14%  Similarity=0.150  Sum_probs=76.4

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ++..|+|.|++.+|+.+.+.|.+++++..|++.++++.+++++.+||+|+|+.|.++.|..++++++|++|+++.++.||
T Consensus         4 ~~~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~qrL~~~Gk~L~d~~tL~~~~i~~g~~i~l~~~~~GG   83 (87)
T 1wh3_A            4 GSSGIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYGIQDSDTLILSKKKGSG   83 (87)
T ss_dssp             CSSSEEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTCCCTTTEEEEETTEECCSSSBHHHHTCCTTEEEEEEECSCCC
T ss_pred             CCCCEEEEEEcCCCCEEEEEeCCCChHHHHHHHHHHHhCCChHHEEEEECCEEccCCCCHHHCCCCCCCEEEEEEeccCC
Confidence            44679999999889999999999999999999999999999999999999999999999999999999999999999998

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

Probab=99.65  E-value=2.9e-15  Score=88.02  Aligned_cols=77  Identities=14%  Similarity=0.185  Sum_probs=74.3

Q ss_pred             CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecC
Q 048514           12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGG   88 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   88 (89)
                      ..+.|.|++.+|+.+.+.|.+++++..|++..+++.|+|++.+|++|+|+.|.++.|..++++++|++|++++++.|
T Consensus         3 ~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~l~l~~rl~G   79 (79)
T 3phx_B            3 EPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLRG   79 (79)
T ss_dssp             CCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECCBC
T ss_pred             CCEEEEEEeCCCCEEEEEECCcChHHHHHHHHHhhcCCCHHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEecCC
Confidence            46899999999999999999999999999999999999999999999999999999999999999999999999887

>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=99.65  E-value=2.4e-15  Score=94.45  Aligned_cols=80  Identities=11%  Similarity=0.162  Sum_probs=75.9

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +...|+|.|++.+|+.+.+.|.+++++..|+..++++.|+|++.+||+|+|+.|.++.|..++++++|++|++++++.||
T Consensus        32 ~~~~m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~gI~~gs~I~l~~rl~GG  111 (111)
T 3vdz_A           32 ELLAMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG  111 (111)
T ss_dssp             GGGCEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTTTTTCCTTCEEEEEECCCC-
T ss_pred             CCccEEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEecCCC
Confidence            34579999999999999999999999999999999999999999999999999999999999999999999999999998

>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=99.62  E-value=4.2e-15  Score=90.19  Aligned_cols=76  Identities=12%  Similarity=0.172  Sum_probs=72.5

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      |.|.|++.+|+.+.+.|.+++++..|++.++++.|++++.+||+|+|+.|.++.|..++++++|++|++++++.||
T Consensus         2 m~i~vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~i~l~~r~~gG   77 (96)
T 3k9o_B            2 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGY   77 (96)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECCCC-
T ss_pred             cEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCCChhHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEEcCCC
Confidence            5788888899999999999999999999999999999999999999999999999999999999999999999998

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

Probab=99.61  E-value=1e-14  Score=88.08  Aligned_cols=81  Identities=9%  Similarity=0.125  Sum_probs=75.8

Q ss_pred             CCCCCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514            6 DNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus         6 ~~~~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      +..+.+..|.|.|++.+|+.+.+.|.+++++..|++..+++.|++++.+||+|+|+.|.++.|..++++++|++|+++++
T Consensus        10 ~~~~~~~~m~i~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~r   89 (91)
T 3v6c_B           10 SGLVPRGSMQIFVNTLTGTHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   89 (91)
T ss_dssp             -CCCCCCSEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTCBTGGGTCCTTCEEEEECC
T ss_pred             CCCCCCCeEEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCCChhhEEEEECCeECCCcCcHHHCCCCCCCEEEEEEe
Confidence            45567789999999999999999999999999999999999999999999999999999999999999999999999987


Q ss_pred             e
Q 048514           86 A   86 (89)
Q Consensus        86 q   86 (89)
                      .
T Consensus        90 l   90 (91)
T 3v6c_B           90 L   90 (91)
T ss_dssp             C
T ss_pred             c
Confidence            5

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

Probab=99.60  E-value=1.1e-14  Score=91.13  Aligned_cols=78  Identities=12%  Similarity=0.161  Sum_probs=74.8

Q ss_pred             CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ..|+|.|++.+|+.+.+.|.+++++..|++.++++.|++++.+||+|+|+.|.++.|..++++++|++|+++.++.||
T Consensus        34 ~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~gI~~gs~I~l~~rl~GG  111 (111)
T 2ojr_A           34 LAMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG  111 (111)
T ss_dssp             SCEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCCCTTTEEEEETTEECCSSCBTTTTTCCTTCEEEEEECCCC-
T ss_pred             CeEEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHHHCcCcccEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeCCCC
Confidence            579999999889999999999999999999999999999999999999999999999999999999999999999998

>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=99.60  E-value=8.6e-15  Score=88.19  Aligned_cols=76  Identities=11%  Similarity=0.147  Sum_probs=71.4

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      |.|.|++.+|+.+.+.|.+++++..|++..+++.|++++.+|++|+|+.|.++.|..++++++|++|.+++++.||
T Consensus         1 M~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~l~l~~rl~Gg   76 (88)
T 4fbj_B            1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRGG   76 (88)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTTTTTCCTTCEEEEECBCC--
T ss_pred             CEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcChhHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEECCCC
Confidence            4688888899999999999999999999999999999999999999999999999999999999999999999998

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

Probab=99.59  E-value=8.1e-15  Score=88.29  Aligned_cols=77  Identities=13%  Similarity=0.169  Sum_probs=69.0

Q ss_pred             cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      -+.|.|++.+|+.+.+.+.+++++..|++.++++.|+|++.+|++|+|+.|.++.|.+++++++|++|.++.++.||
T Consensus         9 ~~~i~v~~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~r~~GG   85 (88)
T 1sif_A            9 GLQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG   85 (88)
T ss_dssp             -CEEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBSGGGTCCTTCEEEEEC-----
T ss_pred             ceEEEEEeCCCCEEEEEECCCChHHHHHHHHHHHHCcChhhEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeCCCC
Confidence            47888998999999999999999999999999999999999999999999999999999999999999999999998

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

Probab=99.58  E-value=9.2e-15  Score=87.96  Aligned_cols=78  Identities=14%  Similarity=0.185  Sum_probs=71.3

Q ss_pred             CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ..|+|.|++.+|+.+.+.|.+++++..|++.++++.|++++.+||+|+|+.|.++.|..++++++|++|.++.++.||
T Consensus         3 ~~m~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~~I~~g~~i~l~~~~~gg   80 (88)
T 2hj8_A            3 EPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLRGG   80 (88)
T ss_dssp             CEEEEEEEETTSCEEEEEEESSSBHHHHHHHHHHHTCSCTTTEEEESSSSCCCTTSBHHHHHCSTTCEEEEEEC----
T ss_pred             ccEEEEEECCCCCEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEEcCCC
Confidence            368999999889999999999999999999999999999999999999999999999999999999999999999997

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

Probab=99.57  E-value=1e-14  Score=88.84  Aligned_cols=78  Identities=13%  Similarity=0.090  Sum_probs=71.6

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      .+..|+|.|++  |+.+.+.|.+++++..|++.++++.|++++.+||+|+|+.|.++.|.+++++++|++|++++++.||
T Consensus        16 ~~~~m~I~Vk~--g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~y~I~~gstI~lv~rl~GG   93 (93)
T 2l7r_A           16 PRGSMQLFVRA--QELHTFEVTGQETVAQIKAHVASLEGIAPEDQVVLLAGAPLEDEATLGQCGVEALTTLEVAGRMLGG   93 (93)
T ss_dssp             ----CEEEEES--SSEEEEECCSSCBHHHHHHHHHHHHTCCGGGCEEEETTEECCTTSBHHHHTCCSSCEEEEECCCCCC
T ss_pred             CCCcEEEEEEC--CCEEEEEeCCCCcHHHHHHHHHHHhCcChhHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEecCCC
Confidence            44568888887  7888999999999999999999999999999999999999999999999999999999999999998

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

Probab=99.57  E-value=2.9e-14  Score=87.07  Aligned_cols=76  Identities=12%  Similarity=0.184  Sum_probs=72.6

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ++|.|++.+|+.+.+.|.+++++..|++.+++..|++++.+||+|+|+.|.++.|..++++.+|++|.+..++.||
T Consensus         1 M~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~gi~~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~~~~gG   76 (98)
T 1yx5_B            1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG   76 (98)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHTCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECCCCC
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEEeCCCC
Confidence            4688888889999999999999999999999999999999999999999999999999999999999999999987

>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=99.56  E-value=5.5e-14  Score=84.11  Aligned_cols=80  Identities=13%  Similarity=0.028  Sum_probs=75.4

Q ss_pred             CCCcEEEEEEecCC-CEEEE-EEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeec
Q 048514           10 DQHFINLVVKGQDN-DPLYF-EFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAG   87 (89)
Q Consensus        10 ~~~~I~i~v~~~~~-~~~~f-~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~   87 (89)
                      ....|+|.|+..+| +.+.+ .|.+++++..|++..+++.|++++.+||+|+|+.|.++.|..++++.+|++|++++++.
T Consensus         4 ~~~~m~i~Vk~~~g~~~~~l~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~~~   83 (89)
T 1wy8_A            4 GSSGMWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDYDVGLNDIIQLLVRPD   83 (89)
T ss_dssp             CSSCEEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCCTTTEEEEETTEECCSSSBHHHHTCCTTCEEEEEECCC
T ss_pred             CCCcEEEEEEECCCCceEEEEecCCCCCHHHHHHHHHHHHCcChhhEEEEECCeECCCCCCHHHCCCCCCCEEEEEEeCC
Confidence            44679999999888 68899 59999999999999999999999999999999999999999999999999999999999


Q ss_pred             CC
Q 048514           88 GA   89 (89)
Q Consensus        88 GG   89 (89)
                      ||
T Consensus        84 gG   85 (89)
T 1wy8_A           84 SG   85 (89)
T ss_dssp             CS
T ss_pred             CC
Confidence            98

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

Probab=99.55  E-value=9e-14  Score=89.08  Aligned_cols=79  Identities=14%  Similarity=0.198  Sum_probs=71.8

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +...|+|.|++. |+.+.+.|.+++++..|++.++++.|++.+.+||+|+|+.|.++.|..++++++|++|+++..+.||
T Consensus        29 ~~~~m~I~Vk~~-g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~dygI~~gstI~lv~~~~gg  107 (125)
T 1j8c_A           29 EPKIIKVTVKTP-KEKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVIKRDPN  107 (125)
T ss_dssp             CCCCEEEEEECS-SCEEEEEECTTCCHHHHHHHHHHHHCSCSSSEEEEETTEEESTTSCGGGTTCSSSEEEEEEEC----
T ss_pred             CCCcEEEEEEeC-CeEEEEEECCCCcHHHHHHHHHHHHCcCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEEeccCCC
Confidence            456899999987 8889999999999999999999999999999999999999999999999999999999999999886

>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=99.55  E-value=3.3e-14  Score=86.48  Aligned_cols=79  Identities=13%  Similarity=0.192  Sum_probs=75.2

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ++..|+|.|+.. |+.+.+.|.+++++..|++.++++.+++++.+||+|.|+.|.++.|..++++++|++|+++.++.||
T Consensus        14 ~~~~m~i~Vk~~-g~~~~~~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~~~~~g   92 (96)
T 1wx8_A           14 SSRIIRVSVKTP-QDCHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQRGILDGSTVHVVVRSHSG   92 (96)
T ss_dssp             CSCEEEEEEECS-SSEEEEEEETTCCHHHHHHHHHHHTCSCTTTBCCEETTEECCTTSCHHHHTCCTTEEEECCBCCSSC
T ss_pred             CCCcEEEEEEEC-CeEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEECCCcCCHHHCCCCCCCEEEEEEeCCCC
Confidence            557899999987 8899999999999999999999999999999999999999999999999999999999999999887

>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=99.55  E-value=1.1e-13  Score=83.02  Aligned_cols=79  Identities=11%  Similarity=0.113  Sum_probs=73.7

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ++..|+|.|++.+|+.+.+.|.+++++..|++..+++.|++++.+||+|.|+.|.++.|..++++ +|++|+++.+..++
T Consensus         2 ~~~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~d~~tL~~~~i-~g~~i~l~~~~~~~   80 (90)
T 4dwf_A            2 EPDSLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLVERAPPQ   80 (90)
T ss_dssp             CCCEEEEEEEETTCCEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTC-TTEEEEEEECCCC-
T ss_pred             CCcEEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCeECCCCCCHHHcCC-CCcEEEEEecCCCC
Confidence            45689999999999999999999999999999999999999999999999999999999999999 89999999887653

>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=99.54  E-value=1.1e-13  Score=85.07  Aligned_cols=78  Identities=9%  Similarity=0.086  Sum_probs=71.2

Q ss_pred             CCCCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514            7 NIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus         7 ~~~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   84 (89)
                      +++.++-|.|.|++..|+.+.+.+.+++++..|++..+++.|+|++++|++|.|+.|.++.|.+++++.||++|+.+.
T Consensus        15 ~~~~~~mIqI~Vk~~~Gkk~~v~v~p~DTI~~LK~~I~~k~Gip~~qQrLif~Gk~LkD~~TL~dY~I~dgstLhL~~   92 (93)
T 3plu_A           15 VPRGSHMIEVVVNDRLGKKVRVKCLGEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLEDYEVHDQTNLELYY   92 (93)
T ss_dssp             -----CEEEEEEECTTSCEEEEEEETTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEE
T ss_pred             cCCCCceEEEEEECCCCCEEEEEECCcCHHHHHHHHHHHHhCCCHHHEEEEeCCEEccCcCCHHHcCCCCCCEEEEEe
Confidence            456778999999999999999999999999999999999999999999999999999999999999999999999874

>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=99.52  E-value=1.8e-13  Score=88.19  Aligned_cols=78  Identities=12%  Similarity=0.151  Sum_probs=73.6

Q ss_pred             CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ..+.|.|++.+|+.+.+.+.+++++..|++.++++.|++++.+||+|+|+.|.++.|..++++++|++|+++.++.||
T Consensus        75 ~~~~i~Vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~qrL~~~g~~L~d~~tL~~~~i~~~~~i~l~~r~~GG  152 (152)
T 3b08_A           75 GGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG  152 (152)
T ss_dssp             TCEEEEEEESSSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECCCC-
T ss_pred             cccceeeeecCCCEEEEEeCCCCcHHHHHHHHHHHhCcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEEecCCC
Confidence            347888888889999999999999999999999999999999999999999999999999999999999999999998

>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=99.50  E-value=2.6e-13  Score=88.79  Aligned_cols=79  Identities=14%  Similarity=0.186  Sum_probs=74.1

Q ss_pred             CCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           11 QHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        11 ~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +..|.|.|++.+|+.+.+.|.++++...|++..+++.|+|++.+|++|+|+.|.++.|..++++++|++|++.+++.||
T Consensus        79 ~~~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~y~i~~g~~l~l~~rl~GG  157 (159)
T 3rt3_B           79 DEPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLRGG  157 (159)
T ss_dssp             CCCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECCC--
T ss_pred             CCcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCHHHEEEEECCeecCCCCCHHHcCCCCCCEEEEEEecCCC
Confidence            4568899999899999999999999999999999999999999999999999999999999999999999999999998

>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=99.49  E-value=3.5e-13  Score=83.55  Aligned_cols=79  Identities=18%  Similarity=0.249  Sum_probs=73.7

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ++..|+|.|+..+++ +.+.|..++++..|++.++++.|++.+.+||+|+|+.|.++.|..++++++|++|+++.++.||
T Consensus        14 ~~~~m~I~Vk~~~g~-~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~gi~~g~~i~l~~~~~~~   92 (106)
T 1wx7_A           14 DPHLIKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIKRQHR   92 (106)
T ss_dssp             CSSEEEEEEECSSCE-EEEEEETTCCHHHHHHHHHHHHTCCTTTEEEEETTEECCTTSCHHHHTCCTTEEEEEEECCCCC
T ss_pred             CCceEEEEEEeCCCc-EEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHcCCCCCCEEEEEEcCCCC
Confidence            456799999987775 6899999999999999999999999999999999999999999999999999999999998886

>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=99.49  E-value=2.4e-13  Score=84.47  Aligned_cols=79  Identities=8%  Similarity=0.029  Sum_probs=73.3

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecC
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGG   88 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   88 (89)
                      ....|+|.|+..+|+.+.+.|.+++++..|+..++++.|++.+.+||+|.|+.|.++.|..++++.+|++|+++..+..
T Consensus        20 ~~~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~g~ti~lv~~~~~   98 (106)
T 1ttn_A           20 SGYECQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELKIPKDYVVQVIVSQPV   98 (106)
T ss_dssp             -CCSEEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTCCCSTTCEEEETTEECCTTSHHHHCCCSSSCEEEEECCCSS
T ss_pred             CCCeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHHCcCcccEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeCCC
Confidence            4457999999988999999999999999999999999999999999999999999999999999999999999987653

>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=99.49  E-value=3.9e-13  Score=82.91  Aligned_cols=83  Identities=16%  Similarity=0.189  Sum_probs=76.1

Q ss_pred             CCCCCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514            6 DNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus         6 ~~~~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      +.+..+..|+|.|+..+|+ ..+.|.+++++..|++..+++.|++++.+||+|+|+.|.++.|..++++++|++|.++.+
T Consensus        15 ~~~~~~~~m~I~Vk~~~g~-~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r   93 (100)
T 1yqb_A           15 VPRGSPHLIKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIK   93 (100)
T ss_dssp             CCSCCTTEEEEEEECSSCE-EEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBHHHHTCCTTCEEEEEEC
T ss_pred             CCCCCCCeEEEEEEcCCCc-EEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHCCCCCCCEEEEEEc
Confidence            3445667899999988775 689999999999999999999999999999999999999999999999999999999999


Q ss_pred             ecCC
Q 048514           86 AGGA   89 (89)
Q Consensus        86 q~GG   89 (89)
                      ..||
T Consensus        94 ~~~~   97 (100)
T 1yqb_A           94 RQHR   97 (100)
T ss_dssp             CCCS
T ss_pred             CCCC
Confidence            8875

>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=99.49  E-value=5.1e-13  Score=77.99  Aligned_cols=74  Identities=14%  Similarity=0.076  Sum_probs=69.7

Q ss_pred             cEEEEEEecCCCEE-EEE-EeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           13 FINLVVKGQDNDPL-YFE-FRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        13 ~I~i~v~~~~~~~~-~f~-i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      .+.|.|++.+|+.+ .+. +.+++++..|++..+++.|++++.+|++|+|+.|.++.|..++++.+|++|+++.++
T Consensus         2 ~m~i~Vk~~~g~~~~~l~~v~~~~tv~~lK~~i~~~~gip~~~qrL~~~g~~L~d~~tL~~~~i~~g~~i~l~~r~   77 (78)
T 2faz_A            2 SMWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQLLVRQ   77 (78)
T ss_dssp             CEEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTTTTTCCTTCEEEEEECC
T ss_pred             cEEEEEEECCCCEEEEEeccCCCCCHHHHHHHHHHHHCcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEEeC
Confidence            47899998889886 898 999999999999999999999999999999999999999999999999999998865

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

Probab=99.48  E-value=4.3e-13  Score=78.51  Aligned_cols=77  Identities=12%  Similarity=0.104  Sum_probs=72.0

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      .+..|+|.|+..+|+.+.+.+.+++++..|++..+++.|++++.+|++|+|+.|.++.|..++++.+|++|+++.+.
T Consensus         4 ~~~~m~i~vk~~~g~~~~~~v~~~~tV~~LK~~i~~~~~i~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~~   80 (81)
T 2dzi_A            4 GSSGMQLTVKALQGRECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADGKRLSDYSIGPNSKLNLVVKP   80 (81)
T ss_dssp             SSSSEEEEEEETTSCEEEEEECSSCBHHHHHHHHHHHTCCCTTTCEEEETTEECCTTSBGGGGTCCSSBCCEEECCC
T ss_pred             CCCcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEeC
Confidence            45679999998889989999999999999999999999999999999999999999999999999999999998754

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

Probab=99.47  E-value=6.5e-13  Score=77.04  Aligned_cols=72  Identities=10%  Similarity=0.149  Sum_probs=68.1

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      |+|.|++ +|+.+.+.+.+++++..|++..++..|++++.+|++|+|+.|.++.|..++++.+|++|++...+
T Consensus         5 m~i~vk~-~g~~~~~~v~~~~tV~~LK~~i~~~~~i~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~~   76 (77)
T 2bwf_A            5 LNIHIKS-GQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKSQ   76 (77)
T ss_dssp             EEEEEEE-TTEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECC
T ss_pred             EEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCCHHHcCCCCCCEEEEEEcC
Confidence            7888888 88888999999999999999999999999999999999999999999999999999999998764

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

Probab=99.47  E-value=5.2e-13  Score=81.52  Aligned_cols=80  Identities=15%  Similarity=0.136  Sum_probs=75.0

Q ss_pred             CCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCC-CCccccCCCCCCEEEEEeeec
Q 048514            9 PDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHI-RTPDQLGLKDGDEIVATFYAG   87 (89)
Q Consensus         9 ~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~-~Tp~~l~medgD~Idv~~~q~   87 (89)
                      +....|.|.|++..+ .+.+.|.+++++..|++..+++.|++++.+|++|.|+.|.++ .|..++++.+|++|.++.+..
T Consensus        11 ~~~~~~~I~Vk~~~~-~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~~tL~~ygI~~gstl~lv~r~~   89 (94)
T 2kan_A           11 AAVRKIHVTVKFPSK-QFTVEVDRTETVSSLKDKIHIVENTPIKRMQLYYSGIELADDYRNLNEYGITEFSEIVVFLKSI   89 (94)
T ss_dssp             SSSCCEEEEEECSSC-EEEEEECTTCBHHHHHHHHHHHSSSCTTTEEEEETTEEECCTTSBHHHHTCCTTEEEEEEECCC
T ss_pred             cCCCCEEEEEEcCCc-EEEEEECCCCcHHHHHHHHHHHHCcCHHHEEEEECCEECCCCcccHHHCCCCCCCEEEEEEeCC
Confidence            456679999998777 788999999999999999999999999999999999999999 999999999999999999999


Q ss_pred             CC
Q 048514           88 GA   89 (89)
Q Consensus        88 GG   89 (89)
                      ||
T Consensus        90 gg   91 (94)
T 2kan_A           90 NR   91 (94)
T ss_dssp             SS
T ss_pred             CC
Confidence            97

>3l0w_B Monoubiquitinated proliferating cell nuclear antigen, proliferating cell nuclear antigen; replication, DNA damage, DNA repair; 2.80A {Saccharomyces cerevisiae} PDB: 3l10_B

Probab=99.46  E-value=5.1e-13  Score=89.35  Aligned_cols=76  Identities=12%  Similarity=0.180  Sum_probs=72.4

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      |+|.|++.+|+.+.+.|.+++++..|++..+++.|++++.+|++|+|+.|.++.|..++++++|++|++++++.||
T Consensus         1 MqI~Vk~~~Gk~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~y~I~~gstI~Lvlrl~GG   76 (169)
T 3l0w_B            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG   76 (169)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCTTTEEEEETTEECCTTSBGGGGTCCTTCEEEEEECCCC-
T ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHHCcCHHHEEEEECCccccCcCcHHHcCCCCCCEEEEEEEeccc
Confidence            4688888899999999999999999999999999999999999999999999999999999999999999999998

>2kdi_A Ubiquitin, vacuolar protein sorting-associated protein 27 fusion protein; ubiquitin interacting motif, UIM, protein domain interface; NMR {Saccharomyces cerevisiae}

Probab=99.46  E-value=7.2e-13  Score=83.48  Aligned_cols=77  Identities=10%  Similarity=0.124  Sum_probs=73.6

Q ss_pred             cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ..+|.|+..+|+.+.+.|.+++++..|++..+++.|++++.+||+|+|+.|.++.|..++++.+|++|.+..++.||
T Consensus         9 ~~~i~vk~l~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~~~~GG   85 (114)
T 2kdi_A            9 EFQIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDYNIQRESTLHLVLRLRGG   85 (114)
T ss_dssp             CCEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTTTTTCCSSCEEEEEECCCSS
T ss_pred             cEEEEEEeCCCcEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEEcCCC
Confidence            46788888899999999999999999999999999999999999999999999999999999999999999999997

>4eew_A Large proline-rich protein BAG6; ubiquitin-like fold, GP78-binding, chaperone; 1.30A {Homo sapiens}

Probab=99.45  E-value=1.2e-12  Score=78.18  Aligned_cols=75  Identities=11%  Similarity=0.123  Sum_probs=70.3

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      .+..|.|.|++.+|+.+.+.|.+++++..|++..+++.|++++.+|++|.|+.|.++.|..++++ +|++|+++.+
T Consensus        14 ~~~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i-~g~~i~lv~R   88 (88)
T 4eew_A           14 EPDSLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLVER   88 (88)
T ss_dssp             -CCEEEEEEEETTSCEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTC-TTEEEEEEEC
T ss_pred             CCCeEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEECCCCCcHHHcCC-CCcEEEEEEC
Confidence            55679999999999999999999999999999999999999999999999999999999999999 8999998763

>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=99.43  E-value=8.7e-13  Score=82.42  Aligned_cols=79  Identities=5%  Similarity=-0.017  Sum_probs=75.1

Q ss_pred             CCcEEEEEEec---CCCEEEEEEec-cchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           11 QHFINLVVKGQ---DNDPLYFEFRR-DWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        11 ~~~I~i~v~~~---~~~~~~f~i~~-~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      +..|+|.|+..   +|+.+.+.|.+ ++++..|++..++..|++++.+|++|.|+.+.++.|..++++.+|++|+++++.
T Consensus        25 ~~~i~i~Vk~~~~~~g~~~~l~v~~l~~TV~~LK~~I~~~~gip~~~QrL~~~Gk~L~D~~tL~~y~I~~g~~l~l~~r~  104 (111)
T 1we6_A           25 PGPATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAHYNVGAGEILTLSLRE  104 (111)
T ss_dssp             CSCEEEEECCTTCSSSCCEEEEESCSSSBHHHHHHHHHHHTTCCTTTSEEECSSSBCCTTSBTTTTTCSSSCEEEEECSS
T ss_pred             CCcEEEEEEecccCCCcEEEEEecCCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCcHHHCCCCCCCEEEEEEEc
Confidence            45799999987   78889999998 999999999999999999999999999999999999999999999999999999


Q ss_pred             cCC
Q 048514           87 GGA   89 (89)
Q Consensus        87 ~GG   89 (89)
                      .||
T Consensus       105 ~GG  107 (111)
T 1we6_A          105 RSG  107 (111)
T ss_dssp             CCS
T ss_pred             CCC
Confidence            998

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

Probab=99.43  E-value=1.7e-12  Score=86.11  Aligned_cols=81  Identities=12%  Similarity=0.197  Sum_probs=75.1

Q ss_pred             CCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecC
Q 048514            9 PDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGG   88 (89)
Q Consensus         9 ~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   88 (89)
                      +.+..|.|.|+..+|+.+.+.|.+++++..|+...+++.|++++.+||+|+|+.|.++.|..++++.+|++|++..+..|
T Consensus        16 ~~~~~m~i~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~QrL~~~g~~L~d~~tL~~~~i~~~~~l~l~~~~~g   95 (172)
T 3u30_A           16 PRGSHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG   95 (172)
T ss_dssp             ---CCEEEEEEETTTEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTGGGTCCTTCEEEEEECCCC
T ss_pred             CCCCcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCccccccCCHhHcCCcccceeeeeecccc
Confidence            45678999999999999999999999999999999999999999999999999999999999999999999999998887


Q ss_pred             C
Q 048514           89 A   89 (89)
Q Consensus        89 G   89 (89)
                      |
T Consensus        96 g   96 (172)
T 3u30_A           96 G   96 (172)
T ss_dssp             C
T ss_pred             c
Confidence            6

>3q3f_A Ribonuclease/ubiquitin chimeric protein; domain SWAP, oligomerization, ubiquitin insertion, hydrolase binding; 2.17A {Bacillus amyloliquefaciens}

Probab=99.42  E-value=1.1e-12  Score=89.41  Aligned_cols=77  Identities=12%  Similarity=0.129  Sum_probs=74.8

Q ss_pred             cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      .|+|.|++.+|+.+.+.|.+++++..|++..+++.|++++.+||+|.|+.|.++.|..++++++|++|++++++.||
T Consensus       105 eMqI~VKtl~Gkt~~l~V~~s~TV~~LK~kI~~~~gIp~~~QrLi~~Gk~L~D~~tL~dygI~~gstI~LvlrlrGG  181 (189)
T 3q3f_A          105 GGQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG  181 (189)
T ss_dssp             CEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTCBGGGGTCCTTCEEEECCCCCCC
T ss_pred             ceeeeeecCCCCEEEEEeCCCCcHHHHHHHHHhccCCCHHHEEEEECCEECCCCCCHHHCCCCCCCEEEEEEEcCCC
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999998

>2klc_A Ubiquilin-1; ubiquitin-like, structural genomics, PSI-2, protein structur initiative, northeast structural genomics consortium, NESG; NMR {Homo sapiens}

Probab=99.42  E-value=3.9e-12  Score=78.43  Aligned_cols=79  Identities=11%  Similarity=0.195  Sum_probs=72.0

Q ss_pred             CCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecC
Q 048514            9 PDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGG   88 (89)
Q Consensus         9 ~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   88 (89)
                      ++...|.|.|+.. |+.+.+.|.+++++..|++..++..|++++.+||+|.|+.|.++.|..++++.+|++|.++....+
T Consensus        21 ~~~~~m~I~Vk~~-g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~gI~~g~~I~l~~~~~~   99 (101)
T 2klc_A           21 GHPKIMKVTVKTP-KEKEEFAVPENSSVQQFKEEISKRFKSHTDQLVLIFAGKILKDQDTLSQHGIHDGLTVHLVIKTQN   99 (101)
T ss_dssp             --CCCEEEEEECS-SCEEEEEECSCCCHHHHHHHHHHHHTCCGGGEEEEETTEEECTTCCTGGGTCCTTCEEEEEECCSS
T ss_pred             CCCCeEEEEEEeC-CcEEEEEECCCCCHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHcCCCCCCEEEEEEcCCC
Confidence            3557899999987 888899999999999999999999999999999999999999999999999999999999887643

>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=99.42  E-value=4e-12  Score=75.13  Aligned_cols=75  Identities=8%  Similarity=0.067  Sum_probs=69.7

Q ss_pred             CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhh---hCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEK---KDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~---~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      ..|+|.|++.+|+.+.+.|.+++++..|++..+++   .|++++.+||+|.|+.|.++.|.+++++.+|++|++....
T Consensus         4 ~~m~i~vk~~~g~~~~~~v~~~~TV~~lK~~i~~~~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~i~l~~~~   81 (85)
T 2wyq_A            4 MAVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVTK   81 (85)
T ss_dssp             CCEEEEEEETTSCEEEEEECTTSBHHHHHHHHHHHHCTTTCCGGGEEEEETTEECCTTSBGGGGCCCTTSEEEEEEC-
T ss_pred             ceEEEEEEECCCCEEEEEECCCCCHHHHHHHHHhhccccCCCHHHeEEEECCEECcCCCCHHHcCCCCCCEEEEEEcC
Confidence            46899999988999999999999999999999998   7899999999999999999999999999999999998753

>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=99.41  E-value=1.2e-12  Score=79.18  Aligned_cols=80  Identities=11%  Similarity=0.125  Sum_probs=72.7

Q ss_pred             CCCcEEEEEEecCCC--EEEEEEeccchHHHHHHHHHhhh--CCCCCcEeEEECCeecCCCCCcccc--CCCCCCEEEEE
Q 048514           10 DQHFINLVVKGQDND--PLYFEFRRDWEIKKLLITYCEKK--DAQYGTFPFLINGNRFPHIRTPDQL--GLKDGDEIVAT   83 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~--~~~f~i~~~t~l~kL~~~y~~~~--g~~~~~~rF~fdG~~l~~~~Tp~~l--~medgD~Idv~   83 (89)
                      +...|+|.|++.++.  .+.+.+.+++++..|++..++..  +++++.+|++|.|+.|.++.|..++  ++.++.+|+++
T Consensus         4 ~~~~m~i~Vk~~~~~~~~~~v~v~~~~TV~~lK~~I~~~~~~~i~~~~QrLi~~Gk~L~D~~tL~~~~~~i~~~~~i~lv   83 (93)
T 1wgd_A            4 GSSGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDLLPKQEKRHVLHLV   83 (93)
T ss_dssp             CSCCCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECCSSSCHHHHSCSSSCSEEEEEE
T ss_pred             CCcEEEEEEEeCCCCeEEEEEecCCCCcHHHHHHHHHHHhcCCCChHHeEEEECCEECcCcCCHHHHhcCCCCCCEEEEE
Confidence            345689999988777  56666779999999999999998  9999999999999999999999999  99999999999


Q ss_pred             eeecCC
Q 048514           84 FYAGGA   89 (89)
Q Consensus        84 ~~q~GG   89 (89)
                      ....||
T Consensus        84 ~~~~gg   89 (93)
T 1wgd_A           84 CNVKSG   89 (93)
T ss_dssp             CCCCCC
T ss_pred             eCCCCC
Confidence            999987

>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=99.41  E-value=1.5e-12  Score=81.83  Aligned_cols=79  Identities=10%  Similarity=0.102  Sum_probs=73.0

Q ss_pred             CCcEEEEEEecC----------CCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEE
Q 048514           11 QHFINLVVKGQD----------NDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEI   80 (89)
Q Consensus        11 ~~~I~i~v~~~~----------~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~I   80 (89)
                      +..|+|.|+..+          |+.+.+.|.+++++..|++..++..|++++.+|++|.|+.|.++.|..++++.+|++|
T Consensus        23 ~~~i~l~V~~p~~~~~~~~~L~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrL~~~Gk~L~D~~tL~~y~i~~g~~i  102 (115)
T 1we7_A           23 KGPVSIKVQVPNMQDKTEWKLNGQGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMASGAVI  102 (115)
T ss_dssp             CSCEEEEEEECCCSSSCSSCCSSEEEEEEECSCSBTHHHHHHHHHHSSCCTTTEEEEETTEEECTTSBHHHHTCCSSCEE
T ss_pred             CCCEEEEEEcCCCccccccccCCeEEEEEECCCCCHHHHHHHHHHHHCCChHHEEEEECCEECCCCCCHHHCCCCCCCEE
Confidence            357888888753          5678899999999999999999999999999999999999999999999999999999


Q ss_pred             EEEeeecCC
Q 048514           81 VATFYAGGA   89 (89)
Q Consensus        81 dv~~~q~GG   89 (89)
                      ++++++.||
T Consensus       103 ~lv~rl~GG  111 (115)
T 1we7_A          103 HLALKERSG  111 (115)
T ss_dssp             EEEECCCSC
T ss_pred             EEEEEcCCC
Confidence            999999998

>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=99.11  E-value=2.3e-14  Score=83.33  Aligned_cols=75  Identities=12%  Similarity=0.112  Sum_probs=70.5

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecC
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGG   88 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   88 (89)
                      ++|.|++.+|+.+.+.+.+++++..|++.+++..|++++.++|+|+|+.|.++.|..++++++|++|+++++..|
T Consensus         1 M~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~rlrg   75 (76)
T 3b1l_X            1 MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKQQGVPADQLRVIFAGKELPNHLTVQNCDLEQQSIVHIVQRPRR   75 (76)
Confidence            467788888888899999999999999999999999999999999999999999999999999999999998877

>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=99.39  E-value=4.6e-12  Score=77.08  Aligned_cols=73  Identities=7%  Similarity=0.094  Sum_probs=68.2

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhh---hCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEK---KDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~---~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      |+|.|++.+|+.+.+.|.+++++..|++..++.   .|++++.+||+|.|+.|.++.|..++++.+|++|.++...
T Consensus         1 M~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~g~~i~l~~~~   76 (95)
T 1uel_A            1 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKNFVVVMVTK   76 (95)
T ss_dssp             CEEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECCTTSBGGGGTCCSSSEEEEEESS
T ss_pred             CEEEEEeCCCCEEEEEECCCCHHHHHHHHHHhhcccCCCChhhEEEEECCEECCCcCcHHHCCCCCCCEEEEEEeC
Confidence            468888888999999999999999999999998   7899999999999999999999999999999999998765

>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=99.38  E-value=4.3e-12  Score=78.86  Aligned_cols=75  Identities=11%  Similarity=0.112  Sum_probs=70.7

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   84 (89)
                      ..+.|.|.|++..|+.+.+.|.+++++..|++..+++.|++++++|++|.|+.|.++.|..++++.+|++|+++.
T Consensus        25 ~~~mm~I~VKtl~Gk~i~lev~p~dTV~~lK~~Ia~k~Gip~~qQrLi~~Gk~L~D~~TL~dygI~~gstlhL~~   99 (100)
T 1uh6_A           25 AATMIEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDYEIHDGMNLELYY   99 (100)
T ss_dssp             CCCEEEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCSSCBHHHHTCCTTEEEEEEC
T ss_pred             CCCeEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCHHHEEEEECCEECCCCCCHHHcCCCCCCEEEEEe
Confidence            445699999998899999999999999999999999999999999999999999999999999999999999875

>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=99.38  E-value=3.7e-14  Score=90.82  Aligned_cols=76  Identities=12%  Similarity=0.180  Sum_probs=0.0

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      |.|.|++.+|+.+.+.|.+++++..|+...++..|+|++.++|+|+|..|.++.|..++++++|++|++++++.||
T Consensus         1 M~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~~I~~gsti~l~~rl~GG   76 (128)
T 3u5e_m            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG   76 (128)
T ss_dssp             ----------------------------------------------------------------------------
T ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCcChHHEEEEECCEECCCCCchhhhccCCCCEEEEEEEcCCC
Confidence            4677888889999999999999999999999999999999999999999999999999999999999999999998

>3m62_B UV excision repair protein RAD23; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=99.37  E-value=2.3e-12  Score=80.11  Aligned_cols=73  Identities=16%  Similarity=0.286  Sum_probs=68.5

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      |+|.|++.+|+.+.+.|.+++++..|+...+++.|++++.+||+|.|+.|.++.|..++++++|++|.++...
T Consensus         2 m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~~i~~g~~i~lv~~~   74 (106)
T 3m62_B            2 VSLTFKNFKKEKVPLDLEPSNTILETKTKLAQSISCEESQIKLIYSGKVLQDSKTVSECGLKDGDQVVFMVSQ   74 (106)
T ss_dssp             -CEEEECTTCCEEEECCCTTSBHHHHHHHHHHTTTSCGGGCEEEETTEECCTTSBTTTTTCCTTCEEEEECCC
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCChhhEEEEECCEECCCcCCHHHcCCCCCCEEEEEEcC
Confidence            5788888889999999999999999999999999999999999999999999999999999999999998764

>2kk8_A Uncharacterized protein AT4G05270; solution arabidopsis thaliana, uncharacterized putative protein, NESG, structural genomics; NMR {Arabidopsis thaliana}

Probab=99.36  E-value=6.2e-12  Score=75.27  Aligned_cols=74  Identities=8%  Similarity=0.072  Sum_probs=70.5

Q ss_pred             CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCee-cCCCCCccccCCCCCCEEEEEee
Q 048514           12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNR-FPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~-l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      .+++|.|+...|+.+.+.|.+++++..|++..+++.|++++.+|++|.|+. |.++.|.+++++.+|++|.++.+
T Consensus         9 ~~~~i~vk~l~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~lL~D~~tL~~y~I~~gs~i~lv~~   83 (84)
T 2kk8_A            9 SHMKFLVENLNGSSFELEVDYRDTLLVVKQKIERSQHIPVSKQTLIVDGIVILREDLTVEQCQIVPTSDIQLEVS   83 (84)
T ss_dssp             CCEEEEEEETTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCCSSSBHHHHTCCTTSCEEEEEC
T ss_pred             CceEEEEEecCCcEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCEEecCCcCCHHHcCCCCCCEEEEEEc
Confidence            478999999999999999999999999999999999999999999999999 99999999999999999998764

>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=99.35  E-value=8.8e-12  Score=80.15  Aligned_cols=76  Identities=12%  Similarity=0.184  Sum_probs=71.3

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ++|.|++.+|+.+.+.|.+++++..|++..+++.|++++.++|+|.|+.|.++.|..++++.+|++|++...+.||
T Consensus         1 M~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gip~~~q~L~~~g~~L~d~~tL~~~~i~~~~~l~l~~~~~~~   76 (152)
T 3b08_A            1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG   76 (152)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECCTTC
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHHHHHCcChHHeEEEECCeECcCcccHHHhccCCCCeeEEEeecccc
Confidence            4688888889999999999999999999999999999999999999999999999999999999999999887764

>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=99.35  E-value=6.7e-12  Score=76.08  Aligned_cols=77  Identities=16%  Similarity=0.118  Sum_probs=70.1

Q ss_pred             CCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCC-CCccccCCCCCCEEEEEeeec
Q 048514            9 PDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHI-RTPDQLGLKDGDEIVATFYAG   87 (89)
Q Consensus         9 ~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~-~Tp~~l~medgD~Idv~~~q~   87 (89)
                      ++...|+|.|+..+|+.+.+.|.+++++..|++.++++.   ++.+||+|.|+.|.++ .|..++++++|++|+++..+.
T Consensus         3 ~~~~~m~i~Vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~---~~~qrLi~~Gk~L~D~~~tL~~y~i~~g~~i~l~~~~~   79 (95)
T 1wia_A            3 SGSSGINVRLKFLNDTEELAVARPEDTVGTLKSKYFPGQ---ESQMKLIYQGRLLQDPARTLSSLNITNNCVIHCHRSPP   79 (95)
T ss_dssp             CCCCSEEEEEEETTTEEEEEEECSSSBHHHHHHHHSSST---TTTCEEEETTEECCCSSCBTTTTTCCTTEEEEEECCCC
T ss_pred             CCCCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHhhC---cCcEEEEECCEEccCCcCCHHHcCCCCCCEEEEEECCC
Confidence            345679999998889999999999999999999999887   8899999999999999 999999999999999998764


Q ss_pred             C
Q 048514           88 G   88 (89)
Q Consensus        88 G   88 (89)
                      +
T Consensus        80 ~   80 (95)
T 1wia_A           80 G   80 (95)
T ss_dssp             C
T ss_pred             C
Confidence            3

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

Probab=99.34  E-value=8.2e-12  Score=82.79  Aligned_cols=78  Identities=12%  Similarity=0.151  Sum_probs=69.2

Q ss_pred             CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ..+.|.|+..+|+.+.+.|.+++++..|+...+++.|++++.+|++|+|+.|.++.|..++++++|++|++.++..||
T Consensus        95 gg~~i~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~q~L~~~g~~L~D~~tL~~y~i~~g~tl~l~~rlrgG  172 (172)
T 3u30_A           95 GGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG  172 (172)
T ss_dssp             CCEEEEEEESSCCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTSBSGGGTCCTTCEEEECC-----
T ss_pred             ccccceeecccCcceeEEecCCCCHHHHHHHHHHHhCCCceeEEEEECCccCCCCCcHHHhCCCCCCEEEEEEecCCC
Confidence            346777888889999999999999999999999999999999999999999999999999999999999999999998

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

Probab=99.34  E-value=1.4e-11  Score=76.13  Aligned_cols=78  Identities=14%  Similarity=0.181  Sum_probs=68.5

Q ss_pred             CCCCcEEEEEEecCCCEEEE--EEeccchHHHHHHHH-HhhhCCCCCcEeEEECCeecCCCCCccccCC-CCCCEEEEEe
Q 048514            9 PDQHFINLVVKGQDNDPLYF--EFRRDWEIKKLLITY-CEKKDAQYGTFPFLINGNRFPHIRTPDQLGL-KDGDEIVATF   84 (89)
Q Consensus         9 ~~~~~I~i~v~~~~~~~~~f--~i~~~t~l~kL~~~y-~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~m-edgD~Idv~~   84 (89)
                      .....|+|.|++..|+.+.+  .+.++++...|++.. ++..|++++.+|++|.|+.|.++.|..++++ ++|++|.+++
T Consensus        15 ~~~~~m~I~VKtl~g~~~~i~v~v~~~~TV~~lK~~I~~~~~gip~~~QrLi~~Gk~L~D~~tL~dy~I~~~g~ti~lmv   94 (98)
T 4a20_A           15 MDNAAVHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTITVMI   94 (98)
T ss_dssp             ---CCEEEEEEECSSSCEEEEEEECTTCBHHHHHHHHHHTTSCSCGGGEEEEETTEEECTTCBGGGSCCBTTBCEEEEEE
T ss_pred             CCCCCEEEEEEcCCCCEEEEEEecCCCChHHHHHHHHHHHhcCCChhhEEEEECCEECcCcCCHHHcCcCCCCCEEEEEE
Confidence            35677999999999987666  555999999999998 7888999999999999999999999999999 9999999988


Q ss_pred             ee
Q 048514           85 YA   86 (89)
Q Consensus        85 ~q   86 (89)
                      .+
T Consensus        95 sk   96 (98)
T 4a20_A           95 KP   96 (98)
T ss_dssp             CC
T ss_pred             eC
Confidence            65

>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=99.33  E-value=1e-13  Score=91.72  Aligned_cols=76  Identities=12%  Similarity=0.180  Sum_probs=0.0

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      |.|.|++.+|+.+.+.|.+++++..|+...++..|+|++.+||+|+|..|.++.|..++++++|++|++++++.||
T Consensus         1 MqI~VK~l~G~~~~l~V~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~dygI~~gstL~Lvlrl~GG   76 (152)
T 3u5c_f            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG   76 (152)
T ss_dssp             ----------------------------------------------------------------------------
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEEccccCcHHHcCCCCCCEEEEEeeccCC
Confidence            4677888888889999999999999999999999999999999999999999999999999999999999999998

>2daf_A FLJ35834 protein; hypothetical protein FLJ35834, ubiquitin-like domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.31  E-value=3.3e-11  Score=76.80  Aligned_cols=77  Identities=13%  Similarity=0.139  Sum_probs=71.0

Q ss_pred             CCCcEEEEEE-ecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           10 DQHFINLVVK-GQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        10 ~~~~I~i~v~-~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      ....|+++|+ ...+..+.+.+.++.++..|++.+++..++|.+.+||+|+|+.|.+++|..++|+++|.+|++.+..
T Consensus        12 ~~~~itvkv~l~~~~~k~tv~v~~d~TV~dLKe~ls~~~~iP~e~qrLIy~GKiLKD~eTL~~~gIk~g~TIhLvi~s   89 (118)
T 2daf_A           12 EDSLATVKVVLIPVGQEIVIPFKVDTILKYLKDHFSHLLGIPHSVLQIRYSGKILKNNETLVQHGVKPQEIVQVEIFS   89 (118)
T ss_dssp             CSSCEEEEEEETTTCCEEEEEECSSSCSHHHHHHHHHHHTCCTTTEEEEETTEEECSSCCHHHHSCCSSCEEEEEEEE
T ss_pred             cCccEEEEEEEcCCCcEEEEEeCCCCcHHHHHHHHHhhhCCChHHEEEEECCeEcCCcchHHHcCCCCCCEEEEEEec
Confidence            4456899987 6678889999999999999999999999999999999999999999999999999999999998765

>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=99.30  E-value=1.8e-11  Score=75.38  Aligned_cols=78  Identities=13%  Similarity=0.087  Sum_probs=70.6

Q ss_pred             CcEEEEEEecCC----CEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCC-CCccccCCCCCCEEEEEeee
Q 048514           12 HFINLVVKGQDN----DPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHI-RTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        12 ~~I~i~v~~~~~----~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~-~Tp~~l~medgD~Idv~~~q   86 (89)
                      ..|+|.|+...+    +.+.+.|.+++++..|++..+++.|++++.+|++|.|+.|.++ .|..++++.+|++|++....
T Consensus         6 ~~m~I~Vk~~~~~~~~~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~gk~L~D~~~tL~~ygI~~g~~l~l~~~~   85 (102)
T 1v5o_A            6 SGMLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVLLQKD   85 (102)
T ss_dssp             CCEEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTCCCGGGBCEEETTEEECCSSSBHHHHTCCTTEEEEECBCC
T ss_pred             CeEEEEEEECCCCcCceEEEEEcCCCCCHHHHHHHHHHHHCcChHHeEEEECCEECCCCcccHHHCCCCCCCEEEEEECC
Confidence            458888877544    6778999999999999999999999999999999999999877 69999999999999999998


Q ss_pred             cCC
Q 048514           87 GGA   89 (89)
Q Consensus        87 ~GG   89 (89)
                      .||
T Consensus        86 ~gg   88 (102)
T 1v5o_A           86 NVG   88 (102)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            887

>3m63_B Ubiquitin domain-containing protein DSK2; armadillo-like repeats, UBL conjugation pathway, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=99.26  E-value=5.3e-12  Score=77.97  Aligned_cols=73  Identities=10%  Similarity=0.129  Sum_probs=66.9

Q ss_pred             CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514           12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      -.|+|.|++ .|+.+.+.|.+++++..|++..+++.|++++.+|++|+|+.|.++.|..++++++|++|.++.+
T Consensus        27 m~i~I~Vk~-~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~gI~~g~tI~lv~~   99 (101)
T 3m63_B           27 MSLNIHIKS-GQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKS   99 (101)
T ss_dssp             --CCEEEEC-SSCCCCBCCCTTSBHHHHHHHHHHHHSCCSTTCCEEETTEECCTTSBTTTTTCCTTEEEEECCC
T ss_pred             cEEEEEEEE-CCEEEEEEeCCCCCHHHHHHHHHHHHCcChHHEEEEECCEECCCcCcHHHCCCCCCCEEEEEeC
Confidence            457888887 7888889999999999999999999999999999999999999999999999999999998764

>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=99.25  E-value=1.6e-11  Score=76.80  Aligned_cols=79  Identities=11%  Similarity=0.122  Sum_probs=72.0

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC---------------CcEeEEECCeecC-CCCCccccC
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY---------------GTFPFLINGNRFP-HIRTPDQLG   73 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~---------------~~~rF~fdG~~l~-~~~Tp~~l~   73 (89)
                      .+..|+|.|+..+|+.+.+.|.+++++..|+++.+++.++++               ++++++|.|+.|. ++.|..+++
T Consensus         4 ~~~~M~I~Vk~l~g~~~~v~V~~~~TV~dLK~~I~~~~~i~~~~q~g~~~isw~~~w~q~~Li~~Gk~L~dD~~tL~dyg   83 (105)
T 1v2y_A            4 GSSGMTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKLRDYG   83 (105)
T ss_dssp             CCCSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSBHHHHT
T ss_pred             CCCcEEEEEEecCCCEEEEEECCCChHHHHHHHHHHHhCCCcccccCcceeeeeecceeEEEEeCCcCccCCcCCHHHcC
Confidence            345699999999999999999999999999999999998866               4789999999997 569999999


Q ss_pred             CCCCCEEEEEeeecC
Q 048514           74 LKDGDEIVATFYAGG   88 (89)
Q Consensus        74 medgD~Idv~~~q~G   88 (89)
                      +.+|++|+++.+..|
T Consensus        84 I~~g~~l~lv~~lr~   98 (105)
T 1v2y_A           84 IRNRDEVSFIKKLGQ   98 (105)
T ss_dssp             CCSSEEEEEEECSCS
T ss_pred             CCCCCEEEEEehhcc
Confidence            999999999998877

>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=99.24  E-value=4.4e-11  Score=74.28  Aligned_cols=75  Identities=13%  Similarity=0.052  Sum_probs=66.0

Q ss_pred             cEEEEEEecC----CCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecC
Q 048514           13 FINLVVKGQD----NDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGG   88 (89)
Q Consensus        13 ~I~i~v~~~~----~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   88 (89)
                      -.+|.|+..+    ++.+.+.|.++++...|++..+++.|+|++++|++|.|+.|.++.|.+++++.+|.+| +++...|
T Consensus        15 ~ati~V~~~~~~~~~~~~~lev~~~~TV~~lK~kI~~k~gip~~qQrLI~~GKiL~D~~TL~~y~I~~gsti-~vl~lrg   93 (100)
T 1wju_A           15 IATIEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEEQGVAHNVKA-MVLELKQ   93 (100)
T ss_dssp             EEEEEEECCTTTCCSSSEEEEEESSSBHHHHHHHHHHHTTCCSTTCEEEETTEECCTTSBHHHHTCCSSEEE-EEECCCC
T ss_pred             eEEEEEEecCCCCCCcEEEEEeCCcCHHHHHHHHHHHHHCcCHHHeEEEeCCeECCCCCcHHHcCCCCCCEE-EEEEECC
Confidence            3456666555    6688999999999999999999999999999999999999999999999999999999 5555554

>2gow_A HCG-1 protein, ubiquitin-like protein 3; BC059385, structural genomics, protein structure initiative, PSI; NMR {Homo sapiens}

Probab=99.21  E-value=1.3e-10  Score=74.63  Aligned_cols=81  Identities=12%  Similarity=0.044  Sum_probs=71.8

Q ss_pred             CCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHh------hhCC--CCCcEeEEECCeecCCCCCccccCCCCCC--
Q 048514            9 PDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCE------KKDA--QYGTFPFLINGNRFPHIRTPDQLGLKDGD--   78 (89)
Q Consensus         9 ~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~------~~g~--~~~~~rF~fdG~~l~~~~Tp~~l~medgD--   78 (89)
                      ++...|.|+|+..+|+.+.+.|.++++...|++..++      +.|+  +++.+||+|.|+.|.++.|..++++.+|+  
T Consensus        13 ~~~~~m~I~vktl~G~~~~lev~~s~TV~~lK~~I~~~~p~dwke~ip~~~~~qrLIy~GK~LeD~~TL~~y~I~~~~~~   92 (125)
T 2gow_A           13 VPADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTT   92 (125)
T ss_dssp             CCTTCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHSSCCCSCCCCTTCCGGGEEEESSSSEEESSCBTGGGCCCTTSEE
T ss_pred             CCCCeEEEEEEeCCCCEEEEEeCCccHHHHHHHHHHHHCCcccccCCCCChHHEEEEECCcCCCCCCcHHHcCCCCCCce
Confidence            4566799999999999999999999999999999998      5677  48999999999999999999999999888  


Q ss_pred             EEEEEeeecCC
Q 048514           79 EIVATFYAGGA   89 (89)
Q Consensus        79 ~Idv~~~q~GG   89 (89)
                      +|+++++..|+
T Consensus        93 tlhlv~r~~~~  103 (125)
T 2gow_A           93 VMHLVARETLP  103 (125)
T ss_dssp             EEEEEECSCCS
T ss_pred             EEEEEecCCCC
Confidence            57888776653

>2lxa_A Ubiquitin-like protein MDY2; ubiquitin-like domain, protein-protein interaction, SGT2 BIN domain, GET pathway, protein binding; NMR {Saccharomyces cerevisiae}

Probab=99.18  E-value=5.5e-11  Score=71.91  Aligned_cols=72  Identities=14%  Similarity=0.166  Sum_probs=66.7

Q ss_pred             EEEEEEecCCCEEEEEEe--ccchHHHHHHHH-HhhhCCCCCcEeEEECCeecCCCCCccccCC-CCCCEEEEEee
Q 048514           14 INLVVKGQDNDPLYFEFR--RDWEIKKLLITY-CEKKDAQYGTFPFLINGNRFPHIRTPDQLGL-KDGDEIVATFY   85 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~--~~t~l~kL~~~y-~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~m-edgD~Idv~~~   85 (89)
                      |+|.|++..|+.+.+.|.  ++++...|++.. ++..|+|++++|++|.|+.|.++.|..++++ .+|.+|.|..+
T Consensus         2 mqI~VKtl~g~~~~i~v~v~~~~TV~~lK~~I~~~~~gip~~~QrLi~~Gk~L~D~~tL~~y~I~~~~stl~v~~~   77 (87)
T 2lxa_A            2 VHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTITVMIK   77 (87)
T ss_dssp             CEEEEEECSSSCEECCEECCTTCBHHHHHHHHHHTTSCSSSTTEEEEETTEECCTTCBHHHHCCCGGGCEEEEEEC
T ss_pred             EEEEEEcCCCCEEEEEEcCCCCCcHHHHHHHHHHHhcCCChHHEEEEECCEECcCcCCHHHcCCCCCCCEEEEEcC
Confidence            678899999998888766  999999999999 9999999999999999999999999999999 79999999865

>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=99.17  E-value=3.1e-10  Score=73.08  Aligned_cols=78  Identities=12%  Similarity=0.092  Sum_probs=69.9

Q ss_pred             CcEEEEEEecCCCEE-EEEEeccchHHHHHHHHH-----hhhCCCC--CcEeEEECCeecCCCCCccccCCCCCC-----
Q 048514           12 HFINLVVKGQDNDPL-YFEFRRDWEIKKLLITYC-----EKKDAQY--GTFPFLINGNRFPHIRTPDQLGLKDGD-----   78 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~-~f~i~~~t~l~kL~~~y~-----~~~g~~~--~~~rF~fdG~~l~~~~Tp~~l~medgD-----   78 (89)
                      +.+.|+|+..+|+.+ .+.+.++++...|++..+     ++.|+|+  +++||+|.|+.|.++.|.+++++.+|+     
T Consensus        15 ~~~~i~~kt~~G~~i~~l~v~psdTV~~lK~kI~~~~p~dkegiP~~~~qQrLIy~GK~LeD~~TLsdy~I~~~~~~~~v   94 (126)
T 1se9_A           15 NQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVSNLAGAV   94 (126)
T ss_dssp             CCEEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCTTSCTTCC
T ss_pred             ccEEEEEEECCCCEEEeeecCccCHHHHHHHHHHhhcccccccCCCChhhEEEEECCeECcCCCcHHHcCCCcCCccCCc
Confidence            689999999999988 699999999999999995     4556775  899999999999999999999999995     


Q ss_pred             -EEEEEeeecCC
Q 048514           79 -EIVATFYAGGA   89 (89)
Q Consensus        79 -~Idv~~~q~GG   89 (89)
                       +++++.+..||
T Consensus        95 ~tmhlVlrl~g~  106 (126)
T 1se9_A           95 TTMHVIIQAPVT  106 (126)
T ss_dssp             EEEEEEECCCSS
T ss_pred             EEEEEEeccCCc
Confidence             68999888876

>2kd0_A LRR repeats and ubiquitin-like domain-containing protein AT2G30105; ubiquitin-like protein, NESG, leucine-rich repeat, structural genomics; NMR {Arabidopsis thaliana}

Probab=99.15  E-value=3.6e-10  Score=67.48  Aligned_cols=67  Identities=10%  Similarity=0.085  Sum_probs=62.3

Q ss_pred             ecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           20 GQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        20 ~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      ..+|+.+.+.+.+++++..|++..++..|++++.+|++|+|+.|.++.|..++++.+|++|.++..+
T Consensus        18 ~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~l~l~~s~   84 (85)
T 2kd0_A           18 KFGGKSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVETSTLKQSDVGSGAKLMLMASQ   84 (85)
T ss_dssp             EETTEEEEEEECTTSBHHHHHHHHHHHHCCCTTTCEEEETTEECCTTCBTTTTTCCTTEEEEEECCC
T ss_pred             EECCEEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCeECCCcCCHHHCCCCCCCEEEEEEeC
Confidence            3578888999999999999999999999999999999999999999999999999999999987653

>4dbg_A Ranbp-type and C3HC4-type zinc finger-containing; ubiquitin fold, ubiquitination, ligase; 2.71A {Homo sapiens} PDB: 2lgy_A

Probab=99.14  E-value=5.6e-10  Score=69.84  Aligned_cols=75  Identities=12%  Similarity=0.071  Sum_probs=66.4

Q ss_pred             CCcEEEEEEecCC--CEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCC-CCCCEEEEEee
Q 048514           11 QHFINLVVKGQDN--DPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGL-KDGDEIVATFY   85 (89)
Q Consensus        11 ~~~I~i~v~~~~~--~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~m-edgD~Idv~~~   85 (89)
                      .-.+.+.|.+..+  ..+.+.|.+++++..|++..+++.|+|++..|++|.|+.+.++.|..++|+ ++|++|++++-
T Consensus        22 ~i~l~v~v~d~~s~~~~i~l~V~ps~TV~~LK~~I~~k~Gipp~~QRli~ggkll~D~~TL~~ygI~~~G~t~hL~l~   99 (105)
T 4dbg_A           22 DIRLWVSVEDAQMHTVTIWLTVRPDMTVASLKDMVFLDYGFPPVLQQWVIGQRLARDQETLHSHGVRQNGDSAYLYLL   99 (105)
T ss_dssp             CEEEEEEEEESSSCCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEEECTTCBTGGGTCCSTTCEEEEEEC
T ss_pred             cEEEEEEEEccCCCCceEEEEECCcChHHHHHHHHHHHhCCCHHHEEEeccCeEccCcCcHHHcCCCCCCCEEEEEEE
Confidence            3466777777654  578999999999999999999999999999999999998899999999999 69999998763

>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=99.14  E-value=2.1e-10  Score=71.18  Aligned_cols=76  Identities=16%  Similarity=0.136  Sum_probs=66.5

Q ss_pred             CCcEEEEEEecCC---CEEEEEE--------ec-cchHHHHHHHHHhhh--CCCCCc-EeEEECCeecCCCCCccccCCC
Q 048514           11 QHFINLVVKGQDN---DPLYFEF--------RR-DWEIKKLLITYCEKK--DAQYGT-FPFLINGNRFPHIRTPDQLGLK   75 (89)
Q Consensus        11 ~~~I~i~v~~~~~---~~~~f~i--------~~-~t~l~kL~~~y~~~~--g~~~~~-~rF~fdG~~l~~~~Tp~~l~me   75 (89)
                      ...|+|.|+..++   ..+.+.|        .+ ++++..|++..+++.  |++++. +||+|.|+.|.++.|..+++++
T Consensus        10 ~~~~~i~Vk~~~~~~~~~~~l~v~~~~~~~v~~~~~TV~~LK~~i~~~~~~gip~~~~qrLi~~Gk~L~D~~tL~~y~i~   89 (107)
T 1x1m_A           10 LSDWHLAVKLADQPLAPKSILQLPETELGEYSLGGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQTLDFYGIQ   89 (107)
T ss_dssp             CCSCCEEEEETTCTTSCCEEECCCCCSSCSSCCCCCBHHHHHHHHHHHCTTTCCCSSSEEEEETTEECCTTCBHHHHTCC
T ss_pred             CCceEEEEEeCCCCCccEEEEEecCccccccCcccCCHHHHHHHHHHHhccCCChhhcEEEEECCeECCCCCcHHHcCCC
Confidence            4457888887777   6777884        44 499999999999999  999999 9999999999999999999999


Q ss_pred             CCCEEEEEeee
Q 048514           76 DGDEIVATFYA   86 (89)
Q Consensus        76 dgD~Idv~~~q   86 (89)
                      +|++|+++...
T Consensus        90 ~g~~i~lv~~~  100 (107)
T 1x1m_A           90 PGSTVHVLRKS  100 (107)
T ss_dssp             TTCEEEEEESS
T ss_pred             CCCEEEEEeCC
Confidence            99999998754

>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=99.13  E-value=5.7e-10  Score=72.74  Aligned_cols=73  Identities=12%  Similarity=0.097  Sum_probs=69.2

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEE-E-CCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFL-I-NGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~-f-dG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      +.|.|+..+|+.+.+.|.+++++..|++..++..|+|++..||+ | .|+.|.++.|.+++++.+|++|++...+
T Consensus         3 m~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~QrL~~~~~g~~L~d~~tL~~y~i~~~~~l~l~~~~   77 (159)
T 3rt3_B            3 WDLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVDK   77 (159)
T ss_dssp             CEEEEEETTSCEEEEECCTTCCHHHHHHHHHHHHCCCGGGEEEEEETTCCBCCTTSCGGGGTCCTTCEEEEEECC
T ss_pred             eEEEEEECCCCEEEEEeCCCCcHHHHHHHHHHHhCCCHHHEEEEEcCCCCCCCCCCCHHHcCCCCCCEEEEEccC
Confidence            67888888999999999999999999999999999999999999 9 7999999999999999999999998873

>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=99.12  E-value=1.2e-09  Score=69.39  Aligned_cols=78  Identities=13%  Similarity=0.079  Sum_probs=67.8

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHh------hhCC--CCCcEeEEECCeecCCCCCccccCCCCCCE--
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCE------KKDA--QYGTFPFLINGNRFPHIRTPDQLGLKDGDE--   79 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~------~~g~--~~~~~rF~fdG~~l~~~~Tp~~l~medgD~--   79 (89)
                      +.+.|.|+|++..|+.+.|.|.+++++..|++..++      +.++  +++.+||+|.|+.|.++.|..++++..++.  
T Consensus        13 ~~~~m~I~vKtl~G~t~~lev~~s~TV~~lK~kI~~~~p~dwke~~p~p~~qqrLIy~GK~LeD~~TL~~y~I~~~~~~t   92 (116)
T 1wgh_A           13 PADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTTV   92 (116)
T ss_dssp             CSSSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTCCSSCEEE
T ss_pred             CCCeEEEEEEeCCCCEEEEEECCcCHHHHHHHHHHHhcccccccCCCCChHHEEEEECCcCCCCCCcHHHcCCCCCCceE
Confidence            445799999998999999999999999999999998      4564  689999999999999999999999988864  


Q ss_pred             EEEEeeec
Q 048514           80 IVATFYAG   87 (89)
Q Consensus        80 Idv~~~q~   87 (89)
                      |+++++..
T Consensus        93 lhLvlr~~  100 (116)
T 1wgh_A           93 MHLVARET  100 (116)
T ss_dssp             EEEEECSS
T ss_pred             EEEEccCC
Confidence            66666543

>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=99.10  E-value=5.9e-10  Score=71.03  Aligned_cols=74  Identities=7%  Similarity=0.065  Sum_probs=65.9

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCC-------CCCEEEEEeee
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLK-------DGDEIVATFYA   86 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~me-------dgD~Idv~~~q   86 (89)
                      |.|+++.. ...+.+.|.+++++..|+...+++.|++++..|++|+|+.|.++.|..++++.       ++.+|++.++ 
T Consensus         3 mfl~ir~~-ktti~lev~~sdTV~~lK~kI~~~egIP~~qQrLi~~Gk~LeD~~TLsdy~I~~~~a~~q~~stL~L~lr-   80 (118)
T 2fnj_B            3 VFLMIRRH-KTTIFTDAKESSTVFELKRIVEGILKRPPEEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAFR-   80 (118)
T ss_dssp             EEEEEEEB-TEEEEEEEETTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBHHHHTCCTTTSBTTBCEEEEEEEB-
T ss_pred             EEEEEecC-CEEEEEEeCCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCCCHHHcCcccccccCCCCCEEEEEec-
Confidence            56677642 24578999999999999999999999999999999999999999999999999       6999999998 


Q ss_pred             cCC
Q 048514           87 GGA   89 (89)
Q Consensus        87 ~GG   89 (89)
                      .||
T Consensus        81 ~~g   83 (118)
T 2fnj_B           81 ADD   83 (118)
T ss_dssp             SSS
T ss_pred             CCC
Confidence            554

>2kdb_A Homocysteine-responsive endoplasmic reticulum- resident ubiquitin-like domain member...; UBL domain, membrane, polymorphism, transmembrane; NMR {Homo sapiens}

Probab=99.08  E-value=3.7e-10  Score=69.72  Aligned_cols=74  Identities=11%  Similarity=0.172  Sum_probs=64.0

Q ss_pred             CCCcEEEEEEecCCC--EEEEEEeccchHHHHHHHHHhhh-CCC-CCcEeEEECCeecCCCCCcccc--CCCCCCEEEEE
Q 048514           10 DQHFINLVVKGQDND--PLYFEFRRDWEIKKLLITYCEKK-DAQ-YGTFPFLINGNRFPHIRTPDQL--GLKDGDEIVAT   83 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~--~~~f~i~~~t~l~kL~~~y~~~~-g~~-~~~~rF~fdG~~l~~~~Tp~~l--~medgD~Idv~   83 (89)
                      ....|+|+|++.+++  .+.+.+.+++++..|++..+++. |.+ ++.+|++|.|+.|.++.|..++  ++++|++|+++
T Consensus        20 ~~~~m~I~VK~~~g~~~~i~l~v~~~~TV~~LK~~I~~~~~g~pp~~~QrLIy~Gk~L~D~~tL~~y~~~I~~~~tihLv   99 (99)
T 2kdb_A           20 QGHPVTLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYPSKPLTKDQRLVYSGRLLPDHLQLKDILRKQDEYHMVHLV   99 (99)
T ss_dssp             ---CEEEEEECTTSSSCCEEEEECTTSBHHHHHHHHHHHSTTCCCTTTCCEEETTEEECTTSBTHHHHTTTCSEEEEEEC
T ss_pred             CCCeEEEEEEcCCCCEEEEEEEcCCCCHHHHHHHHHHHHhcCCCChhhEEEEECCEECCCCCCHHHHhcCCCCCCEEEeC
Confidence            456799999988877  67889999999999999999864 555 5999999999999999999999  99999999863

>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=99.08  E-value=1.3e-09  Score=65.57  Aligned_cols=74  Identities=12%  Similarity=0.113  Sum_probs=66.5

Q ss_pred             CCcEEEEEEecCCCEEEEEEecc-----chHHHHHHHHHhhhCCCCCcEeEEECCeecCC-CCCccccCCCCCCEEEEEe
Q 048514           11 QHFINLVVKGQDNDPLYFEFRRD-----WEIKKLLITYCEKKDAQYGTFPFLINGNRFPH-IRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus        11 ~~~I~i~v~~~~~~~~~f~i~~~-----t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~-~~Tp~~l~medgD~Idv~~   84 (89)
                      ...|+|.|+. .+..+.+.+.++     +++..|++..+++.|++++.+|++|.|+.|.+ +.|..++++.+|++|+++.
T Consensus         5 ~~~~~v~Vk~-~~~~~~i~v~~~~~~~~~TV~~LK~~i~~~~gip~~~qrL~~~Gk~L~D~~~~L~~~~i~~g~~i~l~~   83 (92)
T 1wxv_A            5 SSGLTVTVTH-SNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLIG   83 (92)
T ss_dssp             CSSEEEEEEC-SSSEEEEEECCCSSSSSCBHHHHHHHHHHHTCCCTTTCEEEETTEEECCSSSBHHHHTCCSSEEEEEES
T ss_pred             CCeEEEEEEE-CCEEEEEEECCCcCcccCcHHHHHHHHHHHHCcCHHHEEEEECCeecCCCcccHHHCCCCCCCEEEEEe
Confidence            4579999987 577888999995     99999999999999999999999999999998 5589999999999999876


Q ss_pred             e
Q 048514           85 Y   85 (89)
Q Consensus        85 ~   85 (89)
                      .
T Consensus        84 ~   84 (92)
T 1wxv_A           84 K   84 (92)
T ss_dssp             C
T ss_pred             c
Confidence            4

>2kjr_A CG11242; UBL, ubiquitin, ubiquitin-like, structural genomics, PSI-2, protein structure initiative; NMR {Drosophila melanogaster}

Probab=99.06  E-value=2.1e-09  Score=65.83  Aligned_cols=75  Identities=15%  Similarity=0.160  Sum_probs=66.4

Q ss_pred             CCCCcEEEEEEecCCC--EEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC--Ce---ec-CCCCCccccCCCCCCEE
Q 048514            9 PDQHFINLVVKGQDND--PLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN--GN---RF-PHIRTPDQLGLKDGDEI   80 (89)
Q Consensus         9 ~~~~~I~i~v~~~~~~--~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~---~l-~~~~Tp~~l~medgD~I   80 (89)
                      +++..|+|.|.+..+.  .+.+++.+++++..|++..+++.|+|++++|++|.  |+   .| .++.|..++++++|++|
T Consensus        11 ~~~~~v~l~It~s~~~~~~~~~~v~~~~TV~~LK~kI~~~~GiP~~~QrL~~~~~g~~~~~L~~D~~tL~~Y~i~~gsti   90 (95)
T 2kjr_A           11 GKSDFIKVNVSNSHNDAVAFEVKLAKDLTVAQLKTKLEILTGGCAGTMKVQVFKGDTCVSTMDNNDAQLGYYANSDGLRL   90 (95)
T ss_dssp             CCCCEEEEEEEESSCSCEEEEEEEETTCBHHHHHHHHHHHHCSCTTTEEEEEEETTEEEEECCCTTSBHHHHCCSSSCEE
T ss_pred             CCCCeEEEEEEECCCCceEEEEEeCccCHHHHHHHHHHHHHCcCHHHeEEEEecCCcccceeCCCCCCHhHCCcCCCCEE
Confidence            4677899999876554  68899999999999999999999999999999997  55   45 78899999999999999


Q ss_pred             EEE
Q 048514           81 VAT   83 (89)
Q Consensus        81 dv~   83 (89)
                      .++
T Consensus        91 hlv   93 (95)
T 2kjr_A           91 HVV   93 (95)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            885

>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=99.05  E-value=1.4e-09  Score=66.49  Aligned_cols=72  Identities=11%  Similarity=0.062  Sum_probs=65.7

Q ss_pred             CCcEEEEEEecCCCEE-EEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514           11 QHFINLVVKGQDNDPL-YFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus        11 ~~~I~i~v~~~~~~~~-~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   84 (89)
                      ...|+|+|+. .|+.+ .+.|..++++..|++..++..|++++.+|++|.|+.|.++ |..++++.+|++|.++.
T Consensus         5 ~~~m~i~Vk~-~g~~~~~l~v~~~~TV~~lK~~I~~~tgip~~~QkLi~~Gk~L~D~-tL~~~~I~~g~~i~l~~   77 (96)
T 1wgg_A            5 SSGYSVTVKW-GKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD-DWGNIKMKNGMTVLMMG   77 (96)
T ss_dssp             CCEEEEEEEE-TTEEEEEEEEESSSCHHHHHHHHHHHTCCCTTTSCCEETTEECCSS-CCCSCCCCSSCEEECCC
T ss_pred             CcEEEEEEEE-CCEEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCcCCCCC-CHHHCCCCCCCEEEEEe
Confidence            4578999985 67777 5999999999999999999999999999999999999988 99999999999998764

>3ai5_A Yeast enhanced green fluorescent protein, ubiquit; ubiquitin, fusion protein, fluore protein, transcription; HET: CR2; 1.40A {Aequorea victoria} PDB: 3ako_B*

Probab=99.04  E-value=1.9e-09  Score=78.20  Aligned_cols=77  Identities=10%  Similarity=0.121  Sum_probs=71.2

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      .+..|+|.|++.+|+.+.+.|.+++++..|++..+++.|++++.+|++|.|+.|.++.|..++++.+|++|++++++
T Consensus       230 ~~~~MqI~VKtl~Gk~~~leV~~s~TV~dLK~kI~~~~GIp~~~QRLi~~Gk~L~D~~TLsdygI~~gstL~LvlRL  306 (307)
T 3ai5_A          230 ITGSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL  306 (307)
T ss_dssp             SCCCEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTGGGTCCTTCEEEEEC--
T ss_pred             CCCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEeCCeecCCCCCHHHcCCCCCCEEEEEEeC
Confidence            45678999999889999999999999999999999999999999999999999999999999999999999998875

>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=99.03  E-value=7.4e-10  Score=66.69  Aligned_cols=74  Identities=14%  Similarity=0.031  Sum_probs=66.7

Q ss_pred             CCcEEEEEEecCCCEEEE-EEeccchHHHHHHHHHhhhCCCCCcEeEE---ECCeecCCCCCccccCCCCCCEEEEEee
Q 048514           11 QHFINLVVKGQDNDPLYF-EFRRDWEIKKLLITYCEKKDAQYGTFPFL---INGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        11 ~~~I~i~v~~~~~~~~~f-~i~~~t~l~kL~~~y~~~~g~~~~~~rF~---fdG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      ...|+|.|+. .|+.+.+ .|.+++++..|++..+++.|++++.+|++   |.|+.|.++.|..++++.+|++|.++..
T Consensus         5 ~~~m~i~Vk~-~g~~~~i~~v~~~~TV~~lK~~I~~~~gip~~~QkLi~~k~~Gk~L~D~~~L~~~~i~~g~~l~l~~~   82 (90)
T 1v5t_A            5 SSGLPIIVKW-GGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLGALKLKPNTKIMMMGT   82 (90)
T ss_dssp             CCSCCEEEEE-TTEEEEECSCCSSSBHHHHHHHHHHHTCCCTTTCEEESCEETTEECCTTSBHHHHTCCTTEEEEEECC
T ss_pred             CceEEEEEEE-CCEEEEEEEeCCCCCHHHHHHHHHHHHCcCHHHeEEEeeccCCcCcCCCCCHHHcCCCCCCEEEEEec
Confidence            3567888875 6777788 89999999999999999999999999999   9999999999999999999999988653

>4ajy_B Transcription elongation factor B polypeptide 2; E3 ubiquitin ligase, transcription factor, hypoxic signaling transcription; 1.73A {Homo sapiens} PDB: 1lqb_A 1vcb_A 2c9w_B 2izv_B 2jz3_B 2xai_C 3dcg_A 3zrc_A* 3zrf_A 3ztc_A* 3ztd_A* 3zun_A* 1lm8_B 4b95_A* 2fnj_B 4b9k_A* 4awj_A*

Probab=98.99  E-value=4.8e-09  Score=66.79  Aligned_cols=73  Identities=8%  Similarity=0.080  Sum_probs=65.7

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCC-------CCEEEEEeee
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKD-------GDEIVATFYA   86 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~med-------gD~Idv~~~q   86 (89)
                      +.|+|+. .+..+.+.+++++++..|+...+++.|+++++.||+|+|+.|.++.|..++++++       +.+|+..++.
T Consensus         3 vFl~Ikr-~ktTI~ldve~sdTV~~lK~kI~~~~giPp~qQrLI~~Gk~LeD~kTL~dy~I~~~ta~~q~~atl~Lvlr~   81 (118)
T 4ajy_B            3 VFLMIRR-HKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAFRA   81 (118)
T ss_dssp             EEEEEEE-BTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTTTTTCCGGGSBTTBCEEEEEEECC
T ss_pred             eEEEEec-CCEEEEEEcCCCChHHHHHHHHHHHHCCCHHHeEEEeCCeECCCcCCHHHcCCCcCcccCCCCCEEEEEEec
Confidence            4556653 4557889999999999999999999999999999999999999999999999999       9999999886


Q ss_pred             c
Q 048514           87 G   87 (89)
Q Consensus        87 ~   87 (89)
                      .
T Consensus        82 ~   82 (118)
T 4ajy_B           82 D   82 (118)
T ss_dssp             S
T ss_pred             C
Confidence            3

>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=98.98  E-value=1.2e-09  Score=66.54  Aligned_cols=73  Identities=10%  Similarity=0.017  Sum_probs=65.5

Q ss_pred             CCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514           11 QHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        11 ~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      ...|+|+|+. .++.+.+.|.+++++..|++..+++.|++++.+|++|.|+.| ++.|..++++.+|++|+++..
T Consensus        15 ~~~~~i~Vk~-~g~~~~i~v~~~~TV~~LK~~I~~~tgip~~~QrL~~~Gk~L-dd~tL~~~~i~~g~~i~lv~~   87 (95)
T 1v86_A           15 KELVDLKIIW-NKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGLVP-EDKTLREIKVTSGAKIMVVGS   87 (95)
T ss_dssp             CCCEEEEEEE-TTEEEEEEECTTSBHHHHHHHHHHHHCSCSTTCCCBSSSBCC-SSSBHHHHCCCTTEEEEECCS
T ss_pred             CceEEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCeeC-CcCcHHHCCCCCCCEEEEEec
Confidence            3568888884 677888999999999999999999999999999999999999 556999999999999998754

>2kj6_A Tubulin folding cofactor B; methods development, NESG, solution PSI-2, structural genomics, protein structure initiative; NMR {Arabidopsis thaliana}

Probab=98.93  E-value=7.1e-09  Score=63.72  Aligned_cols=75  Identities=8%  Similarity=0.031  Sum_probs=65.3

Q ss_pred             CCCcEEEEEEecCC--CEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCe---e----cCCCCCccccCCCCCCEE
Q 048514           10 DQHFINLVVKGQDN--DPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN---R----FPHIRTPDQLGLKDGDEI   80 (89)
Q Consensus        10 ~~~~I~i~v~~~~~--~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~---~----l~~~~Tp~~l~medgD~I   80 (89)
                      .+..|+|.|.+...  ..+.++|.+++++..|+...+.+.|+|++++|++|.|+   .    +.++.|..++++++|++|
T Consensus        11 ~~~~v~l~It~s~~~~~~~e~~v~~~~TV~~LK~kIe~~~Gip~~~QrLi~~g~~g~~~~~L~~D~~tL~~Y~I~~g~~I   90 (97)
T 2kj6_A           11 GDDSVHLHITHANLKSFSADARFSPQMSVEAVKEKLWKKCGTSVNSMALELYDDSGSKVAVLSDDSRPLGFFSPFDGFRL   90 (97)
T ss_dssp             CCCCEEEEEEETTSSCCCEEEEECTTCCHHHHHHHHHHHHCCCTTSEEEEEECSSSCBCCCSSGGGSCHHHHCCCSCCEE
T ss_pred             CCceEEEEEEECCCCceEEEEEeCCCChHHHHHHHHHHHHCcCHHHeEEEEecCCCcccceecCCcCCHHHCCCCCCCEE
Confidence            45688999987544  46899999999999999999999999999999999883   3    377889999999999999


Q ss_pred             EEEe
Q 048514           81 VATF   84 (89)
Q Consensus        81 dv~~   84 (89)
                      .++-
T Consensus        91 hlvd   94 (97)
T 2kj6_A           91 HIID   94 (97)
T ss_dssp             EEEE
T ss_pred             EEEe
Confidence            8863

>1wf9_A NPL4 family protein; beta-grAsp fold like domain, hypothetical protein, structural genomics, NPPSFA; NMR {Arabidopsis thaliana} SCOP: d.15.1.1

Probab=98.92  E-value=2.4e-09  Score=66.49  Aligned_cols=73  Identities=12%  Similarity=0.044  Sum_probs=65.3

Q ss_pred             CcEEEEEEecCCCEEEEEEe-ccchHHHHHHHHHhhhCCCCCcEeEEECCe-----------e----cCCCCCccccCCC
Q 048514           12 HFINLVVKGQDNDPLYFEFR-RDWEIKKLLITYCEKKDAQYGTFPFLINGN-----------R----FPHIRTPDQLGLK   75 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~-~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~-----------~----l~~~~Tp~~l~me   75 (89)
                      ..|.|+|++.+|.. .+.|. +++++..|++..+++.+++++..+++|.|.           .    +.++.|..++++.
T Consensus         6 ~~M~irvrs~~G~~-~v~v~~~~~Tv~~LK~kI~~~~gip~~~QrL~~~~~~~~~k~~~~~~~l~~~l~d~~tL~~~gi~   84 (107)
T 1wf9_A            6 SGTMLRVRSRDGLE-RVSVDGPHITVSQLKTLIQDQLQIPIHNQTLSTNRNLLLAKSPSDFLAFTDMADPNLRISSLNLA   84 (107)
T ss_dssp             CCEEEEEECSSCEE-EEEECCTTSBHHHHHHHHHHHSCCCTTTCCCBSSGGGGTCCSHHHHTTCCSSCCTTCBGGGTCCC
T ss_pred             CeEEEEEECCCCCE-EEEECCCCCcHHHHHHHHHHHhCcCcccCEEEECCccccccCccccccccccCCCCCCHHHCCCC
Confidence            44899999998976 68899 999999999999999999999999999998           4    4788899999999


Q ss_pred             CCCEEEEEee
Q 048514           76 DGDEIVATFY   85 (89)
Q Consensus        76 dgD~Idv~~~   85 (89)
                      +||+|++...
T Consensus        85 ~G~~L~l~~~   94 (107)
T 1wf9_A           85 HGSMVYLAYE   94 (107)
T ss_dssp             TTCEEECCCS
T ss_pred             CCCEEEEEeC
Confidence            9999988653

>2xzm_9 RPS31E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_9

Probab=98.89  E-value=1.7e-10  Score=78.72  Aligned_cols=71  Identities=11%  Similarity=0.137  Sum_probs=0.0

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      |.|.|++.+|+.+.+.|.+++++..|+...++..|+|++++||+|+|+.|.++.|..     ++++|++++++.||
T Consensus         1 MqI~VKtL~GktitLeV~~sdTV~~LK~kI~~keGIP~~qQRLIf~GK~LeD~~TLs-----~~STLhLvlRLrGG   71 (189)
T 2xzm_9            1 MQVQVKTLEGETKIYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAPNTELVT-----DDVTYYLSLKLLGG   71 (189)
T ss_dssp             ----------------------------------------------------------------------------
T ss_pred             CEEEEEcCCCCEEEEEECCcChHHHHHHHHHHHhCcChhHEEEEecCeECCCCCccc-----CCCEEEEEEecCCC
Confidence            467788888999999999999999999999999999999999999999999988876     99999999999997

>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=98.88  E-value=3.3e-09  Score=78.42  Aligned_cols=79  Identities=8%  Similarity=0.068  Sum_probs=69.7

Q ss_pred             CCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHh---hhCCCCCcEeEEECCeecCCCCCccccCCCCCCEE-EEEeee
Q 048514           11 QHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCE---KKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEI-VATFYA   86 (89)
Q Consensus        11 ~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~---~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~I-dv~~~q   86 (89)
                      ...|+|.|++.+|+.+.+.|.+++++..|+...++   +.|++.+.+||+|.|+.|.++.|..++++.+|++| .++.+.
T Consensus         5 ~~~M~I~VKtl~Gk~~~leV~~~~TV~~LK~~I~~~~~~~gip~~~QrLiy~GK~L~D~~tL~dygI~~gstIv~lv~k~   84 (368)
T 1oqy_A            5 SSAVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVTKT   84 (368)
T ss_dssp             -CCCCEEEEETTTEEEEECCCTTCBHHHHHHHHHHHTCSSSCCSTEEEEESSSSEECSSSBTTTTCCCTTSCEEEEEECC
T ss_pred             CceEEEEEEeCCCCEEEEEeCCCChHHHHHHHHHHHhCcCCCChhheEEEECCeecCCcCCHHHcCCCCCCEEEEEEecC
Confidence            45688999988899999999999999999999998   56799999999999999999999999999999998 666665


Q ss_pred             cCC
Q 048514           87 GGA   89 (89)
Q Consensus        87 ~GG   89 (89)
                      .||
T Consensus        85 ~~~   87 (368)
T 1oqy_A           85 KAG   87 (368)
T ss_dssp             CSS
T ss_pred             CCC
Confidence            553

>1v6e_A Cytoskeleton-associated protein 1; tubulin-specific chaperone B, tubulin folding cofactor B, microtubule, ubiquitin-like fold, structural genomics; NMR {Mus musculus} SCOP: d.15.1.1

Probab=98.86  E-value=1.4e-08  Score=61.57  Aligned_cols=72  Identities=10%  Similarity=-0.017  Sum_probs=63.0

Q ss_pred             cEEEEEEecCCC-EEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECC---ee----cCCCCCccccCCCCCCEEEEEe
Q 048514           13 FINLVVKGQDND-PLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLING---NR----FPHIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus        13 ~I~i~v~~~~~~-~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG---~~----l~~~~Tp~~l~medgD~Idv~~   84 (89)
                      .|+|.|.+.... ...+++.+++++..|+...+++.|+|++++|++|.|   ..    +.++.|..++++++|++|+|.-
T Consensus         7 ~v~l~I~~~~~~~~~~~~v~~~~TV~~lK~ki~~~~gip~~~qrL~~~~~~g~~~~~l~~D~~tL~~y~i~~g~~l~v~d   86 (95)
T 1v6e_A            7 GVMVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQEDALLGSYPVDDGCRIHVID   86 (95)
T ss_dssp             CEEEEEEETTSSSCEEEEECTTSBHHHHHHHHHHHTCSCTTTCBCEEECSSSCEEEECCCSSSBTTSSSCCTTCEEEEBC
T ss_pred             EEEEEEEECCCCeeEEEEcCccCHHHHHHHHHHHHHCCCHHHeEEEEeCCCCccccccCCCcCCHhHCCCCCCCEEEEEE
Confidence            488988875443 578999999999999999999999999999999986   43    4788999999999999999864

>1t0y_A Tubulin folding cofactor B; ubiquitin-like, cytoskeleton, microtubule, CESG, structural genomics, protein structure initiative, PSI; NMR {Caenorhabditis elegans} SCOP: d.15.1.1

Probab=98.86  E-value=2.9e-08  Score=62.84  Aligned_cols=73  Identities=14%  Similarity=0.201  Sum_probs=63.9

Q ss_pred             CcEEEEEEecCCC-EEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECC---e---ec-CCCCCccccCCCCCCEEEEE
Q 048514           12 HFINLVVKGQDND-PLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLING---N---RF-PHIRTPDQLGLKDGDEIVAT   83 (89)
Q Consensus        12 ~~I~i~v~~~~~~-~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG---~---~l-~~~~Tp~~l~medgD~Idv~   83 (89)
                      ..|+|.|.+..+. .+.+++.++.++..|+...+.+.|+|++++|++|.|   .   +| .++.|..++++++|++|+|.
T Consensus         5 ~~v~l~V~~~~~~~~~e~~v~~~~TV~~lK~ki~~~~Gip~~~qrL~~~g~~~~~~~~l~~D~~tL~~y~i~~g~~ihvv   84 (122)
T 1t0y_A            5 EVYDLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRIHAV   84 (122)
T ss_dssp             CEEEEEEEESSCCSCEEEEEETTSBHHHHHHHHHHHHCCCTTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSEEEEEE
T ss_pred             CEEEEEEEECCCCccEEEEeCCCCcHHHHHHHHHHHhCCCHHHeEEEEecCCCccccccCCCcCCHHHCCCCCCCEEEEE
Confidence            4689999875443 578999999999999999999999999999999977   4   33 68889999999999999987


Q ss_pred             e
Q 048514           84 F   84 (89)
Q Consensus        84 ~   84 (89)
                      -
T Consensus        85 d   85 (122)
T 1t0y_A           85 D   85 (122)
T ss_dssp             E
T ss_pred             e
Confidence            5

>2dzj_A Synaptic glycoprotein SC2; ubiquitin-like fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.84  E-value=1.7e-08  Score=60.75  Aligned_cols=72  Identities=4%  Similarity=0.062  Sum_probs=63.8

Q ss_pred             CCcEEEEEEecCCCEE--EE-EEeccchHHHHHHHHHh-hhCCCCCcEeEEEC--CeecCCCCCccccCCCCCCEEEE
Q 048514           11 QHFINLVVKGQDNDPL--YF-EFRRDWEIKKLLITYCE-KKDAQYGTFPFLIN--GNRFPHIRTPDQLGLKDGDEIVA   82 (89)
Q Consensus        11 ~~~I~i~v~~~~~~~~--~f-~i~~~t~l~kL~~~y~~-~~g~~~~~~rF~fd--G~~l~~~~Tp~~l~medgD~Idv   82 (89)
                      -..|.|.|++..|+..  .+ .|.+++++..|++..++ +.|++++..||+|.  |+.|.++.|.+++++.+|++|.+
T Consensus         8 ~~~M~I~Vk~~~g~~~~~~l~~v~~~~TV~~lK~~I~~~~~~i~~~~QrL~~~~~Gk~L~D~~tL~~y~i~~~stl~~   85 (88)
T 2dzj_A            8 MKHYEVEILDAKTREKLCFLDKVEPHATIAEIKNLFTKTHPQWYPARQSLRLDPKGKSLKDEDVLQKLPVGTTATLYF   85 (88)
T ss_dssp             CCCEEEEEEESSSCCCCEEEEEECSSCBHHHHHHHHHHHCSSSCTTTCCEESSTTSCCCCTTCBTTTSSCCSEEEEEE
T ss_pred             eEEEEEEEECCCCCEEeeEEeEcCCCCcHHHHHHHHHHHhcCCChHHeEEEecCCCcCcCCCCCHHHcCCCCCCEEEE
Confidence            3458999998877664  47 89999999999999999 47999999999987  99999999999999999999876

>4b6w_A Tubulin-specific chaperone; CAP-Gly, ubiquitin-like; HET: MSE; 2.35A {Trypanosoma brucei brucei strain 927}

Probab=98.78  E-value=3.3e-08  Score=59.39  Aligned_cols=71  Identities=4%  Similarity=-0.088  Sum_probs=61.5

Q ss_pred             EEEEEEec--CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEE-------CCeecCCCCCccccCCCCCCEEEEEe
Q 048514           14 INLVVKGQ--DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLI-------NGNRFPHIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus        14 I~i~v~~~--~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~f-------dG~~l~~~~Tp~~l~medgD~Idv~~   84 (89)
                      |+|.|...  .......++.++.++..|++....+.|+|++++|++|       .|+.+.++.|..++++++|.+|+++-
T Consensus         3 V~v~iths~~~~~~~E~r~~~s~TI~~lK~ki~~~~Gip~~~QrLi~~~~~~~~~g~~l~d~~tL~~Y~i~~g~~ihlvd   82 (86)
T 4b6w_A            3 VKVSLTHSASRMRVPEKRYGLAQTIESIKENVFTHFATPPEYMQLQLIDDRGITIEKNMANDKQLGYYQCRDEFVIHVVD   82 (86)
T ss_dssp             EEEEEEETTCSCCEEEEEEETTSBHHHHHHHHHTTSCCCGGGEEEEEECTTSCEEESSCCTTSBGGGGTCCTTCEEEEEE
T ss_pred             EEEEEEEcCCCCeEEEEEcCccCcHHHHHHHHHHHHCCCHHHEEEEEecCCCCceeeEcCCCCCHHHCCCCCCCEEEEEe
Confidence            56666532  2345579999999999999999999999999999996       58889999999999999999999874

>2kzr_A Ubiquitin thioesterase OTU1; structural genomics, northeast structural genomics consortiu PSI-2, protein structure initiative, hydrolase; NMR {Mus musculus}

Probab=98.77  E-value=9.2e-09  Score=61.29  Aligned_cols=71  Identities=13%  Similarity=0.143  Sum_probs=61.0

Q ss_pred             EEEEEEecCCCEEEEE-EeccchHHHHHHHHHhhhCCCCCcEeEEEC--CeecC---CCCCccccCCCCCCEEEEEee
Q 048514           14 INLVVKGQDNDPLYFE-FRRDWEIKKLLITYCEKKDAQYGTFPFLIN--GNRFP---HIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~-i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l~---~~~Tp~~l~medgD~Idv~~~   85 (89)
                      |.|+|++.+|+.+ +. +..++++..|+...+++.|++++.+||+|.  |+.+.   ++.|.+++|+.+|++|.|...
T Consensus         1 m~i~vr~~~G~~~-v~~l~~~~Tv~~Lk~~I~~~~gi~~~~qrL~~~~p~k~l~l~~~~~tL~~~gl~~g~~l~v~~~   77 (86)
T 2kzr_A            1 WRVRCKAKGGTHL-LQGLSSRTRLRELQGQIAAITGIAPGSQRILVGYPPECLDLSDRDITLGDLPIQSGDMLIVEED   77 (86)
T ss_dssp             CCEEEEETTEEEE-ECSCCTTCBHHHHHHHHHHHTCCCTTTCCCEESSCCCCCCCCCSSCBTTTSSCCTTCEEECCCC
T ss_pred             CEEEEEcCCCCEE-eeecCCCCCHHHHHHHHHHHhCCCccceEEEeCCCCcccccCCCCCCHHHcCCCCCCEEEEEeC
Confidence            4678888888654 67 899999999999999999999999999987  47774   578999999999999988654

>1wjn_A Tubulin-folding protein TBCE; ubiquitin-like domain, progressive motor neuropathy, structural genomics; NMR {Mus musculus} SCOP: d.15.1.1

Probab=98.64  E-value=3.2e-07  Score=55.58  Aligned_cols=76  Identities=8%  Similarity=0.154  Sum_probs=64.2

Q ss_pred             CCCcEEEEEEe---cCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCe-----e--c-CCCCCccccCCCCCC
Q 048514           10 DQHFINLVVKG---QDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN-----R--F-PHIRTPDQLGLKDGD   78 (89)
Q Consensus        10 ~~~~I~i~v~~---~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~-----~--l-~~~~Tp~~l~medgD   78 (89)
                      ....|+|.|.+   .++..+..++.++.++.+|+...+...|+++..+|+.|.+.     .  + .+..|..+++++|||
T Consensus         6 ~~~~v~l~I~~~~~~~~~~~e~~l~~~~TV~~LK~~i~~~~gip~~~q~L~~~~~~~~~~~~~L~~d~~~L~~y~i~~G~   85 (97)
T 1wjn_A            6 SGQLLTLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSKMPGREIELENDLQPLQFYSVENGD   85 (97)
T ss_dssp             SSCEEEEEEEESSCSSSCCEEEEEETTSBHHHHHHHHHTTTTCCTTTCEEEEECTTSCSCEEECCCSSSBSGGGTCCTTC
T ss_pred             cCccEEEEEEecCCCCCcEEEEECCCCCCHHHHHHHHHHHHCCChhHeEEEEEcCCCCceeeccCCCcccHhhcCCCCCC
Confidence            34578888875   35778899999999999999999999999999999998731     2  3 567889999999999


Q ss_pred             EEEEEee
Q 048514           79 EIVATFY   85 (89)
Q Consensus        79 ~Idv~~~   85 (89)
                      +|+|...
T Consensus        86 ~I~V~d~   92 (97)
T 1wjn_A           86 CLLVRWS   92 (97)
T ss_dssp             EEEEECC
T ss_pred             EEEEEec
Confidence            9998763

>3shq_A UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila melanogaster}

Probab=98.48  E-value=4.2e-07  Score=65.95  Aligned_cols=74  Identities=12%  Similarity=0.042  Sum_probs=65.4

Q ss_pred             CCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEE---ECCeecCCCCCccccCCCCCCEEEEEee
Q 048514           11 QHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFL---INGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        11 ~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~---fdG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      .+.|+|+|+. .|+.+.+.|.+++++..|++..++..|++++..|++   |.|..+.++.|..++++.+|.+|.++-.
T Consensus         3 ~~~i~i~Vk~-~g~~~~v~v~~~~Tv~~lK~~I~~~tgVpp~~QkLi~~k~~Gk~l~D~~~L~~~~ik~g~~l~L~gs   79 (320)
T 3shq_A            3 VKEVVVIVKW-SGKEYPVDLTDQDTVEVLRHEIFRKTQVRPERQKLLNLKYKGKTAADNVKISALELKPNFKLMMVGS   79 (320)
T ss_dssp             -CEEEEEEEE-TTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGCEETTCBSSSSBCCTTSBTTSSCCC--CEEEEECC
T ss_pred             CceEEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEeecccCCcccCccccHHHcCCCCCCEEEEEcc
Confidence            4568888886 688889999999999999999999999999999999   8999999999999999999999987643

>2dzm_A FAS-associated factor 1; ubiquitin-like domain, HFAF1, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.48  E-value=6.7e-07  Score=55.17  Aligned_cols=71  Identities=4%  Similarity=0.002  Sum_probs=60.5

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEE-CCeecCCCCCccccCCCCCCEEEEEee
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLI-NGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      +.+++. ..|+.+.+.|.++++...|+...+++.|++++..|++| .|.++.++.|..++++..|++|++++.
T Consensus        10 ~~~~vk-~~Gk~~~v~v~~~~TV~~LK~~I~~~tgIpp~~QkLi~~~~gkL~D~~tLs~~~I~~gstL~lvl~   81 (100)
T 2dzm_A           10 LDFRVE-YRDRNVDVVLEDTCTVGEIKQILENELQIPVSKMLLKGWKTGDVEDSTVLKSLHLPKNNSLYVLTP   81 (100)
T ss_dssp             EEEEEE-CSSCEEEEEEETTSBHHHHHHHHHHHHCCCTTTCCEECCSSSCCCTTSBHHHHCCCSEEEEEECCS
T ss_pred             EEEEEE-eCCeEEEEEECCCCcHHHHHHHHHHHHCCChhHeEEEccCCCCCCCcCCHHHcCCCCCCEEEEEec
Confidence            444444 47889999999999999999999999999999999986 333488888999999999999988653

>2pjh_A Protein NPL4, nuclear protein localization protein 4 homolog; UFD1, NPL4, AAA, protein binding, transport protein; NMR {Mus musculus}

Probab=98.12  E-value=1.8e-06  Score=51.05  Aligned_cols=70  Identities=19%  Similarity=0.162  Sum_probs=56.4

Q ss_pred             cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCee-----cCCCCCccccCCCCCCEEEEE
Q 048514           13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNR-----FPHIRTPDQLGLKDGDEIVAT   83 (89)
Q Consensus        13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~-----l~~~~Tp~~l~medgD~Idv~   83 (89)
                      .+.|+|++.+|. ..+.+.+++++..|++..++..+++...+.++++-.+     ...+.|..++|+..||+|.+.
T Consensus         4 ~m~lRvrs~~G~-~Ri~v~~~~t~~~L~~~I~~~~~i~~~~~~l~~~~~p~~~l~~~~~~~l~~lgl~hGd~l~l~   78 (80)
T 2pjh_A            4 SIIIRVQSPDGV-KRITATKRETAATFLKKVAKEFGFQNNGFSVYINRNKTGEITASSSKSLHLLKIKHGDLLFLF   78 (80)
T ss_dssp             CCCCEEECSSEE-EECCCCSSCCHHHHHHHHHHHTCCCTTTCCCCCSCCGGGGSSSCCCCTTTTTCCCTTCCEEC-
T ss_pred             cEEEEEECCCCC-EEEEcCCcChHHHHHHHHHHHcCCCCCcceEEecCCCCCcccCCCCCCHHHcCCCCCCEEEEe
Confidence            478999998884 3566889999999999999999998777655555444     347889999999999998764

>2al3_A TUG long isoform; TUG UBL1 insulin, endocytosis/exocytosis complex; NMR {Mus musculus} SCOP: d.15.1.2

Probab=98.07  E-value=1.8e-05  Score=48.06  Aligned_cols=72  Identities=7%  Similarity=0.009  Sum_probs=66.7

Q ss_pred             cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514           13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus        13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   84 (89)
                      -+.+.|...+++...++|.++++|..+.+.-|+++|++.++..+.|+++.|+.+..-.-.||-+|..+++..
T Consensus         9 ~m~v~Vl~~n~rr~~VKvtp~t~L~~VL~eaC~K~gl~~~~~~Lkh~~k~lDLSlpfRlsgLpnnAkLELv~   80 (90)
T 2al3_A            9 GSAVSVLAPNGRRHTVKVTPSTVLLQVLEDTCRRQDFNPSEYDLKFQRTVLDLSLQWRFANLPNNAKLEMVP   80 (90)
T ss_dssp             -CCEEEECTTSCEEEECCCTTSBHHHHHHHHHHHTTCCGGGCEEEETTEEESSSCBHHHHCCCSSCEEEEEC
T ss_pred             ccEEEEEcCCCcEEEEEECCCCCHHHHHHHHHHHhCCChhhCeEEeCCEeccccceeEecCCCCCCEEEEEE
Confidence            347888888999999999999999999999999999999999999999999999999999999999998864

>2bps_A YUKD protein; ubiquitin-like protein, ubiquitin; 2.7A {Bacillus subtilis}

Probab=97.56  E-value=0.00047  Score=40.93  Aligned_cols=71  Identities=10%  Similarity=0.180  Sum_probs=60.6

Q ss_pred             CcEEEEEEe--cCCCEEEEEEeccchHHHHHHHHHhhhCCCC-----CcEeEEECCeecCCCCCccccCCCCCCEEEE
Q 048514           12 HFINLVVKG--QDNDPLYFEFRRDWEIKKLLITYCEKKDAQY-----GTFPFLINGNRFPHIRTPDQLGLKDGDEIVA   82 (89)
Q Consensus        12 ~~I~i~v~~--~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~-----~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv   82 (89)
                      .+|+|.+.-  ..++.+-++|...-++++|.+...+.++++.     ..+|..-.|..|.++++.++.++.+||.|++
T Consensus         3 ~yI~ITidl~~y~~~~~DLRIP~~~tvK~Li~~l~ea~~l~~~~~~~~~irv~NK~~~L~~~~~L~d~~ItnGD~Lei   80 (81)
T 2bps_A            3 SYIDITIDLKHYNGSVFDLRLSDYHPVKKVIDIAWQAQSVSMPPREGHWIRVVNKDKVFSGECKLSDCGITNGDRLEI   80 (81)
T ss_dssp             CEEEEEEECTTTTCCEEEEEEETTSBTTHHHHHHHHHSCCCSCCCTTCEEEEGGGTEEEETTSBTGGGTCCTTCEEEE
T ss_pred             cEEEEEEEeeccCCceEEEECCCchhHHHHHHHHHHHhCCCcCCCCCCEEEEecCCEEEcCCCEEeeCCcCCCCEEEE
Confidence            467777764  5788899999999999999999999999864     3456666799999999999999999999986

>4efo_A Serine/threonine-protein kinase TBK1; ubiquitin like domain, transferase; 1.77A {Homo sapiens}

Probab=97.44  E-value=0.00091  Score=40.74  Aligned_cols=52  Identities=6%  Similarity=-0.061  Sum_probs=45.3

Q ss_pred             cEEEEEEecC-CCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecC
Q 048514           13 FINLVVKGQD-NDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFP   64 (89)
Q Consensus        13 ~I~i~v~~~~-~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~   64 (89)
                      ..-|+|-+.+ ...+++.|.++.++..+++..+++.|+++.+.+++|.|+.+.
T Consensus        12 rkvvHVf~~~~a~~h~v~I~~~etv~~~ke~V~eqTgIp~~~Q~LL~eg~~l~   64 (94)
T 4efo_A           12 RMVIHVFSLQQMTAHKIYIHSYNTATIFHELVYKQTKIISSNQELIYEGRRLV   64 (94)
T ss_dssp             EEEEEEEETTTTEEEEEEEETTCBHHHHHHHHHHHHCCCGGGEEEEETTEEEC
T ss_pred             ceeEEEEEcccceEEEEEeccchHHHHHHHHHHHHhCCCHHHHHHHhCCCccc
Confidence            4567777765 456689999999999999999999999999999999998876

>3qx1_A FAS-associated factor 1; UBX, protein binding, P97 binding; 1.60A {Homo sapiens} PDB: 3qwz_B* 3qc8_B 3qca_A 3qq8_B 3r3m_B 1h8c_A

Probab=97.26  E-value=0.0042  Score=36.33  Aligned_cols=73  Identities=8%  Similarity=0.073  Sum_probs=59.1

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC--Ceec---CCCCCccccCCCCCCEEEEE
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN--GNRF---PHIRTPDQLGLKDGDEIVAT   83 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l---~~~~Tp~~l~medgD~Idv~   83 (89)
                      ..+..+|.|+-.+|..+.-+...+++++.|++.... .+.+...++|.-.  .+.+   ..+.|.+++|+...+++-|-
T Consensus         4 ~~~~~~i~iRlpdG~r~~~~F~~~~tl~~v~~fv~~-~~~~~~~f~L~t~fPrk~l~~~d~~~TL~e~gL~p~a~L~ve   81 (84)
T 3qx1_A            4 MEPVSKLRIRTPSGEFLERRFLASNKLQIVFDFVAS-KGFPWDEYKLLSTFPRRDVTQLDPNKSLLEVKLFPQETLFLE   81 (84)
T ss_dssp             CCCEEEEEEECTTSCEEEEEEETTSBHHHHHHHHHH-TTCCTTTEEEECSSSCCBGGGSCTTSBTTTTTCCSEEEEEEE
T ss_pred             CCCeEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHH-cCCCCCCeEEEeCCCCCCCcCCCCCCCHHHCCCCCCCEEEEE
Confidence            456778888889999998888999999999986655 6677788888843  6667   35789999999999988774

>2daj_A KIAA0977 protein, COBL-like 1; ubiquitin-like domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.19  E-value=0.0012  Score=39.72  Aligned_cols=65  Identities=12%  Similarity=0.194  Sum_probs=56.9

Q ss_pred             CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC---CeecCCCCCccccCCCC
Q 048514           12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN---GNRFPHIRTPDQLGLKD   76 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd---G~~l~~~~Tp~~l~med   76 (89)
                      ..+++.|.-.-.+....+|.|..||+.|+-+.|++.+.+++.+.|+=|   ++.|.-+.+..+|||.+
T Consensus         9 ~TvRLvVNy~~tQKtVvRVSP~vpL~ellp~IC~Kcefdp~~~~Ll~d~~~~e~LdLskSLndlgirE   76 (91)
T 2daj_A            9 KTVRVVINFKKTQKTIVRVSPHASLQELAPIICSKCEFDPLHTLLLKDYQSQEPLDLTKSLNDLGLRE   76 (91)
T ss_dssp             SCEEEEEEETTTEEEEEEECSSSCTTTHHHHHHHHTTCCTTSEEEESCSSCCCBCCTTSCHHHHTCSE
T ss_pred             cEEEEEEeecCcceeEEEeCCCCcHHHHHHHHhhcccCChhhEEEecCCCCCcccchhcchhhhhhhh
Confidence            567777766556677899999999999999999999999999988876   78888899999999986

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

Probab=97.06  E-value=0.0098  Score=33.66  Aligned_cols=67  Identities=21%  Similarity=0.121  Sum_probs=51.7

Q ss_pred             cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      .++|.|.+..+ ...+.+...+++..|.+..    +++...+.+..||+-+..+.     -+.+||.|+++.--.||
T Consensus         4 ~m~i~vNg~~~-~~~~~~~~~~tv~~Ll~~l----~~~~~~v~vavN~~~v~~~~-----~L~~gD~V~ii~~V~GG   70 (70)
T 1ryj_A            4 GMKFTVITDDG-KKILESGAPRRIKDVLGEL----EIPIETVVVKKNGQIVIDEE-----EIFDGDIIEVIRVIYGG   70 (70)
T ss_dssp             CEEEEEEETTE-EEEEEESSCCBHHHHHHHT----TCCTTTEEEEETTEECCTTS-----BCCTTCEEEEEECTTCC
T ss_pred             eEEEEEeCccC-ceeEECCCCCcHHHHHHHh----CCCCCCEEEEECCEECCCcc-----cCCCCCEEEEEeccccC
Confidence            36777765432 2356677778899888765    67788889999999998765     69999999999888777

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

Probab=96.88  E-value=0.0071  Score=34.45  Aligned_cols=57  Identities=26%  Similarity=0.331  Sum_probs=45.4

Q ss_pred             EEEeccchHHHHHHHHHhhhCCC--CCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           28 FEFRRDWEIKKLLITYCEKKDAQ--YGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        28 f~i~~~t~l~kL~~~y~~~~g~~--~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +.+ ...++..|.+..+.+.++.  ...+.+..||+.+...+|    -+.|||+|.++.--.||
T Consensus        16 ~e~-~~~tv~~ll~~L~~~~~l~~~l~~~~vavN~~~v~~~~~----~l~~gDeV~i~PpvsGG   74 (74)
T 3rpf_C           16 FFI-KANDLKELRAILQEKEGLKEWLGVCAIALNDHLIDNLNT----PLKDGDVISLLPPVCGG   74 (74)
T ss_dssp             EEE-ECSSHHHHHHHHHTCTTTTTTTTTCEEEESSSEECCTTC----CCCTTCEEEEECCBCCC
T ss_pred             Eee-CCCcHHHHHHHHHHCcCHHHHhhccEEEECCEEcCCCCc----CCCCCCEEEEECCCCCC
Confidence            445 5689999999998765543  267899999999875555    49999999999988887

>3jyu_A Ubiquitin carboxyl-terminal hydrolase; domain in ubiquitin-specific peptidases (DUSP), proto- oncogene, ubiquitin-fold, UBL, protease, thioesterase; HET: 1PS; 2.37A {Mus musculus}

Probab=96.74  E-value=0.0079  Score=41.42  Aligned_cols=73  Identities=12%  Similarity=0.067  Sum_probs=56.4

Q ss_pred             cEEEEEEecC--CCEEEEEEeccchHHHHHHHHHhhhCCCCC-cEeEEE-C----CeecCC-CCCccccCCCCCCEEEEE
Q 048514           13 FINLVVKGQD--NDPLYFEFRRDWEIKKLLITYCEKKDAQYG-TFPFLI-N----GNRFPH-IRTPDQLGLKDGDEIVAT   83 (89)
Q Consensus        13 ~I~i~v~~~~--~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~-~~rF~f-d----G~~l~~-~~Tp~~l~medgD~Idv~   83 (89)
                      .+.|++....  ...+.+.+.+..++..|++.-|+.++++.+ .+|++. .    ...|.+ +.|.+++++.+|+.|-+-
T Consensus       139 P~~l~l~~~~~~~~~~~~~~Sk~~ti~~l~~~~~~~~~i~~~~~~RLW~~~~~~~~~~L~~~~~tl~d~~L~~~Q~illE  218 (231)
T 3jyu_A          139 LLELKLCENSDPTNVLSCHFSKADTIATIEKEMRKLFNIPAERETRLWNKYMSNTYEQLSKLDNTIQDAGLYQGQVLVIE  218 (231)
T ss_dssp             CEEEEEEETTEEEEEEEEEECTTCBHHHHHHHHHHHTTCCTTSCEEEEECSSSSSCEECCCTTSBTTTTTCCTTEEEEEE
T ss_pred             cceEEEEecCCCCceEEEEecccCcHHHHHHHHHHHhCCCCCCeEEEEEecCCCCHhhhcCCCCCHHHhCCCCCCEEEEE
Confidence            3455554322  123467889999999999999999999987 799997 2    456765 689999999999998776


Q ss_pred             ee
Q 048514           84 FY   85 (89)
Q Consensus        84 ~~   85 (89)
                      ++
T Consensus       219 ~r  220 (231)
T 3jyu_A          219 PQ  220 (231)
T ss_dssp             EC
T ss_pred             Ee
Confidence            55

>1wj4_A KIAA0794 protein; UBX domain, beta-grAsp fold, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: d.15.1.2

Probab=96.73  E-value=0.019  Score=36.13  Aligned_cols=73  Identities=14%  Similarity=0.130  Sum_probs=58.3

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC--CeecC---CCCCccccCCCCCCEEEEE
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN--GNRFP---HIRTPDQLGLKDGDEIVAT   83 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l~---~~~Tp~~l~medgD~Idv~   83 (89)
                      ..+..+|.|+-.+|..+.-+...+++++.|++..... +.+...+.|+-.  .+.+.   .+.|.+++||-....+.|.
T Consensus        40 ~~~~t~IqIRlPdG~rl~~rF~~~~tl~~V~~fV~~~-~~~~~~F~L~t~fPrk~l~~~d~~~TL~e~gL~psa~Liv~  117 (124)
T 1wj4_A           40 NGPKAQLMLRYPDGKREQITLPEQAKLLALVKHVQSK-GYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQ  117 (124)
T ss_dssp             SSCEEEEEEECTTSCEEEEEEETTSCHHHHHHHHHHH-HCCTTTEEEECSSSCCEETSSCSSSCTTTTTCCSSBCCEEE
T ss_pred             CCCcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHhc-CCCCCCeEEecCCCCcCCccCCCCCCHHHCCCCCceEEEEE
Confidence            4567999999999999999999999999999877655 666677877743  66673   4789999999987766553

>4a3p_A Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {Homo sapiens} PDB: 4a3o_A 3pv1_A 3ppa_A* 3t9l_A 3lmn_A

Probab=96.63  E-value=0.0056  Score=41.78  Aligned_cols=77  Identities=12%  Similarity=0.011  Sum_probs=57.5

Q ss_pred             cEEEEEEecC--CCEEEEEEeccchHHHHHHHHHhhhCCCCC-cEeEEE-C----CeecCC-CCCccccCCCCCCEEEEE
Q 048514           13 FINLVVKGQD--NDPLYFEFRRDWEIKKLLITYCEKKDAQYG-TFPFLI-N----GNRFPH-IRTPDQLGLKDGDEIVAT   83 (89)
Q Consensus        13 ~I~i~v~~~~--~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~-~~rF~f-d----G~~l~~-~~Tp~~l~medgD~Idv~   83 (89)
                      .+.|++....  ...+.+.+.+..++..|++.-|+.++++.+ .+|++. .    ...|.. +.|.+++++.+|+.|-+-
T Consensus       127 P~~l~l~~~~~~~~~~~~~~Sk~~ti~~l~~~~~~~~~i~~~~~~RlW~~~~~~~~~~L~~~~~tl~~~~l~~~Q~illE  206 (217)
T 4a3p_A          127 LTELKLCENGNMNNVVTRRFSKADTIDTIEKEIRKIFSIPDEKETRLWNKYMSNTFEPLNKPDSTIQDAGLYQGQVLVIE  206 (217)
T ss_dssp             CEEEEEEETTEEEEEEEEEECTTSBHHHHHHHHHHHTTCCTTSCEEEEEEEETTEEEECCCTTSBHHHHTCCTTCEEEEE
T ss_pred             ccEEEEEecCCCCcceEEEEcccchHHHHHHHHHHHhCCCCCCceEEEEecCCCCeeecCCCCCCHHHhCCCCCCEEEEE
Confidence            3445554322  133578889999999999999999999986 799885 2    455655 569999999999999887


Q ss_pred             eeecCC
Q 048514           84 FYAGGA   89 (89)
Q Consensus        84 ~~q~GG   89 (89)
                      .+...|
T Consensus       207 ~r~~dg  212 (217)
T 4a3p_A          207 QKNEDG  212 (217)
T ss_dssp             ECCCC-
T ss_pred             EecCCC
Confidence            665443

>2cr5_A Reproduction 8; UBX domain, D0H8S2298E protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.15.1.2

Probab=96.60  E-value=0.023  Score=34.78  Aligned_cols=72  Identities=10%  Similarity=0.172  Sum_probs=56.5

Q ss_pred             CCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC--CeecC--CCCCccccCCCCCCEEEEE
Q 048514           11 QHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN--GNRFP--HIRTPDQLGLKDGDEIVAT   83 (89)
Q Consensus        11 ~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l~--~~~Tp~~l~medgD~Idv~   83 (89)
                      ...++|.|+-.+|..+.-+...+++++.|++... ..+.....++|.-.  .+.+.  .+.|.+++||....++.|.
T Consensus        21 ~~~~~IqiRlpdG~r~~rrF~~~~tl~~v~~fv~-~~~~~~~~f~L~t~fPrk~l~~d~~~TL~e~gL~p~a~L~Ve   96 (109)
T 2cr5_A           21 EEVVTVALRCPNGRVLRRRFFKSWNSQVLLDWMM-KVGYHKSLYRLSTSFPRRALEVEGGSSLEDIGITVDTVLNVE   96 (109)
T ss_dssp             SSEEEEEEECTTSCEEEEEEESSSBTHHHHHHHH-HHTCCTTTEEEECSSSCCBCCCCSSCBHHHHTCSSCEEEEEE
T ss_pred             CCcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHH-hcCCCCCCeEEEeCCCCcCCCCCCCCCHHHcCCCCCeEEEEE
Confidence            3579999999999998888899999999988655 44555667777643  55564  4789999999999888664

>2dzk_A UBX domain-containing protein 2; ubiquitin-like fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} PDB: 2kxj_A

Probab=96.37  E-value=0.071  Score=32.65  Aligned_cols=75  Identities=15%  Similarity=0.158  Sum_probs=59.4

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC--CeecC---CCCCccccCCCCCCEEEEEe
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN--GNRFP---HIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l~---~~~Tp~~l~medgD~Idv~~   84 (89)
                      .....+|.|+-.+|..+.-+...+++++.|++......+.+...+.|.-.  -+.+.   .+.|.+++||-...++.|..
T Consensus        10 ~~~~t~IqIRlpdG~rl~~rF~~~~tl~~v~~fV~~~~~~~~~~f~L~t~fPrk~l~~~d~~~TL~elgL~psa~L~v~~   89 (109)
T 2dzk_A           10 RSTIARIQFRLPDGSSFTNQFPSDAPLEEARQFAAQTVGNTYGNFSLATMFPRREFTREDYKRRLLDLELAPSASVVLLP   89 (109)
T ss_dssp             CSCCEEEEEECSSSCEEEEEECTTSBHHHHHHHHHHHHTTSSCSCEEECSSSCCBCCTTTTTSBTGGGTCSSEEEEEEEC
T ss_pred             CCCcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHhccCCCCCceEEEcCCCCcCCcccccCCCHHHCCCCCceEEEEEE
Confidence            34568888888999999999999999999999887777776677777653  44454   36799999999988777654

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

Probab=96.31  E-value=0.012  Score=35.09  Aligned_cols=68  Identities=21%  Similarity=0.261  Sum_probs=46.9

Q ss_pred             CcEEEEEEecCCCEEEEEEecc-chHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           12 HFINLVVKGQDNDPLYFEFRRD-WEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~~~-t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ..|+|.|   +|+.  +.+... .++..|.+..    +++...+.+..||+.+...+ -.+.-+.|||.|+++.--.||
T Consensus        19 ~~M~I~v---NGe~--~el~~~~~Tv~dLL~~L----~~~~~~vaVavNg~iV~~~~-~~~~~L~dGD~Vei~~~V~GG   87 (87)
T 1tyg_B           19 GRHMLQL---NGKD--VKWKKDTGTIQDLLASY----QLENKIVIVERNKEIIGKER-YHEVELCDRDVIEIVHFVGGG   87 (87)
T ss_dssp             ---CEEE---TTEE--ECCSSSCCBHHHHHHHT----TCTTSCCEEEETTEEECGGG-TTTSBCCSSSEEEEEEECCC-
T ss_pred             cceEEEE---CCEE--EECCCCCCcHHHHHHHh----CCCCCCEEEEECCEECChhh-cCCcCCCCCCEEEEEcccccC
Confidence            3455554   6665  444555 7888888765    67788889999999997532 223359999999999887776

>2kc2_A Talin-1, F1; FERM, adhesion, cell membrane, cell projection, cytoplasm, cytoskeleton, membrane, phosphoprotein, structural protein; NMR {Mus musculus}

Probab=96.18  E-value=0.02  Score=36.56  Aligned_cols=69  Identities=14%  Similarity=0.243  Sum_probs=54.9

Q ss_pred             EEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCC-cEeEEE-----------------------------------
Q 048514           15 NLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYG-TFPFLI-----------------------------------   58 (89)
Q Consensus        15 ~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~-~~rF~f-----------------------------------   58 (89)
                      .|+|+-.||....+.|..+.+...++...|.+.|++.. .+-|..                                   
T Consensus        13 ~LkV~llDg~~ktl~VD~S~~V~~lv~~Ic~kigI~n~~ey~L~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~k~kL~   92 (128)
T 2kc2_A           13 PLKIRMLDGTVKTIMVDDSKTVTDMLMTICARIGITNHDEYSLVRELMEEKKDEGTGTLRKDKTLLRDEKKMEKLKQKLH   92 (128)
T ss_dssp             EEEEECTTSCEEEEEEEECSSHHHHHHHHHHHHTCCCCSSEEEEEECCCCCCCCCSSCCSSSSSCSCCSCCSCSSCCSCC
T ss_pred             cEEEEcCCCCEEEEEeCCCcCHHHHHHHHHHHhCCCCcccccccccccccccccCchhhccccccccchhHHHHHHHHhc
Confidence            56777789999999999999999999999999999743 222221                                   


Q ss_pred             ---CCeecCCCCCccccCCCCCCEEEEE
Q 048514           59 ---NGNRFPHIRTPDQLGLKDGDEIVAT   83 (89)
Q Consensus        59 ---dG~~l~~~~Tp~~l~medgD~Idv~   83 (89)
                         .+..|.+..|..+.|+.++|++-..
T Consensus        93 ~dd~~~WLD~srtL~EQGI~e~~tllLR  120 (128)
T 2kc2_A           93 TDDELNWLDHGRTLREQGVEEHETLLLR  120 (128)
T ss_dssp             CSSSEEEECSSSCHHHHTCCTTSEEEEE
T ss_pred             ccCCCCcccCCCcHHHcCCCCCCEEEEE
Confidence               1367777889999999999987654

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

Probab=95.88  E-value=0.02  Score=31.84  Aligned_cols=61  Identities=20%  Similarity=0.263  Sum_probs=45.2

Q ss_pred             CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +|+.+  .+....++..|.+..    +++...+.+..||+.+...+ -.+--+.|||.|+++.--.||
T Consensus         6 Ng~~~--~~~~~~tv~~ll~~l----~~~~~~v~vavN~~~v~~~~-~~~~~L~~gD~v~i~~~V~GG   66 (66)
T 1f0z_A            6 NDQAM--QCAAGQTVHELLEQL----DQRQAGAALAINQQIVPREQ-WAQHIVQDGDQILLFQVIAGG   66 (66)
T ss_dssp             SSCEE--CCCTTCCHHHHHHHH----TCCCSSEEEEETTEEECHHH-HTTCCCCTTEEECEEESCCCC
T ss_pred             CCEEE--EcCCCCcHHHHHHHc----CCCCCCEEEEECCEECCchh-cCCcCCCCCCEEEEEeecccC
Confidence            56654  445667888888765    57788889999999987521 112348999999999887777

>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=95.73  E-value=0.044  Score=32.48  Aligned_cols=49  Identities=6%  Similarity=-0.038  Sum_probs=43.1

Q ss_pred             CCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCe
Q 048514           11 QHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN   61 (89)
Q Consensus        11 ~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~   61 (89)
                      +..++|+|...  ..+.++|.+..+++.|.+..+++.+++.+.+++.|.-.
T Consensus         3 ~~~~~VKV~~~--~tvairvp~~~~y~~L~~~l~~kL~l~~~~~~LsYk~~   51 (83)
T 1oey_A            3 HMAYTLKVHYK--YTVVMKTQPGLPYSQVRDMVSKKLELRLEHTKLSYRPR   51 (83)
T ss_dssp             SSCEEEEEESS--SEEEEEECTTCCHHHHHHHHHHHTTCCGGGCCEEECCT
T ss_pred             CCcEEEEEEEE--EEEEEECCCCCCHHHHHHHHHHHhCCCcceeEEEeeCC
Confidence            34589999875  68999999999999999999999999999999998643

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

Probab=95.69  E-value=0.092  Score=30.44  Aligned_cols=61  Identities=16%  Similarity=0.179  Sum_probs=47.3

Q ss_pred             CEEEEEEeccchHHHHHHHHHhhhC-CC----------CCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           24 DPLYFEFRRDWEIKKLLITYCEKKD-AQ----------YGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        24 ~~~~f~i~~~t~l~kL~~~y~~~~g-~~----------~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      .+..+.+....++..|.+..+.++. +.          ...+.+..||+.+.. +|    -+.|||.|.++.--.||
T Consensus        18 ~~~~~~~~~~~Tv~~ll~~L~~~~p~~~~~~l~~~g~l~~~~~v~VN~~~v~~-~~----~l~~gDeV~i~Ppv~GG   89 (89)
T 3po0_A           18 RTVRVDVDGDATVGDALDALVGAHPALESRVFGDDGELYDHINVLRNGEAAAL-GE----ATAAGDELALFPPVSGG   89 (89)
T ss_dssp             SEEEEECCTTCBHHHHHHHHHHHCGGGHHHHBCTTSCBCTTSEEEETTEECCT-TS----BCCTTCEEEEECCCSCC
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHCcHHHHHHhccCCcccccEEEEECCEECCC-Cc----ccCCCCEEEEECCCCCC
Confidence            5667777777899999999887653 11          124789999999975 34    49999999999988887

>2kvr_A Ubiquitin carboxyl-terminal hydrolase 7; USP7, ubiquitin-like domain, UBL, ubiquitin specific protease, HOST-virus interaction, nucleus, protease; NMR {Homo sapiens}

Probab=95.58  E-value=0.014  Score=37.14  Aligned_cols=62  Identities=5%  Similarity=0.096  Sum_probs=47.4

Q ss_pred             CCCCCCCCCcEEEEEEecC------C---------CEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCC
Q 048514            4 SPDNIPDQHFINLVVKGQD------N---------DPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPH   65 (89)
Q Consensus         4 ~~~~~~~~~~I~i~v~~~~------~---------~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~   65 (89)
                      .++..+.--+++|+|.+.+      |         ....|+|.++++|..|+...++..|++.+.+|||.=-.|=+.
T Consensus        21 rKEr~EahlY~~vkv~t~~~f~~~~gfDL~~~~~~~~~~~rv~k~~~~~~~~~~va~~lg~~~~~~RlW~~~~RqN~   97 (130)
T 2kvr_A           21 RKERQEAHLYMQVQIVAEDQFCGHQGNDMYDEEKVKYTVFKVLKNSSLAEFVQSLSQTMGFPQDQIRLWPMQARSNG   97 (130)
T ss_dssp             TCCCCSSTTCCEEEEECCSTTTTCCCCSSCCSSSCSCEEEECCTTSBHHHHHHHHHHHHCCCGGGCEEEECCCCBTT
T ss_pred             HHHHHHHhceeEEEEecHHHHHhccCccCcCCccCCcceEEEeccCcHHHHHHHHHHHhCCCcccEEEEEeecCCCC
Confidence            3455556668888886532      2         234799999999999999999999999999999986444333

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

Probab=95.17  E-value=0.09  Score=30.12  Aligned_cols=56  Identities=14%  Similarity=0.135  Sum_probs=44.1

Q ss_pred             CEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           24 DPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        24 ~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ....+.+...++++.|.+    ..|++++.+-...||+.+..++      +-+||.|+++.--.||
T Consensus        11 ~~~~~ev~~g~Tv~dLL~----~Lgl~~~~VvV~vNG~~v~~d~------~l~GD~VeIv~~V~G~   66 (74)
T 2l32_A           11 ETSEVAVDDDGTYADLVR----AVDLSPHEVTVLVDGRPVPEDQ------SVEVDRVKVLRLIKGG   66 (74)
T ss_dssp             SEEEEECSTTCSHHHHHH----TTCCCSSCCCEECCCCCCCTTS------SSCCCCEEECSSCSCC
T ss_pred             cceeEEcCCCCcHHHHHH----HcCCCcceEEEEECCEECCHHH------CCCCCEEEEEEeeccc
Confidence            345678888888887764    6799999999999999888776      2359999998766665

>1h4r_A Merlin; FERM, neurofibromatosis, NF2, structural protein, cytoskeleton, anti-oncogene; 1.8A {Homo sapiens} SCOP: a.11.2.1 b.55.1.5 d.15.1.4 PDB: 1isn_A 3u8z_A

Probab=95.09  E-value=0.31  Score=34.18  Aligned_cols=68  Identities=10%  Similarity=0.134  Sum_probs=49.3

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC-CcEeEEE--CCee--cCCCCCccccCCCCCC
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY-GTFPFLI--NGNR--FPHIRTPDQLGLKDGD   78 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~-~~~rF~f--dG~~--l~~~~Tp~~l~medgD   78 (89)
                      .+..+.++|.-.|| .+.|.|..+++-+.|++..|++.|+.. +-+-+.|  +|..  |..+.+..+.+...+.
T Consensus        19 ~~~~~~~~V~lldg-~~~~~v~~~t~~~el~~~v~~~l~L~e~~~FgL~~~~~~~~~wL~~~~~i~~q~~~~~~   91 (314)
T 1h4r_A           19 QPKTFTVRIVTMDA-EMEFNCEMKWKGKDLFDLVCRTLGLRETWFFGLQYTIKDTVAWLKMDKKVLDHDVSKEE   91 (314)
T ss_dssp             --CEEEEEEECSSC-EEEEEEETTCBHHHHHHHHHHHHTCCCGGGEEEEEEETTEEEECCTTSBGGGSSCCCSS
T ss_pred             CCCeeEEEEEeCCc-eEEEEeCCCCcHHHHHHHHHHHhCCCCCccceEEEEeCCcCeeCCCccCHHHcCCCCCC
Confidence            46789999998898 788999999999999999999999953 4444444  4543  6666666655443333

>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=94.86  E-value=0.036  Score=32.17  Aligned_cols=63  Identities=19%  Similarity=0.325  Sum_probs=46.1

Q ss_pred             CCCEEEEEEeccchHHHHHHHHHhhhCCC-CCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQ-YGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~-~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +|+...+......++..|.+.+    +++ ...+-...||+-|... .-++--|.|||.|+++.--.||
T Consensus         6 NGe~~e~~~~~~~Tl~~LL~~l----~~~~~~~vAVavNg~iVpr~-~~~~~~L~dGD~IEIv~~VgGG   69 (78)
T 2k5p_A            6 NGKPSTVDGAESLNVTELLSAL----KVAQAEYVTVELNGEVLERE-AFDATTVKDGDAVEFLYFMGGG   69 (78)
T ss_dssp             TTEEEECSSCSCEEHHHHHHHH----TCSCTTTCCEEETTEECCTT-HHHHCEECSSBCEEECCCCCCS
T ss_pred             CCEEEEcCCCCCCcHHHHHHHc----CCCCCCcEEEEECCEECChH-HcCcccCCCCCEEEEEeeecCC
Confidence            5665443211567888888754    777 7888899999988754 3444568999999999888877

>1vd2_A Protein kinase C, IOTA type; PB1 domain, OPCA motif, APKC, ZIP/P62, MEK5, molecular recognition, transferase; NMR {Homo sapiens} SCOP: d.15.2.2 PDB: 1wmh_A

Probab=94.76  E-value=0.26  Score=29.43  Aligned_cols=50  Identities=10%  Similarity=0.008  Sum_probs=41.7

Q ss_pred             CCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC-CcEeEEEC
Q 048514            9 PDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY-GTFPFLIN   59 (89)
Q Consensus         9 ~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~-~~~rF~fd   59 (89)
                      +.+..|+||+. .+|..+.+++.++.++..|.+..+++++++. ..+.+.|-
T Consensus         2 ~~~~~vkvK~~-~~gdi~~~~v~~~i~~~~L~~kv~~~~~~~~~~~f~lky~   52 (89)
T 1vd2_A            2 PLGSQVRVKAY-YRGDIMITHFEPSISFEGLCNEVRDMCSFDNEQLFTMKWI   52 (89)
T ss_dssp             CCSSCEEEEEE-SSSCEEEEEECTTCCHHHHHHHHHHHTTCCSSCCEEEEEC
T ss_pred             CCCCeEEEEEE-eCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCeEEEEEE
Confidence            34567889987 4688889999999999999999999999875 44887774

>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=94.73  E-value=0.22  Score=29.50  Aligned_cols=61  Identities=18%  Similarity=0.223  Sum_probs=44.4

Q ss_pred             CEEEEEEeccchHHHHHHHHHhhhC-C----------CCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           24 DPLYFEFRRDWEIKKLLITYCEKKD-A----------QYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        24 ~~~~f~i~~~t~l~kL~~~y~~~~g-~----------~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ....+.+....++..|.+..+.++. +          ....+.+..||+.+..     +--+.|||.|.++.--.||
T Consensus        27 ~~~~~e~~~~~Tv~~Ll~~L~~~~p~l~~~l~~~~g~~~~~v~v~VNg~~v~~-----~~~L~dGDeV~i~ppv~GG   98 (98)
T 1vjk_A           27 DEEEIELPEGARVRDLIEEIKKRHEKFKEEVFGEGYDEDADVNIAVNGRYVSW-----DEELKDGDVVGVFPPVSGG   98 (98)
T ss_dssp             SEEEEEECTTCBHHHHHHHHHHHCGGGGGSCBCSSSCTTSSBEEEETTBCCCT-----TCBCCTTCEEEEESCC---
T ss_pred             CeEEEECCCCCCHHHHHHHHHhHChhHHHHhhccccccCCcEEEEECCEECCC-----CCCCCCCCEEEEECCCCCC
Confidence            4567777777899999998887642 1          1356789999998863     3459999999999887776

>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=94.71  E-value=0.069  Score=29.41  Aligned_cols=60  Identities=18%  Similarity=0.297  Sum_probs=44.1

Q ss_pred             CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +|+.+.  + ...++..|.+..    +++...+.+..||+.+..++ -.+.-+.|||.|+++.--.||
T Consensus         5 Ng~~~~--~-~~~tv~~ll~~l----~~~~~~v~vavN~~~v~~~~-~~~~~L~dgD~v~i~~~V~GG   64 (64)
T 2cu3_A            5 NGEPRP--L-EGKTLKEVLEEM----GVELKGVAVLLNEEAFLGLE-VPDRPLRDGDVVEVVALMQGG   64 (64)
T ss_dssp             TTEEEC--C-TTCCHHHHHHHH----TBCGGGEEEEETTEEEEGGG-CCCCCCCTTCEEEEEECCCC-
T ss_pred             CCEEEE--c-CCCcHHHHHHHc----CCCCCcEEEEECCEECCccc-cCCcCCCCCCEEEEEeecccC
Confidence            566544  4 567888888766    56778889999999987531 122358999999999887777

>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=94.70  E-value=0.084  Score=29.94  Aligned_cols=59  Identities=17%  Similarity=0.116  Sum_probs=43.0

Q ss_pred             EEEEEEeccchHHHHHHHHHhhhC-----CCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           25 PLYFEFRRDWEIKKLLITYCEKKD-----AQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        25 ~~~f~i~~~t~l~kL~~~y~~~~g-----~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +..+. ....++..|.+..+.++.     ++...+.+..||+.+..     +--+.+||.|.++.--.||
T Consensus        18 ~~~~~-~~~~tv~~ll~~L~~~~p~~~~~l~~~~~~v~vN~~~v~~-----~~~l~~gD~V~i~Ppv~GG   81 (81)
T 1fm0_D           18 ATEVA-ADFPTVEALRQHMAAQSDRWALALEDGKLLAAVNQTLVSF-----DHPLTDGDEVAFFPPVTGG   81 (81)
T ss_dssp             EEEEC-SCCSBHHHHHHHHHTTCHHHHHHHCCTTCEEEETTEECCT-----TCBCCTTCEEEEECCCCCC
T ss_pred             eEEEc-CCCCCHHHHHHHHHHHChhHHHHhcCCCEEEEECCEECCC-----CCCCCCCCEEEEeCCCCCC
Confidence            44444 456789999888876532     23346789999998852     3468999999999888887

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

Probab=94.59  E-value=0.073  Score=29.97  Aligned_cols=59  Identities=8%  Similarity=0.010  Sum_probs=44.3

Q ss_pred             EEEEEEeccchHHHHHHHHHhhhCCCCCcE--eEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           25 PLYFEFRRDWEIKKLLITYCEKKDAQYGTF--PFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        25 ~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~--rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ...+.+....++..|.+.....+. ..+.+  .+..||+.+..+     .-+.|||.|+++.--.||
T Consensus        17 ~~~~~~~~~~tv~~ll~~l~~~~p-~~~~v~~~v~vNg~~v~~~-----~~L~~gD~V~i~ppv~GG   77 (77)
T 2q5w_D           17 QEDIVLEQALTVQQFEDLLFERYP-QINNKKFQVAVNEEFVQKS-----DFIQPNDTVALIPPVSGG   77 (77)
T ss_dssp             EEECCCSSCEEHHHHHHHHHHHCG-GGTTCCCEEEETTEEECTT-----SEECTTCEEEEECSCCCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHCc-chhcceEEEEECCEECCCC-----CCcCCCCEEEEECCCCCC
Confidence            445666667899999998877642 12334  899999999753     468999999999887777

>1y8x_B Ubiquitin-activating enzyme E1C; ubiquitin-conjugating enzyme E2 M, ligase; 2.40A {Homo sapiens} SCOP: c.111.1.2 PDB: 3fn1_A

Probab=94.34  E-value=0.063  Score=32.67  Aligned_cols=59  Identities=19%  Similarity=0.274  Sum_probs=41.7

Q ss_pred             EEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC----CeecC--------------CCCCccccCCCCCCEEEEE
Q 048514           25 PLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN----GNRFP--------------HIRTPDQLGLKDGDEIVAT   83 (89)
Q Consensus        25 ~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd----G~~l~--------------~~~Tp~~l~medgD~Idv~   83 (89)
                      .+.+.+.++.+|+.+++..|++......+=.+...    |+.|.              -+.+..+||++||++|.|.
T Consensus         6 ~~~l~v~~~~TL~~lid~L~~~p~~qlk~PSltt~~~~~~k~LYmq~pp~Lee~Tr~NL~k~l~eLgl~~g~ei~Vt   82 (98)
T 1y8x_B            6 PQNIQFSPSAKLQEVLDYLTNSASLQMKSPAITATLEGKNRTLYMQSVTSIEERTRPNLSKTLKELGLVDGQELAVA   82 (98)
T ss_dssp             CCCEECCTTCBHHHHHHHHHHCTTCCCSSCEEEEEETTEEEEEECSSCHHHHHHHHHHHHSBSGGGTCCTTCEEEEE
T ss_pred             cEEEEECCchhHHHHHHHHHhChHhhccCCeeeeecCCCCCeEEEeCcHHHHHHhHhhhhCCHHHhCCCCCCEEEEE
Confidence            44678899999999999999965554433333333    44443              2345679999999999884

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

Probab=94.19  E-value=0.29  Score=28.11  Aligned_cols=61  Identities=21%  Similarity=0.210  Sum_probs=43.1

Q ss_pred             EEEeccchHHHHHHHHHhhhC------C-----CCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           28 FEFRRDWEIKKLLITYCEKKD------A-----QYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        28 f~i~~~t~l~kL~~~y~~~~g------~-----~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +.+....++..|.+..+.++.      +     -...+.+..||+.+...+ -.+.-+.+||.|.++.--.||
T Consensus        19 ~~~~~~~tv~~ll~~l~~~~p~~~~~~l~~~~g~~~~v~v~vN~~~v~~~~-~~~~~l~~gD~V~i~ppv~GG   90 (90)
T 2g1e_A           19 ETFNGISKISELLERLKVEYGSEFTKQMYDGNNLFKNVIILVNGNNITSMK-GLDTEIKDDDKIDLFPPVAGG   90 (90)
T ss_dssp             EEESSCCBHHHHHHHHHHHSCHHHHHHHCCSSCSTTTCEEEESSSBGGGTC-SSSCBCCTTCEEEEECCTTCC
T ss_pred             EEcCCCCcHHHHHHHHHHHCcchhhhccccccCcCcceEEEECCEEccccC-CCCcCCCCCCEEEEeCCCCCC
Confidence            345556899999998887742      1     125678999999887321 122348999999999887777

>1j0g_A Hypothetical protein 1810045K17; ubiquitin-like fold, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: d.15.1.6 PDB: 1wxs_A 1l7y_A

Probab=93.85  E-value=0.19  Score=29.79  Aligned_cols=74  Identities=15%  Similarity=0.093  Sum_probs=59.2

Q ss_pred             CcEEEEEEe-cC-CCEE-EEEEeccchHHHHHHHHHhhhCCCCCcEeE-EECCeecCCCCCccccCCCCCCEEEEEee
Q 048514           12 HFINLVVKG-QD-NDPL-YFEFRRDWEIKKLLITYCEKKDAQYGTFPF-LINGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        12 ~~I~i~v~~-~~-~~~~-~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF-~fdG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      .+++.++.- .| .... .++|-..+||..+.+.-|+.++++..+--. .-||.=|++.+|....-|+.|..+.+..+
T Consensus         9 ~kVtFkItltSdpklpfkvlsVPE~~PftAVlkfaaEeF~vp~~TsAiiT~dGiGInP~QtAGnvFlKhGseLrlIPR   86 (92)
T 1j0g_A            9 SKVSFKITLTSDPRLPYKVLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRIIPR   86 (92)
T ss_dssp             CEEEEEEEETTSTTCCEEEEEEETTSBHHHHHHHHHHHTTCCSSSEEEECTTSCCCCCSSBHHHHHHHTCSEEEEEEC
T ss_pred             ceEEEEEEEccCCCCCceEEecCccCchHHHHHHHHHHcCCCccceEEEecCCcccChhhccchhhhhcCceeEeccc
Confidence            567777753 23 3333 688999999999999999999998866544 45699999999999999999998888743

>1s3s_G P47 protein; AAA ATPase, protein-protein complex, UBX domain, protein binding; HET: ADP; 2.90A {Rattus norvegicus} SCOP: d.15.1.2 PDB: 1i42_A 1jru_A

Probab=93.81  E-value=0.58  Score=29.24  Aligned_cols=71  Identities=11%  Similarity=0.184  Sum_probs=52.6

Q ss_pred             CCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhh-CCCCCcEeEEE--CCeecCC-CCCccccCCCCCCEEE
Q 048514           11 QHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKK-DAQYGTFPFLI--NGNRFPH-IRTPDQLGLKDGDEIV   81 (89)
Q Consensus        11 ~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~-g~~~~~~rF~f--dG~~l~~-~~Tp~~l~medgD~Id   81 (89)
                      ....+|.|+-.||..+.-+...+++++.|++...... +.+...+.|+-  -.+.+.+ +.|.+++||-..-+|.
T Consensus        50 ~~~t~IqIRlpdG~rl~~rF~~~~tl~~v~~fV~~~~~~~~~~~f~L~t~fPrk~l~d~~~TL~eagL~psavl~  124 (127)
T 1s3s_G           50 EPTTNIQIRLADGGRLVQKFNHSHRISDIRLFIVDARPAMAATSFVLMTTFPNKELADENQTLKEANLLNAVIVQ  124 (127)
T ss_dssp             SCCCCEEEEETTTTEEEEECCSSCBHHHHHHHHHHHCSGGGTSCEEEEETTTTEECCSTTCBHHHHTCSSCEEEE
T ss_pred             CCcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHHhCcCCCCCCeEEecCCCCCCCCCCCCcHHHCCCcCceEEE
Confidence            3456777777899999999999999999998776643 34456666664  3566653 7899999999865543

>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=92.89  E-value=0.4  Score=27.88  Aligned_cols=60  Identities=8%  Similarity=0.057  Sum_probs=43.3

Q ss_pred             EEEeccchHHHHHHHHHhhhCC------C-------CCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           28 FEFRRDWEIKKLLITYCEKKDA------Q-------YGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        28 f~i~~~t~l~kL~~~y~~~~g~------~-------~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +.. ...++..|++..+.++.-      +       ...+.+..||+.+...+-+ +.-+.+||+|.++.--.||
T Consensus        21 ~~~-~~~Tv~~ll~~L~~~~p~l~~~l~~~~~~g~~~~~~~v~VN~~~v~~~~~~-~~~L~~gDeV~i~Ppv~GG   93 (93)
T 3dwg_C           21 VSA-SGDTLGAVISDLEANYSGISERLMDPSSPGKLHRFVNIYVNDEDVRFSGGL-ATAIADGDSVTILPAVAGG   93 (93)
T ss_dssp             EEE-CCSBHHHHHHHHHHHSTTHHHHHBCSSSTTSBCTTEEEEETTEEGGGTTGG-GCBCCTTCEEEEEECCTTC
T ss_pred             Eec-CCCCHHHHHHHHHHHChhHHHHHhccccCCcccCCEEEEECCEEccCcCCC-CcCCCCCCEEEEECCCCCC
Confidence            444 457899999998877631      1       1258999999998753222 2348999999999988887

>2ylm_A Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70A {Homo sapiens}

Probab=92.62  E-value=0.31  Score=37.21  Aligned_cols=74  Identities=24%  Similarity=0.217  Sum_probs=57.2

Q ss_pred             CCcEEEEEEec--CCCEE----EEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC------CeecC-CCCCcccc--CCC
Q 048514           11 QHFINLVVKGQ--DNDPL----YFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN------GNRFP-HIRTPDQL--GLK   75 (89)
Q Consensus        11 ~~~I~i~v~~~--~~~~~----~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd------G~~l~-~~~Tp~~l--~me   75 (89)
                      ...|.|.++-.  ..+.+    ++-|.++++++.|....+++.|++.++=-.+|.      -++|. .+.|..+.  ++.
T Consensus       128 ~~~iLlFlK~yDp~~q~L~~~G~~~v~~~~kv~~l~~~i~~~~g~p~dt~l~lyEEi~~~~ie~l~~~~~t~~~~~~eL~  207 (530)
T 2ylm_A          128 DHDVMLFLKMYDPKTRSLNYCGHIYTPISCKIRDLLPVMCDRAGFIQDTSLILYEEVKPNLTERIQDYDVSLDKALDELM  207 (530)
T ss_dssp             TTEEEEEEEEEETTTTEEEEEEEEEEETTCBGGGTHHHHHHHHTCCTTCCEEEEEEEETTEEEECCCSSSBHHHHSTTCC
T ss_pred             CCcEEEEEEeeCCCCCEEEEEEEEEECCCCCHHHHHHHHHHHcCCCCCCceEEEEecCCCceeEcccccccHHHHHhccc
Confidence            34566666654  45565    588999999999999999999998865433444      55677 78999999  999


Q ss_pred             CCCEEEEEe
Q 048514           76 DGDEIVATF   84 (89)
Q Consensus        76 dgD~Idv~~   84 (89)
                      +||+|-+..
T Consensus       208 ~GdII~fQ~  216 (530)
T 2ylm_A          208 DGDIIVFQK  216 (530)
T ss_dssp             TTEEEEEEE
T ss_pred             CCCEEEEEe
Confidence            999886654

>2ylm_A Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70A {Homo sapiens}

Probab=92.61  E-value=0.15  Score=38.91  Aligned_cols=37  Identities=5%  Similarity=0.083  Sum_probs=33.5

Q ss_pred             EEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCee
Q 048514           26 LYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNR   62 (89)
Q Consensus        26 ~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~   62 (89)
                      ..|+|.+++++..|++..|+..|++.+.+|||.=-.|
T Consensus        38 ~~~rv~k~~~~~~l~~~va~~lg~~~~~~RlW~~~~R   74 (530)
T 2ylm_A           38 TVFKVLKNSSLAEFVQSLSQTMGFPQDQIRLWPMQAR   74 (530)
T ss_dssp             EEEEEETTSBHHHHHHHHHHHHTSCGGGEEEEEEEEC
T ss_pred             ceEEEcCcCCHHHHHHHHHHHhCcCcccEEEEEEEcC
Confidence            4799999999999999999999999999999975443

>1ef1_A Moesin; membrane, FERM domain, tail domain, membrane protein; 1.90A {Homo sapiens} SCOP: a.11.2.1 b.55.1.5 d.15.1.4 PDB: 1sgh_A 1j19_A 2emt_A 2ems_A 2d10_A 2d11_A 2yvc_A 2d2q_A 2zpy_A 1gc7_A 1gc6_A 1ni2_A

Probab=92.10  E-value=1.4  Score=30.35  Aligned_cols=61  Identities=15%  Similarity=0.078  Sum_probs=45.1

Q ss_pred             cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC-CcEeEEE---CCe--ecCCCCCccccCC
Q 048514           13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY-GTFPFLI---NGN--RFPHIRTPDQLGL   74 (89)
Q Consensus        13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~-~~~rF~f---dG~--~l~~~~Tp~~l~m   74 (89)
                      .|.++|.-.|| .+.|.|.++++-+.|++..|++.|+.. .-+-+.|   +|.  .|..+.+..+.+.
T Consensus         1 ~i~~~V~l~d~-~~~~~v~~~tt~~el~~~v~~~l~L~e~~~FgL~~~~~~~~~~wLd~~~~l~~q~~   67 (294)
T 1ef1_A            1 TISVRVTTMDA-ELEFAIQPNTTGKQLFDQVVKTIGLREVWFFGLQYQDTKGFSTWLKLNKKVTAQDV   67 (294)
T ss_dssp             CEEEEEEETTE-EEEEEECTTCBHHHHHHHHHHHHTCCCGGGEEEEEEBTTSCEEECCSSSBGGGSCB
T ss_pred             CEEEEEEECCc-eEEEEECCCCcHHHHHHHHHHHcCCCCcceeEEEEECCCCceeecccccCHHhhcc
Confidence            37788888888 678999999999999999999999954 4455555   343  3555555555543

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

Probab=91.29  E-value=0.14  Score=29.13  Aligned_cols=53  Identities=19%  Similarity=0.217  Sum_probs=41.4

Q ss_pred             EEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           28 FEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        28 f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +.+...+++..|.+..    +++...+.+..||+.+..+     .-+.+||.|+++.--.||
T Consensus        25 ~~~~~~~Tv~dLl~~L----~~~~~~v~VavNg~~v~~~-----~~L~dGD~V~i~ppv~GG   77 (77)
T 1rws_A           25 IEWREGMKVRDILRAV----GFNTESAIAKVNGKVVLED-----DEVKDGDFVEVIPVVSGG   77 (77)
T ss_dssp             CCCCSSCCHHHHHHTT----TCSSCSSCEEETTEEECSS-----SCCCSSCCCBCSCCCCCC
T ss_pred             EECCCCCcHHHHHHHh----CCCCcCEEEEECCEECCCC-----CCcCCCCEEEEEcccccC
Confidence            3445567888877654    5677888999999999764     469999999999888877

>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=91.11  E-value=1.4  Score=26.51  Aligned_cols=69  Identities=14%  Similarity=0.050  Sum_probs=50.9

Q ss_pred             CcEEEEEEec--CC-CEEEEEEeccchHHHHHHHHHh--h-hCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514           12 HFINLVVKGQ--DN-DPLYFEFRRDWEIKKLLITYCE--K-KDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        12 ~~I~i~v~~~--~~-~~~~f~i~~~t~l~kL~~~y~~--~-~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      +.|.|.|...  +. ..+.+.+...+++..+.++..-  . -.++.+.+.+-.+|+.+.     .+--+.|||.|+++.-
T Consensus        11 ~~~~v~v~ya~p~rq~~~~~~v~~g~TV~daI~~~gi~~~~peIdl~~~~V~Vng~~v~-----~d~~L~dGDRVEIyrp   85 (97)
T 2hj1_A           11 NQINIEIAYAFPERYYLKSFQVDEGITVQTAITQSGILSQFPEIDLSTNKIGIFSRPIK-----LTDVLKEGDRIEIYRP   85 (97)
T ss_dssp             CEEEEEEEEEETTEEEEEEEEEETTCBHHHHHHHHTHHHHCTTCCTTTSEEEEEECSCC-----TTCBCCTTCEEEECCC
T ss_pred             ceEEEEEEEeCCCCCEEEEEEcCCCCcHHHHHHHcCCCccCCcccccccEEEEcCEECC-----CCccCCCCCEEEEEec
Confidence            4577777653  22 2346788889999999988852  3 367777889999999887     3334999999999753

>1wz3_A Autophagy 12B, ATG12B, APG12B; ubiquitin-fold, plant protein; 1.80A {Arabidopsis thaliana} SCOP: d.15.1.7

Probab=91.10  E-value=0.46  Score=28.62  Aligned_cols=65  Identities=8%  Similarity=0.034  Sum_probs=43.1

Q ss_pred             CCCCCCCcEEEEEEecCCCE----EEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECC-eecCCCCCcccc
Q 048514            6 DNIPDQHFINLVVKGQDNDP----LYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLING-NRFPHIRTPDQL   72 (89)
Q Consensus         6 ~~~~~~~~I~i~v~~~~~~~----~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG-~~l~~~~Tp~~l   72 (89)
                      +.++++.+|.|+++...+..    -.|.|..+.+++.+.....++..++  ++=++.+. -.-+.++|..+|
T Consensus         6 ~~~~~~~KV~V~~~~~~~~P~l~k~KflV~~~~t~~~~~~~lRkrL~l~--alFlyvn~~~~Ps~d~~m~~L   75 (96)
T 1wz3_A            6 ESPNSVQKIVVHLRATGGAPILKQSKFKVSGSDKFANVIDFLRRQLHSD--SLFVYVNSAFSPNPDESVIDL   75 (96)
T ss_dssp             ------CEEEEEEEECTTCCCCSCCEEEEETTSBTHHHHHHHHHHHTCS--SCEEEEEEEECCCTTSBHHHH
T ss_pred             CCCCCCCeEEEEEEECCCCCcccccEEEeCCCCcHHHHHHHHHHhcCCc--eEEEEECCcccCChhhHHHHH
Confidence            34456789999998643322    3799999999999999999999887  55454444 233446666655

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

Probab=91.10  E-value=1.3  Score=26.09  Aligned_cols=62  Identities=18%  Similarity=0.084  Sum_probs=43.6

Q ss_pred             CEEEEEEe--ccchHHHHHHHHHhhhCC-C--C------C----cEeEEECCeecC---CCCCccccCCCCCCEEEEEee
Q 048514           24 DPLYFEFR--RDWEIKKLLITYCEKKDA-Q--Y------G----TFPFLINGNRFP---HIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        24 ~~~~f~i~--~~t~l~kL~~~y~~~~g~-~--~------~----~~rF~fdG~~l~---~~~Tp~~l~medgD~Idv~~~   85 (89)
                      ++..+.+.  ..+++..|.+..++++.- .  .      .    .+.+..||..+.   +.+|    -+.|||+|.++.-
T Consensus        20 ~~~~~~l~~~~~~Tv~~L~~~L~~~~~~~~~~l~~~~~~~~lr~~~~v~VN~~~~~~~~~~d~----~L~dgDeVa~~Pp   95 (99)
T 2qjl_A           20 RVHKIKMDKEDPVTVGDLIDHIVSTMINNPNDVSIFIEDDSIRPGIITLINDTDWELEGEKDY----ILEDGDIISFTST   95 (99)
T ss_dssp             CEEEEEECSCSCCBHHHHHHHHHHHTCSSGGGHHHHEETTEECTTEEEEETTEEGGGGTGGGC----BCCTTCEEEEEEC
T ss_pred             cEEEEecCCCCCCcHHHHHHHHHHHCchhhHHHhhhccCCccccCeEEEECCEEccccCCCCc----CcCCCCEEEEECC
Confidence            34556665  568999999998877631 1  1      2    245888998764   3444    4899999999888


Q ss_pred             ecCC
Q 048514           86 AGGA   89 (89)
Q Consensus        86 q~GG   89 (89)
                      -.||
T Consensus        96 v~GG   99 (99)
T 2qjl_A           96 LHGG   99 (99)
T ss_dssp             TTCC
T ss_pred             CCCC
Confidence            7777

>3u7z_A Putative metal binding protein rumgna_00854; the binding protein, transport protein, structural genomics, center for structural genomics; 1.30A {Ruminococcus gnavus}

Probab=90.74  E-value=1.2  Score=27.01  Aligned_cols=75  Identities=20%  Similarity=0.257  Sum_probs=47.2

Q ss_pred             CCCCcEEEEEEecCCCEEEEEEecc-chHHHHHH-HHH--hhh-----------CCCC----Cc-EeEEECCeecCCCCC
Q 048514            9 PDQHFINLVVKGQDNDPLYFEFRRD-WEIKKLLI-TYC--EKK-----------DAQY----GT-FPFLINGNRFPHIRT   68 (89)
Q Consensus         9 ~~~~~I~i~v~~~~~~~~~f~i~~~-t~l~kL~~-~y~--~~~-----------g~~~----~~-~rF~fdG~~l~~~~T   68 (89)
                      +...+|+|.|...++....|.|.+. +.|..+++ ++.  ...           |+..    +. -.|.-+|+.++  .-
T Consensus         4 ~g~k~i~i~v~~~~~~~~~~~v~t~g~tL~dvLk~~~~ve~e~s~~G~fITsI~G~~ad~~~~~yW~~~vng~~~~--~G   81 (101)
T 3u7z_A            4 EGEKHITVTVIHGDQTENVFEFDTDAKYLGEVLESENLVDGESGEYGLFITTVDEETADDSKQQWWCITKGGEQVN--TS   81 (101)
T ss_dssp             -CCEEEEEEEECTTSCEEEEEEEECCSBHHHHHHHTTCEEEECCTTSCEEEEETTEECCGGGTEEEEEEETTEECC--SC
T ss_pred             cceeEEEEEEEcCCCceeEEEEcCCccHHHHHHHHcCccccccccccceEEEEcCEecCCCCCCEEEEEECCEEhh--hc
Confidence            3456899999998888888888733 23444443 221  010           1100    11 24556777776  47


Q ss_pred             ccccCCCCCCEEEEEee
Q 048514           69 PDQLGLKDGDEIVATFY   85 (89)
Q Consensus        69 p~~l~medgD~Idv~~~   85 (89)
                      +.++-++|||.|.+.+.
T Consensus        82 a~~~~v~dGD~i~~~~t   98 (101)
T 3u7z_A           82 ADQTPVSDGDAFELTLK   98 (101)
T ss_dssp             GGGCBCCTTCEEEEEEE
T ss_pred             hhheEecCCCEEEEEEe
Confidence            88999999999998764

>2i1j_A Moesin; FERM, coiled-coil, C-ermad, ERM, radixin, ezrin, MER actin binding, masking, regulation, SELF-inhibition, cell A membrane protein; 2.10A {Spodoptera frugiperda} PDB: 2i1k_A 1e5w_A

Probab=89.70  E-value=2.9  Score=32.17  Aligned_cols=66  Identities=17%  Similarity=0.124  Sum_probs=46.9

Q ss_pred             CCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC-CcEeEEE-C--C--eecCCCCCccccCCCCC
Q 048514           11 QHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY-GTFPFLI-N--G--NRFPHIRTPDQLGLKDG   77 (89)
Q Consensus        11 ~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~-~~~rF~f-d--G--~~l~~~~Tp~~l~medg   77 (89)
                      +..|.++|.-.|| .+.|.|..+++-+.|++..|.+.|+.. .-+-|.| +  |  ..|..+.+..+.+...+
T Consensus         2 ~k~i~v~V~llDg-t~e~~vd~~tt~~ell~~V~~~LgL~e~~~FGL~~~d~~~~~~WLd~~k~i~~q~~~~~   73 (575)
T 2i1j_A            2 PKSMNVRVTTMDA-ELEFAIQQTTTGKQLFDQVVKTIGLREVWFFGLQYTDSKGDLTWIKLYKKVMQQDVKKE   73 (575)
T ss_dssp             -CEEEEEEECSSC-EEEEEEETTCBHHHHHHHHHHHHTCCCGGGEEEEEEBTTSCEEECCTTSBGGGSCBCCC
T ss_pred             CceEEEEEEeCCC-eEEEEECCCCCHHHHHHHHHHHcCCCCccceeEEEEecCcchhHhhccccHHHhcccCC
Confidence            3578899988888 678999999999999999999999953 4455555 2  2  24555555555443333

>3qij_A Protein 4.1; cytoskeleton, structural genomics, structural genomics conso SGC; 1.80A {Homo sapiens} PDB: 1gg3_A 3bin_A 2he7_A 2rq1_A

Probab=89.40  E-value=0.96  Score=31.65  Aligned_cols=51  Identities=16%  Similarity=0.007  Sum_probs=39.4

Q ss_pred             CCCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC-CcEeEEE
Q 048514            8 IPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY-GTFPFLI   58 (89)
Q Consensus         8 ~~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~-~~~rF~f   58 (89)
                      .+....+.++|.-.||....|.|.++++-+.|++..|++.|+.. .-+-|.|
T Consensus        12 ~~~~~~~~~~V~lldgt~~~~~vd~~tt~~el~~~v~~~l~L~e~~~FgL~~   63 (296)
T 3qij_A           12 ENLYFQGHCKVSLLDDTVYECVVEKHAKGQDLLKRVCEHLNLLEEDYFGLAI   63 (296)
T ss_dssp             -----CCEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHTCSSGGGEEEEE
T ss_pred             CCCCceEEEEEEccCCCEEEEEECCCCCHHHHHHHHHHHcCCCCcceeEEEE
Confidence            34556788899889999999999999999999999999999954 3344444

>2inc_C TOUB protein; DIIRON, 4-helix bundle, carboxylate bridge, metalloenzyme, oxidoreductase; HET: P6G; 1.85A {Pseudomonas stutzeri} SCOP: d.15.12.1 PDB: 2ind_C* 3n20_C* 1t0r_C 1t0s_C 1t0q_C* 3n1x_C 3n1y_C* 3n1z_C* 2rdb_C* 3rn9_C* 3rna_C 3rnb_C 3rnc_C 3rne_C 3rnf_C* 3rng_C

Probab=89.14  E-value=2.2  Score=25.09  Aligned_cols=60  Identities=8%  Similarity=0.080  Sum_probs=49.9

Q ss_pred             EEEEEeccchHHHHHHHHHhhh-CC-----CCCcEeEEECC--eecCCCCCccccCCCCCCEEEEEee
Q 048514           26 LYFEFRRDWEIKKLLITYCEKK-DA-----QYGTFPFLING--NRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        26 ~~f~i~~~t~l~kL~~~y~~~~-g~-----~~~~~rF~fdG--~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      .-+-|...++|..+-++.|-+- |.     +-..+|..++|  +.+..+.|..+-||..-|+|||+.+
T Consensus        15 ~LV~VDt~dTmdqVA~kvA~HsVGrRV~p~p~~~~rVr~~G~~~~~pr~~tvae~gl~P~e~vev~~~   82 (83)
T 2inc_C           15 QLVPVDTEDTMDQVAEKCAYHSINRRVHPQPEKILRVRRHEDGTLFPRGMIVSDAGLRPTETLDIIFM   82 (83)
T ss_dssp             EEEEECTTCBHHHHHHHHHTTTBTTTBCCCTTSEEEEEETTTCCEECTTCBGGGSCCCTTCEEEEEEE
T ss_pred             EEEEecCCCcHHHHHHHHhhhhcceecCCCCCCeEEEEecCCccCCCCCCEeeccCCCCceEEEEEEc
Confidence            3577888999999998887532 32     23478999999  9999999999999999999999864

>3ivf_A Talin-1; FERM domain, cell membrane, cell projection, cytoskeleton, M phosphoprotein, cell adhesion, structural protein; 1.94A {Mus musculus} PDB: 2kma_A 2kc1_A

Probab=89.12  E-value=4.4  Score=28.92  Aligned_cols=48  Identities=10%  Similarity=0.174  Sum_probs=41.2

Q ss_pred             CCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCC-CCcEeEEE
Q 048514           11 QHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQ-YGTFPFLI   58 (89)
Q Consensus        11 ~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~-~~~~rF~f   58 (89)
                      ...+.++|.-.||....|.|..+++-+.|++..|++.|+. ..-+-+.+
T Consensus        83 ~~~~~~~V~l~dg~~~~~~vd~~tt~~el~~~v~~~l~L~e~~~FgL~~  131 (371)
T 3ivf_A           83 KKQRPLKIRMLDGTVKTIMVDDSKTVTDMLMTICARIGITNHDEYSLVR  131 (371)
T ss_dssp             ECEEEEEEECTTSCEEEEEEETTSBHHHHHHHHHHHTTCSCGGGEEEEC
T ss_pred             CceeEEEEECcCCCEEEEEECCCCCHHHHHHHHHHHcCCCCccccEEEE
Confidence            3568888998999999999999999999999999999995 45566655

>3w1s_C Ubiquitin-like protein ATG12; ubiquitin fold, E3-like, ATG3 binding, isopeptide bond betwe Gly186 and ATG5 Lys149, ligase; 2.60A {Saccharomyces cerevisiae S288C}

Probab=88.86  E-value=1.8  Score=25.69  Aligned_cols=61  Identities=7%  Similarity=-0.024  Sum_probs=42.8

Q ss_pred             CCCcEEEEEEecCCCE----EEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCee-cCCCCCcccc
Q 048514           10 DQHFINLVVKGQDNDP----LYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNR-FPHIRTPDQL   72 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~----~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~-l~~~~Tp~~l   72 (89)
                      ++.+|+|+++.....+    -.|.|..+.+++.+.....++.++  +++=++.+..- -+.++|..+|
T Consensus         5 ~~~Kv~vrfk~~g~~P~l~k~KflV~~~~t~~~~v~~lRkrL~l--~alFlyVNn~f~Ps~d~~~~~L   70 (91)
T 3w1s_C            5 NIQKIQIKFQPIGSIGQLKPSVCKISMSQSFAMVILFLKRRLKM--DHVYCYINNSFAPSPQQNIGEL   70 (91)
T ss_dssp             -CCEEEEEEEECCC-------EEEEETTSBHHHHHHHHHHHHTC--SCCEEEETTTBCCCTTSBHHHH
T ss_pred             CCCeEEEEEEecCCCCcccccEEEcCCCCCHHHHHHHHHHhhCC--ceEEEEECCccCCCcccHHHHH
Confidence            5678999988633322    379999999999999999999998  56755556653 3345665543

>2juo_A GA-binding protein alpha chain; OST, ubiquitin, transcription factor, ensemble, DNA-binding, nucleus, transcription regulation; NMR {Mus musculus}

Probab=88.55  E-value=2.5  Score=25.11  Aligned_cols=59  Identities=8%  Similarity=0.009  Sum_probs=51.0

Q ss_pred             EEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514           27 YFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        27 ~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      .-.|.-..||..|.+-...+.|++.+...|+..+..|.++.+.-+-+.+-.-.+.+.++
T Consensus         6 ~qhmDI~epL~~Lk~LLe~Rl~i~L~~y~f~LQd~~L~~~k~LvdQcVqgeGlVQinvq   64 (89)
T 2juo_A            6 SQAIDINEPIGNLKKLLEPRLQCSLDAHEICLQDIQLDPDRSLFDQGVKTDGTVQLSVQ   64 (89)
T ss_dssp             EEEEESSSBGGGHHHHSHHHHCSCCSSCEEEETTEECCTTSBTTTSSCCCCSEEEEEEE
T ss_pred             hhhccccCcHHHHHHHHHHHhcCCcccCeEEeeccccCCCccHHHhhcccccEEEEEEE
Confidence            34566678999999999999999999999999999999999999999988887766544

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

Probab=87.92  E-value=1.6  Score=25.74  Aligned_cols=56  Identities=29%  Similarity=0.375  Sum_probs=39.2

Q ss_pred             cchHHHHHHHHHhhhC-CCC---------CcE-------eEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           33 DWEIKKLLITYCEKKD-AQY---------GTF-------PFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        33 ~t~l~kL~~~y~~~~g-~~~---------~~~-------rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ..++..|.+..+.++. +..         ..+       .+..||+.+...+ -.+.-+.|||.|.++.--.||
T Consensus        27 ~~tv~~ll~~L~~~~p~l~~~l~~~g~l~~~v~~~~~~~~v~VNg~~v~~~~-~~~~~L~~gD~V~i~ppv~GG   99 (99)
T 2l52_A           27 GEKVIDVLLSLTDKYPALKYVIFEKGDEKSEILILCGSINILINGNNIRHLE-GLETLLKDSDEIGILPPVSGG   99 (99)
T ss_dssp             CSSHHHHHHHHHHHCGGGTTTSBCSCCTTSSCCCBCSSCEEEETTSCGGGTT-STTSCCCTTEEEEEECCCSCC
T ss_pred             CCcHHHHHHHHHHHChhHHHHHhcccccccceeccccccEEEECCEEccccC-CCCCCCCCCCEEEEECCCCCC
Confidence            5899999999887642 111         124       7999999885322 223358999999999887777

>3ivf_A Talin-1; FERM domain, cell membrane, cell projection, cytoskeleton, M phosphoprotein, cell adhesion, structural protein; 1.94A {Mus musculus} PDB: 2kma_A 2kc1_A

Probab=87.60  E-value=5.9  Score=28.25  Aligned_cols=71  Identities=14%  Similarity=0.104  Sum_probs=56.6

Q ss_pred             cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCC----CCCcEeEEE------CCeecCCCCCccccCCCCCCEEEE
Q 048514           13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDA----QYGTFPFLI------NGNRFPHIRTPDQLGLKDGDEIVA   82 (89)
Q Consensus        13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~----~~~~~rF~f------dG~~l~~~~Tp~~l~medgD~Idv   82 (89)
                      .+.|+|.-. +....+...++++...+....+++..-    +.+..-+++      .|..|..+.|.+.+++.+|+.|+.
T Consensus         3 ~~~~~~~~~-~~~~~~~f~~~~~v~~~~~~i~e~~~~~~~~~~~~y~l~~~~~~~~~~~Wl~~~~~l~~y~~~~~~~l~~   81 (371)
T 3ivf_A            3 ALSLKISIG-NVVKTMQFEPSTMVYDACRMIRERIPEALAGPPNDFGLFLSDDDPKKGIWLEAGKALDYYMLRNGDTMEY   81 (371)
T ss_dssp             CEEEEEEET-TEEEEEEECTTCBHHHHHHHHHTTCGGGGSSCGGGEEEEECCSSGGGCEECCTTSBGGGGTCCTTCEEEE
T ss_pred             cEEEEEEec-ceeEEEEECCCCCHHHHHHHHHHhcccccCCCHHHCeEeccCCCCCcCEeccCCCCHHHhCCCCCceeec
Confidence            355666544 555689999999999999888887753    577887777      478899999999999999999876


Q ss_pred             Ee
Q 048514           83 TF   84 (89)
Q Consensus        83 ~~   84 (89)
                      ..
T Consensus        82 ~~   83 (371)
T 3ivf_A           82 RK   83 (371)
T ss_dssp             EE
T ss_pred             cC
Confidence            53

>1ip9_A BEM1 protein; ubiquitin alpha/beta roll, signaling protein; NMR {Saccharomyces cerevisiae} SCOP: d.15.2.2 PDB: 1ipg_A 2kfk_A

Probab=85.13  E-value=4.2  Score=24.01  Aligned_cols=51  Identities=10%  Similarity=-0.046  Sum_probs=40.1

Q ss_pred             CCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCe
Q 048514            9 PDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN   61 (89)
Q Consensus         9 ~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~   61 (89)
                      |.-..++||+-- ++.-+.++|..+.+|+.|.+..+++..++ +-+.|.|.++
T Consensus         8 pq~~~~KVK~yy-~DDIiAIrvP~di~~~~L~dKi~~RLk~~-~~~l~~ykde   58 (85)
T 1ip9_A            8 SGLKTTKIKFYY-KDDIFALMLKGDTTYKELRSKIAPRIDTD-NFKLQTKLFD   58 (85)
T ss_dssp             CCCCCEEEEECB-TTCCEEEEECSCCCHHHHHHHHHHHHTSS-CEEEEECCSS
T ss_pred             CccCceEEEEEe-cCcEEEEECCCCCCHHHHHHHHHHHhccc-ceEEEEecCC
Confidence            444678888864 56778999999999999999999999983 4445555655

>3ge3_C Toluene-4-monooxygenase system protein B; DIIRON hydroxylase, effector protein, T201A, aromatic hydrocarbons catabolism, FAD, flavoprotein; 1.52A {Pseudomonas mendocina} SCOP: d.15.12.0 PDB: 3dhh_C* 3dhg_C* 3dhi_C 3ge8_C 3i5j_C 3i63_C 3q14_C 3q2a_C* 3q3m_C* 3q3n_C* 3q3o_C* 3rmk_C* 3ri7_C*

Probab=83.82  E-value=4.8  Score=23.68  Aligned_cols=60  Identities=13%  Similarity=0.100  Sum_probs=50.5

Q ss_pred             EEEEEeccchHHHHHHHHHhhh-CC----CCCcEeEEECCee--cCCCCCccccCCCCCCEEEEEee
Q 048514           26 LYFEFRRDWEIKKLLITYCEKK-DA----QYGTFPFLINGNR--FPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        26 ~~f~i~~~t~l~kL~~~y~~~~-g~----~~~~~rF~fdG~~--l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      .-+-|...++|..+-++.|.+. |.    .+..+|...+|..  +..+.|..+.|+..-|.||++.+
T Consensus        17 ~Lv~VDt~dtmdqVA~k~A~h~VGrrv~p~pg~lrVr~~G~~~~~Pr~mtVaeaGl~Pme~vev~~~   83 (84)
T 3ge3_C           17 QLVVVDLNDSMDQVAEKVAYHCVNRRVAPREGVMRVRKHRSTELFPRDMTIAESGLNPTEVIDVVFE   83 (84)
T ss_dssp             EEEEEETTCBHHHHHHHHHHTTBTTTBCCCSSCEEEEETTCSCBCCTTCBHHHHCCCTTCEEEEEEC
T ss_pred             EEEEecCCCcHHHHHHHHhhhhcceeeCCCCCcEEEEECCCcccCCCCCEeeccCCCcceEEEEEEc
Confidence            4688899999999998888632 33    2358999999999  99999999999999999999863

>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=83.27  E-value=2.9  Score=27.27  Aligned_cols=59  Identities=10%  Similarity=0.084  Sum_probs=41.6

Q ss_pred             EEeccchHHHHHHHHHhhhC-CC---------CCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           29 EFRRDWEIKKLLITYCEKKD-AQ---------YGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        29 ~i~~~t~l~kL~~~y~~~~g-~~---------~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      .+.. +++..|.+..+..+. +.         ...+.+..||+.+...+- .+.-+.+||.|.++.--.||
T Consensus        19 ev~~-~TV~dLl~~L~~~~p~l~~~l~~~~~l~~~v~VaVNg~~v~~~~~-~dt~L~dGDeVai~PpVsGG   87 (168)
T 1v8c_A           19 ELPG-ATVGEVLENLVRAYPALKEELFEGEGLAERVSVFLEGRDVRYLQG-LSTPLSPGATLDLFPPVAGG   87 (168)
T ss_dssp             ECCC-SBHHHHHHHHHHHCGGGHHHHEETTEECTTCEEEETTEEGGGTTG-GGCBCCTTCEEEEECSCCSE
T ss_pred             EECC-CcHHHHHHHHHhhChhhhhhhhcccccCCcEEEEECCEECCCcCC-CccCCCCCCEEEEECccccc
Confidence            4444 789999988876642 11         246789999999875321 22349999999998877776

>4gdk_A Ubiquitin-like protein ATG12; protein-protein conjugate, protein-protein complex, ubiquiti protein, E3 ligase, ubiquitin-like fold; 2.70A {Homo sapiens} PDB: 4gdl_A

Probab=82.98  E-value=3.5  Score=24.37  Aligned_cols=70  Identities=16%  Similarity=0.166  Sum_probs=47.0

Q ss_pred             CCcEEEEEEecCCC----EEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEE-CCeec-CCCCCcccc----CCCCCCEE
Q 048514           11 QHFINLVVKGQDND----PLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLI-NGNRF-PHIRTPDQL----GLKDGDEI   80 (89)
Q Consensus        11 ~~~I~i~v~~~~~~----~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG~~l-~~~~Tp~~l----~medgD~I   80 (89)
                      ..+|+|+++.....    .-.|.|..+.+++.++....++..++++.--|+| +..-+ +.++|..+|    . +||-.+
T Consensus         3 ~~Kv~v~fk~~g~~P~l~k~KflVp~~~tv~~~~~~lRkrL~l~~~~alFlyVnn~~~P~~d~~~~~Ly~~~k-~DGfLy   81 (91)
T 4gdk_A            3 KKKIDILLKAVGDTPIMKTKKWAVERTRTIQGLIDFIKKFLKLVASEQLFIYVNQSFAPSPDQEVGTLYECFG-SDGKLV   81 (91)
T ss_dssp             -CEEEEEEEECSSSCCCSCCEEEEETTCBHHHHHHHHHHHTTCCSSSCCEEEETTTBCCCTTCBHHHHHHHHC-BTTEEE
T ss_pred             CceEEEEEEecCCCCcccccEEEcCCCCCHHHHHHHHHHHhCCCCCCeEEEEECCccCCChhhHHHHHHHHhC-CCCEEE
Confidence            35788888763322    2379999999999999999999999776544444 55433 345666543    4 555444


Q ss_pred             E
Q 048514           81 V   81 (89)
Q Consensus        81 d   81 (89)
                      -
T Consensus        82 v   82 (91)
T 4gdk_A           82 L   82 (91)
T ss_dssp             E
T ss_pred             E
Confidence            3

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

Probab=82.41  E-value=4.6  Score=23.07  Aligned_cols=62  Identities=13%  Similarity=0.094  Sum_probs=39.3

Q ss_pred             EEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514           15 NLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        15 ~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      .|.|...+|..+.  +...++...+.  |+-..++..+.+--.+||+.+..+ |    -|++||+|+++..
T Consensus         7 ~i~v~tP~G~~~~--lp~GaT~~D~A--~~Ih~~lg~~~v~AkVNG~~v~L~-~----~L~~gd~VeIit~   68 (78)
T 3hvz_A            7 EVFVFTPKGDVIS--LPIGSTVIDFA--YAIHSAVGNRMIGAKVDGRIVPID-Y----KVKTGEIIDVLTT   68 (78)
T ss_dssp             EEEEECTTSCEEE--EETTCBHHHHH--HHHCHHHHHTEEEEEETTEEECTT-C----BCCTTCBEEEEEC
T ss_pred             eEEEECCCCCEEE--ecCCCCHHHHH--HHhhhhhhcceEEEEECCEEcCCC-c----ccCCCCEEEEEcc
Confidence            3566678888754  44555555543  333333334556667799888764 3    4899999998764

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

Probab=82.35  E-value=3.3  Score=22.42  Aligned_cols=62  Identities=10%  Similarity=0.026  Sum_probs=38.9

Q ss_pred             EEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514           15 NLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        15 ~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      .+.|...+|+.  +.+...+++..|...+....  ....+--..||+.+..+     --+++||.|+++..
T Consensus         2 ~i~i~~p~g~~--~~~~~g~T~~dla~~i~~~l--~~~~vaa~vNg~lvdl~-----~~L~~~~~Veivt~   63 (73)
T 2kmm_A            2 EVMVFTPKGEI--KRLPQGATALDFAYSLHSDL--GDHCIGAKVNHKLVPLS-----YVLNSGDQVEVLSS   63 (73)
T ss_dssp             CEEEECTTCCE--EEECTTCBHHHHHHHHCSHH--HHTEEEEEETTEECCTT-----CBCCSSSBEEEEEC
T ss_pred             eEEEEcCCCCE--EEcCCCCcHHHHHHHHhhcc--ccceEEEEECCEEeCCC-----cCcCCCCEEEEEEC
Confidence            34555567776  45556777777776653221  23345557899877764     45668899988753

>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=81.56  E-value=6.9  Score=23.85  Aligned_cols=74  Identities=18%  Similarity=0.187  Sum_probs=47.9

Q ss_pred             CcEEEEEEec------CC--CEEEEEEec---cchHHHHHHHHHhhh-CC----------CCCcEeEEECCeec---CCC
Q 048514           12 HFINLVVKGQ------DN--DPLYFEFRR---DWEIKKLLITYCEKK-DA----------QYGTFPFLINGNRF---PHI   66 (89)
Q Consensus        12 ~~I~i~v~~~------~~--~~~~f~i~~---~t~l~kL~~~y~~~~-g~----------~~~~~rF~fdG~~l---~~~   66 (89)
                      ..++|+|+-.      .+  +.+.+.+..   ..+++.|++..++++ +.          -...+.++.||+.+   ..-
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            3466666532      23  244566662   258999999998876 11          12236688888855   344


Q ss_pred             CCccccCCCCCCEEEEEeeecCC
Q 048514           67 RTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        67 ~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +||    ++|||.|.++...-||
T Consensus        90 dt~----L~dGDeV~iip~vaGG  108 (114)
T 1wgk_A           90 DYQ----LQDQDSILFISTLHGG  108 (114)
T ss_dssp             TCB----CCSSEEEEEEECSCCC
T ss_pred             CcC----CCCCCEEEEeCCCCCC
Confidence            554    8999999888776666

---

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	89
d1wm3a_	72	d.15.1.1 (A:) SUMO-2 {Human (Homo sapiens) [TaxId:	2e-15
d2uyzb1	77	d.15.1.1 (B:20-96) SUMO-1 (smt3 homologue) {Human	4e-13
d1euvb_	79	d.15.1.1 (B:) SUMO-1 (smt3 homologue) {Baker's yea	4e-10

>d1wm3a_ d.15.1.1 (A:) SUMO-2 {Human (Homo sapiens) [TaxId: 9606]} Length = 72

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]

 Score = 62.4 bits (152), Expect = 2e-15
 Identities = 23/69 (33%), Positives = 33/69 (47%)

Query: 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLG 73
          INL V GQD   + F+ +R   + KL+  YCE++        F  +G       TP QL 
Sbjct: 2  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 61

Query: 74 LKDGDEIVA 82
          ++D D I  
Sbjct: 62 MEDEDTIDV 70

>d2uyzb1 d.15.1.1 (B:20-96) SUMO-1 (smt3 homologue) {Human (Homo sapiens) [TaxId: 9606]} Length = 77

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]

 Score = 56.7 bits (137), Expect = 4e-13
 Identities = 22/67 (32%), Positives = 37/67 (55%)

Query: 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLG 73
          I L V GQD+  ++F+ +    +KKL  +YC+++     +  FL  G R     TP +LG
Sbjct: 3  IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELG 62

Query: 74 LKDGDEI 80
          +++ D I
Sbjct: 63 MEEEDVI 69

>d1euvb_ d.15.1.1 (B:) SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomyces cerevisiae), smt3 [TaxId: 4932]} Length = 79

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]

 Score = 49.0 bits (117), Expect = 4e-10
 Identities = 18/72 (25%), Positives = 40/72 (55%), Gaps = 2/72 (2%)

Query: 9  PDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRT 68
          P+ H INL V    +  ++F+ ++   +++L+  + +++  +  +  FL +G R    +T
Sbjct: 1  PETH-INLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQT 58

Query: 69 PDQLGLKDGDEI 80
          P+ L ++D D I
Sbjct: 59 PEDLDMEDNDII 70

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	89
d2uyzb1	77	SUMO-1 (smt3 homologue) {Human (Homo sapiens) [Tax	99.97
d1wm3a_	72	SUMO-2 {Human (Homo sapiens) [TaxId: 9606]}	99.96
d1euvb_	79	SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomy	99.96
d1ogwa_	76	Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}	99.64
d1wh3a_	87	2'-5'-oligoadenylate synthetase-like protein, OASL	99.57
d1z2ma2	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.55
d1ttna1	80	Dendritic cell-derived ubiquitin-like protein {Hum	99.55
d2zeqa1	78	Ubiquitin-like domain of parkin {Mouse (Mus muscul	99.54
d1bt0a_	73	Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxI	99.54
d1j8ca_	103	Ubiquitin-like N-terminal domain of PLIC-2 {Human	99.5
d1uh6a_	100	Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculu	99.49
d1m94a_	73	Ubiquitin-like modifier protein hub1 {Baker's yeas	99.48
d1zkha1	86	Splicing factor 3 subunit 1, C-terminal domain {Hu	99.48
d2faza1	76	Ubiquitin-like PHD and RING finger domain-containi	99.48
d1wx8a1	83	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	99.46
d2bwfa1	73	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.44
d1z2ma1	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.43
d1oqya4	77	Ubiquitin-like domain of Rad23 homolog A (Hhr23a)	99.43
d1yqba1	84	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	99.42
d1we6a_	111	Splicing factor 3 subunit 1, C-terminal domain {Th	99.4
d1uela_	95	Ubiquitin-like domain of Rad23 homolog B (Hhr23B)	99.38
d1wy8a1	76	Ubiquitin-like PHD and RING finger domain-containi	99.38
d1wx9a1	73	Large proline-rich protein BAT3 {Human (Homo sapie	99.36
d1wgha_	116	Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculu	99.31
d1se9a_	101	Hypothetical protein At3g01050 {Thale cress (Arabi	99.28
d1v5oa_	102	1700011n24rik protein {Mouse (Mus musculus) [TaxId	99.27
d1wgga_	96	Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (M	99.21
d1wiaa_	95	Ubiquitin-like protein bab25500 (2010008E23Rik) {M	99.19
d1wjua_	100	NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens	99.16
d1v86a_	95	hypothetical D7wsu128e protein {Mouse (Mus musculu	99.14
d1v2ya_	105	Ubiquitin-like protein 3300001g02rik {Mouse (Mus m	99.14
d1wjna_	97	Tubulin-folding protein TbcE {Mouse (Mus musculus)	99.04
d1wxva1	81	Bag-family molecular chaperone regulator-1 {Human	98.97
d1wgda_	93	Homocysteine-responsive endoplasmic reticulum-resi	98.96
d2c9wb1	103	Elongin B {Human (Homo sapiens) [TaxId: 9606]}	98.89
d1v5ta_	90	8430435i17rik protein {Mouse (Mus musculus) [TaxId	98.88
d1v6ea_	95	Ubiquitin-like domain of tubulin folding cofactor	98.76
d1t0ya_	90	Ubiquitin-like domain of tubulin folding cofactor	98.74
d1x1ma1	94	Ubiquitin-like protein 7 {Mouse (Mus musculus) [Ta	98.39
d2al3a1	76	Tether containing UBX domain for GLUT4 (Tug) {Mous	98.14
d2cr5a1	96	UBX domain-containing protein 6 (Reproduction 8) {	97.15
d1h8ca_	82	Fas-associated factor 1, Faf1 {Human (Homo sapiens	96.93
d1i42a_	89	p47 {Rat (Rattus norvegicus) [TaxId: 10116]}	96.92
d1wf9a1	94	NPL4-like protein 1 {Thale cress (Arabidopsis thal	96.91
d1wj4a_	124	Hypothetical protein KIAA0794 {Human (Homo sapiens	96.52
d1y8xb1	92	UBA3 {Human (Homo sapiens) [TaxId: 9606]}	94.86
d1ip9a_	85	Bud emergence mediator Bemp1 {Baker's yeast (Sacch	94.71
d1wxma1	73	A-Raf proto-oncogene serine/threonine-protein kina	94.21
d1vjka_	88	Molybdopterin synthase subunit MoaD {Pyrococcus fu	94.17
d1ef1a3	84	Moesin {Human (Homo sapiens) [TaxId: 9606]}	93.77
d1zud21	65	Thiamin biosynthesis sulfur carrier protein ThiS {	93.58
d2npta1	105	Mitogen activated protein kinase kinase 5, Map2k5	92.61
d1h4ra3	84	Merlin {Human (Homo sapiens) [TaxId: 9606]}	91.79
d1c1yb_	77	c-Raf1 RBD {Human (Homo sapiens) [TaxId: 9606]}	91.19
d1j0ga_	92	Hypothetical protein 1810045k17 {Mouse (Mus muscul	90.93
d2bkfa1	85	Next to BRCA1 gene 1 protein, NBR1 (KIAA0049) {Hum	90.47
d1v8ca1	87	MoaD-related protein, N-terminal domain {Thermus t	90.25
d1wgra_	100	Growth factor receptor-bound protein 7, GRB-7 {Hum	89.28
d1tygb_	65	Thiamin biosynthesis sulfur carrier protein ThiS {	88.97
d1gg3a3	81	Erythroid membrane protein 4.1R {Human (Homo sapie	87.38
d2cu3a1	63	Uncharacterised protein TTHA0675 {Thermus thermoph	86.63
d1oeya_	82	Neutrophil cytosol factor 2 (p67phox component of	86.49
d1wfya_	104	Regulator of G-protein signaling 14, RGS14 {Mouse	84.65
d1wgya_	104	Rap guanine nucleotide exchange factor 5, RapGEF5	82.79
d1ryja_	70	Hypothetical protein MTH1743 {Archaeon Methanobact	82.79

>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=99.97  E-value=2.4e-31  Score=157.40  Aligned_cols=77  Identities=30%  Similarity=0.563  Sum_probs=75.6

Q ss_pred             CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecC
Q 048514           12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGG   88 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   88 (89)
                      ++|+|+|++++|+.++|+|+++++|++||++||++.|+++++++|+|||.+|.+++||++|+|||||+|||+++|+|
T Consensus         1 e~I~ikv~~~dg~~v~f~v~~~t~l~kl~~~y~~~~~~~~~~~~f~fdG~~l~~~~T~~~l~~edgD~Idv~~~q~G   77 (77)
T d2uyzb1           1 EYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTG   77 (77)
T ss_dssp             CEEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCHHHHTCCTTEEEEEEECCCC
T ss_pred             CEEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCChhHEEEEECCEECCCCCCHHHcCCCCCCEEEEEEecCC
Confidence            47999999999999999999999999999999999999999999999999999999999999999999999999998

>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=99.96  E-value=2.5e-30  Score=151.55  Aligned_cols=72  Identities=32%  Similarity=0.530  Sum_probs=70.3

Q ss_pred             cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514           13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus        13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   84 (89)
                      +|+|+|++++|++++|+|+++++|++||++||++.++++++++|+|||.+|.+++||++|+|||||+|||+.
T Consensus         1 ~I~lkv~~~~g~~v~f~vk~~t~l~kl~~~y~~~~~~~~~~~~f~fdG~~i~~~~Tp~~l~med~D~Idv~~   72 (72)
T d1wm3a_           1 HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQ   72 (72)
T ss_dssp             CEEEEEECTTSCEEEEEECTTSCTHHHHHHHHHHHTCCTTTCEEEETTEECCTTCCTTTTTCCTTEEEEEEC
T ss_pred             CEEEEEECCCCCEEEEEEcCCChHHHHHHHHHHHhCCCccceEEEECCEEcCCCCCHHHcCCCCCCEEEEEC
Confidence            699999999999999999999999999999999999999999999999999999999999999999999983

>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=99.96  E-value=7.7e-30  Score=151.38  Aligned_cols=79  Identities=23%  Similarity=0.465  Sum_probs=76.0

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ++.+|+|+|.+ +|.+++|+|+++++|++||++||++.|++.+.++|+|+|++|.+++||++|+|+|||+|+|+++|+||
T Consensus         1 p~~~I~ikv~~-~~~~~~f~v~~~~~~~~l~~~~~~~~~i~~~~~~l~f~G~~l~~~~T~~~~~i~dgd~I~v~~~q~GG   79 (79)
T d1euvb_           1 PETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGG   79 (79)
T ss_dssp             CCSEEEEEEES-SSCEEEEEEETTSCTHHHHHHHHHHTTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEECCBCC
T ss_pred             CCcEEEEEECC-CCeEEEEEECCCCcHHHHHHHHHHHhCCChHhEEEEECCEEeCCCCCHHHCCCCCCCEEEEEEeccCC
Confidence            35789999986 78999999999999999999999999999999999999999999999999999999999999999999

>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=99.64  E-value=1.3e-15  Score=88.40  Aligned_cols=76  Identities=12%  Similarity=0.184  Sum_probs=73.7

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      |+|.|++.+|+.+.+.|.++++...|++..+++.|+|++.+||+|.|+.|.++.|.+++++++|++|+++++..||
T Consensus         1 MqI~Vk~l~G~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~qrL~~~Gk~L~d~~tL~~y~i~~~s~I~L~~rlrgG   76 (76)
T d1ogwa_           1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG   76 (76)
T ss_dssp             CEEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECTTCC
T ss_pred             CEEEEEcCCCCEEEEEECCCCcHHHHHHhhhhhcCCChHHEEeEECCeEcCCCCCHHHcCCCCCCEEEEEEecCCC
Confidence            5788888999999999999999999999999999999999999999999999999999999999999999999998

>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=99.57  E-value=1.4e-14  Score=86.09  Aligned_cols=80  Identities=14%  Similarity=0.150  Sum_probs=76.4

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ....|+|.|++.+|+.+.+.|.++++...|+...+++.|+|++.+||+|.|+.|.++.|..++++++|++|++..++.||
T Consensus         4 ~s~~mqI~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~stl~l~~r~~~g   83 (87)
T d1wh3a_           4 GSSGIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYGIQDSDTLILSKKKGSG   83 (87)
T ss_dssp             CSSSEEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTCCCTTTEEEEETTEECCSSSBHHHHTCCTTEEEEEEECSCCC
T ss_pred             CCCcEEEEEECCCCCEEEEEECCcCcHHHHHHHHHHHHCcChHHeEEEeeceEcCCCCcHHHcCCCCCCEEEEEecCCCC
Confidence            45689999999999999999999999999999999999999999999999999999999999999999999999998876

>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=99.55  E-value=4.6e-14  Score=81.67  Aligned_cols=75  Identities=13%  Similarity=0.165  Sum_probs=71.7

Q ss_pred             CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      +.|+|.|++.+|+.+.+.|.++++...|+...+++.|++++.+|++|.|+.|.++.|.+++++++|++|++.+++
T Consensus         2 ~~~qi~Vk~~~G~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~qrL~~~gk~L~d~~tL~~y~I~~~sti~l~lRL   76 (76)
T d1z2ma2           2 EPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRL   76 (76)
T ss_dssp             CCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECC
T ss_pred             CCEEEEEEcCCCCEEEEEECCCCcHHHHHHHHHHHhcCChhHeEEEECCeECCCCCcHHHcCCCCCCEEEEEEeC
Confidence            568999999999999999999999999999999999999999999999999999999999999999999998763

>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=99.55  E-value=2e-14  Score=84.17  Aligned_cols=76  Identities=8%  Similarity=0.047  Sum_probs=72.4

Q ss_pred             CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeec
Q 048514           12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAG   87 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~   87 (89)
                      ..|+|+|+..+|+.+.+.|.++++...|+...+++.|++.+.+||+|.|+.|.++.|.+++++++|++|++++.+-
T Consensus         2 ~e~qi~Vk~~~G~~~~l~V~~~~tV~~lK~~I~~~~~ip~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lvi~~p   77 (80)
T d1ttna1           2 YECQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELKIPKDYVVQVIVSQP   77 (80)
T ss_dssp             CSEEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTCCCSTTCEEEETTEECCTTSHHHHCCCSSSCEEEEECCCS
T ss_pred             CeEEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCcccEEEEECceEcCCCCcHHHcCCCCCCEEEEEecCC
Confidence            4689999999999999999999999999999999999999999999999999999999999999999999988763

>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=99.54  E-value=4.5e-14  Score=82.47  Aligned_cols=75  Identities=12%  Similarity=0.118  Sum_probs=72.5

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecC
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGG   88 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   88 (89)
                      +.|.|++.+|+.+.+.|.+++++..|++..+++.|+|++.+||+|.|+.|.++.|.+++++++|++|++..+..|
T Consensus         3 M~I~Vk~~~g~t~~l~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lv~R~rg   77 (78)
T d2zeqa1           3 MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKRQGVPADQLRVIFAGKELPNHLTVQNCDLEQQSIVHIVQRPRR   77 (78)
T ss_dssp             EEEEEESSSSSCEEEEECTTCBHHHHHHHHHHHHTCCGGGEEEEETTEEECTTCBGGGSSCCTTCEEEEEESSCC
T ss_pred             eEEEEEcCCCCEEEEEEcccccHHHHHHHHHHHHCcChhHeEEEEeeeEcCCCCCHHHcCCCCCCEEEEEeccCC
Confidence            678999889999999999999999999999999999999999999999999999999999999999999999887

>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=99.54  E-value=3.6e-14  Score=81.66  Aligned_cols=73  Identities=11%  Similarity=0.132  Sum_probs=69.3

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      +.|.|++.+|+.+.+.|.++++...|+...+++.|++++.+||+|.|+.|.++.|.+++++++|++|+++++.
T Consensus         1 M~I~Vk~~~G~~~~l~V~~~~tV~~lK~~i~~~~gi~~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lvlrL   73 (73)
T d1bt0a_           1 MLIKVKTLTGKEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADDKTAKDYNIEGGSVLHLVLAL   73 (73)
T ss_dssp             CEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECC
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCCChHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEeeC
Confidence            4688889999999999999999999999999999999999999999999999999999999999999998763

>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=99.50  E-value=1.7e-13  Score=83.54  Aligned_cols=77  Identities=14%  Similarity=0.195  Sum_probs=70.2

Q ss_pred             CCCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514            8 IPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus         8 ~~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      ++++..|+|+|++.++ ...|.|.+++++..|++..+++.|++.+.+||+|+|+.|.++.|..++++++|++|+++++
T Consensus        27 ~~~~~~i~V~Vk~~~~-~~~i~V~~~~tV~~LK~~I~~~~gi~~~~qrLi~~Gk~L~D~~tL~~~~I~~g~~I~lvlr  103 (103)
T d1j8ca_          27 PAEPKIIKVTVKTPKE-KEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVIK  103 (103)
T ss_dssp             CCCCCCEEEEEECSSC-EEEEEECTTCCHHHHHHHHHHHHCSCSSSEEEEETTEEESTTSCGGGTTCSSSEEEEEEEC
T ss_pred             CCCCCeEEEEEECCCc-cEEEEECCCChHHHHHHHHHHHHCcCHHHeeeeeeeecccCCCcHHHcCCCCCCEEEEEEC
Confidence            3456689999998655 4689999999999999999999999999999999999999999999999999999999864

>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=99.49  E-value=1.2e-13  Score=84.39  Aligned_cols=75  Identities=11%  Similarity=0.106  Sum_probs=71.4

Q ss_pred             CCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514           11 QHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        11 ~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      ...|.|.|++..|+.+.+.|.++++...|++..+++.|++++.+||+|.|+.|.++.|.+++++.+|++|+++.+
T Consensus        26 ~~~i~V~V~~~~Gk~~~v~V~p~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~dygI~~GstI~L~~~  100 (100)
T d1uh6a_          26 ATMIEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDYEIHDGMNLELYYQ  100 (100)
T ss_dssp             CCEEEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCSSCBHHHHTCCTTEEEEEECC
T ss_pred             CceEEEEEECCCCCEEEEEECCcChHHHHHHHHHHHHCCCcceEEEEEEeecccCcCCHHHcCCCCCCEEEEEEC
Confidence            356899999999999999999999999999999999999999999999999999999999999999999999863

>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=99.48  E-value=8.9e-14  Score=80.20  Aligned_cols=71  Identities=8%  Similarity=0.086  Sum_probs=68.4

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   84 (89)
                      |.|.|++..|+.+.+.|.++++...|++..+++.|++++.+|++|+|+.|.++.|.+++++++|++|+++.
T Consensus         2 i~i~vk~~~Gk~~~v~V~~~~tV~~lK~~I~~~~~i~~~~q~Li~~Gk~L~d~~tL~~y~I~~gstl~L~~   72 (73)
T d1m94a_           2 IEVVVNDRLGKKVRVKCLAEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLEDYEVHDQTNLELYY   72 (73)
T ss_dssp             EEEEEEETTTEEEEEEECTTSBHHHHHHHHHHHHCCTTTSEEEESSSCEECTTSBHHHHTCCTTEEEEEEE
T ss_pred             eEEEEECCCCCEEEEEECCcCcHHHHHHHHHHhhcccccEEEEEEEeEEecccCcHHHcCCCCCCEEEEEE
Confidence            68899998999999999999999999999999999999999999999999999999999999999999874

>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=99.48  E-value=1.8e-13  Score=81.27  Aligned_cols=68  Identities=12%  Similarity=0.132  Sum_probs=65.5

Q ss_pred             cCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecC
Q 048514           21 QDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGG   88 (89)
Q Consensus        21 ~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   88 (89)
                      .+|+.+.+.|.++++.+.|+...+++.|++.+.++++|.|+.|.++.|.+++++++|++|+++.+++|
T Consensus        19 L~G~~~~l~v~~~~tV~~lK~~I~~~~~ip~~~q~Li~~Gk~L~D~~tL~dY~I~~gsti~l~~r~RG   86 (86)
T d1zkha1          19 LNGQVLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMANGAVIHLALKERG   86 (86)
T ss_dssp             CSSCEEEEEECTTSBHHHHHHHHHHHTCCCTTTEEEEETTEEECTTSBHHHHTCCTTEEEEEEESCCC
T ss_pred             cCCeEEEEEECCCChHHHHHHHHHhhhcCChHHEEEEeCCcCcCCCCCHHHcCCCCCCEEEEEEecCC
Confidence            36788999999999999999999999999999999999999999999999999999999999999987

>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=99.48  E-value=3e-13  Score=78.63  Aligned_cols=73  Identities=14%  Similarity=0.077  Sum_probs=67.6

Q ss_pred             EEEEEEecCCC-EEEE-EEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           14 INLVVKGQDND-PLYF-EFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        14 I~i~v~~~~~~-~~~f-~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      +.|.|++.+|+ ...+ .+.+++++..|+...+++.|+|++.+||+|+|+.|.++.|..++++++|++|++++++
T Consensus         1 M~I~Vktl~Gk~t~~l~~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~y~I~~~sti~lv~r~   75 (76)
T d2faza1           1 MWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQLLVRQ   75 (76)
T ss_dssp             EEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTTTTTCCTTCEEEEEECC
T ss_pred             CEEEEEeCCCCcEEEEecCCCCCCHHHHHHHHHHHHCcChHHeEEEEeeEeccCCCcHHHcCCCCCCEEEEEEEc
Confidence            57888999996 5555 5999999999999999999999999999999999999999999999999999999876

>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=99.46  E-value=1.1e-13  Score=81.54  Aligned_cols=78  Identities=14%  Similarity=0.215  Sum_probs=71.1

Q ss_pred             CCCCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514            7 NIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus         7 ~~~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      ..|++..|+|.|++.+ ....|.|.++++...|++..+++.+++++.+||+|.|+.|.++.|..++|+++|++|+++++
T Consensus         4 ~~~~~~~i~v~Vk~~~-~~~~i~v~~~~tV~~lK~~I~~~~~v~~~~qrL~f~Gk~L~d~~tL~~~gI~~gs~I~lv~r   81 (83)
T d1wx8a1           4 REPSSRIIRVSVKTPQ-DCHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQRGILDGSTVHVVVR   81 (83)
T ss_dssp             SCCCSCEEEEEEECSS-SEEEEEEETTCCHHHHHHHHHHHTCSCTTTBCCEETTEECCTTSCHHHHTCCTTEEEECCBC
T ss_pred             CCCCCCeEEEEEEcCC-CcEEEEECCCChHHHHHHHHHHHhCCChhHEEEEEEhhccccCCcHHHcCCCCCCEEEEEEe
Confidence            4567788999999854 45689999999999999999999999999999999999999999999999999999998764

>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=99.44  E-value=6.9e-13  Score=76.24  Aligned_cols=73  Identities=10%  Similarity=0.129  Sum_probs=67.2

Q ss_pred             cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      .|+|.|++. ++.+.+.|.++++...|++..+++.|+|++.+|++|.|+.|.++.|..++++.+|++|+++.+|
T Consensus         1 si~I~Vk~~-~~~~~i~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~I~~g~~i~lV~~~   73 (73)
T d2bwfa1           1 SLNIHIKSG-QDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKSQ   73 (73)
T ss_dssp             EEEEEEEET-TEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECC
T ss_pred             CEEEEEEeC-CeEEEEEECCCChHHHHHHHHHHHHCcChHHeEEEECCeEccCCCcHHHCCCCCCCEEEEEeeC
Confidence            478888874 4567899999999999999999999999999999999999999999999999999999998764

>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=99.43  E-value=8.2e-13  Score=76.56  Aligned_cols=72  Identities=13%  Similarity=0.131  Sum_probs=68.6

Q ss_pred             EEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEE--CCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           15 NLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLI--NGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        15 ~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~f--dG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      .|+|+..+|+.+.+.|.++++...|+...+++.|+|++..|++|  .|+.|.++.|..++|+++|++|++++++
T Consensus         2 ~l~Vk~l~G~~~~v~V~~~~tV~~lK~~I~~~~gip~~~QrLi~~~~Gk~L~D~~tL~~y~i~~g~~i~lv~~~   75 (76)
T d1z2ma1           2 DLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVDK   75 (76)
T ss_dssp             EEEEEESSSCEEEEECCSSCCHHHHHHHHHHHHCCCGGGEEEEEETTCCBCCSSSCSGGGTCCTTCEEEEEECC
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhccCCccEEEEEcCCCeeccCCCcHHHcCCCCCCEEEEEEEC
Confidence            57888889999999999999999999999999999999999999  5999999999999999999999999876

>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=99.43  E-value=1.9e-13  Score=79.34  Aligned_cols=73  Identities=10%  Similarity=0.090  Sum_probs=68.3

Q ss_pred             cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhC---CCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514           13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKD---AQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g---~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      .|+|.|++.+|+.+.+.|.++++...|+...+++.|   ++++.+||+|.|+.|.++.|.+++++.+|++|.+++.
T Consensus         2 ~~~i~vk~l~g~~~~l~v~~~~TV~~lK~~i~~~~g~~~i~~~~qrLi~~Gk~L~D~~tL~~y~I~~~s~i~~~vs   77 (77)
T d1oqya4           2 AVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVT   77 (77)
T ss_dssp             CCCEEEEETTTEEEEECCCTTCBHHHHHHHHHHHTCSSSCCSTEEEEESSSSEECSSSBTTTTCCCTTSCEEEEEE
T ss_pred             cEEEEEECCCCCEEEEEECCCCcHHHHHHHHHHhcCCCCCChHHEEeEECCcCccCCCcHHHcCCCCCCEEEEEEC
Confidence            478889999999999999999999999999999987   7899999999999999999999999999999988763

>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=99.42  E-value=1.1e-12  Score=77.22  Aligned_cols=77  Identities=18%  Similarity=0.252  Sum_probs=70.1

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeec
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAG   87 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~   87 (89)
                      .+..|+|.|++.+ ....+.|.++.++..|++..+++.|++++.+|++|.|+.|.++.|.+++|+++|++|++++++.
T Consensus         4 ~~~~i~I~Vkt~~-~~~~~~V~~~~tV~~lK~~i~~~~gi~~~~qrL~~~Gk~L~D~~tL~~y~i~~gsti~lv~r~~   80 (84)
T d1yqba1           4 SPHLIKVTVKTPK-DKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIKRQ   80 (84)
T ss_dssp             CTTEEEEEEECSS-CEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBHHHHTCCTTCEEEEEECCC
T ss_pred             CCCEEEEEEEcCC-CcEEEEECCCCcHHHHHHHHHHHHCcCchhEEEEEeeeeccccCcHHHcCCCCCCEEEEEECCC
Confidence            3456999999864 4578999999999999999999999999999999999999999999999999999999987753

>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=99.40  E-value=8.1e-13  Score=81.90  Aligned_cols=78  Identities=5%  Similarity=-0.012  Sum_probs=71.0

Q ss_pred             CcEEEEEEe---cCCCEEEEEEec-cchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeec
Q 048514           12 HFINLVVKG---QDNDPLYFEFRR-DWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAG   87 (89)
Q Consensus        12 ~~I~i~v~~---~~~~~~~f~i~~-~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~   87 (89)
                      ..++|+|.-   .+|+.+.+.|.+ ++++..|+...+++.|+|++.+|++|.|+.|.++.|.+++++++|++|++.++.+
T Consensus        26 g~~ti~V~v~~~~~G~~i~l~v~~~sdtV~~lK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~ynI~~gsti~L~lr~r  105 (111)
T d1we6a_          26 GPATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAHYNVGAGEILTLSLRER  105 (111)
T ss_dssp             SCEEEEECCTTCSSSCCEEEEESCSSSBHHHHHHHHHHHTTCCTTTSEEECSSSBCCTTSBTTTTTCSSSCEEEEECSSC
T ss_pred             CCEEEEEEcccCCCCeEEEEEecCCccHHHHHHHHHHHHHCCCccceEEEEeeEEccccCCHHHcCCCCCCEEEEEeeCC
Confidence            345666653   358899999987 8999999999999999999999999999999999999999999999999999999


Q ss_pred             CC
Q 048514           88 GA   89 (89)
Q Consensus        88 GG   89 (89)
                      ||
T Consensus       106 GG  107 (111)
T d1we6a_         106 SG  107 (111)
T ss_dssp             CS
T ss_pred             CC
Confidence            98

>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=99.38  E-value=2.7e-12  Score=76.91  Aligned_cols=73  Identities=8%  Similarity=0.108  Sum_probs=67.4

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhC---CCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKD---AQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g---~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      +.|.|++.+|+.+.+.|.+++++..|++..+++.|   ++.+.+||+|.|+.|.++.|.+++++++|++|.+++.+
T Consensus         1 M~I~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~~~~i~~~~qrLi~~Gk~L~d~~tL~~y~I~~~s~i~lv~~~   76 (95)
T d1uela_           1 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKNFVVVMVTK   76 (95)
T ss_dssp             CEEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECCTTSBGGGGTCCSSSEEEEEESS
T ss_pred             CEEEEEeCCCCEEEEEECCCccHHHHHHHHHhhhcccCCCccceEEEECCeEccCCCcHHHcCCCCCCEEEEEECC
Confidence            46788888999999999999999999999998876   67899999999999999999999999999999998764

>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=99.38  E-value=2.5e-12  Score=74.58  Aligned_cols=72  Identities=14%  Similarity=0.048  Sum_probs=66.2

Q ss_pred             EEEEEEecCCC-EEEE-EEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514           14 INLVVKGQDND-PLYF-EFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        14 I~i~v~~~~~~-~~~f-~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      +.|.|+..+|+ ...+ .|.+++++..|+...+++.|+|.+.+||+|.|+.|.++.|..++++++|++|+++++
T Consensus         1 M~I~Vk~l~G~~t~~~~~v~~~~TV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~s~i~lv~r   74 (76)
T d1wy8a1           1 MWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDYDVGLNDIIQLLVR   74 (76)
T ss_dssp             EEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCCTTTEEEEETTEECCSSSBHHHHTCCTTCEEEEEEC
T ss_pred             CEEEEEeCCCCceEEEeccCCCChHHHHHHHHHHHHCCCchhcEEEEEeeEecCCCCHHHcCCCCCCEEEEEEc
Confidence            56888888885 5665 699999999999999999999999999999999999999999999999999999875

>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=99.36  E-value=6.5e-13  Score=76.40  Aligned_cols=72  Identities=13%  Similarity=0.139  Sum_probs=67.1

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      |.|.|++.+|+.+.+.|.++++...|+...+++.|+|++.+||+|.|+.|.++.|..++++ +|++|+++.++
T Consensus         1 m~I~Vk~~~g~~~~l~V~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~tL~dy~i-~~~ti~lv~r~   72 (73)
T d1wx9a1           1 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLVERA   72 (73)
T ss_dssp             EEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHCCCTTTCCCEETTEECCSSSBHHHHTC-TTEEEBCCCSS
T ss_pred             CEEEEEcCCCCEEEEEECCCChHHHHHHHHHHHhCCChHHEEEEECCeEccCCCCHHHhCC-CCCEEEEEecC
Confidence            6789999999999999999999999999999999999999999999999999999999999 57898876653

>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=99.31  E-value=1.1e-11  Score=77.27  Aligned_cols=74  Identities=16%  Similarity=0.092  Sum_probs=67.7

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHH--------HhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEE
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITY--------CEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIV   81 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y--------~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Id   81 (89)
                      +...|+|+|+..+|+...|.|.++++...|++.+        +++.+++++.+|++|.|+.|.++.|..++++.+|+++.
T Consensus        13 ~~~~i~i~v~~l~Gk~~~~~v~p~~TV~~lK~~I~~~~p~~~~e~~~~~~~~qRLiy~Gk~L~D~~tL~~~~i~~g~~~~   92 (116)
T d1wgha_          13 PADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTTV   92 (116)
T ss_dssp             CSSSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTCCSSCEEE
T ss_pred             CCCeEEEEEEEcCCCEEEEEECCcchHHHHHHHHHhhcccccccccCCChHHeEEEECCEEecCCCCHHHcCCCCCCEEE
Confidence            4578999999999999999999999999999999        57788999999999999999999999999999999854


Q ss_pred             EE
Q 048514           82 AT   83 (89)
Q Consensus        82 v~   83 (89)
                      +.
T Consensus        93 lh   94 (116)
T d1wgha_          93 MH   94 (116)
T ss_dssp             EE
T ss_pred             EE
Confidence            43

>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=99.28  E-value=3.9e-11  Score=73.18  Aligned_cols=77  Identities=9%  Similarity=0.086  Sum_probs=69.3

Q ss_pred             CCCcEEEEEEecCCCEE-EEEEeccchHHHHHHHHHhh-----hCCC--CCcEeEEECCeecCCCCCccccCCCCCC---
Q 048514           10 DQHFINLVVKGQDNDPL-YFEFRRDWEIKKLLITYCEK-----KDAQ--YGTFPFLINGNRFPHIRTPDQLGLKDGD---   78 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~-~f~i~~~t~l~kL~~~y~~~-----~g~~--~~~~rF~fdG~~l~~~~Tp~~l~medgD---   78 (89)
                      -.+.|.|+++..+|+.+ .|.|.++++...|++..++.     .|+|  ++.+||+|.|+.|.++.|..++++.+|+   
T Consensus         4 ~~~~i~I~~r~~~G~~i~~~~v~~s~TV~~lK~~I~~~~~~~k~~iP~~~~~qRLIf~Gk~L~D~~tL~dy~i~~g~~~~   83 (101)
T d1se9a_           4 VHNQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVSNLAG   83 (101)
T ss_dssp             SCCCEEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCTTSCTT
T ss_pred             ccceEEEEEEeCCCCeecceecCccCHHHHHHHHHHHhccccccCCCCCcccEEEEECCeEecCCCCHHHcCCCCCCcCC
Confidence            45689999999999988 59999999999999999765     5676  7899999999999999999999999999   


Q ss_pred             ---EEEEEeee
Q 048514           79 ---EIVATFYA   86 (89)
Q Consensus        79 ---~Idv~~~q   86 (89)
                         +++++++.
T Consensus        84 ~~~tmHlVvrp   94 (101)
T d1se9a_          84 AVTTMHVIIQA   94 (101)
T ss_dssp             CCEEEEEEECC
T ss_pred             CceEEEEEeCC
Confidence               89998865

>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=99.27  E-value=1.3e-11  Score=75.22  Aligned_cols=77  Identities=13%  Similarity=0.126  Sum_probs=67.3

Q ss_pred             CcEEEEE----EecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecC-CCCCccccCCCCCCEEEEEeee
Q 048514           12 HFINLVV----KGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFP-HIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        12 ~~I~i~v----~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~-~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      .-++|.|    ++.++..+.+.|.+++++..|+...+.+.|++.+.+|++|+|+.|. ++.|.+++|+++||+|.++.+.
T Consensus         6 ~~m~itV~~~~~~~~~~t~~l~V~~~~tV~~LK~~Ie~~~gip~~~Q~Li~~Gk~L~dd~~tL~~~gI~~g~~i~l~~r~   85 (102)
T d1v5oa_           6 SGMLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVLLQKD   85 (102)
T ss_dssp             CCEEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTCCCGGGBCEEETTEEECCSSSBHHHHTCCTTEEEEECBCC
T ss_pred             CCEEEEEEecccCCCCCEEEEEECCcccHHHHHHHHHHHhCCCcceEEEEeCCeEeecccCCHHHcCCCCCCEEEEEECC
Confidence            4566777    4556788999999999999999999999999999999999999996 5679999999999999987665


Q ss_pred             cC
Q 048514           87 GG   88 (89)
Q Consensus        87 ~G   88 (89)
                      .+
T Consensus        86 ~~   87 (102)
T d1v5oa_          86 NV   87 (102)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>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=99.21  E-value=3e-11  Score=72.64  Aligned_cols=75  Identities=11%  Similarity=0.030  Sum_probs=67.9

Q ss_pred             CCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514            9 PDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus         9 ~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   84 (89)
                      +....|+|+|+..++....+.|.++.++..|++..++..|++++..||+|.|+.|.+ +|..++++.+|++|.++.
T Consensus         3 s~s~~~~I~VK~~~~~~~~v~v~~~~tV~~lK~~i~~~~gvp~~~QkLi~~Gk~L~d-~tL~~~gi~~g~~i~lv~   77 (96)
T d1wgga_           3 SGSSGYSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKD-DDWGNIKMKNGMTVLMMG   77 (96)
T ss_dssp             SCCCEEEEEEEETTEEEEEEEEESSSCHHHHHHHHHHHTCCCTTTSCCEETTEECCS-SCCCSCCCCSSCEEECCC
T ss_pred             CCCCceEEEEEeCCCCEEEEEECCCCcHHHHHHHhhhhcCccceeeEEeecCcccCC-CcHHHCCCCCCCEEEEEe
Confidence            456789999998767666899999999999999999999999999999999999986 589999999999998863

>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=99.19  E-value=1e-10  Score=70.35  Aligned_cols=76  Identities=17%  Similarity=0.130  Sum_probs=67.6

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecC-CCCCccccCCCCCCEEEEEeeecC
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFP-HIRTPDQLGLKDGDEIVATFYAGG   88 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~-~~~Tp~~l~medgD~Idv~~~q~G   88 (89)
                      ....|+|+|++.++....+.|.+++++..|+....   .++.+.+||+|.|+.|. +..|..+++++||++|++++.+-+
T Consensus         4 ~~s~m~i~vK~l~~~~~~v~v~~~~TV~~lK~~i~---~~~~~~qrLi~~Gk~L~dd~~tL~~y~i~~g~~v~l~~~~~~   80 (95)
T d1wiaa_           4 GSSGINVRLKFLNDTEELAVARPEDTVGTLKSKYF---PGQESQMKLIYQGRLLQDPARTLSSLNITNNCVIHCHRSPPG   80 (95)
T ss_dssp             CCCSEEEEEEETTTEEEEEEECSSSBHHHHHHHHS---SSTTTTCEEEETTEECCCSSCBTTTTTCCTTEEEEEECCCCC
T ss_pred             CCCcEEEEEEcCCCCEEEEEECCcCcHHHHHHHHh---cCCcceeEEEECCEEcccCCCCHHHcCCCCCCEEEEEEcCCC
Confidence            45689999999999999999999999999997664   56789999999999997 568999999999999999987654

>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=99.16  E-value=4.6e-11  Score=72.50  Aligned_cols=74  Identities=14%  Similarity=0.087  Sum_probs=65.4

Q ss_pred             cEEEEEE--ecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514           13 FINLVVK--GQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        13 ~I~i~v~--~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      .|.|.+.  ...++.+.+.|+.+++...|++..+++.|++++.++++|.|+.|.++.|.+++++.+|++|.|+..+
T Consensus        17 ti~V~~~~~~~~g~~~~lev~~~~TV~~LK~~I~~~~gi~~~~qkLi~~Gk~L~d~~tL~~~gI~~~s~i~vi~~~   92 (100)
T d1wjua_          17 TIEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEEQGVAHNVKAMVLELK   92 (100)
T ss_dssp             EEEEECCTTTCCSSSEEEEEESSSBHHHHHHHHHHHTTCCSTTCEEEETTEECCTTSBHHHHTCCSSEEEEEECCC
T ss_pred             EEEEEEeeccCCCeEEEEEECCCcHHHHHHHHHHHHHCCCCeeEEEEEcccCcCCCcCHHHcCCCCCCEEEEEEcC
Confidence            4555542  2357889999999999999999999999999999999999999999999999999999999887644

>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=99.14  E-value=5.7e-11  Score=71.31  Aligned_cols=78  Identities=10%  Similarity=0.061  Sum_probs=71.0

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      ..+.|.|+|.. +++.+.+.|.+++++..|++..++..|+|+++++++|.|. +.++.|..++++.+|++|.++....+|
T Consensus        14 ~~~~i~v~V~~-~~k~~~i~v~~~~TV~~LK~~I~~~tgvp~~~q~Li~~g~-l~D~~tL~~~~I~~gs~i~lvgs~~~g   91 (95)
T d1v86a_          14 GKELVDLKIIW-NKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGL-VPEDKTLREIKVTSGAKIMVVGSTISG   91 (95)
T ss_dssp             CCCCEEEEEEE-TTEEEEEEECTTSBHHHHHHHHHHHHCSCSTTCCCBSSSB-CCSSSBHHHHCCCTTEEEEECCSSCCC
T ss_pred             CccEEEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEeccc-ccCCCcHHHCCCCCCCEEEEEecCCCC
Confidence            44679999984 7888899999999999999999999999999999999996 899999999999999999998776654

>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=99.14  E-value=2.6e-11  Score=74.07  Aligned_cols=77  Identities=9%  Similarity=0.043  Sum_probs=69.5

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEe---------------EEECCeecCCC-CCccccC
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFP---------------FLINGNRFPHI-RTPDQLG   73 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~r---------------F~fdG~~l~~~-~Tp~~l~   73 (89)
                      ...-|+|.|+..+|+.+.+.|.++.++..|+...+++.+++++..|               ++|.|+.|.++ .|..+++
T Consensus         4 gss~M~v~Vk~~~G~~~~v~V~~~~TV~~LK~~I~~~~~ip~~~Qr~~~~~~~~~~~~~~~Li~~G~~L~d~~~tL~~~g   83 (105)
T d1v2ya_           4 GSSGMTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKLRDYG   83 (105)
T ss_dssp             CCCSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSBHHHHT
T ss_pred             CCCcEEEEEEeCCCCEEEEEECCCChHHHHHHHHHHHHCcCHHHhcccccccccccccceEEEECCEECcccCCCHHHcC
Confidence            4567999999999999999999999999999999999999877654               99999999765 5999999


Q ss_pred             CCCCCEEEEEeee
Q 048514           74 LKDGDEIVATFYA   86 (89)
Q Consensus        74 medgD~Idv~~~q   86 (89)
                      +++||+|+++.++
T Consensus        84 I~~g~~l~lv~r~   96 (105)
T d1v2ya_          84 IRNRDEVSFIKKL   96 (105)
T ss_dssp             CCSSEEEEEEECS
T ss_pred             CCCCCEEEEEEec
Confidence            9999999998765

>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=99.04  E-value=8.5e-10  Score=66.24  Aligned_cols=74  Identities=9%  Similarity=0.199  Sum_probs=64.6

Q ss_pred             CCCcEEEEEEec---CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecC--------CCCCccccCCCCCC
Q 048514           10 DQHFINLVVKGQ---DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFP--------HIRTPDQLGLKDGD   78 (89)
Q Consensus        10 ~~~~I~i~v~~~---~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~--------~~~Tp~~l~medgD   78 (89)
                      ....|+|+|...   +++.+..+|.++.++..|+...++..|+|.+.+|++|.|.+..        ++.|..+++++||+
T Consensus         6 s~~~iti~i~~~~~~~~~~~~~kv~~~~TV~~LK~~i~~~~gip~~~qrL~y~~~~~~~~~~~l~~d~~tL~~YgI~dg~   85 (97)
T d1wjna_           6 SGQLLTLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSKMPGREIELENDLQPLQFYSVENGD   85 (97)
T ss_dssp             SSCEEEEEEEESSCSSSCCEEEEEETTSBHHHHHHHHHTTTTCCTTTCEEEEECTTSCSCEEECCCSSSBSGGGTCCTTC
T ss_pred             CCCeEEEEEEeCCCCCCceEEEEcCCCCCHHHHHHHHHHHHCcChHHeEEEecCCCCCcccceecCCCcCHhhccCCCCC
Confidence            346788888864   3567899999999999999999999999999999999887533        68899999999999


Q ss_pred             EEEEE
Q 048514           79 EIVAT   83 (89)
Q Consensus        79 ~Idv~   83 (89)
                      +|.|.
T Consensus        86 ~I~V~   90 (97)
T d1wjna_          86 CLLVR   90 (97)
T ss_dssp             EEEEE
T ss_pred             EEEEE
Confidence            99985

>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=98.97  E-value=2.1e-09  Score=62.55  Aligned_cols=72  Identities=13%  Similarity=0.139  Sum_probs=61.8

Q ss_pred             EEEEEEecCCCEEEEEE-----eccchHHHHHHHHHhhhCCCCCcEeEEECCeecC-CCCCccccCCCCCCEEEEEeee
Q 048514           14 INLVVKGQDNDPLYFEF-----RRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFP-HIRTPDQLGLKDGDEIVATFYA   86 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i-----~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~-~~~Tp~~l~medgD~Idv~~~q   86 (89)
                      |+|.|.. .+....+.|     ..+++++.|++..++..|+|++.++++|.|+.|. ++.|..++++.+|+.|.++.+.
T Consensus         2 i~i~V~~-~~~~~~i~v~~~~~~~~~Tv~~LK~~I~~~tgvp~~~QkL~~~G~~L~~d~~tL~~~gi~~g~~i~lv~~~   79 (81)
T d1wxva1           2 LTVTVTH-SNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLIGKK   79 (81)
T ss_dssp             EEEEEEC-SSSEEEEEECCCSSSSSCBHHHHHHHHHHHTCCCTTTCEEEETTEEECCSSSBHHHHTCCSSEEEEEESCC
T ss_pred             EEEEEEE-CCeeEEEEEecCCCCCccHHHHHHHHHHHHHCcCHHHEEeeecCeEeCcCCCChHHCCCCCCCEEEEEEec
Confidence            6777764 456666666     4688999999999999999999999999999996 5689999999999999987654

>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=98.96  E-value=3e-09  Score=63.43  Aligned_cols=79  Identities=11%  Similarity=0.106  Sum_probs=66.1

Q ss_pred             CCCcEEEEEEecCCC--EEEEEEeccchHHHHHHHHHhhhC--CCCCcEeEEECCeecCCCCCccccCC--CCCCEEEEE
Q 048514           10 DQHFINLVVKGQDND--PLYFEFRRDWEIKKLLITYCEKKD--AQYGTFPFLINGNRFPHIRTPDQLGL--KDGDEIVAT   83 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~--~~~f~i~~~t~l~kL~~~y~~~~g--~~~~~~rF~fdG~~l~~~~Tp~~l~m--edgD~Idv~   83 (89)
                      .+..|+|.|++.++.  .+.+.+.++++...|++..+++.+  ++++.+|++|.|+.|.++.|..++..  +++.+|+++
T Consensus         4 gs~~i~l~Ik~~~~~~~~~~~~v~~~~TV~~LK~~I~~~~~~~~~~~~qrLIy~Gk~L~D~~~L~d~~~~~~~~~viHLV   83 (93)
T d1wgda_           4 GSSGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDLLPKQEKRHVLHLV   83 (93)
T ss_dssp             CSCCCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECCSSSCHHHHSCSSSCSEEEEEE
T ss_pred             CCCcEEEEEECCCCCceeEEEEcCCCCcHHHHHHHHHHHcCCCCChHHEEEEECCeEccCCCCHHHhCcccCCCCEEEEE
Confidence            445688888887654  578999999999999999999975  78999999999999999999999865  445599988


Q ss_pred             eeecC
Q 048514           84 FYAGG   88 (89)
Q Consensus        84 ~~q~G   88 (89)
                      .....
T Consensus        84 ~~~~~   88 (93)
T d1wgda_          84 CNVKS   88 (93)
T ss_dssp             CCCCC
T ss_pred             ecCCC
Confidence            76543

>d2c9wb1 d.15.1.1 (B:2-104) Elongin B {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Elongin B
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.89  E-value=7.5e-09  Score=62.95  Aligned_cols=74  Identities=8%  Similarity=0.084  Sum_probs=62.2

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCC-------EEEEEeee
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGD-------EIVATFYA   86 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD-------~Idv~~~q   86 (89)
                      |.|+++. .+..+.+.|.+++++..|+...+++.|++.+.+||+|.|+.|.++.|..++|+.+++       .+...+..
T Consensus         2 ifv~i~~-~k~Ti~l~v~~~~TV~~lK~~I~~~~gip~~~QrLi~~Gk~L~D~~TL~dYgI~~~~~~~~~~~~~~l~~~~   80 (103)
T d2c9wb1           2 VFLMIRR-HKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAFRA   80 (103)
T ss_dssp             EEEEEEE-BTEEEEEEECTTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBHHHHTCCTTTSBTTBCEEEEEEEEE
T ss_pred             EEEEEeC-CCEEEEEEeCCCCcHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCcccccccCCcEEEEEEec
Confidence            5666664 455678999999999999999999999999999999999999999999999997765       45555444


Q ss_pred             cC
Q 048514           87 GG   88 (89)
Q Consensus        87 ~G   88 (89)
                      .|
T Consensus        81 ~~   82 (103)
T d2c9wb1          81 DD   82 (103)
T ss_dssp             TT
T ss_pred             CC
Confidence            43

>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=98.88  E-value=2.1e-09  Score=63.50  Aligned_cols=75  Identities=13%  Similarity=0.031  Sum_probs=65.9

Q ss_pred             CCCcEEEEEEecCCCEEEE-EEeccchHHHHHHHHHhhhCCCCCcEeEE---ECCeecCCCCCccccCCCCCCEEEEEee
Q 048514           10 DQHFINLVVKGQDNDPLYF-EFRRDWEIKKLLITYCEKKDAQYGTFPFL---INGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f-~i~~~t~l~kL~~~y~~~~g~~~~~~rF~---fdG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      .+..|.|.|+. .|+...+ .|.+++++..|++..+++.|+|++.+|++   |.|+.+.++.|..++++.+|++|.++..
T Consensus         4 ~s~~~~i~Vk~-~~~~~~i~~v~~~~tV~~LK~~i~~~t~vp~~~QkLi~~~~~Gk~L~D~~tL~~~~i~~g~~i~lv~s   82 (90)
T d1v5ta_           4 GSSGLPIIVKW-GGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLGALKLKPNTKIMMMGT   82 (90)
T ss_dssp             CCCSCCEEEEE-TTEEEEECSCCSSSBHHHHHHHHHHHTCCCTTTCEEESCEETTEECCTTSBHHHHTCCTTEEEEEECC
T ss_pred             CCCcEEEEEEE-CCeEEEEEEeCCCCcHHHHHHHHHHHHcCCHHHhhhhhhccCCcCCCCcCcHHHcCCCCCCEEEEEee
Confidence            45567777875 5666666 59999999999999999999999999999   6999999999999999999999998754

>d1v6ea_ d.15.1.1 (A:) Ubiquitin-like domain of tubulin folding cofactor B {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 tubulin folding cofactor B
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.76  E-value=2.8e-08  Score=59.29  Aligned_cols=76  Identities=8%  Similarity=-0.029  Sum_probs=66.2

Q ss_pred             CCcEEEEEEec-CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCe-------ecCCCCCccccCCCCCCEEEE
Q 048514           11 QHFINLVVKGQ-DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN-------RFPHIRTPDQLGLKDGDEIVA   82 (89)
Q Consensus        11 ~~~I~i~v~~~-~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~-------~l~~~~Tp~~l~medgD~Idv   82 (89)
                      +.-|.|.|.+. ++.....++.++.++..|++......|+|++++|++|.|.       .+.++.|..+++++||++|+|
T Consensus         5 ss~v~v~I~s~~~~~~~E~r~~~~~TV~~LK~kle~~tGip~~~qrL~~~~~~~~~~~~l~~d~~~L~~y~i~dg~~ihl   84 (95)
T d1v6ea_           5 SSGVMVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQEDALLGSYPVDDGCRIHV   84 (95)
T ss_dssp             CCCEEEEEEETTSSSCEEEEECTTSBHHHHHHHHHHHTCSCTTTCBCEEECSSSCEEEECCCSSSBTTSSSCCTTCEEEE
T ss_pred             CCcEEEEEEECCCCcEEEEEeCCCCCHHHHHHHHHHHhCcCchhEEEEEeCCCCceeecccCCcCCHHHCCCCCCCEEEE
Confidence            45688888873 5556789999999999999999999999999999999887       477888999999999999999


Q ss_pred             Eeee
Q 048514           83 TFYA   86 (89)
Q Consensus        83 ~~~q   86 (89)
                      +...
T Consensus        85 vd~~   88 (95)
T d1v6ea_          85 IDHS   88 (95)
T ss_dssp             BCCS
T ss_pred             EeCC
Confidence            8654

>d1t0ya_ d.15.1.1 (A:) Ubiquitin-like domain of tubulin folding cofactor B {Nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of tubulin folding cofactor B
species: Nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=98.74  E-value=8e-08  Score=56.64  Aligned_cols=76  Identities=13%  Similarity=0.163  Sum_probs=63.7

Q ss_pred             CcEEEEEEec-CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCe-------ecCCCCCccccCCCCCCEEEEE
Q 048514           12 HFINLVVKGQ-DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGN-------RFPHIRTPDQLGLKDGDEIVAT   83 (89)
Q Consensus        12 ~~I~i~v~~~-~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~-------~l~~~~Tp~~l~medgD~Idv~   83 (89)
                      +.+.|.|.+. .+..+..++.++.++..|+.......|+|++.++++|-|.       ...++.|..+++++||.+|+|+
T Consensus         3 ~~~~l~it~~~t~~~~E~r~~~~~TV~~LK~kle~~~Gip~~~q~L~~~~~~~~~~~~l~dd~~~L~~ygi~dG~~Ihvv   82 (90)
T d1t0ya_           3 EVYDLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRIHAV   82 (90)
T ss_dssp             CEEEEEEEESSCCSCEEEEEETTSBHHHHHHHHHHHHCCCTTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSEEEEEE
T ss_pred             cEEEEEEEECCCccEEEEecCCCCCHHHHHHHHHHHHCCChhheEEEEeCCCCCcccccccCCCCHHHCCCCCCCEEEEE
Confidence            4577888763 3456789999999999999999999999999999999876       3557889999999999999994


Q ss_pred             eeecC
Q 048514           84 FYAGG   88 (89)
Q Consensus        84 ~~q~G   88 (89)
                       ...|
T Consensus        83 -d~~~   86 (90)
T d1t0ya_          83 -DVTG   86 (90)
T ss_dssp             -ECTT
T ss_pred             -eCCC
Confidence             3443

>d1x1ma1 d.15.1.1 (A:8-101) Ubiquitin-like protein 7 {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 7
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.39  E-value=3.9e-07  Score=54.34  Aligned_cols=53  Identities=15%  Similarity=0.169  Sum_probs=47.5

Q ss_pred             cchHHHHHHHHHhhhC--C-CCCcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514           33 DWEIKKLLITYCEKKD--A-QYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        33 ~t~l~kL~~~y~~~~g--~-~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   85 (89)
                      +++...|++..+++..  + +++.+|++|.|+.|.++.|..++++++|++|+++.+
T Consensus        37 ~~tV~~lK~~i~~~~~~~~P~p~~~rLIy~Gk~L~D~~tL~~y~I~~gstihLV~r   92 (94)
T d1x1ma1          37 GYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQTLDFYGIQPGSTVHVLRK   92 (94)
T ss_dssp             CCBHHHHHHHHHHHCTTTCCCSSSEEEEETTEECCTTCBHHHHTCCTTCEEEEEES
T ss_pred             ccCHHHHHHHHHHHcccCCCChhheEEEECCeEECCCccHHHcCCCCCCEEEEEEe
Confidence            5679999999998864  3 368999999999999999999999999999999865

>d2al3a1 d.15.1.2 (A:10-85) Tether containing UBX domain for GLUT4 (Tug) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: Tether containing UBX domain for GLUT4 (Tug)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.14  E-value=6.3e-06  Score=47.22  Aligned_cols=69  Identities=7%  Similarity=0.044  Sum_probs=65.2

Q ss_pred             EEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514           16 LVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus        16 i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   84 (89)
                      +.|.+.+|+...+++.|+++|..+.+.-|+++|++.+...+.|.++.|+.+..-.-.||-+|..+|.+.
T Consensus         3 V~Vl~~~~rR~~VKvtP~t~l~~VL~eaC~k~~~~~~~~~Lkh~~k~ldLsl~~R~sgLpnnakLELv~   71 (76)
T d2al3a1           3 VSVLAPNGRRHTVKVTPSTVLLQVLEDTCRRQDFNPSEYDLKFQRTVLDLSLQWRFANLPNNAKLEMVP   71 (76)
T ss_dssp             EEEECTTSCEEEECCCTTSBHHHHHHHHHHHTTCCGGGCEEEETTEEESSSCBHHHHCCCSSCEEEEEC
T ss_pred             EEEECCCCcEEEEEeCCCcCHHHHHHHHHHHhCCChhHceeeeCCEEcCccceeeecCCCCCCEEEEEE
Confidence            567889999999999999999999999999999999999999999999999999999999999988764

>d2cr5a1 d.15.1.2 (A:8-103) UBX domain-containing protein 6 (Reproduction 8) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: UBX domain-containing protein 6 (Reproduction 8)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.15  E-value=0.0022  Score=36.90  Aligned_cols=75  Identities=9%  Similarity=0.111  Sum_probs=58.1

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECC--eecC--CCCCccccCCCCCCEEEEEee
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLING--NRFP--HIRTPDQLGLKDGDEIVATFY   85 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG--~~l~--~~~Tp~~l~medgD~Idv~~~   85 (89)
                      ..+.++|.|+-.+|..+.-+...+++++.|++. .+..+.....++++..-  ..+.  .+.|.+++|+....++.|.-.
T Consensus        13 ~~~~~~i~iRlPdG~r~~r~F~~~dtl~~l~~f-v~~~~~~~~~f~l~~~~Pr~~~~~d~~~TL~e~gl~p~~~L~v~~~   91 (96)
T d2cr5a1          13 AEEVVTVALRCPNGRVLRRRFFKSWNSQVLLDW-MMKVGYHKSLYRLSTSFPRRALEVEGGSSLEDIGITVDTVLNVEEK   91 (96)
T ss_dssp             CSSEEEEEEECTTSCEEEEEEESSSBTHHHHHH-HHHHTCCTTTEEEECSSSCCBCCCCSSCBHHHHTCSSCEEEEEEEC
T ss_pred             CCCeEEEEEECCCCCEEEEEECCcccHHHHHHH-HHHhccCcccceeecCCCceecCccCCCcHHHCCCCCCCEEEEecC
Confidence            446799999999999998899999999999964 45556666777777653  4443  367999999999988877543

>d1h8ca_ d.15.1.2 (A:) Fas-associated factor 1, Faf1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: Fas-associated factor 1, Faf1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.93  E-value=0.0073  Score=33.73  Aligned_cols=72  Identities=8%  Similarity=0.073  Sum_probs=57.7

Q ss_pred             CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC--CeecC---CCCCccccCCCCCCEEEEEe
Q 048514           12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN--GNRFP---HIRTPDQLGLKDGDEIVATF   84 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l~---~~~Tp~~l~medgD~Idv~~   84 (89)
                      +..+|.|+-.+|..+.-+...+++++.|++.... .+.+...+.|+-.  .+.+.   .+.|.+++|+-...++.|-.
T Consensus         4 ~~~~i~iRlPdG~~~~~~F~~~~tl~~v~~~v~~-~~~~~~~~~l~~~~Pr~~l~~~d~~~TL~e~gL~p~~~L~vq~   80 (82)
T d1h8ca_           4 PVSKLRIRTPSGEFLERRFLASNKLQIVFDFVAS-KGFPWDEYKLLSTFPRRDVTQLDPNKSLLEVKLFPQETLFLEA   80 (82)
T ss_dssp             CCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHH-HTCCSSSEEEEETTTTEETTTCCTTSBHHHHCCCSEEEEEEEE
T ss_pred             CcEEEEEECCCCCEEEEEECCCCcHHHHHHHHHh-cCCCCCceEEEecCcccccccccccCCHHHCCCCCCCEEEEEe
Confidence            4567888889999999999999999999987765 4777777877754  55564   46799999999998887654

>d1i42a_ d.15.1.2 (A:) p47 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: p47
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.92  E-value=0.0085  Score=34.08  Aligned_cols=70  Identities=11%  Similarity=0.174  Sum_probs=55.8

Q ss_pred             CCCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhh-hCCCCCcEeEEEC--Ceec-CCCCCccccCCCCC
Q 048514            8 IPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEK-KDAQYGTFPFLIN--GNRF-PHIRTPDQLGLKDG   77 (89)
Q Consensus         8 ~~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~-~g~~~~~~rF~fd--G~~l-~~~~Tp~~l~medg   77 (89)
                      .++.+..+|.|+..||..+..++..+++++.|++..... .+.+...+.|.-.  -+.+ ..+.|.+++||.+.
T Consensus         9 de~~p~t~I~iRlPdG~~~~~~F~~~~tl~dv~~~v~~~~~~~~~~~f~L~t~~Prr~l~d~~~TL~e~gL~~s   82 (89)
T d1i42a_           9 NEAEPTTNIQIRLADGGRLVQKFNHSHRISDIRLFIVDARPAMAATSFVLMTTFPNKELADENQTLKEANLLNA   82 (89)
T ss_dssp             CTTSCCEEEEEEETTTCCEEEEECSSSCGGGHHHHHHHHCTTTSSCCEEEEETTTTEECCCCSSCSGGGTTCCS
T ss_pred             CCCCCcEEEEEEcCCCCEEEEEECCchhHHHHHHHHHHhCccCCCCCEEEecCCCCcccCCCcCcHHHCCCcCc
Confidence            345567889999999999999999999999999887654 3667778888876  3445 35889999999965

>d1wf9a1 d.15.1.1 (A:8-101) NPL4-like protein 1 {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: NPL4-like protein 1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=96.91  E-value=0.00091  Score=39.23  Aligned_cols=69  Identities=12%  Similarity=0.101  Sum_probs=53.2

Q ss_pred             EEEEEecCCCEEEEEE-eccchHHHHHHHHHhhhCCCCCcEeEEEC-C-------------eecC-CCCCccccCCCCCC
Q 048514           15 NLVVKGQDNDPLYFEF-RRDWEIKKLLITYCEKKDAQYGTFPFLIN-G-------------NRFP-HIRTPDQLGLKDGD   78 (89)
Q Consensus        15 ~i~v~~~~~~~~~f~i-~~~t~l~kL~~~y~~~~g~~~~~~rF~fd-G-------------~~l~-~~~Tp~~l~medgD   78 (89)
                      -|+|++.+|.+ .+.| .+..+++.|.+..++..++|....++..| |             ..+. +..+.++|++++|.
T Consensus         2 iiRiRsrdG~e-Rv~v~~~~~Tl~~LK~~Ie~~L~VPv~~Q~LSl~~~llL~k~P~~~~~~~~l~d~~~~L~sl~i~hGs   80 (94)
T d1wf9a1           2 MLRVRSRDGLE-RVSVDGPHITVSQLKTLIQDQLQIPIHNQTLSTNRNLLLAKSPSDFLAFTDMADPNLRISSLNLAHGS   80 (94)
T ss_dssp             EEEEECSSCEE-EEEECCTTSBHHHHHHHHHHHSCCCTTTCCCBSSGGGGTCCSHHHHTTCCSSCCTTCBGGGTCCCTTC
T ss_pred             eEEEEecCCce-EEEecCCCCcHHHHHHHHHHHhCCCcccceeecChhhhccCCccccchhhhccCCccCHHHcCccCce
Confidence            37888888865 5667 44689999999999999999998888654 1             1233 34568899999999


Q ss_pred             EEEEEe
Q 048514           79 EIVATF   84 (89)
Q Consensus        79 ~Idv~~   84 (89)
                      +|.+..
T Consensus        81 ivyL~y   86 (94)
T d1wf9a1          81 MVYLAY   86 (94)
T ss_dssp             EEECCC
T ss_pred             EEEEEe
Confidence            997653

>d1wj4a_ d.15.1.2 (A:) Hypothetical protein KIAA0794 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: Hypothetical protein KIAA0794
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.52  E-value=0.019  Score=34.44  Aligned_cols=72  Identities=14%  Similarity=0.126  Sum_probs=55.5

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC--Ceec---CCCCCccccCCCCCCEEEE
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN--GNRF---PHIRTPDQLGLKDGDEIVA   82 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l---~~~~Tp~~l~medgD~Idv   82 (89)
                      ..+..+|.|+-.||..+.-+...+++++.|++.... .+.....++|+..  -+.+   ..+.|.+++||-...+|.|
T Consensus        40 ~~p~~~l~iRlPdG~r~~r~F~~~~tl~~l~~~v~~-~~~~~~~~~L~~~fPr~~l~~~d~~~TL~e~gL~P~~~L~v  116 (124)
T d1wj4a_          40 NGPKAQLMLRYPDGKREQITLPEQAKLLALVKHVQS-KGYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFV  116 (124)
T ss_dssp             SSCEEEEEEECTTSCEEEEEEETTSCHHHHHHHHHH-HHCCTTTEEEECSSSCCEETSSCSSSCTTTTTCCSSBCCEE
T ss_pred             CCCceEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cccCCcceEEeecccccccccccccCcHHHcCCCCCCEEEE
Confidence            345688888889999999999999999999877644 4556677877764  3444   3467999999998888744

>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=94.86  E-value=0.024  Score=32.82  Aligned_cols=57  Identities=18%  Similarity=0.302  Sum_probs=43.6

Q ss_pred             EEEEeccchHHHHHHHHHhhh--CCCCCcEeEEECCee--cC--------------CCCCccccCCCCCCEEEEE
Q 048514           27 YFEFRRDWEIKKLLITYCEKK--DAQYGTFPFLINGNR--FP--------------HIRTPDQLGLKDGDEIVAT   83 (89)
Q Consensus        27 ~f~i~~~t~l~kL~~~y~~~~--g~~~~~~rF~fdG~~--l~--------------~~~Tp~~l~medgD~Idv~   83 (89)
                      .+.|.++.+|+.|.+.+|++.  .+..=+++...+|..  |.              -..|..+||+.||++|.|.
T Consensus         4 ~l~~~~~~TL~~li~~L~e~p~~qlk~Psltt~~~g~~ktLYm~~pp~Lee~Tr~NL~k~L~eLgl~dG~ei~Vt   78 (92)
T d1y8xb1           4 NIQFSPSAKLQEVLDYLTNSASLQMKSPAITATLEGKNRTLYMQSVTSIEERTRPNLSKTLKELGLVDGQELAVA   78 (92)
T ss_dssp             CEECCTTCBHHHHHHHHHHCTTCCCSSCEEEEEETTEEEEEECSSCHHHHHHHHHHHHSBSGGGTCCTTCEEEEE
T ss_pred             eEEcCCCCcHHHHHHHHhhChHhhccCCceeeecCCCccEEEecCcHHHHHHhhhccccCHHHhCCcCCCEEEEe
Confidence            467889999999999999974  444556777777763  22              2356679999999999874

>d1ip9a_ d.15.2.2 (A:) Bud emergence mediator Bemp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: CAD & PB1 domains
family: PB1 domain
domain: Bud emergence mediator Bemp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.71  E-value=0.091  Score=29.42  Aligned_cols=48  Identities=13%  Similarity=0.131  Sum_probs=40.0

Q ss_pred             CCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC
Q 048514            9 PDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN   59 (89)
Q Consensus         9 ~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd   59 (89)
                      .+...|+||+.. ++..+.|+|.++.++..|.+..++++++  +.+++.|-
T Consensus         8 ~~~~~ikVKv~~-~~D~~~~~l~~~it~~dL~~kI~~rf~~--~~~~lkY~   55 (85)
T d1ip9a_           8 SGLKTTKIKFYY-KDDIFALMLKGDTTYKELRSKIAPRIDT--DNFKLQTK   55 (85)
T ss_dssp             CCCCCEEEEECB-TTCCEEEEECSCCCHHHHHHHHHHHHTS--SCEEEEEC
T ss_pred             CCCCCEEEEEEE-CCcEEEEEeCCCCCHHHHHHHHHHHhCC--CceEEEEE
Confidence            356789999874 6778899999999999999999999975  45777773

>d1wxma1 d.15.1.5 (A:8-80) A-Raf proto-oncogene serine/threonine-protein kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ras-binding domain, RBD
domain: A-Raf proto-oncogene serine/threonine-protein kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.21  E-value=0.12  Score=28.41  Aligned_cols=56  Identities=9%  Similarity=-0.016  Sum_probs=44.1

Q ss_pred             EEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEE--CC-eecCCCCCcc
Q 048514           15 NLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLI--NG-NRFPHIRTPD   70 (89)
Q Consensus        15 ~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~f--dG-~~l~~~~Tp~   70 (89)
                      +++|.-+||+.-...+++..+++.+...-|++.|+.++.+..+-  +| +..-+++|+.
T Consensus         2 ~iRv~LPngq~T~V~vrpG~tir~~L~k~l~kRgl~~~~~~V~~~~~g~~~~i~~d~d~   60 (73)
T d1wxma1           2 TVKVYLPNKQRTVVTVRDGMSVYDSLDKALKVRGLNQDCCVVYRLIKGRKTVTAWDTAI   60 (73)
T ss_dssp             EEEEECSSSCEEEEECCSSCBSHHHHHHHHHTTTCCSSSEEEEEESSSCEEEECSSSBS
T ss_pred             eEEEEcCCCCeEEEEecCCCCHHHHHHHHHHHcCCCHHHEEEEEecCCCcceeecCCcc
Confidence            46666689999899999999999999999999999999886543  55 3333455554

>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=94.17  E-value=0.2  Score=27.50  Aligned_cols=55  Identities=18%  Similarity=0.265  Sum_probs=43.3

Q ss_pred             CEEEEEEeccchHHHHHHHHHhhhCC-----------CCCcEeEEECCeecCCCCCccccCCCCCCEEEEE
Q 048514           24 DPLYFEFRRDWEIKKLLITYCEKKDA-----------QYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVAT   83 (89)
Q Consensus        24 ~~~~f~i~~~t~l~kL~~~y~~~~g~-----------~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~   83 (89)
                      .+..+.+....++..|++..+++++-           ....+++..||+.+.. +|+    +.|||+|-++
T Consensus        19 ~~~~~~~~~~~Tv~~l~~~L~~~~~~~~~~l~~~~~~~~~~i~iavN~~~~~~-d~~----L~~gDevai~   84 (88)
T d1vjka_          19 DEEEIELPEGARVRDLIEEIKKRHEKFKEEVFGEGYDEDADVNIAVNGRYVSW-DEE----LKDGDVVGVF   84 (88)
T ss_dssp             SEEEEEECTTCBHHHHHHHHHHHCGGGGGSCBCSSSCTTSSBEEEETTBCCCT-TCB----CCTTCEEEEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHChHHHHHhhhccccccccEEEEEcceEcCC-CcC----cCCCCEEEEe
Confidence            56788998899999999999887532           2356889999999864 444    8999999775

>d1ef1a3 d.15.1.4 (A:4-87) Moesin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: First domain of FERM
domain: Moesin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.77  E-value=0.07  Score=29.94  Aligned_cols=38  Identities=18%  Similarity=0.129  Sum_probs=34.3

Q ss_pred             cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC
Q 048514           13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY   51 (89)
Q Consensus        13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~   51 (89)
                      .|+++|...|+ ++.|.+.+.++=+.|++..|++.|+..
T Consensus         1 t~~v~V~~LD~-~~~~~v~~~a~G~~l~~~Vc~~l~L~E   38 (84)
T d1ef1a3           1 TISVRVTTMDA-ELEFAIQPNTTGKQLFDQVVKTIGLRE   38 (84)
T ss_dssp             CEEEEEEETTE-EEEEEECTTCBHHHHHHHHHHHHTCCC
T ss_pred             CEEEEEEEcCC-EEEEEEcCCChHHHHHHHHHHHcCCcc
Confidence            47889998887 589999999999999999999999954

>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=93.58  E-value=0.15  Score=27.05  Aligned_cols=61  Identities=20%  Similarity=0.245  Sum_probs=47.7

Q ss_pred             CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +|+.  +.+...+++..|.+.    .+++...+-.-.||+-|..++ =.+.-|.+||.|+++.--.||
T Consensus         5 Ng~~--~~~~~~~tl~~ll~~----l~~~~~~vaV~vN~~ivpk~~-~~~~~L~~gD~ieIv~~v~GG   65 (65)
T d1zud21           5 NDQA--MQCAAGQTVHELLEQ----LDQRQAGAALAINQQIVPREQ-WAQHIVQDGDQILLFQVIAGG   65 (65)
T ss_dssp             TTEE--ECCCTTCBHHHHHHH----HTCCCTTEEEEETTEECCGGG-TTTCBCCTTCEEEEEECCCCC
T ss_pred             CCEE--EEcCCCCcHHHHHHH----cCCCCCcEEEEECCEEcCHHH-HhhccCCCCCEEEEEEEecCC
Confidence            5554  566777889988865    578888899999999887532 345669999999999988887

>d2npta1 d.15.2.2 (A:4-108) Mitogen activated protein kinase kinase 5, Map2k5 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: CAD & PB1 domains
family: PB1 domain
domain: Mitogen activated protein kinase kinase 5, Map2k5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.61  E-value=0.5  Score=27.45  Aligned_cols=59  Identities=12%  Similarity=0.150  Sum_probs=44.5

Q ss_pred             CCCcEEEEEEecCCCEEEEEEe--ccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEE
Q 048514           10 DQHFINLVVKGQDNDPLYFEFR--RDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVAT   83 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~--~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~   83 (89)
                      +++.+.|+++.+++..+-+.|.  +.-.|..|.+++++...               ....|.-+++=||||.|-|.
T Consensus        10 ~~q~lVIRI~~~~~~~vDw~V~~~~~l~F~dvL~~i~q~~p---------------~at~taFEYEDEdGDRITVR   70 (105)
T d2npta1          10 ENQVLVIRIKIPNSGAVDWTVHSGPQLLFRDVLDVIGQVLP---------------EATTTAFEYEDEDGDRITVR   70 (105)
T ss_dssp             --CCEEEEEEETTTEEEEEEECC--CCCHHHHHHHHHHHST---------------TSCCSEEEEECTTSCEEEEC
T ss_pred             hcCceEEEEEcCCCceeeeeecCCceeeHHHHHHHHHHhcc---------------cccccceeeccccCCEeEEc
Confidence            5677888888899999999998  48899999999988764               22344445667889998875

>d1h4ra3 d.15.1.4 (A:20-103) Merlin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: First domain of FERM
domain: Merlin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.79  E-value=0.28  Score=27.33  Aligned_cols=48  Identities=15%  Similarity=0.276  Sum_probs=38.4

Q ss_pred             cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCC---cEeEEECCe
Q 048514           13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYG---TFPFLINGN   61 (89)
Q Consensus        13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~---~~rF~fdG~   61 (89)
                      .+.++|...|+ ++.|.|.+.++=+.|++..|++.|+...   .+++.-+|.
T Consensus         2 ~~~v~V~lLD~-~le~~v~~~a~G~~L~d~Vc~~L~L~E~~YFGL~y~~~~~   52 (84)
T d1h4ra3           2 TFTVRIVTMDA-EMEFNCEMKWKGKDLFDLVCRTLGLRETWFFGLQYTIKDT   52 (84)
T ss_dssp             EEEEEEECSSC-EEEEEEETTCBHHHHHHHHHHHHTCCCGGGEEEEEEETTE
T ss_pred             eEEEEEEEcCC-cEEEEEcCCChHHHHHHHHHHHcCCcccccceEEEecCCc
Confidence            57888988887 5899999999999999999999999543   345554453

>d1c1yb_ d.15.1.5 (B:) c-Raf1 RBD {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ras-binding domain, RBD
domain: c-Raf1 RBD
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.19  E-value=0.62  Score=25.62  Aligned_cols=44  Identities=9%  Similarity=0.053  Sum_probs=38.2

Q ss_pred             EEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEE
Q 048514           15 NLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLI   58 (89)
Q Consensus        15 ~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~f   58 (89)
                      +|+|.-+||+.-...+++..+++.+...-+++.|+.++.+..+-
T Consensus         3 ~iRv~LPngq~T~V~vrpG~tird~L~k~l~kRgl~~~~c~V~~   46 (77)
T d1c1yb_           3 TIRVFLPNKQRTVVNVRNGMSLHDCLMKALKVRGLQPECCAVFR   46 (77)
T ss_dssp             EEEEEETTTEEEEEECCTTCBHHHHHHHHHHTTTCCGGGEEEEE
T ss_pred             eEEEECCCCCeEEEEecCCCCHHHHHHHHHHHcCCCHHHEEEEE
Confidence            45666689998899999999999999999999999998886644

>d1j0ga_ d.15.1.6 (A:) Hypothetical protein 1810045k17 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: BM-002-like
domain: Hypothetical protein 1810045k17
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.93  E-value=0.72  Score=25.90  Aligned_cols=80  Identities=14%  Similarity=0.069  Sum_probs=62.4

Q ss_pred             CCCCCCcEEEEEEe-cC-CCEE-EEEEeccchHHHHHHHHHhhhCCCCCcE-eEEECCeecCCCCCccccCCCCCCEEEE
Q 048514            7 NIPDQHFINLVVKG-QD-NDPL-YFEFRRDWEIKKLLITYCEKKDAQYGTF-PFLINGNRFPHIRTPDQLGLKDGDEIVA   82 (89)
Q Consensus         7 ~~~~~~~I~i~v~~-~~-~~~~-~f~i~~~t~l~kL~~~y~~~~g~~~~~~-rF~fdG~~l~~~~Tp~~l~medgD~Idv   82 (89)
                      ..+...+++.++.- .| +... .++|-..+||..+.+.-|+.+.++...- -..-||.=|++.+|....-|+.|..+..
T Consensus         4 ~~~~~~kvtfkitltSdp~lpfkvlsVpE~aPftAVlkfaAEeFkV~~~TSAiITndGvGINP~QtAg~vFlKhGselrl   83 (92)
T d1j0ga_           4 GAATMSKVSFKITLTSDPRLPYKVLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRI   83 (92)
T ss_dssp             CSCCSCEEEEEEEETTSTTCCEEEEEEETTSBHHHHHHHHHHHTTCCSSSEEEECTTSCCCCCSSBHHHHHHHTCSEEEE
T ss_pred             cccccceEEEEEEEccCCCCccEEEecCccCchHHHHHHHHHHcCCCccceeEEecCccccChhhccchhhhhcCceeee
Confidence            34456778888763 23 3333 6888999999999999999999987655 4555799999999999999999998887


Q ss_pred             Eeee
Q 048514           83 TFYA   86 (89)
Q Consensus        83 ~~~q   86 (89)
                      +.+-
T Consensus        84 iPRD   87 (92)
T d1j0ga_          84 IPRD   87 (92)
T ss_dssp             EECC
T ss_pred             cccc
Confidence            7543

>d2bkfa1 d.15.2.2 (A:1-85) Next to BRCA1 gene 1 protein, NBR1 (KIAA0049) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: CAD & PB1 domains
family: PB1 domain
domain: Next to BRCA1 gene 1 protein, NBR1 (KIAA0049)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.47  E-value=0.65  Score=26.06  Aligned_cols=44  Identities=14%  Similarity=0.004  Sum_probs=36.3

Q ss_pred             CcEEEEEEecCCCEEEEEEe--ccchHHHHHHHHHhhhCCCCCcEeEEE
Q 048514           12 HFINLVVKGQDNDPLYFEFR--RDWEIKKLLITYCEKKDAQYGTFPFLI   58 (89)
Q Consensus        12 ~~I~i~v~~~~~~~~~f~i~--~~t~l~kL~~~y~~~~g~~~~~~rF~f   58 (89)
                      +.|++|+. ..|..+.|++.  .++.+..|....+.+++++  .+++.|
T Consensus         3 p~vtvKvt-f~~dt~RF~ls~~~~~~~~~L~~~i~~rf~l~--~~~lkY   48 (85)
T d2bkfa1           3 PQVTLNVT-FKNEIQSFLVSDPENTTWADIEAMVKVSFDLN--TIQIKY   48 (85)
T ss_dssp             CCEEEEEE-ETTEEEEEEESCGGGCCHHHHHHHHHHHHTCS--SEEEEE
T ss_pred             ccEEEEEE-ECCceEEEEecCCCCCcHHHHHHHHHHhcCcc--cceEEE
Confidence            57899987 57888889986  5688999999999999985  477766

>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=90.25  E-value=0.27  Score=27.03  Aligned_cols=60  Identities=10%  Similarity=0.071  Sum_probs=43.1

Q ss_pred             EEEeccchHHHHHHHHHhhhC-C---------CCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           28 FEFRRDWEIKKLLITYCEKKD-A---------QYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        28 f~i~~~t~l~kL~~~y~~~~g-~---------~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +.+. .++++.|++..++++. +         -...+++..||+.+... -..+--++|||+|.++.-..||
T Consensus        18 ~~v~-~~Tv~~ll~~L~~~~p~l~~~l~~~~~~~~~v~i~vng~~i~~~-~~~~~~l~~gdeV~i~PpvsGG   87 (87)
T d1v8ca1          18 LELP-GATVGEVLENLVRAYPALKEELFEGEGLAERVSVFLEGRDVRYL-QGLSTPLSPGATLDLFPPVAGG   87 (87)
T ss_dssp             EECC-CSBHHHHHHHHHHHCGGGHHHHEETTEECTTCEEEETTEEGGGT-TGGGCBCCTTCEEEEECSCCSE
T ss_pred             EEEc-CCCHHHHHHHHHHHCHHHHHHhcccccccceEEEEEcCeeeecc-cCCcccCCCCCEEEEECCCCCC
Confidence            4444 4679999998888763 1         13457899999988633 2223348999999999988887

>d1wgra_ d.15.1.5 (A:) Growth factor receptor-bound protein 7, GRB-7 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ras-binding domain, RBD
domain: Growth factor receptor-bound protein 7, GRB-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.28  E-value=0.56  Score=26.55  Aligned_cols=42  Identities=10%  Similarity=-0.039  Sum_probs=37.4

Q ss_pred             CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC
Q 048514           10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY   51 (89)
Q Consensus        10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~   51 (89)
                      ...+..|+|-..+|....+.|..+++-+.|....+++.++..
T Consensus         6 ~~~~~vvkv~~~dg~~k~l~V~~~tTa~eV~~~l~~K~~~~~   47 (100)
T d1wgra_           6 SGRPHVVKVYSEDGACRSVEVAAGATARHVCEMLVQRAHALS   47 (100)
T ss_dssp             CCSCEEEEEEETTSCEEEEEECTTCCHHHHHHHHHCSSSCCC
T ss_pred             CCCceEEEEEecCCCEEEEEECCCCcHHHHHHHHHHHhCCCC
Confidence            456778888888999999999999999999999999999854

>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=88.97  E-value=0.75  Score=24.05  Aligned_cols=61  Identities=18%  Similarity=0.158  Sum_probs=44.1

Q ss_pred             cCCCEEEEEEecc-chHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           21 QDNDPLYFEFRRD-WEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        21 ~~~~~~~f~i~~~-t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      .+|+.  +.+..+ .++..|.+.    .+++.+.+-.-+||+-|..++ -.+.-|.+||.|+++. -+||
T Consensus         4 vNG~~--~~~~~~~~tl~~LL~~----l~~~~~~vAVevN~~iv~k~~-~~~~~L~~gD~IEIv~-~vgG   65 (65)
T d1tygb_           4 LNGKD--VKWKKDTGTIQDLLAS----YQLENKIVIVERNKEIIGKER-YHEVELCDRDVIEIVH-FVGG   65 (65)
T ss_dssp             ETTEE--ECCSSSCCBHHHHHHH----TTCTTSCCEEEETTEEECGGG-TTTSBCCSSSEEEEEE-ECCC
T ss_pred             ECCEE--EEcCCCcccHHHHHHH----cCCCCCcEEEEECCEEcCHHH-cCcccCCCCCEEEEEE-eecC
Confidence            35655  445554 378888665    578888999999999998543 3344599999999987 4555

>d1gg3a3 d.15.1.4 (A:1-81) Erythroid membrane protein 4.1R {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: First domain of FERM
domain: Erythroid membrane protein 4.1R
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.38  E-value=1.2  Score=24.31  Aligned_cols=38  Identities=16%  Similarity=0.072  Sum_probs=33.3

Q ss_pred             EEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCC
Q 048514           15 NLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYG   52 (89)
Q Consensus        15 ~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~   52 (89)
                      ..+|.-.||..+.|.|.+.+.=+.|++..|++.|+...
T Consensus         2 ~C~V~lLD~~~~~~~v~~~~~G~~l~~~Vc~~l~l~E~   39 (81)
T d1gg3a3           2 HCKVSLLDDTVYECVVEKHAKGQDLLKRVCEHLNLLEE   39 (81)
T ss_dssp             EEEEECTTSCEEEEECCTTCCHHHHHHHHHHHHTTCSC
T ss_pred             EEEEEecCCCEEEEEECCCCcHHHHHHHHHHHcCCccc
Confidence            45677789999999999999999999999999999543

>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=86.63  E-value=0.76  Score=23.97  Aligned_cols=60  Identities=17%  Similarity=0.220  Sum_probs=42.8

Q ss_pred             cCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           21 QDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        21 ~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      .+|++..  + ...++..|...    .+++.+.+-.-.||+-|..+ .=.+.-+.+||.|+++. -+||
T Consensus         4 vNGe~~~--~-~~~tl~~LL~~----l~~~~~~vAV~vN~~ivpr~-~~~~~~l~~gD~iEIv~-~vgG   63 (63)
T d2cu3a1           4 LNGEPRP--L-EGKTLKEVLEE----MGVELKGVAVLLNEEAFLGL-EVPDRPLRDGDVVEVVA-LMQG   63 (63)
T ss_dssp             ETTEEEC--C-TTCCHHHHHHH----HTBCGGGEEEEETTEEEEGG-GCCCCCCCTTCEEEEEE-CCCC
T ss_pred             ECCEEEE--c-CCCCHHHHHHH----cCCCCCcEEEEECCEEcCHH-HcCcccCCCCCEEEEEE-ecCC
Confidence            3676544  4 35678777764    47788899999999999743 23456799999999775 4444

>d1oeya_ d.15.2.2 (A:) Neutrophil cytosol factor 2 (p67phox component of NADPH oxidase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: CAD & PB1 domains
family: PB1 domain
domain: Neutrophil cytosol factor 2 (p67phox component of NADPH oxidase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.49  E-value=1.2  Score=24.76  Aligned_cols=45  Identities=7%  Similarity=-0.032  Sum_probs=39.7

Q ss_pred             cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC
Q 048514           13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN   59 (89)
Q Consensus        13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd   59 (89)
                      .-+|+|+..  -.+.+++.+..+++.|-+..+++..++++..+|.|.
T Consensus         5 ~~~vkVh~~--fTVal~v~~G~~y~~L~~lvs~KL~l~~~~~~LSY~   49 (82)
T d1oeya_           5 AYTLKVHYK--YTVVMKTQPGLPYSQVRDMVSKKLELRLEHTKLSYR   49 (82)
T ss_dssp             CEEEEEESS--SEEEEEECTTCCHHHHHHHHHHHTTCCGGGCCEEEC
T ss_pred             CEEEEEEEE--EEEEEEccCCCCHHHHHHHHHHHhCCChhheEEEec
Confidence            346777753  678899999999999999999999999999999995

>d1wfya_ d.15.1.5 (A:) Regulator of G-protein signaling 14, RGS14 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ras-binding domain, RBD
domain: Regulator of G-protein signaling 14, RGS14
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.65  E-value=0.38  Score=28.11  Aligned_cols=53  Identities=9%  Similarity=0.092  Sum_probs=45.3

Q ss_pred             CcEEEEEEecC-CCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecC
Q 048514           12 HFINLVVKGQD-NDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFP   64 (89)
Q Consensus        12 ~~I~i~v~~~~-~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~   64 (89)
                      ++|.+++.-.+ ++.+.++.|++-++...+.....++|+..+.+..+..|+...
T Consensus        15 ~Rv~F~LdLp~~~k~I~VkaKptK~l~EvLrpIL~KYgl~l~~v~v~~~ge~~~   68 (104)
T d1wfya_          15 NRITFQLELVGLERVVRISAKPTKRLQEALQPILAKHGLSLDQVVLHRPGEKQP   68 (104)
T ss_dssp             SCEEEEEEESSSSSEEEEEECSSSBTTTTTHHHHTTTTCCTTTCCBCCTTCSSC
T ss_pred             eeEEEEEEcCCCCcEEEEEeCCCCcHHHHHHHHHHHhCCChhHeEEEeCCCccc
Confidence            46777777667 899999999999999999999999999999888887766544

>d1wgya_ d.15.1.5 (A:) Rap guanine nucleotide exchange factor 5, RapGEF5 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ras-binding domain, RBD
domain: Rap guanine nucleotide exchange factor 5, RapGEF5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.79  E-value=1.3  Score=25.65  Aligned_cols=57  Identities=11%  Similarity=0.007  Sum_probs=49.4

Q ss_pred             CCCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcE---eEEECCeecC
Q 048514            8 IPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTF---PFLINGNRFP   64 (89)
Q Consensus         8 ~~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~---rF~fdG~~l~   64 (89)
                      +.+.+.|..+|-..|...+.+++.-+...+.++.+-|++.+.+.+.+   ...++|+++.
T Consensus         4 ~ss~dei~~~VY~~Dhsy~tlr~~v~~sa~eI~~~vaeKl~~~~e~L~LV~V~SsGEr~~   63 (104)
T d1wgya_           4 GSSGEEIFCHVYITEHSYVSVKAKVSSIAQEILKVVAEKIQYAEEDLALVAITFSGEKHE   63 (104)
T ss_dssp             CCCSSCCCEEEECSSSCEEEECCCTTCBSHHHHHHHHHHHTSCGGGEEEEEECSSCCCCB
T ss_pred             CCCCCeEEEEEEecCCcEEEEEeeccCcHHHHHHHHHHHhCCCCCceEEEEEccCCcEEe
Confidence            45678899999999999999999999999999999999999877664   5567899876

>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=82.79  E-value=2.2  Score=22.66  Aligned_cols=66  Identities=21%  Similarity=0.161  Sum_probs=48.4

Q ss_pred             EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514           14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA   89 (89)
Q Consensus        14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   89 (89)
                      +++++...++.. .+.....+++..+.    ....+|..++.-.-+|+.+-++     -.+.|||.|++..--.||
T Consensus         5 MtftlI~kd~~k-~~E~~~p~~IkDiL----~~lEipieTvVvK~NG~~Viee-----eei~dgDeieiI~vIYGG   70 (70)
T d1ryja_           5 MKFTVITDDGKK-ILESGAPRRIKDVL----GELEIPIETVVVKKNGQIVIDE-----EEIFDGDIIEVIRVIYGG   70 (70)
T ss_dssp             EEEEEEETTEEE-EEEESSCCBHHHHH----HHTTCCTTTEEEEETTEECCTT-----SBCCTTCEEEEEECTTCC
T ss_pred             EEEEEEecCchh-hhhcCCChhHHHHh----ccccccceEEEEecCCcEEech-----hhccCCCEEEEEEEEecC
Confidence            677777655543 34444455555544    4578999999999999998754     468899999999887777