Citrus Sinensis ID: 045424

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------10
Protein Sequence
MLKPSSSKNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGGHDHRA
Secondary Structure (PSIPRED)
ccccccccccccccccEEEEEEcccccEEEEEEccccHHHHHHHHHHHHcccccccccEEEccEEccccccccccccccccEEEEEEEcccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccEEEEEEEcccccEEEEEEEccccHHHHHHHHHHHccccccEEEEEEcccEccccccHHHcccccccEEEEEHHcccccccccc
Coil and Loop (DISEMBL)
mlkpsssknnkkpqHLINLIIKSqdgdkrffQFNHDVEIKRLLIKYCetksqpfkstpflingnrfdysktadqlglkdgdeIDAMYHafggghdhra
Flexible Loop (DISEMBL)
mlkpsssknnkkpqhLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCEtksqpfkstpflingnrfDYSKTADQLGLKDGDEIDAMYHAFGGGHDHRA
Low Complexity Region (SEG)
MLkpsssknnkkpQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGGHDHRA
Disordered region (IsUnstruct)
***************LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAF********
Disordered Region (DISOPRED)
******************LIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG******
Disordered Region (DISEMBL)
***********KPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGGHDHRA
Disordered Region (DISPRO)
************PQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAF********
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MLKPSSSKNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGGHDHRA
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	98	2.2.26 [Sep-21-2011]
Q9FLP6	103	Small ubiquitin-related m	yes	no	0.908	0.864	0.417	1e-14
P55857	100	Small ubiquitin-related m	no	no	0.775	0.76	0.421	1e-12
P55852	100	Small ubiquitin-related m	no	no	0.734	0.72	0.430	4e-12
O13351	117	Ubiquitin-like protein pm	yes	no	0.897	0.752	0.306	7e-08
B3H5R8	97	Putative small ubiquitin-	no	no	0.897	0.907	0.329	1e-07
Q9FLP5	111	Small ubiquitin-related m	no	no	0.928	0.819	0.340	1e-07
Q3E8A8	95	Putative small ubiquitin-	no	no	0.846	0.873	0.352	4e-06
Q9MZD5	101	Small ubiquitin-related m	N/A	no	0.928	0.900	0.322	1e-05
Q8VZI7	108	Small ubiquitin-related m	no	no	0.887	0.805	0.274	3e-05
A7WLI0	95	Small ubiquitin-related m	yes	no	0.775	0.8	0.302	4e-05

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

 Score = 78.2 bits (191), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 38/91 (41%), Positives = 57/91 (62%), Gaps = 2/91 (2%)

Query: 5  SSSKNNKKPQHL--INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN 62
          ++ + +KKP     INL +K QDG++ FF+     ++K+L+  YC+ +S  F S  FL +
Sbjct: 3  ATPEEDKKPDQGAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDFNSIAFLFD 62

Query: 63 GNRFDYSKTADQLGLKDGDEIDAMYHAFGGG 93
          G R    +T D+L ++DGDEIDAM H  GGG
Sbjct: 63 GRRLRAEQTPDELEMEDGDEIDAMLHQTGGG 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. Required for the massive protein sumoylation in the nucleus induced by heat shock and controlled by SIZ1.
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 = 71.6 bits (174), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 32/76 (42%), Positives = 48/76 (63%)

Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          INL +K QDG++ FF+     ++K+L+  YC+ +S    +  FL +G R    +T D+L 
Sbjct: 21 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDMNAIAFLFDGRRLRGEQTPDELE 80

Query: 77 LKDGDEIDAMYHAFGG 92
          ++DGDEIDAM H  GG
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|P55852|SUMO1_ARATH Small ubiquitin-related modifier 1 OS=Arabidopsis thaliana GN=SUMO1 PE=1 SV=2

 Score = 70.1 bits (170), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 31/72 (43%), Positives = 46/72 (63%)

Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          INL +K QDG++ FF+     ++K+L+  YC+ +S    S  FL +G R    +T D+L 
Sbjct: 18 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDMNSIAFLFDGRRLRAEQTPDELD 77

Query: 77 LKDGDEIDAMYH 88
          ++DGDEIDAM H
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|O13351|PMT3_SCHPO Ubiquitin-like protein pmt3/smt3 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=pmt3 PE=1 SV=2

 Score = 55.8 bits (133), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 27/88 (30%), Positives = 47/88 (53%)

Query: 5   SSSKNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGN 64
           +S ++ K     INL +  QD ++ FF+     E  +L+  YC  + +   S  FL++G 
Sbjct: 24  TSQQDVKPSTEHINLKVVGQDNNEVFFKIKKTTEFSKLMKIYCARQGKSMNSLRFLVDGE 83

Query: 65  RFDYSKTADQLGLKDGDEIDAMYHAFGG 92
           R    +T  +L ++DGD+I+A+    GG
Sbjct: 84  RIRPDQTPAELDMEDGDQIEAVLEQLGG 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|B3H5R8|SUMO8_ARATH Putative small ubiquitin-related modifier 8 OS=Arabidopsis thaliana GN=SUMO8 PE=1 SV=1

 Score = 55.5 bits (132), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 29/88 (32%), Positives = 48/88 (54%)

Query: 5  SSSKNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGN 64
          SS K    P   I + +K+QD    +F+   DVE+++++  Y +       +  FL +GN
Sbjct: 3  SSDKKPLIPSSHITVKVKNQDDICVYFRIKRDVELRKMMHAYSDKVGVEMSTLRFLFDGN 62

Query: 65 RFDYSKTADQLGLKDGDEIDAMYHAFGG 92
          R   ++T ++LGL+D DEI+A     GG
Sbjct: 63 RIKLNQTPNELGLEDEDEIEAFGEQLGG 90

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

 Score = 55.5 bits (132), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 32/94 (34%), Positives = 50/94 (53%), Gaps = 3/94 (3%)

Query: 1  MLKPSSSK--NNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTP 58
          M  P   K  + ++  H+I L +KSQDGD+  F+      +K+L+  YC+ +     +  
Sbjct: 1  MSNPQDDKPIDQEQEAHVI-LKVKSQDGDEVLFKNKKSAPLKKLMYVYCDRRGLKLDAFA 59

Query: 59 FLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92
          F+ NG R    +T D+L ++DGD IDA     GG
Sbjct: 60 FIFNGARIGGLETPDELDMEDGDVIDACRAMSGG 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 = 50.1 bits (118), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 30/85 (35%), Positives = 45/85 (52%), Gaps = 2/85 (2%)

Query: 13 PQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTA 72
          P H I + IKSQD    +F+   DVE++ ++  Y +   Q   +  F  +G R   ++T 
Sbjct: 12 PSH-ITIKIKSQDDICVYFRIKRDVELRTMMQAYSDKVGQQMSAFRFHCDGIRIKPNQTP 70

Query: 73 DQLGLKDGDEIDAMYHAFGG-GHDH 96
          ++L L+DGDEIDA      G  H H
Sbjct: 71 NELDLEDGDEIDAFVDQIAGFSHRH 95

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|Q9MZD5|SUMO1_CERNI Small ubiquitin-related modifier 1 OS=Cervus nippon GN=SUMO1 PE=3 SV=1

 Score = 48.9 bits (115), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 30/93 (32%), Positives = 46/93 (49%), Gaps = 2/93 (2%)

Query: 3  KPSSSK-NNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI 61
          KPS+    +KK    I L +  QD  +  F+      +K+L   YC+ +  P  S  FL 
Sbjct: 7  KPSTEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLF 66

Query: 62 NGNRFDYSKTADQLGLKDGDEIDAMYHAFGGGH 94
           G R   + T  +LG+++ D I+ +YH   GGH
Sbjct: 67 EGQRIADNHTPKELGMEEEDVIE-VYHEQTGGH 98

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, and can be promoted by E3 ligases such as PIAS1-4, RANBP2 or CBX4. 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. Involved for instance in targeting RANGAP1 to the nuclear pore complex protein RANBP2. Polymeric SUMO1 chains are also susceptible to polyubiquitination which functions as a signal for proteasomal degradation of modified proteins. May also regulate a network of genes involved in palate development.

Cervus nippon (taxid: 9863)

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

 Score = 47.0 bits (110), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 25/91 (27%), Positives = 47/91 (51%), Gaps = 4/91 (4%)

Query: 7   SKNNKKPQ---HL-INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN 62
           SK ++ P+   H+ + L +K+Q G +  ++      +K+L+  YC  ++  + S  F+ N
Sbjct: 14  SKKSRSPETSPHMKVTLKVKNQQGAEDLYKIGTHAHLKKLMSAYCTKRNLDYSSVRFVYN 73

Query: 63  GNRFDYSKTADQLGLKDGDEIDAMYHAFGGG 93
           G      +T  QL +++ DEI  +    GGG
Sbjct: 74  GREIKARQTPAQLHMEEEDEICMVMELGGGG 104

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|A7WLI0|SUMO4_PIG Small ubiquitin-related modifier 4 OS=Sus scrofa GN=SUMO4 PE=1 SV=1

 Score = 46.6 bits (109), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 23/76 (30%), Positives = 36/76 (47%)

Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          INL +  QDG    F+      + +L+  YCE +    +   F ++G   + + T  QL 
Sbjct: 18 INLKVAGQDGSVAQFKIRRHTPLSKLMKAYCERQGLSIRQIRFRVDGQPINETHTPAQLE 77

Query: 77 LKDGDEIDAMYHAFGG 92
          L+D D ID +    GG
Sbjct: 78 LEDEDTIDVLQQQTGG 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 modulate protein subcellular localization, stability or activity. Upon oxidative stress, conjugates to various anti-oxidant enzymes, chaperones, and stress defense proteins. May also conjugate to NFKBIA, TFAP2A and FOS, negatively regulating their transcriptional activity, and to NR3C1, positively regulating its transcriptional activity. Covalent attachment to its substrates requires prior activation by the E1 complex SAE1-SAE2 and linkage to the E2 enzyme UBE2I.

Sus scrofa (taxid: 9823)

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	98
359477951	127	PREDICTED: small ubiquitin-related modif	0.846	0.653	0.435	3e-14
298205252	94	unnamed protein product [Vitis vinifera]	0.846	0.882	0.435	4e-14
351726472	103	uncharacterized protein LOC100305708 [Gl	0.908	0.864	0.434	7e-14
356567836	114	PREDICTED: small ubiquitin-related modif	0.908	0.780	0.434	9e-14
224132216	108	predicted protein [Populus trichocarpa]	0.795	0.722	0.448	1e-13
388494242	103	unknown [Lotus japonicus] gi|388509240|g	0.918	0.873	0.410	1e-13
255560123	108	conserved hypothetical protein [Ricinus	0.908	0.824	0.413	2e-13
15240471	103	small ubiquitin-related modifier 2 [Arab	0.908	0.864	0.417	5e-13
225447135	101	PREDICTED: uncharacterized protein LOC10	0.918	0.891	0.419	7e-13
115441853	101	Os01g0918200 [Oryza sativa Japonica Grou	0.775	0.752	0.460	1e-12

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

 Score = 82.4 bits (202), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 37/85 (43%), Positives = 56/85 (65%), Gaps = 2/85 (2%)

Query: 11  KKP--QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDY 68
           K+P  Q  I + +KSQDG + +F+ N    ++RLL+ YC+  +  +K+  F+ NGNR   
Sbjct: 39  KRPLDQSTIEVKVKSQDGRQLYFRINRSTPLQRLLVAYCQQINIDYKTMQFVYNGNRVTA 98

Query: 69  SKTADQLGLKDGDEIDAMYHAFGGG 93
            +T +QLG++DGDEIDA+ H  GGG
Sbjct: 99  KQTPEQLGMEDGDEIDALTHQMGGG 123

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score = 82.0 bits (201), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 37/85 (43%), Positives = 56/85 (65%), Gaps = 2/85 (2%)

Query: 11 KKP--QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDY 68
          K+P  Q  I + +KSQDG + +F+ N    ++RLL+ YC+  +  +K+  F+ NGNR   
Sbjct: 6  KRPLDQSTIEVKVKSQDGRQLYFRINRSTPLQRLLVAYCQQINIDYKTMQFVYNGNRVTA 65

Query: 69 SKTADQLGLKDGDEIDAMYHAFGGG 93
           +T +QLG++DGDEIDA+ H  GGG
Sbjct: 66 KQTPEQLGMEDGDEIDALTHQMGGG 90

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351726472|ref|NP_001235592.1| uncharacterized protein LOC100305708 [Glycine max] gi|255626371|gb|ACU13530.1| unknown [Glycine max]

 Score = 81.3 bits (199), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 40/92 (43%), Positives = 56/92 (60%), Gaps = 3/92 (3%)

Query: 6   SSKNNKKPQHL---INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN 62
           S +  KKP      INL +K QDG++ FF+     ++K+L+  YC+ +S  F S  FL +
Sbjct: 9   SQEEEKKPSDQGAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDFNSIAFLFD 68

Query: 63  GNRFDYSKTADQLGLKDGDEIDAMYHAFGGGH 94
           G R    +T D+L ++DGDEIDAM H  GGGH
Sbjct: 69  GRRLRAEQTPDELEMEDGDEIDAMLHQTGGGH 100

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356567836|ref|XP_003552121.1| PREDICTED: small ubiquitin-related modifier 2-like [Glycine max]

 Score = 80.9 bits (198), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 40/92 (43%), Positives = 56/92 (60%), Gaps = 3/92 (3%)

Query: 6   SSKNNKKPQHL---INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN 62
           S +  KKP      INL +K QDG++ FF+     ++K+L+  YC+ +S  F S  FL +
Sbjct: 9   SQEEEKKPSDQGAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDFNSIAFLFD 68

Query: 63  GNRFDYSKTADQLGLKDGDEIDAMYHAFGGGH 94
           G R    +T D+L ++DGDEIDAM H  GGGH
Sbjct: 69  GRRLRAEQTPDELEMEDGDEIDAMLHQTGGGH 100

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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 = 80.9 bits (198), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 35/78 (44%), Positives = 51/78 (65%)

Query: 17  INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
           INL +K QDG++ FF+     ++++L+  YC+ +S  F S  FL +G R    +T D+L 
Sbjct: 27  INLKVKGQDGNEVFFRIKRSTQLRKLMTAYCDRQSVEFNSIAFLFDGRRLRGEQTPDELD 86

Query: 77  LKDGDEIDAMYHAFGGGH 94
           ++DGDEIDAM H  GGGH
Sbjct: 87  MEDGDEIDAMLHQTGGGH 104

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score = 80.5 bits (197), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 39/95 (41%), Positives = 57/95 (60%), Gaps = 5/95 (5%)

Query: 4  PSSSKNNKKPQHL-----INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTP 58
          P +S+  KKP        INL +K QDG++ FF+   + ++K+L+  YC+ +S    S  
Sbjct: 5  PKASEEEKKPNDQSAAPHINLKVKGQDGNEVFFRIKRNTQLKKLMNAYCDRQSVELNSIA 64

Query: 59 FLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGG 93
          FL +G R    +T D+L ++DGDEIDAM H  GGG
Sbjct: 65 FLFDGRRLRAEQTPDELEMEDGDEIDAMLHQTGGG 99

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

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 = 79.3 bits (194), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 38/92 (41%), Positives = 56/92 (60%), Gaps = 3/92 (3%)

Query: 8   KNNKKPQHL---INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGN 64
           + +KKP      INL +K QDG++ FF+     ++++L+  YC+ +S  F S  FL +G 
Sbjct: 16  EEDKKPMDQTAHINLKVKGQDGNEMFFRIKRSTQLRKLITAYCDRQSVEFNSIAFLFDGR 75

Query: 65  RFDYSKTADQLGLKDGDEIDAMYHAFGGGHDH 96
           R    +T D+L ++DGDEIDAM H  GGG  H
Sbjct: 76  RLRGEQTPDELEMEDGDEIDAMLHQTGGGDAH 107

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

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 = 78.2 bits (191), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 38/91 (41%), Positives = 57/91 (62%), Gaps = 2/91 (2%)

Query: 5  SSSKNNKKPQHL--INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN 62
          ++ + +KKP     INL +K QDG++ FF+     ++K+L+  YC+ +S  F S  FL +
Sbjct: 3  ATPEEDKKPDQGAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDFNSIAFLFD 62

Query: 63 GNRFDYSKTADQLGLKDGDEIDAMYHAFGGG 93
          G R    +T D+L ++DGDEIDAM H  GGG
Sbjct: 63 GRRLRAEQTPDELEMEDGDEIDAMLHQTGGG 93

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225447135|ref|XP_002274949.1| PREDICTED: uncharacterized protein LOC100267064 [Vitis vinifera] gi|297739210|emb|CBI28861.3| unnamed protein product [Vitis vinifera]

 Score = 77.8 bits (190), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 39/93 (41%), Positives = 55/93 (59%), Gaps = 3/93 (3%)

Query: 4  PSSSKNNKKPQHL---INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFL 60
          PSS   +KKP      INL +K QDG++ FF+     ++K+L+  YC+ +S    S  FL
Sbjct: 7  PSSQDEDKKPNDQSGHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDLNSIAFL 66

Query: 61 INGNRFDYSKTADQLGLKDGDEIDAMYHAFGGG 93
           +G R    +T D+L ++DGDEIDAM H  GG 
Sbjct: 67 FDGRRLRGEQTPDELEMEDGDEIDAMLHQTGGA 99

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115441853|ref|NP_001045206.1| Os01g0918200 [Oryza sativa Japonica Group] gi|19386771|dbj|BAB86152.1| putative SUMO protein [Oryza sativa Japonica Group] gi|113534737|dbj|BAF07120.1| Os01g0918200 [Oryza sativa Japonica Group] gi|125528872|gb|EAY76986.1| hypothetical protein OsI_04942 [Oryza sativa Indica Group] gi|215692894|dbj|BAG88314.1| unnamed protein product [Oryza sativa Japonica Group] gi|215736955|dbj|BAG95884.1| unnamed protein product [Oryza sativa Japonica Group]

 Score = 77.4 bits (189), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 35/76 (46%), Positives = 50/76 (65%)

Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          INL +K QDG++ FF+     ++K+L+  YC+ +S   KS  FL +G R +  +T DQL 
Sbjct: 22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDIKSIAFLFDGRRLNAEQTPDQLE 81

Query: 77 LKDGDEIDAMYHAFGG 92
          ++DGDEIDAM H  GG
Sbjct: 82 MEDGDEIDAMLHQTGG 97

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	98
TAIR|locus:2116332	100	SUMO1 "AT4G26840" [Arabidopsis	0.775	0.76	0.434	1.3e-13
TAIR|locus:2161675	116	SUMO2 "small ubiquitin-like mo	0.755	0.637	0.426	1.9e-12
GENEDB_PFALCIPARUM|PFE0285c	100	PFE0285c "ubiquitin-like prote	0.795	0.78	0.354	1.1e-09
UNIPROTKB|Q8I444	100	PfSUMO "Small ubiquitin-relate	0.795	0.78	0.354	1.1e-09
TAIR|locus:2161695	111	SUMO3 "small ubiquitin-like mo	0.785	0.693	0.379	2.2e-09
POMBASE|SPBC365.06	117	pmt3 "SUMO" [Schizosaccharomyc	0.795	0.666	0.329	1.6e-08
TAIR|locus:4515103735	97	AT5G55856 "AT5G55856" [Arabido	0.775	0.783	0.328	3.3e-08
TAIR|locus:504954849	95	AT5G55855 [Arabidopsis thalian	0.816	0.842	0.345	1.4e-07
UNIPROTKB|Q9MZD5	101	SUMO1 "Small ubiquitin-related	0.785	0.762	0.320	7.8e-07
UNIPROTKB|F1P3Q1	102	SUMO1 "Small ubiquitin-related	0.785	0.754	0.307	4.3e-06

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

 Score = 177 (67.4 bits), Expect = 1.3e-13, P = 1.3e-13
 Identities = 33/76 (43%), Positives = 48/76 (63%)

Query:    17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
             INL +K QDG++ FF+     ++K+L+  YC+ +S    S  FL +G R    +T D+L 
Sbjct:    18 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDMNSIAFLFDGRRLRAEQTPDELD 77

Query:    77 LKDGDEIDAMYHAFGG 92
             ++DGDEIDAM H  GG
Sbjct:    78 MEDGDEIDAMLHQTGG 93

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

 Score = 166 (63.5 bits), Expect = 1.9e-12, P = 1.9e-12
 Identities = 32/75 (42%), Positives = 48/75 (64%)

Query:    19 LIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLK 78
             L+I + DG++ FF+     ++K+L+  YC+ +S  F S  FL +G R    +T D+L ++
Sbjct:    33 LVIDT-DGNEVFFRIKRSTQLKKLMNAYCDRQSVDFNSIAFLFDGRRLRAEQTPDELEME 91

Query:    79 DGDEIDAMYHAFGGG 93
             DGDEIDAM H  GGG
Sbjct:    92 DGDEIDAMLHQTGGG 106

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

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

 Score = 140 (54.3 bits), Expect = 1.1e-09, P = 1.1e-09
 Identities = 28/79 (35%), Positives = 46/79 (58%)

Query:    14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTAD 73
             +H I + ++S DG + FF+     ++++L+  YC    Q  ++  FL +G+R     T +
Sbjct:    21 EH-IQVKVRSPDGAEVFFKIKRKTKLEKLMEVYCNRLGQSMEAVRFLYDGDRIHGDNTPE 79

Query:    74 QLGLKDGDEIDAMYHAFGG 92
             QLG++DGD IDAM    GG
Sbjct:    80 QLGIEDGDVIDAMVQQTGG 98

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 = 140 (54.3 bits), Expect = 1.1e-09, P = 1.1e-09
 Identities = 28/79 (35%), Positives = 46/79 (58%)

Query:    14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTAD 73
             +H I + ++S DG + FF+     ++++L+  YC    Q  ++  FL +G+R     T +
Sbjct:    21 EH-IQVKVRSPDGAEVFFKIKRKTKLEKLMEVYCNRLGQSMEAVRFLYDGDRIHGDNTPE 79

Query:    74 QLGLKDGDEIDAMYHAFGG 92
             QLG++DGD IDAM    GG
Sbjct:    80 QLGIEDGDVIDAMVQQTGG 98

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

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

 Score = 137 (53.3 bits), Expect = 2.2e-09, P = 2.2e-09
 Identities = 30/79 (37%), Positives = 45/79 (56%)

Query:    15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQ 74
             H+I L +KSQDGD+  F+      +K+L+  YC+ +     +  F+ NG R    +T D+
Sbjct:    17 HVI-LKVKSQDGDEVLFKNKKSAPLKKLMYVYCDRRGLKLDAFAFIFNGARIGGLETPDE 75

Query:    75 LGLKDGDEIDAMYHAFGGG 93
             L ++DGD IDA   A  GG
Sbjct:    76 LDMEDGDVIDAC-RAMSGG 93

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

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

 Score = 129 (50.5 bits), Expect = 1.6e-08, P = 1.6e-08
 Identities = 26/79 (32%), Positives = 44/79 (55%)

Query:    14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTAD 73
             +H INL +  QD ++ FF+     E  +L+  YC  + +   S  FL++G R    +T  
Sbjct:    34 EH-INLKVVGQDNNEVFFKIKKTTEFSKLMKIYCARQGKSMNSLRFLVDGERIRPDQTPA 92

Query:    74 QLGLKDGDEIDAMYHAFGG 92
             +L ++DGD+I+A+    GG
Sbjct:    93 ELDMEDGDQIEAVLEQLGG 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:4515103735 AT5G55856 "AT5G55856" [Arabidopsis thaliana (taxid:3702)]

 Score = 126 (49.4 bits), Expect = 3.3e-08, P = 3.3e-08
 Identities = 25/76 (32%), Positives = 44/76 (57%)

Query:    17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
             I + +K+QD    +F+   DVE+++++  Y +       +  FL +GNR   ++T ++LG
Sbjct:    15 ITVKVKNQDDICVYFRIKRDVELRKMMHAYSDKVGVEMSTLRFLFDGNRIKLNQTPNELG 74

Query:    77 LKDGDEIDAMYHAFGG 92
             L+D DEI+A     GG
Sbjct:    75 LEDEDEIEAFGEQLGG 90

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

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

 Score = 120 (47.3 bits), Expect = 1.4e-07, P = 1.4e-07
 Identities = 28/81 (34%), Positives = 43/81 (53%)

Query:    17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
             I + IKSQD    +F+   DVE++ ++  Y +   Q   +  F  +G R   ++T ++L 
Sbjct:    15 ITIKIKSQDDICVYFRIKRDVELRTMMQAYSDKVGQQMSAFRFHCDGIRIKPNQTPNELD 74

Query:    77 LKDGDEIDAMYHAFGG-GHDH 96
             L+DGDEIDA      G  H H
Sbjct:    75 LEDGDEIDAFVDQIAGFSHRH 95

GO:0005634 "nucleus" evidence=ISM

UNIPROTKB|Q9MZD5 SUMO1 "Small ubiquitin-related modifier 1" [Cervus nippon (taxid:9863)]

 Score = 113 (44.8 bits), Expect = 7.8e-07, P = 7.8e-07
 Identities = 25/78 (32%), Positives = 39/78 (50%)

Query:    17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
             I L +  QD  +  F+      +K+L   YC+ +  P  S  FL  G R   + T  +LG
Sbjct:    22 IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELG 81

Query:    77 LKDGDEIDAMYHAFGGGH 94
             +++ D I+ +YH   GGH
Sbjct:    82 MEEEDVIE-VYHEQTGGH 98

GO:0031625 "ubiquitin protein ligase binding" evidence=ISS

GO:0060021 "palate development" evidence=ISS

UNIPROTKB|F1P3Q1 SUMO1 "Small ubiquitin-related modifier 1" [Gallus gallus (taxid:9031)]

 Score = 106 (42.4 bits), Expect = 4.3e-06, P = 4.3e-06
 Identities = 24/78 (30%), Positives = 38/78 (48%)

Query:    17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
             I L +  QD  +  F+      +K+L   YC+ +  P  S  FL  G R   + T  +LG
Sbjct:    23 IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRITDNHTPKELG 82

Query:    77 LKDGDEIDAMYHAFGGGH 94
             +++ D I+ +Y    GGH
Sbjct:    83 MEEEDVIE-VYQEQTGGH 99

GO:0016605 "PML body" evidence=IEA

GO:0016925 "protein sumoylation" evidence=IEA

GO:0031334 "positive regulation of protein complex assembly" evidence=IEA

GO:0031625 "ubiquitin protein ligase binding" evidence=IEA

GO:0032436 "positive regulation of proteasomal ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0043392 "negative regulation of DNA binding" evidence=IEA

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

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IEA

---

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)
Q6DEP7	SUMO1_XENTR	No assigned EC number	0.3085	0.9285	0.8921	yes	no
Q5E9D1	SUMO1_BOVIN	No assigned EC number	0.3118	0.9285	0.9009	yes	no
P63165	SUMO1_HUMAN	No assigned EC number	0.3118	0.9285	0.9009	yes	no
Q5I0H3	SUMO1_RAT	No assigned EC number	0.3118	0.9285	0.9009	yes	no
Q8QGH2	SUMO1_CHICK	No assigned EC number	0.3118	0.9285	0.9009	yes	no
Q9FLP6	SUMO2_ARATH	No assigned EC number	0.4175	0.9081	0.8640	yes	no
Q7SZR5	SUMO1_DANRE	No assigned EC number	0.3111	0.9183	0.9	yes	no
P63166	SUMO1_MOUSE	No assigned EC number	0.3118	0.9285	0.9009	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

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	98
cd01763	87	cd01763, Sumo, Small ubiquitin-related modifier (S	3e-14
COG5227	103	COG5227, SMT3, Ubiquitin-like protein (sentrin) [P	2e-09
pfam11976	72	pfam11976, Rad60-SLD, Ubiquitin-2 like Rad60 SUMO-	2e-08

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

 Score = 61.9 bits (151), Expect = 3e-14
 Identities = 32/88 (36%), Positives = 49/88 (55%), Gaps = 1/88 (1%)

Query: 5  SSSKNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGN 64
            S   +  +H INL +K QDG++ FF+      +K+L+  YC+ +     S  FL +G 
Sbjct: 1  EKSGKGEISEH-INLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQ 59

Query: 65 RFDYSKTADQLGLKDGDEIDAMYHAFGG 92
          R   ++T D LG++DGDEI+ M    GG
Sbjct: 60 RIRDNQTPDDLGMEDGDEIEVMLEQTGG 87

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 = 49.5 bits (118), Expect = 2e-09
 Identities = 25/76 (32%), Positives = 39/76 (51%)

Query: 17  INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
           INL +  QDG + FF+       K+L+  +   + +   S  FL +G R D  +T   L 
Sbjct: 25  INLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRIDLDQTPGDLD 84

Query: 77  LKDGDEIDAMYHAFGG 92
           ++D DEI+A+    GG
Sbjct: 85  MEDNDEIEAVTEQVGG 100

Length = 103

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

 Score = 46.7 bits (112), Expect = 2e-08
 Identities = 19/71 (26%), Positives = 34/71 (47%), Gaps = 1/71 (1%)

Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI-NGNRFDYSKTADQL 75
          I + +K +DG + F +      + +L+  Y + +  P      LI +G R D + T    
Sbjct: 1  IRIKLKGKDGKEVFIKVKPTTTLSKLINAYRKKRGIPADQQVRLIFDGERLDPNDTVADY 60

Query: 76 GLKDGDEIDAM 86
           ++DGD ID +
Sbjct: 61 DIEDGDTIDVV 71

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	98
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	99.91
cd01806	76	Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also kn	99.66
cd01803	76	Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40	99.5
PTZ00044	76	ubiquitin; Provisional	99.5
cd01802	103	AN1_N ubiquitin-like domain of AN1. AN1 (also know	99.46
cd01810	74	ISG15_repeat2 ISG15 ubiquitin-like protein, second	99.46
cd01793	74	Fubi Fubi ubiquitin-like protein. Fubi is a ubiqui	99.43
cd01804	78	midnolin_N Ubiquitin-like domain of midnolin. midn	99.42
cd01807	74	GDX_N ubiquitin-like domain of GDX. GDX contains a	99.41
cd01809	72	Scythe_N Ubiquitin-like domain of Scythe protein.	99.39
PF00240	69	ubiquitin: Ubiquitin family; InterPro: IPR000626 U	99.36
cd01805	77	RAD23_N Ubiquitin-like domain of RAD23. RAD23 belo	99.34
cd01791	73	Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also know	99.34
cd01798	70	parkin_N amino-terminal ubiquitin-like of parkin p	99.29
cd01797	78	NIRF_N amino-terminal ubiquitin-like domain of Np9	99.29
cd01812	71	BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-ter	99.28
cd01792	80	ISG15_repeat1 ISG15 ubiquitin-like protein, first	99.23
cd01794	70	DC_UbP_C dendritic cell derived ubiquitin-like pro	99.23
cd01808	71	hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC	99.22
cd01800	76	SF3a120_C Ubiquitin-like domain of Mammalian splic	99.21
smart00213	64	UBQ Ubiquitin homologues. Ubiquitin-mediated prote	99.13
cd01769	69	UBL Ubiquitin-like domain of UBL. UBLs function by	99.04
cd01796	71	DDI1_N DNA damage inducible protein 1 ubiquitin-li	99.03
KOG0005	70	consensus Ubiquitin-like protein [Cell cycle contr	98.93
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	98.83
cd01790	79	Herp_N Homocysteine-responsive endoplasmic reticul	98.83
cd01799	75	Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HO	98.75
KOG0003	128	consensus Ubiquitin/60s ribosomal protein L40 fusi	98.74
cd01813	74	UBP_N UBP ubiquitin processing protease. The UBP (	98.73
KOG0010	493	consensus Ubiquitin-like protein [Posttranslationa	98.62
cd01815	75	BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC	98.45
cd00196	69	UBQ Ubiquitin-like proteins. Ubiquitin homologs; I	98.44
cd01814	113	NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and AT	98.37
KOG0004	156	consensus Ubiquitin/40S ribosomal protein S27a fus	98.28
cd01789	84	Alp11_N Ubiquitin-like domain of Alp11 tubulin-fol	98.28
PF11543	80	UN_NPL4: Nuclear pore localisation protein NPL4; I	98.23
PLN02560	308	enoyl-CoA reductase	98.1
PF14560	87	Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2K	98.03
cd01801	77	Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-	97.88
KOG0011	340	consensus Nucleotide excision repair factor NEF2,	97.88
PF11470	65	TUG-UBL1: GLUT4 regulating protein TUG; InterPro:	97.77
cd01795	107	USP48_C USP ubiquitin-specific protease. The USP (	97.68
KOG4248	1143	consensus Ubiquitin-like protein, regulator of apo	97.65
PF13881	111	Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB	97.63
PF08817	79	YukD: WXG100 protein secretion system (Wss), prote	97.55
KOG0001	75	consensus Ubiquitin and ubiquitin-like proteins [P	97.53
PF00789	82	UBX: UBX domain; InterPro: IPR001012 The UBX domai	97.4
cd00754	80	MoaD Ubiquitin domain of MoaD-like proteins. MoaD	96.76
PRK08364	70	sulfur carrier protein ThiS; Provisional	96.73
cd01774	85	Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 i	96.71
smart00166	80	UBX Domain present in ubiquitin-regulatory protein	96.63
COG5417	81	Uncharacterized small protein [Function unknown]	96.4
PRK06488	65	sulfur carrier protein ThiS; Validated	96.4
PRK06437	67	hypothetical protein; Provisional	96.34
cd01811	80	OASL_repeat1 2'-5' oligoadenylate synthetase-like	96.27
cd06409	86	PB1_MUG70 The MUG70 protein is a product of the me	96.19
PRK07440	70	hypothetical protein; Provisional	96.15
cd01767	77	UBX UBX (ubiquitin regulatory X) domain. The UBX (	96.12
KOG0006	446	consensus E3 ubiquitin-protein ligase (Parkin prot	96.09
smart00455	70	RBD Raf-like Ras-binding domain.	95.89
TIGR01687	88	moaD_arch MoaD family protein, archaeal. Members o	95.88
PF13019	162	Telomere_Sde2: Telomere stability and silencing	95.86
KOG3493	73	consensus Ubiquitin-like protein [Posttranslationa	95.79
cd01770	79	p47_UBX p47-like ubiquitin domain. p47_UBX p47 is	95.77
PF12436	249	USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-sp	95.74
PRK06944	65	sulfur carrier protein ThiS; Provisional	95.62
PRK05863	65	sulfur carrier protein ThiS; Provisional	95.49
cd01771	80	Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated fac	95.36
PRK05659	66	sulfur carrier protein ThiS; Validated	95.35
cd01773	82	Faf1_like1_UBX Faf1 ike-1 UBX domain. Faf1_like1 i	95.31
smart00666	81	PB1 PB1 domain. Phox and Bem1p domain, present in	95.25
PRK06083	84	sulfur carrier protein ThiS; Provisional	95.09
PRK08053	66	sulfur carrier protein ThiS; Provisional	94.99
cd01760	72	RBD Ubiquitin-like domain of RBD-like S/T kinases.	94.99
PF10302	97	DUF2407: DUF2407 ubiquitin-like domain; InterPro:	94.22
TIGR01682	80	moaD molybdopterin converting factor, subunit 1, n	94.2
PLN02799	82	Molybdopterin synthase sulfur carrier subunit	93.99
PF00564	84	PB1: PB1 domain; InterPro: IPR000270 The Phox and	93.98
TIGR01683	64	thiS thiamine biosynthesis protein ThiS. This mode	93.63
cd01772	79	SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-subst	93.59
cd06406	80	PB1_P67 A PB1 domain is present in p67 proteins wh	93.56
PRK07696	67	sulfur carrier protein ThiS; Provisional	93.49
cd00565	65	ThiS ThiaminS ubiquitin-like sulfur carrier protei	93.23
PF02597	77	ThiS: ThiS family; InterPro: IPR003749 ThiS (thiam	93.19
PF02196	71	RBD: Raf-like Ras-binding domain; InterPro: IPR003	93.09
KOG3439	116	consensus Protein conjugation factor involved in a	92.87
PF14451	81	Ub-Mut7C: Mut7-C ubiquitin	92.65
PF04110	87	APG12: Ubiquitin-like autophagy protein Apg12 ; In	92.53
cd06407	82	PB1_NLP A PB1 domain is present in NIN like protei	92.51
PF03671	76	Ufm1: Ubiquitin fold modifier 1 protein; InterPro:	92.38
cd06396	81	PB1_NBR1 The PB1 domain is an essential part of NB	92.35
cd01818	77	TIAM1_RBD Ubiquitin domain of Tiam1 guanine nucleo	92.31
cd01766	82	Ufm1 Urm1-like ubiquitin domain. Ufm1 (ubiquitin-f	92.21
cd06408	86	PB1_NoxR The PB1 domain is present in the Epichloe	91.99
cd01788	119	ElonginB Ubiquitin-like domain of Elongin B. Elong	91.97
PF14836	88	Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A	91.94
cd01612	87	APG12_C Ubiquitin-like domain of APG12. APG12_C Th	91.92
PF09379	80	FERM_N: FERM N-terminal domain ; InterPro: IPR0189	91.73
PF12754	309	Blt1: Cell-cycle control medial ring component; In	91.6
smart00295	207	B41 Band 4.1 homologues. Also known as ezrin/radix	91.02
cd05992	81	PB1 The PB1 domain is a modular domain mediating s	90.5
PF08825	84	E2_bind: E2 binding domain; InterPro: IPR014929 E1	90.03
COG2104	68	ThiS Sulfur transfer protein involved in thiamine	90.01
cd01777	87	SNX27_RA Ubiquitin domain of SNX27 (sorting nexin	89.14
PRK11840	326	bifunctional sulfur carrier protein/thiazole synth	88.03
TIGR02958	452	sec_mycoba_snm4 secretion protein snm4. Members of	87.72
cd06398	91	PB1_Joka2 The PB1 domain is present in the Nicotia	86.26
PF06234	85	TmoB: Toluene-4-monooxygenase system protein B (Tm	85.63
PF00788	93	RA: Ras association (RalGDS/AF-6) domain; InterPro	85.16
PF11620	88	GABP-alpha: GA-binding protein alpha chain; InterP	84.31
PRK11130	81	moaD molybdopterin synthase small subunit; Provisi	84.22
PF15044	76	CLU_N: Mitochondrial function, CLU-N-term	84.22
cd01611	112	GABARAP Ubiquitin domain of GABA-receptor-associat	83.77
PF03607	60	DCX: Doublecortin; InterPro: IPR003533 X-linked li	81.45

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

Probab=100.00  E-value=3.9e-33  Score=180.15  Aligned_cols=81  Identities=33%  Similarity=0.591  Sum_probs=79.1

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCC
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGG   93 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~   93 (98)
                      ..+|+|+|+++++..+.|+||++|||+|||++||++.|++.+++||+|||.+|.+.+||++|+|||||+|+|+.+|+||.
T Consensus        18 ~~hi~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~~q~gG~   97 (99)
T KOG1769|consen   18 SEHINLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQEQTGGF   97 (99)
T ss_pred             cceEEEEEecCCCCEEEEEeecCChHHHHHHHHHHHcCCccceEEEEECCcCcCCCCChhhhCCcCCcEEEEEeecccCC
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999996


Q ss_pred             c
Q 045424           94 H   94 (98)
Q Consensus        94 ~   94 (98)
                      .
T Consensus        98 ~   98 (99)
T KOG1769|consen   98 G   98 (99)
T ss_pred             C
Confidence            4

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

Probab=99.97  E-value=6e-31  Score=167.82  Aligned_cols=87  Identities=31%  Similarity=0.568  Sum_probs=82.8

Q ss_pred             CCCCCC-CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEE
Q 045424            8 KNNKKP-QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus         8 ~~~~~~-~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~   86 (98)
                      ++.++| ..+|+++|.+++|.++.|+||.+|+|++||++||.+.|.+.+.+||+|||.+|+.++||++|+|||+|+|+|+
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            456666 5699999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ceecCCCc
Q 045424           87 YHAFGGGH   94 (98)
Q Consensus        87 ~~q~GG~~   94 (98)
                      .+|+||+-
T Consensus        95 ~eQvGG~t  102 (103)
T COG5227          95 TEQVGGAT  102 (103)
T ss_pred             HHHhcCcc
Confidence            99999974

>cd01763 Sumo Small ubiquitin-related modifier (SUMO)

Probab=99.96  E-value=4.4e-28  Score=153.74  Aligned_cols=84  Identities=36%  Similarity=0.699  Sum_probs=81.0

Q ss_pred             CCCCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424            9 NNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus         9 ~~~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      +..+++.+|+|+|++++|..+.|+|+++++|++||++||++.|+++++++|+|+|++|.+++||++|+|+|||+|+|+++
T Consensus         4 ~~~~~~~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l~   83 (87)
T cd01763           4 GKGEISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLE   83 (87)
T ss_pred             CCCCCCCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeECCCCCCHHHcCCCCCCEEEEEEe
Confidence            44567899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ecCC
Q 045424           89 AFGG   92 (98)
Q Consensus        89 q~GG   92 (98)
                      |.||
T Consensus        84 l~GG   87 (87)
T cd01763          84 QTGG   87 (87)
T ss_pred             cccC
Confidence            9998

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=99.91  E-value=4.5e-24  Score=129.82  Aligned_cols=71  Identities=35%  Similarity=0.693  Sum_probs=66.7

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC-cceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF-KSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~-~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      |+|+|++++|..+.|+|+++++|++|+++||++.|++. ++++|+|||++|.+++||++++|+|||+|||.+
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=99.66  E-value=1.5e-15  Score=92.39  Aligned_cols=76  Identities=17%  Similarity=0.300  Sum_probs=73.1

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +.|.|++.+|..+.+.+.+++++..|++.++++.|++++.++|+|+|..|.++.|.++++++||++|++.+++.||
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            4688888999999999999999999999999999999999999999999999999999999999999999999997

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.

>cd01803 Ubiquitin Ubiquitin

Probab=99.50  E-value=2.8e-13  Score=82.28  Aligned_cols=76  Identities=12%  Similarity=0.297  Sum_probs=72.7

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +.|.|++.+|+.+.+.+.++.++..|+..++++.|++++.++|+|+|..|.++.|.+++++++|++|++.+++.||
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            4678888899999999999999999999999999999999999999999999999999999999999999999998

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

>PTZ00044 ubiquitin; Provisional

Probab=99.50  E-value=3.5e-13  Score=82.37  Aligned_cols=76  Identities=18%  Similarity=0.372  Sum_probs=72.7

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +.|.|+..+|....+.+.+++++..|+...+++.|+++++++++|+|..|.++.|.+++++++|++|++.++..||
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            4678888899999999999999999999999999999999999999999999999999999999999999999987

>cd01802 AN1_N ubiquitin-like domain of AN1

Probab=99.46  E-value=1.2e-12  Score=85.47  Aligned_cols=80  Identities=11%  Similarity=0.144  Sum_probs=76.9

Q ss_pred             CCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           13 PQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        13 ~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +.+.+.|.|+...|..+.+.|.+++++..|++..+++.|++.++++++|.|+.|.++.|.+++++++|++|++.+++.||
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            36689999999999999999999999999999999999999999999999999999999999999999999999999997

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.

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

Probab=99.46  E-value=9.3e-13  Score=80.64  Aligned_cols=74  Identities=12%  Similarity=0.237  Sum_probs=70.8

Q ss_pred             EEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           19 LIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        19 I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      |.|++..|..+.+.|.++.++..|++..++..|++.++++++|+|+.|.++.|.+++++++|++|++.+++.||
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            46778899999999999999999999999999999999999999999999999999999999999999999987

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.

>cd01793 Fubi Fubi ubiquitin-like protein

Probab=99.43  E-value=2e-12  Score=79.15  Aligned_cols=74  Identities=11%  Similarity=0.240  Sum_probs=69.0

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +.|.|++  +....+.|.+++++..|+...+++.|++.++++++|.|+.|.++.|.++++++++.+|++.++..||
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  4678899999999999999999999999999999999999999999999999999999999999997

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=99.42  E-value=3.2e-12  Score=79.30  Aligned_cols=77  Identities=21%  Similarity=0.259  Sum_probs=72.7

Q ss_pred             cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCC
Q 045424           16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGG   93 (98)
Q Consensus        16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~   93 (98)
                      .++|.|+...|....+.+.++.++..|++.++++.+++.+.++|.|.|..|.++ |.++++++||++|.++..+.||.
T Consensus         1 ~m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~~~~~~   77 (78)
T cd01804           1 PMNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPTVEAGL   77 (78)
T ss_pred             CeEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEeeccccC
Confidence            367888888899999999999999999999999999999999999999999988 99999999999999999999984

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=99.41  E-value=2.8e-12  Score=78.44  Aligned_cols=73  Identities=14%  Similarity=0.200  Sum_probs=68.8

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      +.|.|+..+|..+.+.|.+++++..|++..+++.|++.++++++|.|+.|.++.|.+++++.+|++|.+.+++
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            4677888899999999999999999999999999999999999999999999999999999999999998765

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=99.39  E-value=5.2e-12  Score=75.89  Aligned_cols=71  Identities=18%  Similarity=0.343  Sum_probs=67.6

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      |+|.|+..+|..+.+.+.++.++..|++.++++.|++++.++++|+|..|.++.|.+++++.+|++|++..
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            57888889999999999999999999999999999999999999999999999999999999999998865

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=99.36  E-value=5.8e-12  Score=75.45  Aligned_cols=68  Identities=24%  Similarity=0.358  Sum_probs=64.4

Q ss_pred             ccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceec
Q 045424           23 SQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAF   90 (98)
Q Consensus        23 ~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~   90 (98)
                      ..+|..+.+.|.+++++..|++.+++..|++++.++|+|+|+.|.++.|..++++.+|++|.+.++|.
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            45788899999999999999999999999999999999999999999999999999999999998863

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 ....

>cd01805 RAD23_N Ubiquitin-like domain of RAD23

Probab=99.34  E-value=1.9e-11  Score=74.71  Aligned_cols=73  Identities=15%  Similarity=0.200  Sum_probs=68.6

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCC--CCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQ--PFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~--~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      +.|.|++.+|..+.+.+.+++++..|+..++++.|+  +++.++++|+|..|.++.|.+++++.+|++|.+.+.+
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).

>cd01791 Ubl5 UBL5 ubiquitin-like modifier

Probab=99.34  E-value=1.6e-11  Score=75.59  Aligned_cols=71  Identities=15%  Similarity=0.135  Sum_probs=67.9

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      |.|.|++..|..+.+.+.+++++..|+++++++.|++++.+||+|.|..|.++.|.+++++.+|.+|+++.
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            68899998899999999999999999999999999999999999999999999999999999999999975

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.

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

Probab=99.29  E-value=3.2e-11  Score=72.87  Aligned_cols=69  Identities=14%  Similarity=0.249  Sum_probs=64.9

Q ss_pred             EEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424           19 LIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus        19 I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      |.|+...|..+.+.+.+++++..|++.++++.|++.++++|+|.|+.|.++.|.+++++.+|.+|++..
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            456778899999999999999999999999999999999999999999999999999999999999864

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=99.29  E-value=3.4e-11  Score=74.88  Aligned_cols=74  Identities=14%  Similarity=0.161  Sum_probs=67.9

Q ss_pred             EEEEEEccCCCE-EEEE-EcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceec
Q 045424           17 INLIIKSQDGDK-RFFQ-FNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAF   90 (98)
Q Consensus        17 I~I~v~~~~g~~-~~f~-Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~   90 (98)
                      +.|.|+...|.. +.+. +.+++++..|+...++..|++.++++++|.|+.|.++.|.+++++.+|++|++.++|-
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 4784 8999999999999999999999999999999999999999999999999999998863

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=99.28  E-value=3.2e-11  Score=72.43  Aligned_cols=70  Identities=17%  Similarity=0.270  Sum_probs=64.8

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      |+|.|+.. |....+.+.++.++..|++.+++..|++++.++++|+|..|.++.|.+++++.+|++|.+..
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            57888874 77788999999999999999999999999999999999999999999999999999998864

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=99.23  E-value=8.8e-11  Score=72.94  Aligned_cols=73  Identities=12%  Similarity=0.156  Sum_probs=69.0

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeE--EECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPF--LINGNRFDYSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF--~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      |.|.|+...|..+.+.+.++.+...|++.++++.|++.+.++|  .|+|..|.++.|.+++++++|++|.+.++.
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            7888888899999999999999999999999999999999999  899999999999999999999999999874

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=99.23  E-value=1e-10  Score=71.43  Aligned_cols=69  Identities=6%  Similarity=0.100  Sum_probs=65.5

Q ss_pred             EEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424           19 LIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus        19 I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      ++|+...|+.+.+.+.+++++..|+...+++.|++.++++++|.|+.|.++.|.+++++++|.+|+|.+
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            467778899999999999999999999999999999999999999999999999999999999999976

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=99.22  E-value=1.4e-10  Score=70.26  Aligned_cols=71  Identities=14%  Similarity=0.219  Sum_probs=64.9

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      |+|.|+...|. ..+.+.++.+...|++..+++.|++..+++++|.|+.|.++.|.+++++++|.+|++.++
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            45777777786 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=99.21  E-value=1.2e-10  Score=71.68  Aligned_cols=69  Identities=19%  Similarity=0.220  Sum_probs=66.0

Q ss_pred             CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCC
Q 045424           25 DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGG   93 (98)
Q Consensus        25 ~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~   93 (98)
                      +|..+.+.+.+++++..|++...+..|++++.++++|.|..+.++.|.+++++.+|++|++.+++.||.
T Consensus         6 ~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~~~~gg~   74 (76)
T cd01800           6 NGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQLKERGGR   74 (76)
T ss_pred             CCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEEecCCCc
Confidence            577888999999999999999999999999999999999999999999999999999999999999984

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=99.13  E-value=4.7e-10  Score=65.35  Aligned_cols=64  Identities=19%  Similarity=0.337  Sum_probs=58.8

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGD   81 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD   81 (98)
                      |.|.|++.+ ....+.|.+++++..|+..+++..|++++.++++|+|..|.++.|.+++++.+|+
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            467777777 5788999999999999999999999999999999999999999999999999985

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=99.04  E-value=2.5e-09  Score=63.00  Aligned_cols=67  Identities=18%  Similarity=0.322  Sum_probs=62.4

Q ss_pred             EEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424           21 IKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus        21 v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      |+..+|....+.+.+++++..|++.+++..|++.+.++|+|+|+.|.++.|.+++++.+|+.|.|..
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            4556788899999999999999999999999999999999999999999999999999999999864

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.

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

Probab=99.03  E-value=2.2e-09  Score=65.32  Aligned_cols=67  Identities=15%  Similarity=0.222  Sum_probs=60.3

Q ss_pred             EEEcc-CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCC-CChhhcCCCCCCEEEEE
Q 045424           20 IIKSQ-DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYS-KTADQLGLKDGDEIDAM   86 (98)
Q Consensus        20 ~v~~~-~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~-~Tp~~l~medgD~Idv~   86 (98)
                      .|+.. .|..+.+.+.++.++..|+...+++.|++.++++++|+|+.|.++ .|.+++++++|++|.+.
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            34456 788889999999999999999999999999999999999999887 58999999999998763

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.

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

Probab=98.93  E-value=2.4e-09  Score=64.05  Aligned_cols=68  Identities=16%  Similarity=0.263  Sum_probs=64.8

Q ss_pred             EEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEE
Q 045424           18 NLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDA   85 (98)
Q Consensus        18 ~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv   85 (98)
                      -|+|+...|.++.+.|.++++++++++...++.|+++.+.|++|-|.++.++.|++++.++-|.+++.
T Consensus         2 ~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp~qqrli~~gkqm~DD~tA~~Y~~~~GSVlHl   69 (70)
T KOG0005|consen    2 LIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYAGKQMNDDKTAAHYNLLGGSVLHL   69 (70)
T ss_pred             eeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhhhccccccccccHHHhhhccceeEee
Confidence            47888889999999999999999999999999999999999999999999999999999999998875

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=98.83  E-value=2.6e-08  Score=77.81  Aligned_cols=73  Identities=19%  Similarity=0.248  Sum_probs=68.2

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcC---CCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKS---QPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g---~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      |+|+|++..|..+.+.|.+++++..|+..+++..|   ++.+.++|+|.|+.|.++.|.+++++.++|+|.+++..
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            46788888999999999999999999999999998   88999999999999999999999999999999998765

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).

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

Probab=98.83  E-value=4.5e-08  Score=61.34  Aligned_cols=72  Identities=8%  Similarity=0.027  Sum_probs=63.5

Q ss_pred             cEEEEEEccCCCEEEEEE--cCccHHHHHHHHHHHhcC--CCCcceeEEECCeecCCCCChhhcC--CCCCCEEEEEc
Q 045424           16 LINLIIKSQDGDKRFFQF--NHDVEIKRLLIKYCETKS--QPFKSTPFLINGNRFDYSKTADQLG--LKDGDEIDAMY   87 (98)
Q Consensus        16 ~I~I~v~~~~g~~~~f~I--k~~t~l~kL~~~y~~~~g--~~~~~~rF~fdG~~l~~~~Tp~~l~--medgD~Idv~~   87 (98)
                      .|+|.|++.++....|.|  .++.++..|++..++..+  .+++++||+|.|+-|.+++|.+++.  +.+|-+|+++.
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            488999999998866666  899999999999999875  3469999999999999999999996  99999998763

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.

>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1

Probab=98.75  E-value=9.3e-08  Score=59.08  Aligned_cols=63  Identities=16%  Similarity=0.186  Sum_probs=57.6

Q ss_pred             cCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecC-CCCChhhcCCC-CCCEEEEEc
Q 045424           24 QDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFD-YSKTADQLGLK-DGDEIDAMY   87 (98)
Q Consensus        24 ~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~-~~~Tp~~l~me-dgD~Idv~~   87 (98)
                      ..|..+.+.+.++.++..|+...+++.|++++.+|+ |+|.++. ++.|.++++++ +||++.+++
T Consensus        10 ~~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~~   74 (75)
T cd01799          10 SHTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLYI   74 (75)
T ss_pred             cCCCeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEEe
Confidence            457788999999999999999999999999999999 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=98.74  E-value=2.4e-09  Score=70.82  Aligned_cols=77  Identities=12%  Similarity=0.256  Sum_probs=71.7

Q ss_pred             EEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCCcc
Q 045424           19 LIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGGHD   95 (98)
Q Consensus        19 I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~~~   95 (98)
                      +.+..-.|..+++.+.+++++..|+.......|++++..++.|+|+.|.+..|.++++|.-.|+|++++++.||...
T Consensus         3 ~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~~~~rL~GG~i~   79 (128)
T KOG0003|consen    3 IFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGIIE   79 (128)
T ss_pred             EEEEEeeCceEEEEecccchHHHHHHHhccccCCCHHHHHHHhcccccccCCcccccCccchhhhhhhHHHhcCCCC
Confidence            44555679999999999999999999999999999999999999999999999999999999999999999999643

>cd01813 UBP_N UBP ubiquitin processing protease

Probab=98.73  E-value=1.1e-07  Score=58.48  Aligned_cols=68  Identities=16%  Similarity=0.065  Sum_probs=60.7

Q ss_pred             EEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE---CCeecCCCCChhhcCCCCCCEEEEE
Q 045424           18 NLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI---NGNRFDYSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus        18 ~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f---dG~~l~~~~Tp~~l~medgD~Idv~   86 (98)
                      +|.|+. .|....+.+..++++..|++..++..|+++++++++|   .|..+.++.|.+++++.+|+.|.++
T Consensus         2 ~i~vk~-~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g~~i~lm   72 (74)
T cd01813           2 PVIVKW-GGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDVKISALKLKPNTKIMMM   72 (74)
T ss_pred             EEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCcCHHHcCCCCCCEEEEE
Confidence            444543 6777889999999999999999999999999999996   8999999999999999999998775

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=98.62  E-value=1.3e-07  Score=75.67  Aligned_cols=76  Identities=17%  Similarity=0.250  Sum_probs=71.2

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceec
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAF   90 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~   90 (98)
                      ...|.|+|++.+. +..|.|..+..++.|++..+.+++.+.++++++|-|+.|++.+|...+++.||=+|+++++..
T Consensus        13 ~~~irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrILKD~dTL~~~gI~Dg~TvHLVik~~   88 (493)
T KOG0010|consen   13 ASLIRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGRILKDDDTLKQYGIQDGHTVHLVIKSQ   88 (493)
T ss_pred             cceeEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCccccChhhHHHcCCCCCcEEEEEeccC
Confidence            3579999999877 789999999999999999999999999999999999999999999999999999999998753

>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP

Probab=98.45  E-value=5.9e-07  Score=55.81  Aligned_cols=52  Identities=15%  Similarity=0.205  Sum_probs=47.5

Q ss_pred             ccHHHHHHHHHHHhc--CC-CCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424           36 DVEIKRLLIKYCETK--SQ-PFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus        36 ~t~l~kL~~~y~~~~--g~-~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      +++...|+...+++.  |+ +++++|++|.|+.|.++.|.+++++.+|++|.++.
T Consensus        20 ~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~TL~dygI~~gstlhLv~   74 (75)
T cd01815          20 GYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQTLDFYGIQSGSTIHILR   74 (75)
T ss_pred             cCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCCcHHHcCCCCCCEEEEEe
Confidence            578999999999996  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=98.44  E-value=2.9e-06  Score=46.52  Aligned_cols=64  Identities=25%  Similarity=0.335  Sum_probs=59.3

Q ss_pred             cCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424           24 QDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus        24 ~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      .++....+.+.+++++..|+...++++|.+.+.+.|.++|..+....+..+..+.+|++|.+..
T Consensus         5 ~~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~   68 (69)
T cd00196           5 NDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVP   68 (69)
T ss_pred             cCCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence            3688889999999999999999999999999999999999999999999999999999998863

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=98.37  E-value=1.8e-06  Score=57.43  Aligned_cols=75  Identities=11%  Similarity=0.100  Sum_probs=64.5

Q ss_pred             CcEEEEEEccCCCEE-EEEEcCccHHHHHHHHHHHhc-----CC--CCcceeEEECCeecCCCCChhhcC------CCCC
Q 045424           15 HLINLIIKSQDGDKR-FFQFNHDVEIKRLLIKYCETK-----SQ--PFKSTPFLINGNRFDYSKTADQLG------LKDG   80 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~-~f~Ik~~t~l~kL~~~y~~~~-----g~--~~~~~rF~fdG~~l~~~~Tp~~l~------medg   80 (98)
                      +.|.|+++-.+|..+ -|++.++++...|++...+.+     ++  +.++++|+|.|+.|.++.|.++++      ..-.
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            568899998999877 799999999999999999655     33  489999999999999999999999      6666


Q ss_pred             CEEEEEcee
Q 045424           81 DEIDAMYHA   89 (98)
Q Consensus        81 D~Idv~~~q   89 (98)
                      -+++|.++.
T Consensus        83 ~TmHvvlr~   91 (113)
T cd01814          83 ITMHVVVQP   91 (113)
T ss_pred             eEEEEEecC
Confidence            777887764

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

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

Probab=98.28  E-value=1.1e-06  Score=61.17  Aligned_cols=79  Identities=11%  Similarity=0.290  Sum_probs=74.0

Q ss_pred             EEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCCccc
Q 045424           18 NLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGGHDH   96 (98)
Q Consensus        18 ~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~~~~   96 (98)
                      .|.|+...|..+.+.+.++.++..++....+..|+++.+.|++|-|++|.+.-|..|+++.-..+|.++++..||...|
T Consensus         2 ~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~egIp~dqqrlifag~qLedgrtlSDY~Iqkestl~l~l~l~Gg~kkr   80 (156)
T KOG0004|consen    2 QIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGAKKR   80 (156)
T ss_pred             ccchhhccccceeeeecccccHHHHHHhhhcccCCCchhhhhhhhhcccccCCccccccccccceEEEEEEecCCcccc
Confidence            4667777788899999999999999999999999999999999999999999999999999999999999999997765

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

Probab=98.28  E-value=9.9e-06  Score=50.80  Aligned_cols=70  Identities=20%  Similarity=0.259  Sum_probs=58.5

Q ss_pred             EEEEEEcc-CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeE-EECCe-----ec-CCCCChhhcCCCCCCEEEEE
Q 045424           17 INLIIKSQ-DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPF-LINGN-----RF-DYSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus        17 I~I~v~~~-~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF-~fdG~-----~l-~~~~Tp~~l~medgD~Idv~   86 (98)
                      |+|.|.+. .......++.++.++..|++......|++++.+++ +|+|.     .+ .++.|..+++++||.+|+|.
T Consensus         2 v~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVv   79 (84)
T cd01789           2 VTVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVI   79 (84)
T ss_pred             EEEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEE
Confidence            45666653 34456788999999999999999999999999999 57888     34 57889999999999999986

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=98.23  E-value=3.4e-06  Score=52.80  Aligned_cols=70  Identities=27%  Similarity=0.306  Sum_probs=43.8

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC---Ceec--CCCCChhhcCCCCCCEEEE
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN---GNRF--DYSKTADQLGLKDGDEIDA   85 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd---G~~l--~~~~Tp~~l~medgD~Idv   85 (98)
                      +.|-|+|++.+|. ..+.+.+++++..|+++.++..+++.+.+.+..+   ...+  ..+.|.++|++..||.|.+
T Consensus         3 ~~milRvrS~dG~-~Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmlyL   77 (80)
T PF11543_consen    3 SSMILRVRSKDGM-KRIEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLYL   77 (80)
T ss_dssp             ---EEEEE-SSEE-EEEEE-TTSBHHHHHHHHHHHS---TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE-
T ss_pred             ccEEEEEECCCCC-EEEEcCCcccHHHHHHHHHHHcCCCCcceEEEecCCCCcccccCCcCCHHHcCCCCccEEEE
Confidence            5688999999995 4668999999999999999999999887776543   2355  4688999999999999865

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.

>PLN02560 enoyl-CoA reductase

Probab=98.10  E-value=1.9e-05  Score=60.32  Aligned_cols=70  Identities=17%  Similarity=0.228  Sum_probs=59.2

Q ss_pred             EEEEEEccCCCEE---EEEEcCccHHHHHHHHHHHhcCC-CCcceeEEEC---C----eecCCCCChhhcCCCCCCEEEE
Q 045424           17 INLIIKSQDGDKR---FFQFNHDVEIKRLLIKYCETKSQ-PFKSTPFLIN---G----NRFDYSKTADQLGLKDGDEIDA   85 (98)
Q Consensus        17 I~I~v~~~~g~~~---~f~Ik~~t~l~kL~~~y~~~~g~-~~~~~rF~fd---G----~~l~~~~Tp~~l~medgD~Idv   85 (98)
                      |+|.|+..+|+.+   .+.+.++++++.|+.+++++.+. +++.+|+.++   |    ..|.++.|.+++++++|++|.|
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            3566667778776   78999999999999999999886 7899999983   4    3778899999999999999876


Q ss_pred             E
Q 045424           86 M   86 (98)
Q Consensus        86 ~   86 (98)
                      .
T Consensus        81 k   81 (308)
T PLN02560         81 K   81 (308)
T ss_pred             E
Confidence            4

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

Probab=98.03  E-value=4.9e-05  Score=47.57  Aligned_cols=70  Identities=20%  Similarity=0.312  Sum_probs=57.0

Q ss_pred             EEEEEEccCC--CEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC----Ceec----CCCCChhhcCCCCCCEEEEE
Q 045424           17 INLIIKSQDG--DKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN----GNRF----DYSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus        17 I~I~v~~~~g--~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd----G~~l----~~~~Tp~~l~medgD~Idv~   86 (98)
                      |+|.|.+...  .....++.++.++..|+.......|++++.+++.+.    +..+    .+..|..+++++||++|+|.
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            6778877554  478999999999999999999999999998887774    3322    45889999999999999986

>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13

Probab=97.88  E-value=8.6e-05  Score=45.55  Aligned_cols=52  Identities=17%  Similarity=0.224  Sum_probs=45.4

Q ss_pred             cCccHHHHHHHHHHHhcCC-CCcceeEE--ECCeecCCCCChhhcCCCCCCEEEE
Q 045424           34 NHDVEIKRLLIKYCETKSQ-PFKSTPFL--INGNRFDYSKTADQLGLKDGDEIDA   85 (98)
Q Consensus        34 k~~t~l~kL~~~y~~~~g~-~~~~~rF~--fdG~~l~~~~Tp~~l~medgD~Idv   85 (98)
                      .++.++..|+.+++++.+. +.+.+|+.  +.|..|..+.|..++++.+|.+|.|
T Consensus        20 ~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~d~~tL~~~gv~~g~~lyv   74 (77)
T cd01801          20 SGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKDDDTLVDLGVGAGATLYV   74 (77)
T ss_pred             CCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccCCcccHhhcCCCCCCEEEE
Confidence            3778999999999998764 67887775  7899999999999999999999876

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.

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

Probab=97.88  E-value=6.1e-05  Score=58.06  Aligned_cols=75  Identities=13%  Similarity=0.147  Sum_probs=68.9

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcC--CCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKS--QPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFG   91 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g--~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   91 (98)
                      +.|.|+.-.+..+.+.+++++++..++.......|  .+.+..+++|+|+-|.++.|..++++.+++.|-|++.+.-
T Consensus         1 m~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~tv~Eykv~E~~fiVvMlsK~k   77 (340)
T KOG0011|consen    1 MKLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDETTVGEYKVKEKKFIVVMLSKDK   77 (340)
T ss_pred             CeeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceeccCCcchhhhccccCceEEEEEecCc
Confidence            35777778899999999999999999999999999  6779999999999999999999999999999999998763

>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=97.77  E-value=0.00018  Score=43.50  Aligned_cols=63  Identities=11%  Similarity=0.099  Sum_probs=46.2

Q ss_pred             EccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEE
Q 045424           22 KSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEID   84 (98)
Q Consensus        22 ~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Id   84 (98)
                      .+.+++...+++.++++|..+.+.-|+++|++.++..+.|++..|+.+.+-.-.+|-+|..++
T Consensus         2 i~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h~~k~ldlslp~R~snL~n~akLe   64 (65)
T PF11470_consen    2 ICYNFRRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLKHNNKPLDLSLPFRLSNLPNNAKLE   64 (65)
T ss_dssp             E-TTS-EEEE---TTSBHHHHHHHHHHHTT--GGG-EEEETTEEESSS-BHHHH---SS-EEE
T ss_pred             CccCCcEEEEEECCCCCHHHHHHHHHHHcCCCccceEEEECCEEeccccceeecCCCCCCEEe
Confidence            457889999999999999999999999999999999999999999999998888888887665

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.

>cd01795 USP48_C USP ubiquitin-specific protease

Probab=97.68  E-value=0.00022  Score=46.74  Aligned_cols=62  Identities=16%  Similarity=0.116  Sum_probs=56.9

Q ss_pred             CEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCC-CCChhhcCCCCCCEEEEEce
Q 045424           27 DKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDY-SKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        27 ~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~-~~Tp~~l~medgD~Idv~~~   88 (98)
                      .+..+.|.+++++..|+......+++++.+.+++|+|+-|.+ +.|..+||+..|-+|.+.+.
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            367889999999999999999999999999999999997775 67999999999999998874

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=97.65  E-value=0.00017  Score=62.39  Aligned_cols=73  Identities=18%  Similarity=0.278  Sum_probs=68.2

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceec
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAF   90 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~   90 (98)
                      ++|+|++.|.+..+|.|....+++.+++..++..+++.+..|++|.|+-|.+++|..++++ ||-+|++.-+.-
T Consensus         3 ~~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~ni~s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlverpp   75 (1143)
T KOG4248|consen    3 PNVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVNIPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVERPP   75 (1143)
T ss_pred             cceeeeecccceeEEEechHHHHHHHHHHHHHhcccccccceeeecceeeccchhhhhccC-CCeEEEeeccCC
Confidence            3488888899999999999999999999999999999999999999999999999999999 999999987643

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

Probab=97.63  E-value=0.001  Score=44.05  Aligned_cols=75  Identities=16%  Similarity=0.246  Sum_probs=57.1

Q ss_pred             CcEEEEEEccCCC-EEEEEEcCccHHHHHHHHHHHhcC-------CCCcceeEEECCeecCCCCChhhcCCCCCCE----
Q 045424           15 HLINLIIKSQDGD-KRFFQFNHDVEIKRLLIKYCETKS-------QPFKSTPFLINGNRFDYSKTADQLGLKDGDE----   82 (98)
Q Consensus        15 ~~I~I~v~~~~g~-~~~f~Ik~~t~l~kL~~~y~~~~g-------~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~----   82 (98)
                      +.|.|+++-.+|. ...|...++++...|++..-....       .+.+.+|++|.|+-|.++.|..++.+--|+.    
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            3688999989998 678999999999999998876442       1457999999999999999999999998884    


Q ss_pred             --EEEEcee
Q 045424           83 --IDAMYHA   89 (98)
Q Consensus        83 --Idv~~~q   89 (98)
                        +++.++.
T Consensus        81 ~vmHlvvrp   89 (111)
T PF13881_consen   81 TVMHLVVRP   89 (111)
T ss_dssp             EEEEEEE-S
T ss_pred             EEEEEEecC
Confidence              5555543

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

Probab=97.55  E-value=0.00034  Score=43.09  Aligned_cols=70  Identities=20%  Similarity=0.297  Sum_probs=51.6

Q ss_pred             cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC---c---ceeEE-ECCeecCCCCChhhcCCCCCCEEEE
Q 045424           16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF---K---STPFL-INGNRFDYSKTADQLGLKDGDEIDA   85 (98)
Q Consensus        16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~---~---~~rF~-fdG~~l~~~~Tp~~l~medgD~Idv   85 (98)
                      .+.|.|...+|..+-+.+-.+.|+..|+....+..+.+.   .   .++|. -+|..|.+++|.+++++.|||++..
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            567777765568899999999999999999999888732   2   36666 6899999999999999999998864

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.

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

Probab=97.53  E-value=0.004  Score=35.57  Aligned_cols=71  Identities=13%  Similarity=0.288  Sum_probs=64.1

Q ss_pred             EEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceec
Q 045424           20 IIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAF   90 (98)
Q Consensus        20 ~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~   90 (98)
                      .+....|....+.+.+..++..++...+...|++.+..++.|.|..+.++.|..++++..+..+.+.....
T Consensus         3 ~~~~~~gk~~~~~~~~~~~i~~~k~~i~~~~~~~~~~q~~~~~~~~l~d~~~l~~~~i~~~~~~~l~~~~~   73 (75)
T KOG0001|consen    3 FVKTLDGKTITLEVSPSDTIEVVKAKIRDKEGIPVDQQRLIFGGKPLEDGRTLADYNIQEGSTLHLVLSLR   73 (75)
T ss_pred             EEEecCCCEEEEEecCCCHHHHHHHHHHhhcCCCCeeEEEEECCEECcCCCcHHHhCCCCCCEEEEEEecC
Confidence            44556888999999999999999999999999999999999999999999999999999999999877643

>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=97.40  E-value=0.0028  Score=38.81  Aligned_cols=75  Identities=12%  Similarity=0.152  Sum_probs=58.9

Q ss_pred             CCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcc-eeEE--ECCeecCCCC--ChhhcCCCCCCEEEEE
Q 045424           12 KPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKS-TPFL--INGNRFDYSK--TADQLGLKDGDEIDAM   86 (98)
Q Consensus        12 ~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~-~rF~--fdG~~l~~~~--Tp~~l~medgD~Idv~   86 (98)
                      ++.+.++|.|+-++|..+.-++.++++++.|++-.......+... +.|.  |--..+..++  |.+++++-.+..|.|.
T Consensus         2 ~~~~~~~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v~   81 (82)
T PF00789_consen    2 EESDVVRIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIVE   81 (82)
T ss_dssp             STSSEEEEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEEE
T ss_pred             CCCCEEEEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEEE
Confidence            346778899999999999999999999999997776655554443 7765  4567777665  9999999999888763

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 ....

>cd00754 MoaD Ubiquitin domain of MoaD-like proteins

Probab=96.76  E-value=0.016  Score=34.96  Aligned_cols=60  Identities=20%  Similarity=0.253  Sum_probs=48.1

Q ss_pred             EEEEEEcCccHHHHHHHHHHHhcCC----CCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           28 KRFFQFNHDVEIKRLLIKYCETKSQ----PFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        28 ~~~f~Ik~~t~l~kL~~~y~~~~g~----~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      ...+.+...+++..|.+...++++-    ....+.+..||+.+.     .+.-+.|||+|.++.--.||
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            4667777789999999999988753    446788888999998     34569999999998876666

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.

>PRK08364 sulfur carrier protein ThiS; Provisional

Probab=96.73  E-value=0.021  Score=34.37  Aligned_cols=66  Identities=18%  Similarity=0.269  Sum_probs=48.2

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      |+|++-.. ..+..+.+...+++..|.+..    +++...+....||+.+.     .+.-+.+||.|+++.---||
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            66776432 125577788888898887544    77778899999999994     45669999999987654443

>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain

Probab=96.71  E-value=0.044  Score=34.42  Aligned_cols=71  Identities=10%  Similarity=0.074  Sum_probs=55.6

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECC--eecC--------CCCChhhcCCCCCCEEE
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLING--NRFD--------YSKTADQLGLKDGDEID   84 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG--~~l~--------~~~Tp~~l~medgD~Id   84 (98)
                      +.++|.|+-++|..+.-++..+++++.|++.... .+..+..+.+..+=  +.+.        .+.|.+++||....++-
T Consensus         3 ~~~~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~-~~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~L~   81 (85)
T cd01774           3 DTVKIVFKLPNGTRVERRFLFTQSLRVIHDFLFS-LKETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEVLF   81 (85)
T ss_pred             ceEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-CCCCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccEEE
Confidence            4677888889999999999999999999988743 34455677777654  5554        36799999999888876


Q ss_pred             EE
Q 045424           85 AM   86 (98)
Q Consensus        85 v~   86 (98)
                      |.
T Consensus        82 V~   83 (85)
T cd01774          82 VQ   83 (85)
T ss_pred             Ee
Confidence            64

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.

>smart00166 UBX Domain present in ubiquitin-regulatory proteins

Probab=96.63  E-value=0.039  Score=33.76  Aligned_cols=71  Identities=15%  Similarity=0.113  Sum_probs=54.4

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE--CCeecCC---CCChhhcCCCCCCEEEE
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI--NGNRFDY---SKTADQLGLKDGDEIDA   85 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f--dG~~l~~---~~Tp~~l~medgD~Idv   85 (98)
                      +..+|.|+-++|..+.-++..+++++.|++......+.....+.|.-  --+.+..   +.|..++++-...++-|
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            55778888899999999999999999999988665655555666654  3445543   46999999988887765

Present in FAF1 and Shp1p.

>COG5417 Uncharacterized small protein [Function unknown]

Probab=96.40  E-value=0.036  Score=34.60  Aligned_cols=69  Identities=12%  Similarity=0.163  Sum_probs=58.2

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC-----cceeEEECCeecCCCCChhhcCCCCCCEEEE
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF-----KSTPFLINGNRFDYSKTADQLGLKDGDEIDA   85 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~-----~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv   85 (98)
                      ||+-+...+|...-+++.-.-|+++|.+-..+...++.     ..++..-.++-+.+++-..+.++.|||+++.
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            45555677899999999999999999998888766642     5778888899999999999999999998764

>PRK06488 sulfur carrier protein ThiS; Validated

Probab=96.40  E-value=0.025  Score=33.33  Aligned_cols=64  Identities=20%  Similarity=0.287  Sum_probs=44.3

Q ss_pred             EEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           18 NLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        18 ~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +|.|   +|+.+.+   ..+++..|.+.+    +++.+.+..-.||+-+..+ .-.+.-+.|||.|+++.--.||
T Consensus         2 ~i~~---Ng~~~~~---~~~tl~~Ll~~l----~~~~~~vavavN~~iv~~~-~~~~~~L~dgD~Ieiv~~V~GG   65 (65)
T PRK06488          2 KLFV---NGETLQT---EATTLALLLAEL----DYEGNWLATAVNGELVHKE-ARAQFVLHEGDRIEILSPMQGG   65 (65)
T ss_pred             EEEE---CCeEEEc---CcCcHHHHHHHc----CCCCCeEEEEECCEEcCHH-HcCccccCCCCEEEEEEeccCC
Confidence            4554   6776666   345788777644    6767778889999888743 2234569999999997655554

>PRK06437 hypothetical protein; Provisional

Probab=96.34  E-value=0.04  Score=33.01  Aligned_cols=59  Identities=12%  Similarity=0.231  Sum_probs=46.2

Q ss_pred             CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           25 DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        25 ~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      ++....+.+...+++..|.+    ..|++.+.+....||+.+.     .+.-+.+||.|+++.---||
T Consensus         9 g~~~~~~~i~~~~tv~dLL~----~Lgi~~~~vaV~vNg~iv~-----~~~~L~dgD~Veiv~~V~GG   67 (67)
T PRK06437          9 GHINKTIEIDHELTVNDIIK----DLGLDEEEYVVIVNGSPVL-----EDHNVKKEDDVLILEVFSGG   67 (67)
T ss_pred             CCcceEEEcCCCCcHHHHHH----HcCCCCccEEEEECCEECC-----CceEcCCCCEEEEEecccCC
Confidence            34556788888889988885    4588888998899999996     66678999999997654443

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

Probab=96.27  E-value=0.059  Score=33.64  Aligned_cols=68  Identities=12%  Similarity=0.144  Sum_probs=54.3

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE---CCe--ecCCCCChhhcCCCCCCEEEE
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI---NGN--RFDYSKTADQLGLKDGDEIDA   85 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f---dG~--~l~~~~Tp~~l~medgD~Idv   85 (98)
                      |.|.|.--.+....|.|+|.+|+.||++......|.+- ..|+.|   .|+  .|+...|.+++|+=..-.|-+
T Consensus         1 iqVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~~~g-~qrLsfQepgg~rqlL~s~~sLA~yGiFs~~~i~l   73 (80)
T cd01811           1 IQVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRNCSG-LQRLSFQEPGGERQLLSSRKSLADYGIFSKTNICL   73 (80)
T ss_pred             CEEEeeecCCCceEEEeCCcchHHHHHHHHHHhhCccc-ceEEEeecCCcccccccccccHhhhcceeccEEEE
Confidence            45667655667899999999999999999999999876 788888   344  577888999999876655544

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.

>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=96.19  E-value=0.022  Score=36.19  Aligned_cols=49  Identities=10%  Similarity=0.118  Sum_probs=42.6

Q ss_pred             EEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC---cceeEEE---CCeec
Q 045424           18 NLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF---KSTPFLI---NGNRF   66 (98)
Q Consensus        18 ~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~---~~~rF~f---dG~~l   66 (98)
                      ..|++++.|+.+.|++.++..+..|+...+++.|++.   +.+.+.|   +|+.|
T Consensus         2 ~FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~YlDDEgD~V   56 (86)
T cd06409           2 AFKFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSYVDDEGDIV   56 (86)
T ss_pred             cEEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEEEcCCCCEE
Confidence            4688899999999999999999999999999999986   6888888   45544

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

>PRK07440 hypothetical protein; Provisional

Probab=96.15  E-value=0.056  Score=32.69  Aligned_cols=68  Identities=19%  Similarity=0.258  Sum_probs=49.5

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +.|+|+|   +|+..  .+....++..|.+    ..+++.+.+-.-.||+-|..++= ++.-+.+||.|+++.---||
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---NGETR--TCSSGTSLPDLLQ----QLGFNPRLVAVEYNGEILHRQFW-EQTQVQPGDRLEIVTIVGGG   70 (70)
T ss_pred             CceEEEE---CCEEE--EcCCCCCHHHHHH----HcCCCCCeEEEEECCEEeCHHHc-CceecCCCCEEEEEEEecCC
Confidence            4677877   66654  4556777887774    66888899999999988875432 34459999999997655444

>cd01767 UBX UBX (ubiquitin regulatory X) domain

Probab=96.12  E-value=0.14  Score=31.00  Aligned_cols=67  Identities=15%  Similarity=0.175  Sum_probs=48.6

Q ss_pred             cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE--CCeecC---CCCChhhcCCCCCCEE
Q 045424           16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI--NGNRFD---YSKTADQLGLKDGDEI   83 (98)
Q Consensus        16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f--dG~~l~---~~~Tp~~l~medgD~I   83 (98)
                      ..+|.|+-++|..+.-+...+++++.|++....... ....+.|+-  -.+.+.   .+.|.+++||.+.-++
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            456778889999999999999999999977654332 245566654  344554   4889999999954443

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.

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

Probab=96.09  E-value=0.018  Score=44.92  Aligned_cols=59  Identities=14%  Similarity=0.170  Sum_probs=50.2

Q ss_pred             EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEE
Q 045424           28 KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus        28 ~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~   86 (98)
                      .+.+.|+-++.+..|++..+.+.|++.++++.+|-|+.|+.+-|.+.-+|.-.-..+++
T Consensus        15 ~l~v~v~~~t~I~~lke~Vak~~gvp~D~L~viFaGKeLs~~ttv~~cDL~qqs~~hi~   73 (446)
T KOG0006|consen   15 GLPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELSNDTTVQNCDLSQQSATHIM   73 (446)
T ss_pred             ceeEEEecCCCHHHHHHHHHHhhCCChhheEEEEeccccccCceeecccccccchhhhh
Confidence            46788999999999999999999999999999999999999999995555444444444

>smart00455 RBD Raf-like Ras-binding domain

Probab=95.89  E-value=0.076  Score=32.20  Aligned_cols=57  Identities=11%  Similarity=0.179  Sum_probs=44.1

Q ss_pred             EEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECC--eecCCCCChhhc
Q 045424           19 LIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLING--NRFDYSKTADQL   75 (98)
Q Consensus        19 I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG--~~l~~~~Tp~~l   75 (98)
                      .+|.-++|+...+++++..++..+...-|+++|+.++.+.+..-|  .+|.-++-...|
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            345558999999999999999999999999999999888877754  344444333333

>TIGR01687 moaD_arch MoaD family protein, archaeal

Probab=95.88  E-value=0.12  Score=31.92  Aligned_cols=62  Identities=21%  Similarity=0.315  Sum_probs=46.7

Q ss_pred             CEEEEEEcCccHHHHHHHHHHHhcCC------C-----CcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           27 DKRFFQFNHDVEIKRLLIKYCETKSQ------P-----FKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        27 ~~~~f~Ik~~t~l~kL~~~y~~~~g~------~-----~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      ....+.+. .+++..|++..+++++-      .     ...+.+..||+.+..++.   .-++|||+|.++.---||
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 88999999999988752      0     135888999999986542   569999999988766665

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=95.86  E-value=0.1  Score=36.81  Aligned_cols=77  Identities=19%  Similarity=0.210  Sum_probs=57.2

Q ss_pred             EEEEEEccCC----CEEEEEEcCccHHHHHHHHHHHhcCCCCcc-eeEEEC-CeecCC-CC-ChhhcCCCCCC----EEE
Q 045424           17 INLIIKSQDG----DKRFFQFNHDVEIKRLLIKYCETKSQPFKS-TPFLIN-GNRFDY-SK-TADQLGLKDGD----EID   84 (98)
Q Consensus        17 I~I~v~~~~g----~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~-~rF~fd-G~~l~~-~~-Tp~~l~medgD----~Id   84 (98)
                      |+|.|.+.+|    ..+.|.+..++++..|++...+..+++... +.|.+. |..|.. ++ .+.++.-.+.|    .+.
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            6788999999    578999999999999999999999997755 555553 445533 33 33445544554    578


Q ss_pred             EEceecCCC
Q 045424           85 AMYHAFGGG   93 (98)
Q Consensus        85 v~~~q~GG~   93 (98)
                      +..+..||-
T Consensus        81 l~~rl~GGK   89 (162)
T PF13019_consen   81 LSLRLRGGK   89 (162)
T ss_pred             EEEeccCCC
Confidence            888888883

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

Probab=95.79  E-value=0.0049  Score=37.53  Aligned_cols=71  Identities=17%  Similarity=0.163  Sum_probs=61.2

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      |.+.+.+.-|..+.++..+++++..++...+.+.|-.++++++.=-+.-+.+.-|.++++|.||--.+.+.
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            45566666789999999999999999999999999999998888666677788899999999998877764

>cd01770 p47_UBX p47-like ubiquitin domain

Probab=95.77  E-value=0.23  Score=30.62  Aligned_cols=69  Identities=12%  Similarity=0.163  Sum_probs=50.2

Q ss_pred             cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCC-CCcceeEE--ECCeecCC-CCChhhcCCCCCCEEE
Q 045424           16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQ-PFKSTPFL--INGNRFDY-SKTADQLGLKDGDEID   84 (98)
Q Consensus        16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~-~~~~~rF~--fdG~~l~~-~~Tp~~l~medgD~Id   84 (98)
                      ..+|.|+-.+|..+.-++..+++++.|++-.....+. ....+.+.  |=.+.+.+ +.|.+++||.+.-++-
T Consensus         4 ~t~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s~v~q   76 (79)
T cd01770           4 TTSIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKELSDESLTLKEANLLNAVIVQ   76 (79)
T ss_pred             eeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcccCCCCCcHHHCCCcCcEEEE
Confidence            4566677799999999999999999999877655432 23556664  55665554 7799999999765543

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.

>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=95.74  E-value=0.053  Score=40.11  Aligned_cols=77  Identities=19%  Similarity=0.207  Sum_probs=52.5

Q ss_pred             CCCcEEEEEEc--cCCCEE----EEEEcCccHHHHHHHHHHHhcCCCCcceeEEECC------eecCCCCChhhcCCCCC
Q 045424           13 PQHLINLIIKS--QDGDKR----FFQFNHDVEIKRLLIKYCETKSQPFKSTPFLING------NRFDYSKTADQLGLKDG   80 (98)
Q Consensus        13 ~~~~I~I~v~~--~~g~~~----~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG------~~l~~~~Tp~~l~medg   80 (98)
                      ++..|-|.++-  .....+    ++-|.++++++.|....+++.|++.+.=-.+|.-      +.|.++.|.+..++.||
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            46678887774  445554    6899999999999999999999987644444432      46889999999999999


Q ss_pred             CEEEEEcee
Q 045424           81 DEIDAMYHA   89 (98)
Q Consensus        81 D~Idv~~~q   89 (98)
                      |+|-+....
T Consensus       145 dIi~fQ~~~  153 (249)
T PF12436_consen  145 DIICFQRAP  153 (249)
T ss_dssp             EEEEEEE--
T ss_pred             CEEEEEecc
Confidence            988776644

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.

>PRK06944 sulfur carrier protein ThiS; Provisional

Probab=95.62  E-value=0.14  Score=29.82  Aligned_cols=60  Identities=17%  Similarity=0.270  Sum_probs=40.1

Q ss_pred             CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           25 DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        25 ~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +|..+.  +...+++..|.+.+    ++. ..+.+..||+.+..++ -++--+.+||.|+++.---||
T Consensus         6 Ng~~~~--~~~~~tl~~ll~~l----~~~-~~~~v~vN~~~v~~~~-~~~~~L~~gD~vei~~~v~GG   65 (65)
T PRK06944          6 NQQTLS--LPDGATVADALAAY----GAR-PPFAVAVNGDFVARTQ-HAARALAAGDRLDLVQPVAGG   65 (65)
T ss_pred             CCEEEE--CCCCCcHHHHHHhh----CCC-CCeEEEECCEEcCchh-cccccCCCCCEEEEEeeccCC
Confidence            565444  45667888888765    332 4578899998886542 223349999999997654444

>PRK05863 sulfur carrier protein ThiS; Provisional

Probab=95.49  E-value=0.084  Score=31.27  Aligned_cols=60  Identities=18%  Similarity=0.252  Sum_probs=43.2

Q ss_pred             CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           25 DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        25 ~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +|....+  ...+++..|.+    ..+++...+-..++|.-|..++=. +. +.|||.|+++.---||
T Consensus         6 NG~~~~~--~~~~tl~~ll~----~l~~~~~~vav~~N~~iv~r~~~~-~~-L~~gD~ieIv~~VgGG   65 (65)
T PRK05863          6 NEEQVEV--DEQTTVAALLD----SLGFPEKGIAVAVDWSVLPRSDWA-TK-LRDGARLEVVTAVQGG   65 (65)
T ss_pred             CCEEEEc--CCCCcHHHHHH----HcCCCCCcEEEEECCcCcChhHhh-hh-cCCCCEEEEEeeccCC
Confidence            6665544  46677777775    468888999999999977765544 34 8999999997644333

>cd01771 Faf1_UBX Faf1 UBX domain

Probab=95.36  E-value=0.35  Score=29.94  Aligned_cols=71  Identities=20%  Similarity=0.167  Sum_probs=53.5

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC--Cee---cCCCCChhhcCCCCCCEEEEE
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN--GNR---FDYSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~---l~~~~Tp~~l~medgD~Idv~   86 (98)
                      +.++|.|+-++|..+.-+...+++|+.|++.... .|.+...+++.-.  =+.   ...+.|.+++||-...++-|-
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            4577888889999999999999999999987754 4666666666432  222   234679999999998888763

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.

>PRK05659 sulfur carrier protein ThiS; Validated

Probab=95.35  E-value=0.15  Score=29.82  Aligned_cols=61  Identities=20%  Similarity=0.345  Sum_probs=43.3

Q ss_pred             CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           25 DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        25 ~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +|+..  .+...+++..|..    ..+++...+-...||.-+....- .+--++|||.|+++.---||
T Consensus         6 NG~~~--~~~~~~tl~~lL~----~l~~~~~~vav~vNg~iv~r~~~-~~~~l~~gD~vei~~~vgGG   66 (66)
T PRK05659          6 NGEPR--ELPDGESVAALLA----REGLAGRRVAVEVNGEIVPRSQH-ASTALREGDVVEIVHALGGG   66 (66)
T ss_pred             CCeEE--EcCCCCCHHHHHH----hcCCCCCeEEEEECCeEeCHHHc-CcccCCCCCEEEEEEEecCC
Confidence            66644  4556677877774    46888888888999987776543 34459999999997654443

>cd01773 Faf1_like1_UBX Faf1 ike-1 UBX domain

Probab=95.31  E-value=0.35  Score=30.38  Aligned_cols=69  Identities=19%  Similarity=0.315  Sum_probs=51.5

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC--Cee---cCCCCChhhcCCCCCCEEEEE
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN--GNR---FDYSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~---l~~~~Tp~~l~medgD~Idv~   86 (98)
                      -.|.|+-++|..+.-+...+++|+.|+..... .|.+...+.++-+  =+.   ...+.|.+++||..-+++-|.
T Consensus         6 t~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~-~g~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~~~LfVq   79 (82)
T cd01773           6 ARLMLRYPDGKREQIALPEQAKLLALVRHVQS-KGYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQ   79 (82)
T ss_pred             eEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEEEe
Confidence            34555568999999999999999999985544 6777777777643  112   233579999999999988774

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.

>smart00666 PB1 PB1 domain

Probab=95.25  E-value=0.11  Score=31.41  Aligned_cols=45  Identities=13%  Similarity=0.211  Sum_probs=38.5

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN   62 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd   62 (98)
                      ++||+.- ++....|.+.+..++..|..+.+++++++...+++.|.
T Consensus         2 ~~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~   46 (81)
T smart00666        2 VDVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQ   46 (81)
T ss_pred             ccEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEE
Confidence            5677765 66677899999999999999999999998778888883

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.

>PRK06083 sulfur carrier protein ThiS; Provisional

Probab=95.09  E-value=0.17  Score=31.81  Aligned_cols=67  Identities=21%  Similarity=0.258  Sum_probs=47.9

Q ss_pred             cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      .|+|.|   +|....  +....++..|.+.    .+++...+-...||+-|.. +.-++.-|.+||.|+++.---||
T Consensus        18 ~m~I~V---NG~~~~--~~~~~tl~~LL~~----l~~~~~~vAVevNg~iVpr-~~w~~t~L~egD~IEIv~~VgGG   84 (84)
T PRK06083         18 LITISI---NDQSIQ--VDISSSLAQIIAQ----LSLPELGCVFAINNQVVPR-SEWQSTVLSSGDAISLFQAIAGG   84 (84)
T ss_pred             eEEEEE---CCeEEE--cCCCCcHHHHHHH----cCCCCceEEEEECCEEeCH-HHcCcccCCCCCEEEEEEEecCC
Confidence            455555   676554  4566778887764    5788888999999988854 34455669999999997654444

>PRK08053 sulfur carrier protein ThiS; Provisional

Probab=94.99  E-value=0.24  Score=29.28  Aligned_cols=61  Identities=20%  Similarity=0.146  Sum_probs=42.4

Q ss_pred             CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           25 DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        25 ~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +|++..+  ....++..|.+    ..+.....+.+-.||+-|..+ .-++.-+.+||.|+++.---||
T Consensus         6 Ng~~~~~--~~~~tl~~ll~----~l~~~~~~vaVavN~~iv~r~-~w~~~~L~~gD~Ieii~~v~GG   66 (66)
T PRK08053          6 NDQPMQC--AAGQTVHELLE----QLNQLQPGAALAINQQIIPRE-QWAQHIVQDGDQILLFQVIAGG   66 (66)
T ss_pred             CCeEEEc--CCCCCHHHHHH----HcCCCCCcEEEEECCEEeChH-HcCccccCCCCEEEEEEEccCC
Confidence            6665554  55667888775    356666789999999888643 2334459999999987654444

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

Probab=94.99  E-value=0.26  Score=30.12  Aligned_cols=65  Identities=11%  Similarity=0.257  Sum_probs=46.1

Q ss_pred             EEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC--C--eecCCCCChhhcCCCCCCEEEEE
Q 045424           19 LIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN--G--NRFDYSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus        19 I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G--~~l~~~~Tp~~l~medgD~Idv~   86 (98)
                      ++|.-+||....+.+++..++..+...-|++.|+.++...+.+-  +  ..+..++   +...-.+++|.|.
T Consensus         2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~l~~~~~~v~~~~~~~~~~~~~~~---d~~~L~~~El~Ve   70 (72)
T cd01760           2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRGLNPECCDVFLLGLDEKKPLDLDT---DSSSLAGEELEVE   70 (72)
T ss_pred             EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEecCCCcCCcCchh---hhhhhcCCEEEEE
Confidence            34555899999999999999999999999999998866555443  3  2222222   2233366777764

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.

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

Probab=94.22  E-value=0.21  Score=32.20  Aligned_cols=55  Identities=5%  Similarity=0.027  Sum_probs=42.4

Q ss_pred             cEEEEEEccCCCEEEEEEc--CccHHHHHHHHHHHhcC--CCCcceeEEECCeecCCCCC
Q 045424           16 LINLIIKSQDGDKRFFQFN--HDVEIKRLLIKYCETKS--QPFKSTPFLINGNRFDYSKT   71 (98)
Q Consensus        16 ~I~I~v~~~~g~~~~f~Ik--~~t~l~kL~~~y~~~~g--~~~~~~rF~fdG~~l~~~~T   71 (98)
                      .|+|++.+ .-..+.+.|.  .+++...|+....++.+  .+...+||+|.|+-|.+...
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            46777755 2234677777  88999999999999883  46689999999999886543

They contain a characteristic GFDRL sequence motif.

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

Probab=94.20  E-value=0.51  Score=28.61  Aligned_cols=60  Identities=13%  Similarity=0.174  Sum_probs=46.0

Q ss_pred             EEEEEEcCc-cHHHHHHHHHHHhcC-C--CCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           28 KRFFQFNHD-VEIKRLLIKYCETKS-Q--PFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        28 ~~~f~Ik~~-t~l~kL~~~y~~~~g-~--~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      ...+.+... +++..|.+..+++++ +  ....+.+..||+.+..     +.-++|||+|.++.---||
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            456777776 899999999999875 2  1256778889998884     5689999999988755554

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

>PLN02799 Molybdopterin synthase sulfur carrier subunit

Probab=93.99  E-value=0.25  Score=30.14  Aligned_cols=61  Identities=16%  Similarity=0.182  Sum_probs=44.0

Q ss_pred             CEEEEEEcCccHHHHHHHHHHHhcC-CCC--cceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           27 DKRFFQFNHDVEIKRLLIKYCETKS-QPF--KSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        27 ~~~~f~Ik~~t~l~kL~~~y~~~~g-~~~--~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      ....+.+...+++..|.+...+++. +..  ..+.+..||+.+.     .+.-++|||+|.++.--.||
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            4567778788899999998887762 211  3456788998864     44568999999987654444

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

Probab=93.98  E-value=0.41  Score=28.83  Aligned_cols=45  Identities=13%  Similarity=0.103  Sum_probs=36.5

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI   61 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f   61 (98)
                      +.||+.-.+.....+.+.+..++..|....+++++.....+++.|
T Consensus         2 ~~vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y   46 (84)
T PF00564_consen    2 VRVKVRYGGDIRRIISLPSDVSFDDLRSKIREKFGLLDEDFQLKY   46 (84)
T ss_dssp             EEEEEEETTEEEEEEEECSTSHHHHHHHHHHHHHTTSTSSEEEEE
T ss_pred             EEEEEEECCeeEEEEEcCCCCCHHHHHHHHHHHhCCCCccEEEEe
Confidence            567776533333349999999999999999999999888899998

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 ....

>TIGR01683 thiS thiamine biosynthesis protein ThiS

Probab=93.63  E-value=0.42  Score=27.96  Aligned_cols=61  Identities=23%  Similarity=0.326  Sum_probs=42.0

Q ss_pred             CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           25 DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        25 ~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +|+.+  .+...+++..|.+.    .+++.+.+.+..||+.+..++ .++.-|.|||.|+++.---||
T Consensus         4 Ng~~~--~~~~~~tv~~ll~~----l~~~~~~v~v~vN~~iv~~~~-~~~~~L~~gD~veii~~V~GG   64 (64)
T TIGR01683         4 NGEPV--EVEDGLTLAALLES----LGLDPRRVAVAVNGEIVPRSE-WDDTILKEGDRIEIVTFVGGG   64 (64)
T ss_pred             CCeEE--EcCCCCcHHHHHHH----cCCCCCeEEEEECCEEcCHHH-cCceecCCCCEEEEEEeccCC
Confidence            45444  44566678777754    467778889999998886443 333569999999987654443

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.

>cd01772 SAKS1_UBX SAKS1-like UBX domain

Probab=93.59  E-value=1  Score=27.58  Aligned_cols=69  Identities=13%  Similarity=0.090  Sum_probs=51.3

Q ss_pred             cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE--CCeecCC---CCChhhcCCCCCCEEEE
Q 045424           16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI--NGNRFDY---SKTADQLGLKDGDEIDA   85 (98)
Q Consensus        16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f--dG~~l~~---~~Tp~~l~medgD~Idv   85 (98)
                      ..+|.|+-++|..+.-++..++++..|++......+- ...+.|.-  =-+.+..   +.|.+++||-...++-|
T Consensus         4 ~~~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~~-~~~f~L~t~fPrk~~~~~d~~~TL~elgL~Psa~L~v   77 (79)
T cd01772           4 ETRIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTGN-GGPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIV   77 (79)
T ss_pred             EEEEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCCC-CCCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEE
Confidence            4567777799999999999999999999888654432 24455544  3444543   57999999998887765

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=93.56  E-value=0.2  Score=31.50  Aligned_cols=44  Identities=11%  Similarity=0.066  Sum_probs=38.6

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN   62 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd   62 (98)
                      ..|||.-+.  .+.++|.+.-++..|.++.+++.+++.+.+.+.|.
T Consensus         3 ~vvKV~f~~--tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYk   46 (80)
T cd06406           3 YVVKVHFKY--TVAIQVARGLSYATLLQKISSKLELPAEHITLSYK   46 (80)
T ss_pred             eEEEEEEEE--EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEec
Confidence            457777644  88999999999999999999999999899999884

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

>PRK07696 sulfur carrier protein ThiS; Provisional

Probab=93.49  E-value=0.78  Score=27.31  Aligned_cols=65  Identities=22%  Similarity=0.232  Sum_probs=44.1

Q ss_pred             EEEEEccCCCEEEEEEcCc-cHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           18 NLIIKSQDGDKRFFQFNHD-VEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        18 ~I~v~~~~g~~~~f~Ik~~-t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +|+|   +|+...  +... +++..|.+    ..+++...+-...||+-|..++ -++.-+.+||.|+++.---||
T Consensus         2 ~I~v---NG~~~~--~~~~~~tv~~lL~----~l~~~~~~vav~vN~~iv~r~~-w~~~~L~~gD~iEIv~~VgGG   67 (67)
T PRK07696          2 NLKI---NGNQIE--VPESVKTVAELLT----HLELDNKIVVVERNKDILQKDD-HTDTSVFDGDQIEIVTFVGGG   67 (67)
T ss_pred             EEEE---CCEEEE--cCCCcccHHHHHH----HcCCCCCeEEEEECCEEeCHHH-cCceecCCCCEEEEEEEecCC
Confidence            4554   666544  4444 45666654    5788888999999998887653 233459999999997654443

>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein

Probab=93.23  E-value=0.35  Score=28.32  Aligned_cols=61  Identities=21%  Similarity=0.305  Sum_probs=41.5

Q ss_pred             CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           25 DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        25 ~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +|..  +.+....++..|.+.    .+++.+.+....||+.+..++ =++.-+.|||.|+++.---||
T Consensus         5 Ng~~--~~~~~~~tv~~ll~~----l~~~~~~i~V~vNg~~v~~~~-~~~~~L~~gD~V~ii~~v~GG   65 (65)
T cd00565           5 NGEP--REVEEGATLAELLEE----LGLDPRGVAVALNGEIVPRSE-WASTPLQDGDRIEIVTAVGGG   65 (65)
T ss_pred             CCeE--EEcCCCCCHHHHHHH----cCCCCCcEEEEECCEEcCHHH-cCceecCCCCEEEEEEeccCC
Confidence            4544  344556778877754    457778899999998887653 122359999999987654444

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.

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

Probab=93.19  E-value=0.27  Score=29.12  Aligned_cols=63  Identities=21%  Similarity=0.257  Sum_probs=50.3

Q ss_pred             EEEEEEcCccHHHHHHHHHHHhcCC--CCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           28 KRFFQFNHDVEIKRLLIKYCETKSQ--PFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        28 ~~~f~Ik~~t~l~kL~~~y~~~~g~--~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      .....+....++..|.+..++++..  ....+.+..||+.+..  .-.+.-+.+||+|.++.--.||
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            5678888999999999999888742  2367999999999988  3666778999999987655554

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 ....

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

Probab=93.09  E-value=1.1  Score=27.05  Aligned_cols=58  Identities=14%  Similarity=0.265  Sum_probs=40.9

Q ss_pred             EEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC--CeecCCCCChhhcC
Q 045424           19 LIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN--GNRFDYSKTADQLG   76 (98)
Q Consensus        19 I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l~~~~Tp~~l~   76 (98)
                      ++|.=++|+.....+++..+++.....-|++.|+.++.+.+..-  ..+|.-++....|.
T Consensus         3 ~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~~~~V~~~~~~k~l~~~~d~~~L~   62 (71)
T PF02196_consen    3 CRVHLPNGQRTVVQVRPGMTIRDALSKACKKRGLNPECCDVRLVGEKKPLDWDQDSSSLP   62 (71)
T ss_dssp             EEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT--CCCEEEEEEEEEEEE-TTSBGGGGT
T ss_pred             EEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCccccCCCceeeec
Confidence            34444899999999999999999999999999998876655543  44555555555544

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.

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

Probab=92.87  E-value=0.81  Score=30.51  Aligned_cols=65  Identities=9%  Similarity=0.048  Sum_probs=51.1

Q ss_pred             CCcEEEEEEccCCCEE----EEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCe--ecCCCCChhhcCCC
Q 045424           14 QHLINLIIKSQDGDKR----FFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGN--RFDYSKTADQLGLK   78 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~----~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~--~l~~~~Tp~~l~me   78 (98)
                      ..+|+|+++-..+.++    .|+|.++.+|.++.....+..+++.+.--|+|=..  .=.++++..+|-+-
T Consensus        28 ~~kV~i~l~aiG~~PilK~~k~~i~~t~tfa~vi~Flkk~Lkl~as~slflYVN~sFAPsPDq~v~~Ly~c   98 (116)
T KOG3439|consen   28 IRKVQIRLRAIGDAPILKKSKFKINPTQTFAKVILFLKKFLKLQASDSLFLYVNNSFAPSPDQIVGNLYEC   98 (116)
T ss_pred             cceEEEEEeccCCCcceecceEEeCcchhhHHHHHHHHHHhCCcccCeEEEEEcCccCCCchhHHHHHHHh
Confidence            3889999987666543    79999999999999999999999887777777333  33467787777654

>PF14451 Ub-Mut7C: Mut7-C ubiquitin

Probab=92.65  E-value=0.71  Score=28.80  Aligned_cols=54  Identities=24%  Similarity=0.464  Sum_probs=44.3

Q ss_pred             CCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE-CCeecCCCCChhhcCCCCCCEEEEEce
Q 045424           26 GDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI-NGNRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        26 g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      +..+.+.+...++++.+.    +..|++...+-+++ ||+.+..+     .-+++||.|.|+-.
T Consensus        22 ~~~~~~~~~~~~tvkd~I----EsLGVP~tEV~~i~vNG~~v~~~-----~~~~~Gd~v~V~P~   76 (81)
T PF14451_consen   22 GGPFTHPFDGGATVKDVI----ESLGVPHTEVGLILVNGRPVDFD-----YRLKDGDRVAVYPV   76 (81)
T ss_pred             CCceEEecCCCCcHHHHH----HHcCCChHHeEEEEECCEECCCc-----ccCCCCCEEEEEec
Confidence            346788899999999987    56899988888777 99988876     56779999999853

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

Probab=92.53  E-value=0.37  Score=30.66  Aligned_cols=60  Identities=12%  Similarity=0.120  Sum_probs=39.6

Q ss_pred             cEEEEEEccCCCE----EEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE-CCe-ecCCCCChhhc
Q 045424           16 LINLIIKSQDGDK----RFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI-NGN-RFDYSKTADQL   75 (98)
Q Consensus        16 ~I~I~v~~~~g~~----~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG~-~l~~~~Tp~~l   75 (98)
                      +|+|+++...+.+    -.|+|..+.+|+.+..-.+++.++..++--|+| +.- .-.+++|..+|
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            4778887766544    379999999999999999999998665555666 443 33568888876

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.

>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=92.51  E-value=0.65  Score=28.95  Aligned_cols=50  Identities=6%  Similarity=-0.039  Sum_probs=40.3

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC-cceeEEE---CCeecC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF-KSTPFLI---NGNRFD   67 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~-~~~rF~f---dG~~l~   67 (98)
                      |+||+. .++..+.|++.++..+..|.+..+++++++. ..+.+.|   +|+.+.
T Consensus         1 ~~vK~~-~~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~   54 (82)
T cd06407           1 VRVKAT-YGEEKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVL   54 (82)
T ss_pred             CEEEEE-eCCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEE
Confidence            456665 3677889999999999999999999999875 7888888   455443

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

>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=92.38  E-value=1.2  Score=27.63  Aligned_cols=58  Identities=17%  Similarity=0.179  Sum_probs=44.5

Q ss_pred             EEEEEEcCccHHHHHHHHHHHhcCCCCcc-eeEEECCeecCCCCChhhcCCCCCCEEEE
Q 045424           28 KRFFQFNHDVEIKRLLIKYCETKSQPFKS-TPFLINGNRFDYSKTADQLGLKDGDEIDA   85 (98)
Q Consensus        28 ~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~-~rF~fdG~~l~~~~Tp~~l~medgD~Idv   85 (98)
                      ...+.|-..+||..+..--|+.+.++... .-..-||.-|++.+|..+.=|+-|-++-+
T Consensus        17 ~kv~sVPE~apftaVlkfaAeeF~vp~~tsaiItndG~GInP~QTag~vflKhGseLrl   75 (76)
T PF03671_consen   17 YKVISVPEEAPFTAVLKFAAEEFKVPPATSAIITNDGVGINPQQTAGNVFLKHGSELRL   75 (76)
T ss_dssp             EEEEEEETTSBHHHHHHHHHHHTTS-SSSEEEEESSS-EE-TTSBHHHHHHHT-SEEEE
T ss_pred             ceEEecCCCCchHHHHHHHHHHcCCCCceEEEEecCCcccccchhhhhhHhhcCcEeee
Confidence            34799999999999999999999997754 44555899999999999888877776543

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.

>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=92.35  E-value=0.74  Score=28.91  Aligned_cols=48  Identities=8%  Similarity=0.108  Sum_probs=39.0

Q ss_pred             EEEEEEccCCCEEEEEEcC--ccHHHHHHHHHHHhcCCCCcceeEEE---CCeecC
Q 045424           17 INLIIKSQDGDKRFFQFNH--DVEIKRLLIKYCETKSQPFKSTPFLI---NGNRFD   67 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~--~t~l~kL~~~y~~~~g~~~~~~rF~f---dG~~l~   67 (98)
                      |+||+. .+|..+.|.+.+  +..+..|....+.+++++  .+.+.|   +|+.+.
T Consensus         1 V~vKat-y~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~--~f~lKYlDde~e~v~   53 (81)
T cd06396           1 VNLKVT-YNGESQSFLVSDSENTTWASVEAMVKVSFGLN--DIQIKYVDEENEEVS   53 (81)
T ss_pred             CEEEEE-ECCeEEEEEecCCCCCCHHHHHHHHHHHhCCC--cceeEEEcCCCCEEE
Confidence            466765 478889999999  889999999999999998  777777   465554

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.

>cd01818 TIAM1_RBD Ubiquitin domain of Tiam1 guanine nucleotide exchange factor

Probab=92.31  E-value=0.68  Score=28.85  Aligned_cols=43  Identities=9%  Similarity=0.081  Sum_probs=36.7

Q ss_pred             EEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC--cceeEEEC
Q 045424           20 IIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF--KSTPFLIN   62 (98)
Q Consensus        20 ~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~--~~~rF~fd   62 (98)
                      +|.-++|..+...|++..++..+.+.-|+++++++  ..+|+.+-
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            45558999999999999999999999999999976  56666664

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.

>cd01766 Ufm1 Urm1-like ubiquitin domain

Probab=92.21  E-value=0.97  Score=28.16  Aligned_cols=60  Identities=17%  Similarity=0.209  Sum_probs=50.8

Q ss_pred             EEEEEcCccHHHHHHHHHHHhcCCCCccee-EEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424           29 RFFQFNHDVEIKRLLIKYCETKSQPFKSTP-FLINGNRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        29 ~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~r-F~fdG~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      ..+.|-..+||..+..--||.+.++...-- ..-||.=|++.+|+...=|+.|..+-+..+
T Consensus        18 kvlsVpE~aPftAvlkfaAEeFkv~~~TsAiiTndGvGINP~qtAGnvflkhgselrliPR   78 (82)
T cd01766          18 KVLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRLIPR   78 (82)
T ss_pred             eEEeccccCchHHHHHHHHHhcCCCccceeEEecCccccChhhcccceeeecCCEeeeccc
Confidence            367899999999999988999999875444 455899999999999999999998877654

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.

>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=91.99  E-value=1.1  Score=28.45  Aligned_cols=44  Identities=11%  Similarity=0.163  Sum_probs=37.8

Q ss_pred             cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE
Q 045424           16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI   61 (98)
Q Consensus        16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f   61 (98)
                      +|+|||.- +|..+.+.|.++..|+.|.+...+++++. ..+++.|
T Consensus         2 ~ikVKv~~-~~Dv~~i~v~~~i~f~dL~~kIrdkf~~~-~~~~iKy   45 (86)
T cd06408           2 KIRVKVHA-QDDTRYIMIGPDTGFADFEDKIRDKFGFK-RRLKIKM   45 (86)
T ss_pred             cEEEEEEe-cCcEEEEEcCCCCCHHHHHHHHHHHhCCC-CceEEEE
Confidence            57888874 67788999999999999999999999995 5777776

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

>cd01788 ElonginB Ubiquitin-like domain of Elongin B

Probab=91.97  E-value=1.9  Score=28.88  Aligned_cols=64  Identities=11%  Similarity=0.123  Sum_probs=54.0

Q ss_pred             CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCC-------CCCCEEEEEce
Q 045424           25 DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGL-------KDGDEIDAMYH   88 (98)
Q Consensus        25 ~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~m-------edgD~Idv~~~   88 (98)
                      ....+....+.+++.-.|+.....-...+++..|++-+++-|.++.|..+.|+       +.-.++=..++
T Consensus        10 ~KTTiF~dakes~tVlelK~~iegI~k~pp~dQrL~kd~qvLeD~kTL~d~g~t~~~akaq~pA~vgLa~r   80 (119)
T cd01788          10 HKTTIFTDAKESTTVYELKRIVEGILKRPPEDQRLYKDDQLLDDGKTLGDCGFTSQTARPQAPATVGLAFR   80 (119)
T ss_pred             cceEEEeecCCcccHHHHHHHHHHHhcCChhHheeecCceeecccccHHHcCccccccccCCCCeEEEEEe
Confidence            45567888999999999999999999999999999988899999999999999       55555554444

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.

>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A

Probab=91.94  E-value=1.9  Score=27.48  Aligned_cols=67  Identities=15%  Similarity=0.009  Sum_probs=47.7

Q ss_pred             EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECC-----eec-CCCCChhhcCCCCCCEEEEEceecCCCcc
Q 045424           28 KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLING-----NRF-DYSKTADQLGLKDGDEIDAMYHAFGGGHD   95 (98)
Q Consensus        28 ~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG-----~~l-~~~~Tp~~l~medgD~Idv~~~q~GG~~~   95 (98)
                      .++-.+.+++++..+...-++.+.+ ....|++-.+     ++| .+..|.++++|.+|-.|-+-.+..-|.|=
T Consensus        15 ~~t~~FSk~DTI~~v~~~~rklf~i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~vliE~rn~DGtWP   87 (88)
T PF14836_consen   15 VLTKQFSKTDTIGFVEKEMRKLFNI-QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQVVLIEERNEDGTWP   87 (88)
T ss_dssp             EEEEEE-TTSBHHHHHHHHHHHCT--TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEEEEEEE--TTS--T
T ss_pred             HhHhhccccChHHHHHHHHHHHhCC-CccceehhccCCcchhhhCCCCccHHHccCcCCCEEEEEeeccCCCCC
Confidence            5678889999999999999999999 7778998732     356 45689999999999998887777777663

>cd01612 APG12_C Ubiquitin-like domain of APG12

Probab=91.92  E-value=0.97  Score=28.50  Aligned_cols=61  Identities=10%  Similarity=0.114  Sum_probs=44.1

Q ss_pred             cEEEEEEccCCC----EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE-CCe-ecCCCCChhhcC
Q 045424           16 LINLIIKSQDGD----KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI-NGN-RFDYSKTADQLG   76 (98)
Q Consensus        16 ~I~I~v~~~~g~----~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG~-~l~~~~Tp~~l~   76 (98)
                      +|+|+++.....    ...|.|..+.++..++....++.+++.++--|+| +.. ...+++|..+|-
T Consensus         1 kv~i~~~~~g~~p~l~k~kflv~~~~tv~~~~~~lrk~L~l~~~~slflyvnn~f~p~~d~~~g~LY   67 (87)
T cd01612           1 KVTIRFKPIGSAPILKQKVFKISATQSFQAVIDFLRKRLKLKASDSLFLYINNSFAPSPDENVGNLY   67 (87)
T ss_pred             CeEEEEEECCCCccccccEEEeCCCCCHHHHHHHHHHHhCCCccCeEEEEECCccCCCchhHHHHHH
Confidence            467777764443    2479999999999999999999999877766666 443 333456776653

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.

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

Probab=91.73  E-value=1.7  Score=25.91  Aligned_cols=57  Identities=18%  Similarity=0.236  Sum_probs=42.1

Q ss_pred             EccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC-cceeEEE----CC--eecCCCCChhhcCCC
Q 045424           22 KSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF-KSTPFLI----NG--NRFDYSKTADQLGLK   78 (98)
Q Consensus        22 ~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~-~~~rF~f----dG--~~l~~~~Tp~~l~me   78 (98)
                      +-.||....|.|.++++-+.|++..|++.|+.. .-+-+.|    +|  ..|..+.+..+..-.
T Consensus         2 ~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~   65 (80)
T PF09379_consen    2 RLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKK   65 (80)
T ss_dssp             EESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBT
T ss_pred             CCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEEeecCCCcceeccCcccHHHHcCC
Confidence            346899999999999999999999999999954 6666777    22  345566665555443

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 ....

>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=91.60  E-value=0.053  Score=41.74  Aligned_cols=80  Identities=16%  Similarity=0.176  Sum_probs=0.0

Q ss_pred             CCcEEEEEEccCCCEEEEEEc---C--ccHHHHHHHHHHH----------hcCCCCccee-----EEECCeecCCCCChh
Q 045424           14 QHLINLIIKSQDGDKRFFQFN---H--DVEIKRLLIKYCE----------TKSQPFKSTP-----FLINGNRFDYSKTAD   73 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik---~--~t~l~kL~~~y~~----------~~g~~~~~~r-----F~fdG~~l~~~~Tp~   73 (98)
                      ...|+|.+++..+..+.+.+.   +  ++.+..|++++|+          ..+++.++++     ++|+-+++..+.|..
T Consensus        76 ~~sItV~Lks~rnp~l~i~L~~~~plattSv~dlk~~v~~rv~~~~~~~~~~~vp~dKik~~~~~lL~~kkPv~~~ktl~  155 (309)
T PF12754_consen   76 SKSITVHLKSLRNPPLDISLPNVPPLATTSVQDLKDAVQQRVHPSQATYDETRVPLDKIKNFRCRLLYKKKPVGDSKTLA  155 (309)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CceEEEEeecCCCCCceeEeCCCCcCCcCcHHHHHHHHHhhhcccccccccccCCHHHhhhhhhhheecCccCCCcCcHH
Confidence            577999999887766543332   3  6888999999999          7889999999     999999998888988


Q ss_pred             hcCCC-------CCCEEEEEceecCCC
Q 045424           74 QLGLK-------DGDEIDAMYHAFGGG   93 (98)
Q Consensus        74 ~l~me-------dgD~Idv~~~q~GG~   93 (98)
                      ++.=+       .|-++|+.+=-.||.
T Consensus       156 e~l~~~~~~l~~~~~~vE~gvMVlGGa  182 (309)
T PF12754_consen  156 EVLADSESRLLSGGKEVEFGVMVLGGA  182 (309)
T ss_dssp             ---------------------------
T ss_pred             HHHhcccchhccCCceEEEEEEEECCc
Confidence            87655       455677666556664

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.

>smart00295 B41 Band 4

Probab=91.02  E-value=1.4  Score=30.28  Aligned_cols=63  Identities=16%  Similarity=0.125  Sum_probs=46.6

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC-cceeEEE-C-C----eecCCCCChhhcCC
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF-KSTPFLI-N-G----NRFDYSKTADQLGL   77 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~-~~~rF~f-d-G----~~l~~~~Tp~~l~m   77 (98)
                      ..+.|+|.-.+|....+.|..+++.+.|++..|++.|+.. ..+.+.+ + +    ..+....+..+..-
T Consensus         2 ~~~~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~   71 (207)
T smart00295        2 KPRVLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDV   71 (207)
T ss_pred             CcEEEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEEEcCCCCcCeeCCCccCHHHhcC
Confidence            4577888889999999999999999999999999999954 4444444 2 2    34555555555443

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.

>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=90.50  E-value=1.4  Score=26.28  Aligned_cols=44  Identities=18%  Similarity=0.169  Sum_probs=36.1

Q ss_pred             EEEEEEccCCCEEEEEEc-CccHHHHHHHHHHHhcCCCCcceeEEE
Q 045424           17 INLIIKSQDGDKRFFQFN-HDVEIKRLLIKYCETKSQPFKSTPFLI   61 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik-~~t~l~kL~~~y~~~~g~~~~~~rF~f   61 (98)
                      ++||+.- +|....|.+. +..++..|+...+++++.....+.+.|
T Consensus         1 ~~vK~~~-~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y   45 (81)
T cd05992           1 VRVKVKY-GGEIRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKY   45 (81)
T ss_pred             CcEEEEe-cCCCEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEe
Confidence            3566665 4567789999 999999999999999998766777777

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.

>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=90.03  E-value=0.25  Score=31.09  Aligned_cols=55  Identities=22%  Similarity=0.371  Sum_probs=38.1

Q ss_pred             EEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecC--------------CCCChhhcCCCCCCEEEEE
Q 045424           31 FQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFD--------------YSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus        31 f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~--------------~~~Tp~~l~medgD~Idv~   86 (98)
                      +.+.++.+|+.+++..|++..+....-.+...|..|.              -+.+..+| +.+|++|-|.
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            4688999999999999998655443333334444332              36678888 9999999874

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 ....

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

Probab=90.01  E-value=2.9  Score=25.25  Aligned_cols=66  Identities=20%  Similarity=0.276  Sum_probs=46.8

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      |+|.+   +|+.+.  +...+++..|.    +..|++.+.+-...||+.+..++ -++..+++||.|+++.--.||
T Consensus         3 m~i~~---ng~~~e--~~~~~tv~dLL----~~l~~~~~~vav~vNg~iVpr~~-~~~~~l~~gD~ievv~~v~GG   68 (68)
T COG2104           3 MTIQL---NGKEVE--IAEGTTVADLL----AQLGLNPEGVAVAVNGEIVPRSQ-WADTILKEGDRIEVVRVVGGG   68 (68)
T ss_pred             EEEEE---CCEEEE--cCCCCcHHHHH----HHhCCCCceEEEEECCEEccchh-hhhccccCCCEEEEEEeecCC
Confidence            45554   455544  45557887776    46788889999999998886433 356779999999997655454

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

Probab=89.14  E-value=0.95  Score=28.85  Aligned_cols=60  Identities=8%  Similarity=0.062  Sum_probs=44.0

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCccee----EEEC----CeecCCCCChhhcC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTP----FLIN----GNRFDYSKTADQLG   76 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~r----F~fd----G~~l~~~~Tp~~l~   76 (98)
                      +.|.|.=++|..+.++|+++..-+.++++-|.+.|++.+...    |...    =++|.+..-|-.|-
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            456776689999999999999999999999999999864322    1111    13556666665443

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.

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

Probab=88.03  E-value=2.7  Score=32.70  Aligned_cols=65  Identities=23%  Similarity=0.271  Sum_probs=46.8

Q ss_pred             EEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           18 NLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        18 ~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +|+|   +|+.  +.+...+++..|.+    ..+++.+.+-..+||+-|..++ -.+.-+.|||.|+++.---||
T Consensus         2 ~I~V---NGk~--~el~e~~TL~dLL~----~L~i~~~~VAVeVNgeIVpr~~-w~~t~LkeGD~IEII~~VgGG   66 (326)
T PRK11840          2 RIRL---NGEP--RQVPAGLTIAALLA----ELGLAPKKVAVERNLEIVPRSE-YGQVALEEGDELEIVHFVGGG   66 (326)
T ss_pred             EEEE---CCEE--EecCCCCcHHHHHH----HcCCCCCeEEEEECCEECCHHH-cCccccCCCCEEEEEEEecCC
Confidence            4555   5654  45567778888775    4688889999999999886433 234459999999997655555

>TIGR02958 sec_mycoba_snm4 secretion protein snm4

Probab=87.72  E-value=5  Score=32.28  Aligned_cols=70  Identities=11%  Similarity=0.147  Sum_probs=54.2

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCC------CcceeEEE-CCeecCCCCChhhcCCCCCCEEEEEc
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQP------FKSTPFLI-NGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~------~~~~rF~f-dG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      ..|.|... .+.+-.-+--+.|+..|+...-+..+-.      .....|.= +|.+|+++.|+++.++.|||+....-
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 4458899999999999999888876642      12344433 89999999999999999999987764

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.

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

Probab=86.26  E-value=4.5  Score=25.67  Aligned_cols=48  Identities=23%  Similarity=0.218  Sum_probs=37.7

Q ss_pred             EEEEEccCCCEEEEEEcC-----ccHHHHHHHHHHHhcCCCC-cceeEEE---CCeec
Q 045424           18 NLIIKSQDGDKRFFQFNH-----DVEIKRLLIKYCETKSQPF-KSTPFLI---NGNRF   66 (98)
Q Consensus        18 ~I~v~~~~g~~~~f~Ik~-----~t~l~kL~~~y~~~~g~~~-~~~rF~f---dG~~l   66 (98)
                      .||+.- +|....|++..     +..+..|.+..++.++++. ..+.+.|   +|..+
T Consensus         2 ~vKv~y-~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V   58 (91)
T cd06398           2 VVKVKY-GGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVV   58 (91)
T ss_pred             EEEEEe-CCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEE
Confidence            566653 67777899984     7899999999999999976 7888888   35544

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

>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=85.63  E-value=5.6  Score=25.22  Aligned_cols=61  Identities=13%  Similarity=0.205  Sum_probs=46.0

Q ss_pred             EEEEEEcCccHHHHHHHHHHHh-cCC-----CCcceeEEECC--eecCCCCChhhcCCCCCCEEEEEce
Q 045424           28 KRFFQFNHDVEIKRLLIKYCET-KSQ-----PFKSTPFLING--NRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        28 ~~~f~Ik~~t~l~kL~~~y~~~-~g~-----~~~~~rF~fdG--~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      ..-+-|...+++..+=++.+.. .|.     +-..+++...|  +.+..+.|.++.||..-|+|||+++
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            4467889999999998888764 343     22478999999  9999999999999999999999875

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 ....

>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=85.16  E-value=6.2  Score=23.72  Aligned_cols=63  Identities=13%  Similarity=0.098  Sum_probs=47.0

Q ss_pred             EEEEEEccCCC----EEEEEEcCccHHHHHHHHHHHhcCC--CCcceeEE-E---CC--eecCCCCChhhcCCCC
Q 045424           17 INLIIKSQDGD----KRFFQFNHDVEIKRLLIKYCETKSQ--PFKSTPFL-I---NG--NRFDYSKTADQLGLKD   79 (98)
Q Consensus        17 I~I~v~~~~g~----~~~f~Ik~~t~l~kL~~~y~~~~g~--~~~~~rF~-f---dG--~~l~~~~Tp~~l~med   79 (98)
                      -.|+|-..++.    ...+.|..+++...|+.+..+++++  ++..+.++ +   .|  +.|.+++-|-.+-+..
T Consensus         3 ~~lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L~~~~~~~~~er~L~~~E~pl~i~~~~   77 (93)
T PF00788_consen    3 GVLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLVEVEESGGEERPLDDDECPLQIQLQW   77 (93)
T ss_dssp             EEEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEEEEECTTTEEEEETTTSBHHHHHHTT
T ss_pred             eEEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEEEEEcCCCEEEEcCCCCchHHHHHhC
Confidence            35677667776    8899999999999999999999999  45677774 2   22  3666777776665444

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=84.31  E-value=3.3  Score=26.37  Aligned_cols=61  Identities=5%  Similarity=-0.003  Sum_probs=43.8

Q ss_pred             EEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424           29 RFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        29 ~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      +.-.|.-.+|+..|.+....+.+++.+...|+.....|.+..|.-+-+.+-...+.+.++-
T Consensus         5 I~q~mDI~epl~~Lk~lLe~Rl~~~L~~~~f~LQD~~L~~~k~L~dQcVqgeGlVQlnvQi   65 (88)
T PF11620_consen    5 IMQHMDIREPLSTLKKLLERRLGISLSDYEFWLQDIQLEPHKSLVDQCVQGEGLVQLNVQI   65 (88)
T ss_dssp             EEEEEESSSBGGGHHHHSHHHH-S--SS-EEEETTEE--TTSBTTTSS----SEEEEEEEE
T ss_pred             EEEEEecCCcHHHHHHHHHHhhCCCcCCCeEEeccceecCCccHHHhhccccCEEEEEEEE
Confidence            4556777899999999999999999999999998878999999999999988888776554

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.

>PRK11130 moaD molybdopterin synthase small subunit; Provisional

Probab=84.22  E-value=7.1  Score=23.67  Aligned_cols=52  Identities=17%  Similarity=0.118  Sum_probs=36.7

Q ss_pred             ccHHHHHHHHHHHhcC-----CCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           36 DVEIKRLLIKYCETKS-----QPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        36 ~t~l~kL~~~y~~~~g-----~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      .+++..|.+..++++.     +....+++..|++... .+|    -+.|||+|-++.=-.||
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            4688888888887763     2335677777886543 344    49999999988765565

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

Probab=84.22  E-value=3.8  Score=25.05  Aligned_cols=56  Identities=14%  Similarity=0.190  Sum_probs=44.1

Q ss_pred             cCccHHHHHHHHHHHhcCC-CCcceeEEECCeecCCCCChhhcC-CCCCCEEEEEcee
Q 045424           34 NHDVEIKRLLIKYCETKSQ-PFKSTPFLINGNRFDYSKTADQLG-LKDGDEIDAMYHA   89 (98)
Q Consensus        34 k~~t~l~kL~~~y~~~~g~-~~~~~rF~fdG~~l~~~~Tp~~l~-medgD~Idv~~~q   89 (98)
                      .+++.+..|...-+..... ....+.|.++|.+|++.....++. +++|..+.+..+.
T Consensus         2 ~~~d~v~dvrq~L~~~~~t~~~Tn~~L~~~g~~L~~~~el~~i~~~~~~~~L~lve~p   59 (76)
T PF15044_consen    2 SPTDTVQDVRQVLAESPETCYLTNFSLEHNGQRLDDFVELSEIEGIKDGCVLELVEEP   59 (76)
T ss_pred             ChhhHHHHHHHHHHhCccccceeEEEEEECCCccCCchhhhhhhCCCCCcEEEEEecC
Confidence            4677788888877776543 457889999999999988888875 8889999887654

>cd01611 GABARAP Ubiquitin domain of GABA-receptor-associated protein

Probab=83.77  E-value=7.3  Score=25.65  Aligned_cols=63  Identities=19%  Similarity=0.184  Sum_probs=45.9

Q ss_pred             CCcEEEEEEccC-CC-----EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE-CCeecCCCCChhhcC
Q 045424           14 QHLINLIIKSQD-GD-----KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI-NGNRFDYSKTADQLG   76 (98)
Q Consensus        14 ~~~I~I~v~~~~-g~-----~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG~~l~~~~Tp~~l~   76 (98)
                      .++|-|.|.... +.     ...|.|..+.++..++....++.+++.++--|+| ++.....++|..+|-
T Consensus        22 p~~iPVIvE~~~~~~~p~l~k~KflVp~~~tv~~f~~~irk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY   91 (112)
T cd01611          22 PDRIPVIVERYPKSDLPDLDKKKYLVPSDLTVGQFVYIIRKRIQLRPEKALFLFVNNSLPPTSATMSQLY   91 (112)
T ss_pred             CCceEEEEEEcCCCCcccccCceEEecCCCCHHHHHHHHHHHhCCCccceEEEEECCccCCchhHHHHHH
Confidence            356777775432 22     3479999999999999999999999887766666 554556677777764

GABARAP (GABA-receptor-associated protein) belongs ot a large family of proteins that mediate intracellular membrane trafficking and/or fusion. GABARAP binds not only to GABA, type A but also to tubulin, gephrin, and ULK1. Orthologues of GABARAP include Gate-16 (golgi-associated ATPase enhancer), LC3 (microtubule-associated protein light chain 3), and ATG8 (autophagy protein 8). ATG8 is a ubiquitin-like protein that is conjugated to the membrane phospholipid, phosphatidylethanolamine as part of a ubiquitin-like conjugation system essential for autophagosome-formation.

>PF03607 DCX: Doublecortin; InterPro: IPR003533 X-linked lissencephaly is a severe brain malformation affecting males

Probab=81.45  E-value=5.4  Score=23.11  Aligned_cols=46  Identities=28%  Similarity=0.333  Sum_probs=33.7

Q ss_pred             cCccHHHHHHHHHHHhcCCCCcceeEEE--CCeecCCCCChhhcCCCCCCEEEE
Q 045424           34 NHDVEIKRLLIKYCETKSQPFKSTPFLI--NGNRFDYSKTADQLGLKDGDEIDA   85 (98)
Q Consensus        34 k~~t~l~kL~~~y~~~~g~~~~~~rF~f--dG~~l~~~~Tp~~l~medgD~Idv   85 (98)
                      +...+|..|++...++.+++.. +|=+|  +|++|   .++++  ++||+..-+
T Consensus         6 r~~~s~e~lL~~it~~v~l~~g-Vr~lyt~~G~~V---~~l~~--l~dg~~yVa   53 (60)
T PF03607_consen    6 RRFRSFEQLLDEITEKVQLPSG-VRKLYTLDGKRV---KSLDE--LEDGGSYVA   53 (60)
T ss_dssp             TTHSSHHHHHHHHHHSSSSTTS--SEEEETTSSEE---SSGGG--S-TTEEEEE
T ss_pred             hhhcCHHHHHHHHHhhcCCCcc-cceEECCCCCEe---CCHHH--HCCCCEEEE
Confidence            3456899999999999998866 77666  89888   56666  788876444

Recently it has been demonstrated that the doublecortin gene is implicated in this disorder []. Doublecortin was found to bind to the microtubule cytoskeleton. In vivo and in vitro assays show that Doublecortin stabilises microtubules and causes bundling []. Doublecortin is a basic protein with an iso-electric point of 10, typical of microtubule-binding proteins. However, its sequence contains no known microtubule-binding domain(s). The detailed sequence analysis of Doublecortin and Doublecortin-like proteins allowed the identification of an evolutionarily conserved Doublecortin (DC) domain. This domain is found in the N terminus of proteins and consists of one or two tandemly repeated copies of an around 80 amino acids region. It has been suggested that the first DC domain of Doublecortin binds tubulin and enhances microtubule polymerisation []. Some proteins known to contain a DC domain are listed below: Doublecortin. It is required for neuronal migration []. A large number of point mutations in the human DCX gene leading to lissencephaly are located within the DC domains []. Human serine/threonine-protein kinase DCAMKL1. It is a probable kinase that may be involved in a calcium-signaling pathway controling neuronal migration in the developing brain []. Retinitis pigmentosa 1 protein. It could play a role in the differentiation of photoreceptor cells. Mutation in the human RP1 gene cause retinitis pigmentosa of type 1 []. ; GO: 0035556 intracellular signal transduction; PDB: 1UF0_A 1MG4_A 1MFW_A 2DNF_A 2XRP_I 2BQQ_A 1MJD_A.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	98
2k8h_A	110	Solution Structure Of Sumo From Trypanosoma Brucei		2e-08
2iy1_B	83	Senp1 (Mutant) Full Length Sumo1 Length = 83		4e-05
2iy0_B	82	Senp1 (Mutant) Sumo1 Rangap Length = 82		4e-05
2io1_B	94	Crystal Structure Of Human Senp2 In Complex With Pr		5e-05
2io3_B	81	Crystal Structure Of Human Senp2 In Complex With Ra		6e-05
2io0_B	91	Crystal Structure Of Human Senp2 In Complex With Pr		6e-05
2ckh_B	79	Senp1-sumo2 Complex Length = 79		6e-05
1a5r_A	103	Structure Determination Of The Small Ubiquitin-Rela		6e-05
3uin_B	80	Complex Between Human Rangap1-Sumo2, Ubc9 And The I		6e-05
2iyd_B	81	Senp1 Covalent Complex With Sumo-2 Length = 81		7e-05
2d07_B	93	Crystal Structure Of Sumo-3-Modified Thymine-Dna Gl		7e-05
2awt_A	95	Solution Structure Of Human Small Ubiquitin-Like Mo		7e-05
2uyz_B	79	Non-Covalent Complex Between Ubc9 And Sumo1 Length		1e-04
1z5s_B	82	Crystal Structure Of A Complex Between Ubc9, Sumo-1		1e-04
2bf8_B	77	Crystal Structure Of Sumo Modified Ubiquitin Conjug		1e-04
1tgz_B	80	Structure Of Human Senp2 In Complex With Sumo-1 Len		1e-04
2g4d_B	78	Crystal Structure Of Human Senp1 Mutant (C603s) In		1e-04
3kyc_D	97	Human Sumo E1 Complex With A Sumo1-Amp Mimic Length		1e-04
1y8r_C	97	Sumo E1 Activating Enzyme Sae1-Sae2-Sumo1-Mg-Atp Co		2e-04
2kqs_A	99	Phosphorylation Of Sumo-Interacting Motif By Ck2 En		2e-04
1wz0_A	104	Solution Structure Of Human Sumo-2 (Smt3b), A Ubiqu		5e-04
3kyd_D	115	Human Sumo E1~sumo1-amp Tetrahedral Intermediate Mi		6e-04
1wm3_A	72	Crystal Structure Of Human Sumo-2 Protein Length =		7e-04
1wm2_A	78	Crystal Structure Of Human Sumo-2 Protein Length =		9e-04

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

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 26/77 (33%), Positives = 43/77 (55%)
Query: 16  LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQL 75
           L+ + + + DG + FF+      +K+L+  YC+ +     S  FL +G   D +KT ++L
Sbjct: 26  LVAVKVVNADGAEMFFRIKSRTALKKLIDTYCKKQGISRNSVRFLFDGTPIDETKTPEEL 85
Query: 76  GLKDGDEIDAMYHAFGG 92
           G++D D IDAM    GG
Sbjct: 86  GMEDDDVIDAMVEQTGG 102

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 24/79 (30%), Positives = 38/79 (48%), Gaps = 1/79 (1%)
Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          I L +  QD  +  F+      +K+L   YC+ +  P  S  FL  G R   + T  +LG
Sbjct: 3  IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELG 62
Query: 77 LKDGDEIDAMYHAFGGGHD 95
          +++ D I+ +Y    GGH 
Sbjct: 63 MEEEDVIE-VYQEQTGGHS 80

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 24/79 (30%), Positives = 38/79 (48%), Gaps = 1/79 (1%)
Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          I L +  QD  +  F+      +K+L   YC+ +  P  S  FL  G R   + T  +LG
Sbjct: 3  IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELG 62
Query: 77 LKDGDEIDAMYHAFGGGHD 95
          +++ D I+ +Y    GGH 
Sbjct: 63 MEEEDVIE-VYQEQTGGHS 80

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 34/76 (44%)
Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          INL +  QDG    F+      + +L+  YCE +    +   F  +G   + + T  QL 
Sbjct: 8  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 67
Query: 77 LKDGDEIDAMYHAFGG 92
          ++D D ID      GG
Sbjct: 68 MEDEDTIDVFQQQTGG 83

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 34/76 (44%)
Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          INL +  QDG    F+      + +L+  YCE +    +   F  +G   + + T  QL 
Sbjct: 6  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 65
Query: 77 LKDGDEIDAMYHAFGG 92
          ++D D ID      GG
Sbjct: 66 MEDEDTIDVFQQQTGG 81

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 34/76 (44%)
Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          INL +  QDG    F+      + +L+  YCE +    +   F  +G   + + T  QL 
Sbjct: 6  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 65
Query: 77 LKDGDEIDAMYHAFGG 92
          ++D D ID      GG
Sbjct: 66 MEDEDTIDVFQQQTGG 81

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

Iteration: 1
 Score = 42.4 bits (98), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 34/76 (44%)
Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          INL +  QDG    F+      + +L+  YCE +    +   F  +G   + + T  QL 
Sbjct: 4  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 63
Query: 77 LKDGDEIDAMYHAFGG 92
          ++D D ID      GG
Sbjct: 64 MEDEDTIDVFQQQTGG 79

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

Iteration: 1
 Score = 42.4 bits (98), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 24/78 (30%), Positives = 38/78 (48%), Gaps = 1/78 (1%)
Query: 17  INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
           I L +  QD  +  F+      +K+L   YC+ +  P  S  FL  G R   + T  +LG
Sbjct: 24  IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELG 83
Query: 77  LKDGDEIDAMYHAFGGGH 94
           +++ D I+ +Y    GGH
Sbjct: 84  MEEEDVIE-VYQEQTGGH 100

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

Iteration: 1
 Score = 42.4 bits (98), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 34/76 (44%)
Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          INL +  QDG    F+      + +L+  YCE +    +   F  +G   + + T  QL 
Sbjct: 5  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 64
Query: 77 LKDGDEIDAMYHAFGG 92
          ++D D ID      GG
Sbjct: 65 MEDEDTIDVFQQQTGG 80

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

Iteration: 1
 Score = 42.4 bits (98), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 34/76 (44%)
Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          INL +  QDG    F+      + +L+  YCE +    +   F  +G   + + T  QL 
Sbjct: 4  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 63
Query: 77 LKDGDEIDAMYHAFGG 92
          ++D D ID      GG
Sbjct: 64 MEDEDTIDVFQQQTGG 79

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

Iteration: 1
 Score = 42.4 bits (98), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 34/76 (44%)
Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          INL +  QDG    F+      + +L+  YCE +    +   F  +G   + + T  QL 
Sbjct: 18 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 77
Query: 77 LKDGDEIDAMYHAFGG 92
          ++D D ID      GG
Sbjct: 78 MEDEDTIDVFQQQTGG 93

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

Iteration: 1
 Score = 42.4 bits (98), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 34/76 (44%)
Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          INL +  QDG    F+      + +L+  YCE +    +   F  +G   + + T  QL 
Sbjct: 18 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 77
Query: 77 LKDGDEIDAMYHAFGG 92
          ++D D ID      GG
Sbjct: 78 MEDEDTIDVFQQQTGG 93

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

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 35/76 (46%)
Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          I L +  QD  +  F+      +K+L   YC+ +  P  S  FL  G R   + T  +LG
Sbjct: 4  IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELG 63
Query: 77 LKDGDEIDAMYHAFGG 92
          +++ D I+      GG
Sbjct: 64 MEEEDVIEVYQEQTGG 79

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

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 35/76 (46%)
Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          I L +  QD  +  F+      +K+L   YC+ +  P  S  FL  G R   + T  +LG
Sbjct: 7  IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELG 66
Query: 77 LKDGDEIDAMYHAFGG 92
          +++ D I+      GG
Sbjct: 67 MEEEDVIEVYQEQTGG 82

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

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 35/76 (46%)
Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          I L +  QD  +  F+      +K+L   YC+ +  P  S  FL  G R   + T  +LG
Sbjct: 2  IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELG 61
Query: 77 LKDGDEIDAMYHAFGG 92
          +++ D I+      GG
Sbjct: 62 MEEEDVIEVYQEQTGG 77

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

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 35/76 (46%)
Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          I L +  QD  +  F+      +K+L   YC+ +  P  S  FL  G R   + T  +LG
Sbjct: 5  IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELG 64
Query: 77 LKDGDEIDAMYHAFGG 92
          +++ D I+      GG
Sbjct: 65 MEEEDVIEVYQEQTGG 80

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

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 35/76 (46%)
Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          I L +  QD  +  F+      +K+L   YC+ +  P  S  FL  G R   + T  +LG
Sbjct: 3  IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELG 62
Query: 77 LKDGDEIDAMYHAFGG 92
          +++ D I+      GG
Sbjct: 63 MEEEDVIEVYQEQTGG 78

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

Iteration: 1
 Score = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 35/76 (46%)
Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          I L +  QD  +  F+      +K+L   YC+ +  P  S  FL  G R   + T  +LG
Sbjct: 22 IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELG 81
Query: 77 LKDGDEIDAMYHAFGG 92
          +++ D I+      GG
Sbjct: 82 MEEEDVIEVYQEQCGG 97

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

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 35/76 (46%)
Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          I L +  QD  +  F+      +K+L   YC+ +  P  S  FL  G R   + T  +LG
Sbjct: 22 IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELG 81
Query: 77 LKDGDEIDAMYHAFGG 92
          +++ D I+      GG
Sbjct: 82 MEEEDVIEVYQEQTGG 97

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

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 35/76 (46%)
Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          I L +  QD  +  F+      +K+L   YC+ +  P  S  FL  G R   + T  +LG
Sbjct: 24 IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELG 83
Query: 77 LKDGDEIDAMYHAFGG 92
          +++ D I+      GG
Sbjct: 84 MEEEDVIEVYQEQTGG 99

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

Iteration: 1
 Score = 39.7 bits (91), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 21/76 (27%), Positives = 33/76 (43%)
Query: 17  INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
           INL +  QDG    F+      + +L+  YCE +    +   F  +G   + + T  QL 
Sbjct: 25  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 84
Query: 77  LKDGDEIDAMYHAFGG 92
           ++D D ID       G
Sbjct: 85  MEDEDTIDVFQQQTSG 100

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

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 21/75 (28%), Positives = 34/75 (45%)
Query: 17  INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
           I L +  QD  +  F+      +K+L   YC+ +  P  S  FL  G R   + T  +LG
Sbjct: 41  IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELG 100
Query: 77  LKDGDEIDAMYHAFG 91
           +++ D I+      G
Sbjct: 101 MEEEDVIEVYQEQCG 115

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

Iteration: 1
 Score = 38.9 bits (89), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 20/69 (28%), Positives = 32/69 (46%)
Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          INL +  QDG    F+      + +L+  YCE +    +   F  +G   + + T  QL 
Sbjct: 2  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 61
Query: 77 LKDGDEIDA 85
          ++D D ID 
Sbjct: 62 MEDEDTIDV 70

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

Iteration: 1
 Score = 38.5 bits (88), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 20/69 (28%), Positives = 32/69 (46%)
Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          INL +  QDG    F+      + +L+  YCE +    +   F  +G   + + T  QL 
Sbjct: 7  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 66
Query: 77 LKDGDEIDA 85
          ++D D ID 
Sbjct: 67 MEDEDTIDV 75

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	98
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	2e-17
2d07_B	93	Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Ho	7e-17
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	3e-16
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	8e-16
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	2e-15
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	1e-14
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	1e-14
2eke_C	106	Ubiquitin-like protein SMT3; UBC9, SUMO binding mo	6e-14
3tix_A	207	Ubiquitin-like protein SMT3, RNA-induced transcri	1e-13
3kyd_D	115	Small ubiquitin-related modifier 1; SUMO, thioeste	2e-13
1wm3_A	72	Ubiquitin-like protein SMT3B; ubiquitin fold, half	2e-12
3v7o_A	227	Minor nucleoprotein VP30; ssgcid, seattle structur	7e-12
2jxx_A	97	Nfatc2-interacting protein; nuclear factor of acti	4e-11
3a4r_A	79	Nfatc2-interacting protein; ubiquitin fold, coiled	3e-10
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	8e-05
3goe_A	82	DNA repair protein RAD60; SUMO-like domain, sumoyl	3e-04
2l76_A	95	Nfatc2-interacting protein; ubiquitin-like domain,	5e-04

>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 = 69.9 bits (171), Expect = 2e-17
 Identities = 24/93 (25%), Positives = 37/93 (39%), Gaps = 1/93 (1%)

Query: 3   KPSSSKNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN 62
           KP      +   H INL +  QDG    F+      + +L+  YCE +    +   F  +
Sbjct: 12  KPKEGVKTENNDH-INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFD 70

Query: 63  GNRFDYSKTADQLGLKDGDEIDAMYHAFGGGHD 95
           G   + + T  QL ++D D ID       G   
Sbjct: 71  GQPINETDTPAQLEMEDEDTIDVFQQQTSGPSS 103

>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 = 68.3 bits (167), Expect = 7e-17
 Identities = 25/90 (27%), Positives = 38/90 (42%), Gaps = 1/90 (1%)

Query: 3  KPSSSKNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN 62
          KP      +   H INL +  QDG    F+      + +L+  YCE +    +   F  +
Sbjct: 5  KPKEGVKTENNDH-INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFD 63

Query: 63 GNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92
          G   + + T  QL ++D D ID      GG
Sbjct: 64 GQPINETDTPAQLEMEDEDTIDVFQQQTGG 93

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

 Score = 66.9 bits (163), Expect = 3e-16
 Identities = 26/94 (27%), Positives = 47/94 (50%), Gaps = 1/94 (1%)

Query: 3   KPSSSKNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN 62
           + +     ++    + + + + DG + FF+      +K+L+  YC+ +     S  FL +
Sbjct: 14  EGAEGTCKEETAL-VAVKVVNADGAEMFFRIKSRTALKKLIDTYCKKQGISRNSVRFLFD 72

Query: 63  GNRFDYSKTADQLGLKDGDEIDAMYHAFGGGHDH 96
           G   D +KT ++LG++D D IDAM    GG   H
Sbjct: 73  GTPIDETKTPEELGMEDDDVIDAMVEQTGGLEHH 106

>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 = 65.7 bits (160), Expect = 8e-16
 Identities = 24/89 (26%), Positives = 39/89 (43%)

Query: 4  PSSSKNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLING 63
           +    +KK    I L +  QD  +  F+      +K+L   YC+ +  P  S  FL  G
Sbjct: 9  STEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEG 68

Query: 64 NRFDYSKTADQLGLKDGDEIDAMYHAFGG 92
           R   + T  +LG+++ D I+      GG
Sbjct: 69 QRIADNHTPKELGMEEEDVIEVYQEQTGG 97

>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 = 64.8 bits (158), Expect = 2e-15
 Identities = 22/77 (28%), Positives = 34/77 (44%)

Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          INL +  QDG    F+      + +L+  YCE +    +   F  +G   + + T  QL 
Sbjct: 8  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 67

Query: 77 LKDGDEIDAMYHAFGGG 93
          ++D D ID      GG 
Sbjct: 68 MEDEDTIDVFQQQTGGV 84

>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 = 62.5 bits (152), Expect = 1e-14
 Identities = 22/80 (27%), Positives = 35/80 (43%)

Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          INL +  QDG    F+      + +L+  YCE +    +   F  +G   + + T  QL 
Sbjct: 6  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 65

Query: 77 LKDGDEIDAMYHAFGGGHDH 96
          ++D D ID      GG +  
Sbjct: 66 MEDEDTIDVFQQQTGGVYLE 85

>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 = 62.1 bits (151), Expect = 1e-14
 Identities = 22/76 (28%), Positives = 35/76 (46%)

Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          I L +  QD  +  F+      +K+L   YC+ +  P  S  FL  G R   + T  +LG
Sbjct: 4  IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELG 63

Query: 77 LKDGDEIDAMYHAFGG 92
          +++ D I+      GG
Sbjct: 64 MEEEDVIEVYQEQTGG 79

>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 = 61.1 bits (148), Expect = 6e-14
 Identities = 24/90 (26%), Positives = 42/90 (46%), Gaps = 1/90 (1%)

Query: 3   KPSSSKNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN 62
           + S  K   KP+  INL +      + FF+      ++RL+  + + + +   S  FL +
Sbjct: 18  RGSEVKPEVKPETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYD 76

Query: 63  GNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92
           G R    +T + L ++D D I+A     GG
Sbjct: 77  GIRIQADQTPEDLDMEDNDIIEAHREQIGG 106

>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 = 62.5 bits (151), Expect = 1e-13
 Identities = 23/92 (25%), Positives = 39/92 (42%), Gaps = 2/92 (2%)

Query: 3   KPSSSKNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN 62
           KP      K   H INL +      + FF+      ++RL+  + + + +   S  FL +
Sbjct: 45  KPEVKPEVKPETH-INLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLTFLYD 102

Query: 63  GNRFDYSKTADQLGLKDGDEIDAMYHAFGGGH 94
           G      +T + L ++D D I+A     GG  
Sbjct: 103 GIEIQADQTPEDLDMEDNDIIEAHREQIGGLP 134

>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 = 60.0 bits (145), Expect = 2e-13
 Identities = 23/88 (26%), Positives = 38/88 (43%)

Query: 4   PSSSKNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLING 63
            +    +KK    I L +  QD  +  F+      +K+L   YC+ +  P  S  FL  G
Sbjct: 28  STEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEG 87

Query: 64  NRFDYSKTADQLGLKDGDEIDAMYHAFG 91
            R   + T  +LG+++ D I+      G
Sbjct: 88  QRIADNHTPKELGMEEEDVIEVYQEQCG 115

>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 = 56.3 bits (136), Expect = 2e-12
 Identities = 20/70 (28%), Positives = 32/70 (45%)

Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          INL +  QDG    F+      + +L+  YCE +    +   F  +G   + + T  QL 
Sbjct: 2  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 61

Query: 77 LKDGDEIDAM 86
          ++D D ID  
Sbjct: 62 MEDEDTIDVF 71

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

 Score = 58.3 bits (140), Expect = 7e-12
 Identities = 21/84 (25%), Positives = 38/84 (45%), Gaps = 1/84 (1%)

Query: 5  SSSKNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGN 64
             K   KP+  INL +      + FF+      ++RL+  + + + +   S  FL +G 
Sbjct: 10 GEVKPEVKPETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 68

Query: 65 RFDYSKTADQLGLKDGDEIDAMYH 88
          R    +T + L ++D D I+A   
Sbjct: 69 RIQADQTPEDLDMEDNDIIEAHRE 92

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

 Score = 53.4 bits (128), Expect = 4e-11
 Identities = 14/84 (16%), Positives = 32/84 (38%), Gaps = 2/84 (2%)

Query: 3  KPSSSKNNKKPQHLINLIIKSQDGDKRF-FQFNHDVEIKRLLIKYCETKSQPFKSTPFLI 61
                + +  Q  + L ++ ++  +      + D  +K L+  Y E      +   F  
Sbjct: 13 GLVPRGSTETSQQ-LQLRVQGKEKHQTLEVSLSRDSPLKTLMSHYEEAMGLSGRKLSFFF 71

Query: 62 NGNRFDYSKTADQLGLKDGDEIDA 85
          +G +    +    LG++ GD I+ 
Sbjct: 72 DGTKLSGRELPADLGMESGDLIEV 95

>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 = 51.0 bits (122), Expect = 3e-10
 Identities = 14/70 (20%), Positives = 28/70 (40%), Gaps = 1/70 (1%)

Query: 17 INLIIKSQDGDKRF-FQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQL 75
          + L ++ ++  +      + D  +K L+  Y E          F  +G +    +    L
Sbjct: 8  LRLRVQGKEKHQMLEISLSPDSPLKVLMSHYEEAMGLSGHKLSFFFDGTKLSGKELPADL 67

Query: 76 GLKDGDEIDA 85
          GL+ GD I+ 
Sbjct: 68 GLESGDLIEV 77

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

 Score = 38.3 bits (88), Expect = 8e-05
 Identities = 24/94 (25%), Positives = 42/94 (44%), Gaps = 1/94 (1%)

Query: 3   KPSSSKNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN 62
                K   KP+  INL +      + FF+      ++RL+  + + + +   S  FL +
Sbjct: 16  AKPEVKPEVKPETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYD 74

Query: 63  GNRFDYSKTADQLGLKDGDEIDAMYHAFGGGHDH 96
           G R    +T + L ++D D I+A     GGG + 
Sbjct: 75  GIRIQADQTPEDLDMEDNDIIEAHREQIGGGGET 108

>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* Length = 82

 Score = 35.3 bits (81), Expect = 3e-04
 Identities = 16/72 (22%), Positives = 27/72 (37%), Gaps = 1/72 (1%)

Query: 14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI-NGNRFDYSKTA 72
            LI L+++S   +        D  +K L+ +YC      F     L   G   D +   
Sbjct: 7  HKLITLLLRSSKSEDLRLSIPVDFTVKDLIKRYCTEVKISFHERIRLEFEGEWLDPNDQV 66

Query: 73 DQLGLKDGDEID 84
              L+D D++ 
Sbjct: 67 QSTELEDEDQVS 78

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

 Score = 35.0 bits (80), Expect = 5e-04
 Identities = 11/71 (15%), Positives = 19/71 (26%), Gaps = 1/71 (1%)

Query: 16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQL 75
          L  L I+ +    R         ++ ++                L        + T   L
Sbjct: 21 LFPLKIRCRADLVRL-PLRMSEPLQSVVDHMATHLGVSPSRILLLFGETELSPTATPRTL 79

Query: 76 GLKDGDEIDAM 86
           L   D ID +
Sbjct: 80 KLGVADIIDCV 90

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	98
3kyd_D	115	Small ubiquitin-related modifier 1; SUMO, thioeste	100.0
2eke_C	106	Ubiquitin-like protein SMT3; UBC9, SUMO binding mo	99.98
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	99.97
3tix_A	207	Ubiquitin-like protein SMT3, RNA-induced transcri	99.97
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	99.97
2d07_B	93	Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Ho	99.97
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	99.97
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	99.97
2l76_A	95	Nfatc2-interacting protein; ubiquitin-like domain,	99.96
2jxx_A	97	Nfatc2-interacting protein; nuclear factor of acti	99.96
3v7o_A	227	Minor nucleoprotein VP30; ssgcid, seattle structur	99.96
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	99.96
3a4r_A	79	Nfatc2-interacting protein; ubiquitin fold, coiled	99.95
1wm3_A	72	Ubiquitin-like protein SMT3B; ubiquitin fold, half	99.95
3uf8_A	209	Ubiquitin-like protein SMT3, peptidyl-prolyl CIS-	99.94
4da1_A	389	Protein phosphatase 1K, mitochondrial; metal-ION-a	99.93
3ix6_A	360	TS, tsase, thymidylate synthase; niaid, ssgcid, se	99.93
3goe_A	82	DNA repair protein RAD60; SUMO-like domain, sumoyl	99.9
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	99.86
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	99.86
4hcn_B	98	Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidas	99.69
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	99.69
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	99.67
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	99.66
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	99.65
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	99.64
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	99.63
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	99.62
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	99.6
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	99.6
3vdz_A	111	Ubiquitin-40S ribosomal protein S27A; gadolinium,	99.6
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	99.59
3v6c_B	91	Ubiquitin; structural genomics, structural genomic	99.57
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	99.57
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	99.57
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	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	99.56
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	99.55
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	99.54
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	99.54
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	99.54
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	99.51
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	99.5
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	99.48
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	99.46
3plu_A	93	Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-	99.46
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	99.46
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	99.44
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	99.44
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	99.43
1we6_A	111	Splicing factor, putative; structural genomics, ub	99.41
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	99.41
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	99.41
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	99.4
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	99.4
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	99.4
2daf_A	118	FLJ35834 protein; hypothetical protein FLJ35834, u	99.4
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	99.39
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	99.38
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	99.38
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	99.38
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	99.36
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	99.36
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	99.04
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	99.33
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	99.33
1uh6_A	100	Ubiquitin-like 5; beta-grAsp fold, structural geno	99.33
4a20_A	98	Ubiquitin-like protein MDY2; protein binding, GET-	99.33
3u5c_f	152	40S ribosomal protein S31; translation, ribosome,	99.31
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	99.3
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	99.3
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	99.29
1wia_A	95	Hypothetical ubiquitin-like protein (riken cDNA 20	99.27
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	99.25
1wju_A	100	NEDD8 ultimate buster-1; ubiquitin-like domain, st	99.23
1v2y_A	105	3300001G02RIK protein; hypothetical protein, ubiqu	99.2
1x1m_A	107	Ubiquitin-like protein SB132; structural genomics,	99.18
2lxa_A	87	Ubiquitin-like protein MDY2; ubiquitin-like domain	99.16
2gow_A	125	HCG-1 protein, ubiquitin-like protein 3; BC059385,	99.14
1wgh_A	116	Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fo	99.12
4dbg_A	105	Ranbp-type and C3HC4-type zinc finger-containing;	99.1
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	99.1
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	99.09
1se9_A	126	Ubiquitin family; ubiquitin-like, cell-free, wheat	99.09
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	99.06
2fnj_B	118	Transcription elongation factor B polypeptide 2; b	99.06
1wxv_A	92	BAG-family molecular chaperone regulator-1; struct	99.05
2kdb_A	99	Homocysteine-responsive endoplasmic reticulum- res	99.04
2kjr_A	95	CG11242; UBL, ubiquitin, ubiquitin-like, structura	99.03
1v5t_A	90	8430435I17RIK protein; hypothetical protein, ubiqu	99.0
1wgg_A	96	Ubiquitin carboxyl-terminal hydrolase 14; ubiquiti	98.97
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	98.96
4ajy_B	118	Transcription elongation factor B polypeptide 2; E	98.93
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	98.91
1wf9_A	107	NPL4 family protein; beta-grAsp fold like domain,	98.9
2kj6_A	97	Tubulin folding cofactor B; methods development, N	98.88
1t0y_A	122	Tubulin folding cofactor B; ubiquitin-like, cytosk	98.82
1v6e_A	95	Cytoskeleton-associated protein 1; tubulin-specifi	98.81
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	98.8
4b6w_A	86	Tubulin-specific chaperone; CAP-Gly, ubiquitin-lik	98.77
2dzj_A	88	Synaptic glycoprotein SC2; ubiquitin-like fold, st	98.74
2kzr_A	86	Ubiquitin thioesterase OTU1; structural genomics,	98.72
1wjn_A	97	Tubulin-folding protein TBCE; ubiquitin-like domai	98.62
2dzm_A	100	FAS-associated factor 1; ubiquitin-like domain, HF	98.42
3shq_A	320	UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila	98.4
2pjh_A	80	Protein NPL4, nuclear protein localization protein	98.08
2al3_A	90	TUG long isoform; TUG UBL1 insulin, endocytosis/ex	98.03
2bps_A	81	YUKD protein; ubiquitin-like protein, ubiquitin; 2	97.61
2dzk_A	109	UBX domain-containing protein 2; ubiquitin-like fo	97.32
4efo_A	94	Serine/threonine-protein kinase TBK1; ubiquitin li	97.27
2daj_A	91	KIAA0977 protein, COBL-like 1; ubiquitin-like doma	97.24
1wj4_A	124	KIAA0794 protein; UBX domain, beta-grAsp fold, str	97.2
3qx1_A	84	FAS-associated factor 1; UBX, protein binding, P97	97.17
4a3p_A	217	Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {H	97.12
3jyu_A	231	Ubiquitin carboxyl-terminal hydrolase; domain in u	97.09
2cr5_A	109	Reproduction 8; UBX domain, D0H8S2298E protein, st	96.72
1ryj_A	70	Unknown; beta/alpha protein, structural genomics,	96.54
2kc2_A	128	Talin-1, F1; FERM, adhesion, cell membrane, cell p	96.53
3rpf_C	74	Molybdopterin converting factor, subunit 1 (MOAD);	96.43
2l32_A	74	Small archaeal modifier protein 2; protein BIN; NM	96.41
2kl0_A	73	Putative thiamin biosynthesis THis; structural gen	96.31
2k5p_A	78	THis protein, thiamine-biosynthesis protein; NESG,	96.01
1tyg_B	87	YJBS; alpha beta barrel, protein-protein complex,	95.84
2kvr_A	130	Ubiquitin carboxyl-terminal hydrolase 7; USP7, ubi	95.13
1oey_A	83	P67-PHOX, neutrophil cytosol factor 2; immune syst	95.12
1f0z_A	66	THis protein; ubiquitin fold, transport protein; N	95.06
1y8x_B	98	Ubiquitin-activating enzyme E1C; ubiquitin-conjuga	94.52
3po0_A	89	Small archaeal modifier protein 1; ubiquitin-like	94.39
1vjk_A	98	Molybdopterin converting factor, subunit 1; struct	94.24
1fm0_D	81	Molybdopterin convertin factor, subunit 1; molybde	94.01
1s3s_G	127	P47 protein; AAA ATPase, protein-protein complex,	93.96
2q5w_D	77	Molybdopterin converting factor, subunit 1; MOCO,	93.93
2cu3_A	64	Unknown function protein; thermus thermophilus HB8	93.81
1h4r_A	314	Merlin; FERM, neurofibromatosis, NF2, structural p	93.73
2ylm_A	530	Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70	93.08
1j0g_A	92	Hypothetical protein 1810045K17; ubiquitin-like fo	92.63
2g1e_A	90	Hypothetical protein TA0895; MOAD, molybdopterin,	92.51
1ef1_A	294	Moesin; membrane, FERM domain, tail domain, membra	92.45
1wz3_A	96	Autophagy 12B, ATG12B, APG12B; ubiquitin-fold, pla	92.02
2inc_C	83	TOUB protein; DIIRON, 4-helix bundle, carboxylate	91.39
2ylm_A	530	Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70	90.89
3ivf_A	371	Talin-1; FERM domain, cell membrane, cell projecti	90.71
1vd2_A	89	Protein kinase C, IOTA type; PB1 domain, OPCA moti	90.67
3w1s_C	91	Ubiquitin-like protein ATG12; ubiquitin fold, E3-l	90.16
2kmm_A	73	Guanosine-3',5'-BIS(diphosphate) 3'- pyrophosphohy	89.53
4gdk_A	91	Ubiquitin-like protein ATG12; protein-protein conj	89.47
3ivf_A	371	Talin-1; FERM domain, cell membrane, cell projecti	89.24
2i1j_A	575	Moesin; FERM, coiled-coil, C-ermad, ERM, radixin,	89.0
1rws_A	77	Hypothetical protein PF1061; residual dipolar coup	88.95
1rrb_A	107	RAF-1 RBD, RAF proto-oncogene serine/threonine-pro	88.85
3qij_A	296	Protein 4.1; cytoskeleton, structural genomics, st	88.57
3dwg_C	93	9.5 kDa culture filtrate antigen CFP10A; sulfur ca	88.57
2hj1_A	97	Hypothetical protein; structural genomics, PSI, pr	88.24
3u7z_A	101	Putative metal binding protein rumgna_00854; the b	87.84
2qjl_A	99	URM1, ubiquitin-related modifier 1; ubiquitin-like	87.6
2zjd_A	130	Microtubule-associated proteins 1A/1B light chain	87.4
2juo_A	89	GA-binding protein alpha chain; OST, ubiquitin, tr	87.36
1zps_A	138	PRA-CH, phosphoribosyl-AMP cyclohydrolase; histidi	86.67
1eo6_A	117	GATE-16, golgi-associated ATPase enhancer of 16 KD	86.45
2r2q_A	110	Gamma-aminobutyric acid receptor-associated protei	85.99
2l52_A	99	Methanosarcina acetivorans SAMP1 homolog; beta-grA	85.39
3rui_B	118	Autophagy-related protein 8; autophagosome formati	85.16
1q1o_A	98	Cell division control protein 24; PB1 domain, PCCR	84.96
3h9d_A	119	ATG8, microtubule-associated protein 1A/1B, light	84.61
1wgk_A	114	Riken cDNA 2900073H19 protein; THis domain, ubiqut	83.83
3ge3_C	84	Toluene-4-monooxygenase system protein B; DIIRON h	83.77
3m95_A	125	Autophagy related protein ATG8; alpha slash beta,	81.54

>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=6.1e-33  Score=183.80  Aligned_cols=83  Identities=28%  Similarity=0.524  Sum_probs=76.4

Q ss_pred             CCCCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424            9 NNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus         9 ~~~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      .+++++++|+|+|++++|.++.|+|++++||++||++||++.|++.+++||+|||++|.+++||++|+|||||+|||+++
T Consensus        33 ~~k~~~~~I~LKV~~qdg~ev~fkIk~tt~L~KLm~aY~er~Gl~~~~irFlFDG~rI~~~~TP~dL~MEDgD~IdV~~~  112 (115)
T 3kyd_D           33 GDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE  112 (115)
T ss_dssp             ------CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHHTCCTTSEEEEETTEECCTTCCTTTTTCCTTCEEEEEEC
T ss_pred             cCCCCCCeEEEEEEcCCCCEEEEEEccCChHHHHHHHHHHHhCCChhhEEEEECCeECCCCCCHHHcCCCCCCEEEEEee
Confidence            35567899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ecC
Q 045424           89 AFG   91 (98)
Q Consensus        89 q~G   91 (98)
                      |+|
T Consensus       113 Q~G  115 (115)
T 3kyd_D          113 QCG  115 (115)
T ss_dssp             CCC
T ss_pred             ccC
Confidence            998

>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=99.98  E-value=5.1e-32  Score=177.13  Aligned_cols=86  Identities=27%  Similarity=0.512  Sum_probs=79.8

Q ss_pred             CCCCCCCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEE
Q 045424            6 SSKNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDA   85 (98)
Q Consensus         6 ~~~~~~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv   85 (98)
                      ..++.++++++|+|+|++ +|.++.|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|||||+|||
T Consensus        21 ~~~~~~~~~~~I~IkV~~-~g~~i~fkIk~tt~l~kL~~ay~ek~gi~~~~~rF~FdG~rl~~~~Tp~dl~medgD~Idv   99 (106)
T 2eke_C           21 EVKPEVKPETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEA   99 (106)
T ss_dssp             CCCCCCCCCSEEEEEEEC-SSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEE
T ss_pred             ccCCCCCCCCeEEEEEec-CCcEEEEEeCCCCHHHHHHHHHHHHhCCCcccEEEEECCeEcCCCCCHHHcCCCCCCEEEE
Confidence            346677789999999999 9999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EceecCC
Q 045424           86 MYHAFGG   92 (98)
Q Consensus        86 ~~~q~GG   92 (98)
                      +++|+||
T Consensus       100 ~~~q~GG  106 (106)
T 2eke_C          100 HREQIGG  106 (106)
T ss_dssp             EECC---
T ss_pred             EeecccC
Confidence            9999998

>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=99.97  E-value=8.6e-32  Score=171.59  Aligned_cols=82  Identities=27%  Similarity=0.491  Sum_probs=78.1

Q ss_pred             CCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           13 PQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        13 ~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +++.|+|+|++++|.++.|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|||||+|||+++|+||
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            36789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             Cc
Q 045424           93 GH   94 (98)
Q Consensus        93 ~~   94 (98)
                      ++
T Consensus        82 ~~   83 (91)
T 2io0_B           82 VY   83 (91)
T ss_dssp             CC
T ss_pred             cc
Confidence            53

>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=1e-31  Score=191.33  Aligned_cols=87  Identities=25%  Similarity=0.479  Sum_probs=78.4

Q ss_pred             CCCCCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424            8 KNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus         8 ~~~~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      +|+.+|+++|+|+|+ ++|.+++|+|+++|||++||++||++.|++++++||+|||++|.+++||++|+|||||+|||++
T Consensus        49 KP~~dp~e~InLKVk-~dG~eV~FKIKrtTpL~KLmeAYcERqGL~~~sIRFLFDGqRI~~ddTPeDLdMEDGDtIDV~l  127 (207)
T 3tix_A           49 KPEVKPETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLTFLYDGIEIQADQTPEDLDMEDNDIIEAHR  127 (207)
T ss_dssp             ------CCEEEEEEE-CSSCEEEEEEETTSCTHHHHHHHHHHTTCCGGGSCEEETTEECCSSCCTTTTTCCTTEEEEECC
T ss_pred             CCCCCCCCcEEEEEe-cCCCEEEEEEccCChHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCHHHcCCCCCCEEEEEE
Confidence            444456899999997 5999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eecCCCcc
Q 045424           88 HAFGGGHD   95 (98)
Q Consensus        88 ~q~GG~~~   95 (98)
                      +|+||+.+
T Consensus       128 eQ~GG~~~  135 (207)
T 3tix_A          128 EQIGGLPS  135 (207)
T ss_dssp             CCCTTGGG
T ss_pred             eccCCCcc
Confidence            99999764

>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=3.2e-31  Score=172.64  Aligned_cols=83  Identities=25%  Similarity=0.472  Sum_probs=80.4

Q ss_pred             CCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           13 PQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        13 ~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      ++.+|+|+|++++|..++|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|||||+|||+++|+||
T Consensus        21 ~~~~I~IkVk~~~g~~i~~kVk~~t~l~kL~~~y~ek~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~q~GG  100 (104)
T 1wz0_A           21 NNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQQTSG  100 (104)
T ss_dssp             CSCCEEEEEECSSSCEEEEEECTTSCHHHHHHHHHHHHTCCTTTSCEESSSSBCCTTSCTTTTTCCTTEEEEECCCCCCC
T ss_pred             CCCeEEEEEECCCCCEEEEEEcCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEeccCC
Confidence            46899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             Ccc
Q 045424           93 GHD   95 (98)
Q Consensus        93 ~~~   95 (98)
                      +++
T Consensus       101 ~~~  103 (104)
T 1wz0_A          101 PSS  103 (104)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            765

>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=99.97  E-value=4.1e-31  Score=168.74  Aligned_cols=80  Identities=28%  Similarity=0.521  Sum_probs=75.1

Q ss_pred             CCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           13 PQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        13 ~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      ++.+|+|+|++++|..++|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|+|||+|||+++|+||
T Consensus        14 ~~~~i~ikV~~~~g~~i~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~dl~medgD~Idv~~~q~GG   93 (93)
T 2d07_B           14 NNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQQTGG   93 (93)
T ss_dssp             -CCEEEEEEECTTSCEEEEEEETTSCHHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEECC---
T ss_pred             CCCeEEEEEECCCCCEEEEEEccCCHHHHHHHHHHHHhCCCccceEEEECCEEcCCCCCHHHcCCCCCCEEEEEeeccCC
Confidence            47899999999999999999999999999999999999999999999999999999999999999999999999999998

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

Probab=99.97  E-value=3.3e-31  Score=174.21  Aligned_cols=88  Identities=32%  Similarity=0.587  Sum_probs=80.6

Q ss_pred             CCCCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424            9 NNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus         9 ~~~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      +..+++++|+|+|++++|..+.|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|||||+|||+++
T Consensus        19 ~~~~~~~~I~IkVk~~~g~~i~fkVk~~t~l~kL~~ay~ek~gi~~~~~rfiFdG~~L~~~~Tp~dl~mEDgD~Idv~~~   98 (110)
T 2k8h_A           19 TCKEETALVAVKVVNADGAEMFFRIKSRTALKKLIDTYCKKQGISRNSVRFLFDGTPIDETKTPEELGMEDDDVIDAMVE   98 (110)
T ss_dssp             CCCCCCCCEEEEEEETTSCCEEEEECTTSSHHHHHHHHHHHHTCCSSSCEEESSSCBCCSSSHHHHHHCSSEEEEEEECC
T ss_pred             CCCCCCCeEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEc
Confidence            34456899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ecCCCccc
Q 045424           89 AFGGGHDH   96 (98)
Q Consensus        89 q~GG~~~~   96 (98)
                      |+||.-+|
T Consensus        99 q~Gg~~~~  106 (110)
T 2k8h_A           99 QTGGLEHH  106 (110)
T ss_dssp             CCCC----
T ss_pred             ccCccccc
Confidence            99996554

>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=8.2e-31  Score=167.78  Aligned_cols=83  Identities=27%  Similarity=0.490  Sum_probs=78.9

Q ss_pred             CCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           13 PQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        13 ~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      ++++|+|+|++++|++++|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|||||+|||+++|+||
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            46889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             Ccc
Q 045424           93 GHD   95 (98)
Q Consensus        93 ~~~   95 (98)
                      ++-
T Consensus        84 ~~~   86 (94)
T 2io1_B           84 VPE   86 (94)
T ss_dssp             CCC
T ss_pred             Ccc
Confidence            654

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

Probab=99.96  E-value=1e-29  Score=162.99  Aligned_cols=76  Identities=14%  Similarity=0.146  Sum_probs=72.2

Q ss_pred             CCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424           11 KKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus        11 ~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      +..+.+|+|+|++ +|.+++|+||++|||+|||++||++.|++++++||+|||.+|.+++||++|+|||||+|||++
T Consensus        16 ~~~~~~IniKV~~-~g~ev~FkIK~tt~l~KL~~aYc~r~gv~~~sirFlfDG~rI~~~~TP~~L~meD~DiID~~~   91 (95)
T 2l76_A           16 PETPRLFPLKIRC-RADLVRLPLRMSEPLQSVVDHMATHLGVSPSRILLLFGETELSPTATPRTLKLGVADIIDCVV   91 (95)
T ss_dssp             CSCCCCEEEEEEC-SSSEEEEEECSSSCTHHHHHHHHHHHTSCGGGEEEEETTEECCTTSCHHHHTCCSSCEEEEEE
T ss_pred             CCCCCeEEEEEEc-CCcEEEEEEecCChHHHHHHHHHhhcCCChhhEEEEECCcCCCCCCCHhHcCCCCCCEEEEEE
Confidence            3347889999995 789999999999999999999999999999999999999999999999999999999999986

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

Probab=99.96  E-value=8.8e-30  Score=164.23  Aligned_cols=79  Identities=16%  Similarity=0.361  Sum_probs=73.2

Q ss_pred             CCCCCCCCcEEEEEEccCCC-EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEE
Q 045424            8 KNNKKPQHLINLIIKSQDGD-KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus         8 ~~~~~~~~~I~I~v~~~~g~-~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~   86 (98)
                      .+..+++++|+|+|++++|. ++.|+|+++|||++||++||++.|++.+++||+|||++|.+++||++|+|||||+|||+
T Consensus        17 ~~~~~~~~~I~LkV~~~dg~~~v~fkIk~~t~l~kLm~aY~~~~g~~~~~vrF~FDG~rI~~~~TP~dLdMEDgD~IDv~   96 (97)
T 2jxx_A           17 RGSTETSQQLQLRVQGKEKHQTLEVSLSRDSPLKTLMSHYEEAMGLSGRKLSFFFDGTKLSGRELPADLGMESGDLIEVW   96 (97)
T ss_dssp             ---CCSCSEEEEEEEESSSSCEEEEEEETTSCHHHHHHHHHHHTTCSSSCCEEEETTEECCSCSCHHHHTCCTTEEEEEE
T ss_pred             CCCCCCCCeEEEEEEcCCCCEEEEEEECCCChHHHHHHHHHHHHCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEe
Confidence            34555789999999999995 89999999999999999999999999999999999999999999999999999999997

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

Probab=99.96  E-value=9.3e-32  Score=193.68  Aligned_cols=86  Identities=28%  Similarity=0.506  Sum_probs=2.0

Q ss_pred             CCCCCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424            8 KNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus         8 ~~~~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      +|+++|+++|+|+| +++|.++.|+|+++|||++||++||++.|++++++||+|||++|.+++||++|+|||||+|||++
T Consensus        13 ~~~~~p~e~InLKV-~qdGseV~FKIKrtTpL~KLM~AYcERqGLs~~siRFLFDGqRI~dddTPadL~MEDGDtIDV~l   91 (227)
T 3v7o_A           13 KPEVKPETHINLKV-SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHR   91 (227)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCCCCCCCeEEEEE-eCCCCEEEEEEccCChHHHHHHHHHHHhCCCccceEEEECCEecCCCCCHHHcCCCCCCEEEEEe
Confidence            67788899999999 88999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eecCCCc
Q 045424           88 HAFGGGH   94 (98)
Q Consensus        88 ~q~GG~~   94 (98)
                      +|+||+.
T Consensus        92 eQ~GG~~   98 (227)
T 3v7o_A           92 EQIGGLT   98 (227)
T ss_dssp             ----CCC
T ss_pred             cccCCch
Confidence            9999964

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

Probab=99.96  E-value=7.9e-30  Score=182.43  Aligned_cols=86  Identities=28%  Similarity=0.536  Sum_probs=78.8

Q ss_pred             CCCCCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424            8 KNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus         8 ~~~~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      +|+.+|+++|+|+|+ ++|..++|+|+++|||++||++||++.|++++++||+|||++|.+++||++|+|||||+|+|++
T Consensus        21 kp~~~~~~~I~LkV~-~~g~~v~fkIk~~t~l~kL~~ay~er~Gi~~~~~RF~FdG~rI~~~~TP~dL~MEdgD~Idv~~   99 (200)
T 3pge_A           21 KPEVKPETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHR   99 (200)
T ss_dssp             ----CCCCCEEEEEE-CSSCEEEEEECTTSCTHHHHHHHHHHHSSCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEE
T ss_pred             CCCCCCCCeEEEEEe-cCCCEEEEEEecCCHHHHHHHHHHHHhCCChhhEEEEECCEEcCCCCCHHHcCCCCCCEEEEEe
Confidence            455567999999997 4999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eecCCCc
Q 045424           88 HAFGGGH   94 (98)
Q Consensus        88 ~q~GG~~   94 (98)
                      +|+||..
T Consensus       100 ~q~gg~k  106 (200)
T 3pge_A          100 EQIGGGG  106 (200)
T ss_dssp             CCSCCC-
T ss_pred             ccCcCcC
Confidence            9999974

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

Probab=99.95  E-value=3.6e-28  Score=150.77  Aligned_cols=75  Identities=19%  Similarity=0.312  Sum_probs=72.1

Q ss_pred             CCCCcEEEEEEccCCC-EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEE
Q 045424           12 KPQHLINLIIKSQDGD-KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus        12 ~~~~~I~I~v~~~~g~-~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~   86 (98)
                      .++++|+|+|++++|. ++.|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|||||+|||+
T Consensus         3 ~~~~~i~ikV~~~~g~~~i~~~i~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~~l~medgD~Idv~   78 (79)
T 3a4r_A            3 LGSQELRLRVQGKEKHQMLEISLSPDSPLKVLMSHYEEAMGLSGHKLSFFFDGTKLSGKELPADLGLESGDLIEVW   78 (79)
T ss_dssp             TCCCCEEEEEECSSTTCEEEEEECTTSCHHHHHHHHHHHHTCTTCCCEEEETTEECCSCCCHHHHTCCTTCEEEEE
T ss_pred             CCCCEEEEEEEeCCCCEEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEe
Confidence            4578899999999996 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=99.95  E-value=2.2e-28  Score=149.09  Aligned_cols=72  Identities=28%  Similarity=0.523  Sum_probs=70.1

Q ss_pred             cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424           16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus        16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      +|+|+|++++|.++.|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|||||+|||++
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

>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=2.2e-27  Score=170.02  Aligned_cols=86  Identities=27%  Similarity=0.515  Sum_probs=78.8

Q ss_pred             CCCCCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424            8 KNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus         8 ~~~~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      +|.++++++|+|+|++ +|.++.|+|+++|+|++||++||++.|++.+++||+|||++|++++||++|+|||+|+|||+.
T Consensus        13 ~~~~~~~~~i~ikv~~-~~~~v~~~i~~~~~l~kl~~~y~~~~g~~~~~~~f~fdG~~i~~~~Tpk~L~~ed~d~I~~~~   91 (209)
T 3uf8_A           13 KPEVKPETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHR   91 (209)
T ss_dssp             -----CCSEEEEEEEC-SSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGCEEEETTEECCTTCCTTTTTCCTTEEEEEEC
T ss_pred             cceeCCCCcEEEEEEc-CCCEEEEEEeeCCHHHHHHHHHHHhhCCChheEEEEECCEeccCCCChHHhhhcccccchhhc
Confidence            5677789999999998 888999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eecCCCc
Q 045424           88 HAFGGGH   94 (98)
Q Consensus        88 ~q~GG~~   94 (98)
                      +|+||..
T Consensus        92 eq~Gg~t   98 (209)
T 3uf8_A           92 EQIGGST   98 (209)
T ss_dssp             SCTTCCC
T ss_pred             ccccccc
Confidence            9999864

>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=8.3e-28  Score=184.03  Aligned_cols=88  Identities=25%  Similarity=0.479  Sum_probs=0.0

Q ss_pred             CCCCCCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEE
Q 045424            7 SKNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus         7 ~~~~~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~   86 (98)
                      ++|+.+++++|+|+|++ +|.+++|+|++++||++||++||++.|++.++++|+|+|++|.+++||++|+|||||+|+|+
T Consensus        21 ~~~~~~~~~~i~lkv~~-~~~~~~~~i~~~~~~~~l~~~y~~~~g~~~~~~~f~f~G~~i~~~~Tp~~l~med~d~i~~~   99 (389)
T 4da1_A           21 VKPEVKPETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQAPEDLDMEDNDIIEAH   99 (389)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCCCCCCCCcEEEEEec-CCcEEEEEECCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEeeee
Confidence            45566678999999998 78899999999999999999999999999999999999999999999999999999999999


Q ss_pred             ceecCCCcc
Q 045424           87 YHAFGGGHD   95 (98)
Q Consensus        87 ~~q~GG~~~   95 (98)
                      ++|+||...
T Consensus       100 ~~q~gg~n~  108 (389)
T 4da1_A          100 REQIGGENL  108 (389)
T ss_dssp             ---------
T ss_pred             ecccccccc
Confidence            999999653

>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=1.2e-27  Score=183.30  Aligned_cols=85  Identities=27%  Similarity=0.507  Sum_probs=0.5

Q ss_pred             CCCCCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424            8 KNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus         8 ~~~~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      ++.++|+++|+|+|++ +|.++.|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|||||+|||++
T Consensus        13 ~~~~~~~~~I~LKV~~-~g~~v~FkIk~~t~l~kLm~aY~~r~G~~~~~~rFlFdG~rI~~~~TP~~L~MEDgD~Idv~~   91 (360)
T 3ix6_A           13 KPEVKPETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHR   91 (360)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccCCCCCCeEEEEEec-CCcEEEEEEecCChHHHHHHHHHHHhCCCcceEEEEECCeECCCCCChHHcCCCccchhhhhh
Confidence            4566689999999998 688999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eecCCC
Q 045424           88 HAFGGG   93 (98)
Q Consensus        88 ~q~GG~   93 (98)
                      +|+||.
T Consensus        92 ~Q~g~~   97 (360)
T 3ix6_A           92 EQIGGM   97 (360)
T ss_dssp             -----C
T ss_pred             ccCchH
Confidence            999995

>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=99.90  E-value=3.8e-23  Score=128.20  Aligned_cols=74  Identities=20%  Similarity=0.429  Sum_probs=69.8

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCc-ceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFK-STPFLINGNRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~-~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      ..|++-+++.....+.|+|++++++++||++||++.|++.+ .++|.|||.||.+++||++|+|+|||.|||.+.
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            46899999988888999999999999999999999999998 999999999999999999999999999999873

>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=99.86  E-value=2.9e-21  Score=123.04  Aligned_cols=83  Identities=29%  Similarity=0.543  Sum_probs=77.7

Q ss_pred             CCCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424           10 NKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        10 ~~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      .++++..|+|+|++.+|..+.|.|.+++++..|+++|+++.|++++++||+|+|+.|.++.|+++++|++||+|+++++|
T Consensus        15 ~~~~~~~m~I~Vk~~~g~~~~l~v~~~~tv~~lK~~i~~~~gip~~~qrLif~Gk~L~d~~tl~dy~i~~g~~I~l~~~~   94 (97)
T 1wyw_B           15 DKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQ   94 (97)
T ss_dssp             ----CCEEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCHHHHTCCTTCEEEEEESS
T ss_pred             CCCCCCcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCChhhEEEEECCeEcCCCCCHHHCCCCCCCEEEEEEec
Confidence            44568899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCC
Q 045424           90 FGG   92 (98)
Q Consensus        90 ~GG   92 (98)
                      .||
T Consensus        95 ~GG   97 (97)
T 1wyw_B           95 TGG   97 (97)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            998

>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=99.86  E-value=3.8e-21  Score=117.31  Aligned_cols=78  Identities=28%  Similarity=0.547  Sum_probs=75.1

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +.|+|+|++.+|..+.|.|++++++..|+++|+++.|+++++++|+|+|+.|.++.|+++++|++||+|+++++|.||
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            468999999999999999999999999999999999999999999999999999999999999999999999999998

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

Probab=99.69  E-value=1.9e-16  Score=100.57  Aligned_cols=85  Identities=12%  Similarity=0.238  Sum_probs=75.5

Q ss_pred             CCCCCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424            8 KNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus         8 ~~~~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      .++..++..|.|.|+..+|..+.+.|.+++++..|+..++++.|++++.++|+|+|+.|.++.|.+++++++|++|++.+
T Consensus        14 ~~~~~~~~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~i~l~~   93 (98)
T 4hcn_B           14 ENLYFQGRPMQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL   93 (98)
T ss_dssp             --------CCEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTCBSGGGTCCTTEEEEEEC
T ss_pred             CCCCCCCCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEECCEECCCCCcHHHCCCCCCCEEEEEE
Confidence            34445578899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eecCC
Q 045424           88 HAFGG   92 (98)
Q Consensus        88 ~q~GG   92 (98)
                      ++.||
T Consensus        94 rl~GG   98 (98)
T 4hcn_B           94 RLRGG   98 (98)
T ss_dssp             BCSCC
T ss_pred             ecCCC
Confidence            99998

>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=99.69  E-value=5.3e-16  Score=95.58  Aligned_cols=81  Identities=15%  Similarity=0.247  Sum_probs=77.7

Q ss_pred             CCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecC
Q 045424           12 KPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFG   91 (98)
Q Consensus        12 ~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   91 (98)
                      .+...|.|.|++.+|..+.+.|.+++++..|+..+++..|++++.++|+|+|..|.++.|.+++++++|++|++++++.|
T Consensus         8 ~~~~~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~i~l~~rl~G   87 (88)
T 3dbh_I            8 GSGGSMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLRLRG   87 (88)
T ss_dssp             SCCCCEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTSBGGGGTCCTTCEEEECCCCCC
T ss_pred             CCCCcEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcCHHHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEeCCC
Confidence            34678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             C
Q 045424           92 G   92 (98)
Q Consensus        92 G   92 (98)
                      |
T Consensus        88 G   88 (88)
T 3dbh_I           88 G   88 (88)
T ss_dssp             C
T ss_pred             C
Confidence            8

>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=4.4e-16  Score=95.26  Aligned_cols=80  Identities=13%  Similarity=0.293  Sum_probs=72.5

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCCc
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGGH   94 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~~   94 (98)
                      ..|.|+|++.+|..+.+.|.+++++..|++.++++.+++++.++|+|+|..|.++.|.+++++++|++|++++++.||+.
T Consensus         2 s~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~ip~~~qrL~~~g~~L~d~~tL~~~~i~~~~~i~l~~rl~GG~g   81 (85)
T 3n3k_B            2 SHMRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIHNHSALYLLLKLRGGGG   81 (85)
T ss_dssp             --CEEEEECGGGCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETBEECCTTCBTTTTTCCTTCEEEEEECCC----
T ss_pred             CeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCeECCCCCCHHHCCCCCCCEEEEEEeccCCCC
Confidence            46899999999999999999999999999999999999999999999999999999999999999999999999999964

>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=99.66  E-value=1.6e-15  Score=93.53  Aligned_cols=82  Identities=17%  Similarity=0.185  Sum_probs=77.8

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCC
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGG   93 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~   93 (98)
                      ...|+|.|+..+|..+.+.|.+++++..|++.++++.|++++.++|+|+|+.|.++.|.+++++++|++|++.+++.||.
T Consensus         5 ~~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~qrL~~~Gk~L~d~~tL~~~~i~~g~~i~l~~~~~GG~   84 (87)
T 1wh3_A            5 SSGIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYGIQDSDTLILSKKKGSGP   84 (87)
T ss_dssp             SSSEEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTCCCTTTEEEEETTEECCSSSBHHHHTCCTTEEEEEEECSCCCS
T ss_pred             CCCEEEEEEcCCCCEEEEEeCCCChHHHHHHHHHHHhCCChHHEEEEECCEEccCCCCHHHCCCCCCCEEEEEEeccCCC
Confidence            46799999998898899999999999999999999999999999999999999999999999999999999999999997


Q ss_pred             cc
Q 045424           94 HD   95 (98)
Q Consensus        94 ~~   95 (98)
                      .+
T Consensus        85 ~~   86 (87)
T 1wh3_A           85 SS   86 (87)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>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=2e-15  Score=92.16  Aligned_cols=81  Identities=12%  Similarity=0.264  Sum_probs=75.2

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCCc
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGGH   94 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~~   94 (98)
                      ..|.|.|++.+|..+.+.+.+++++..|++.++++.+++++.++|+|+|+.|.++.|.+++++++|++|++++++.||..
T Consensus         2 s~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~i~~~~qrL~~~g~~L~d~~tL~~~~i~~~~~l~l~~r~~GG~g   81 (85)
T 3mtn_B            2 SHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKWSTLFLLLRLRGGGG   81 (85)
T ss_dssp             -CEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTGGGTCCTTCEEEEECCCCCC--
T ss_pred             CeEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcChHHEEEEECCEECCCCCCHHHcCCCCCCEEEEEEECcCCCC
Confidence            56899999999999999999999999999999999999999999999999999999999999999999999999999965


Q ss_pred             c
Q 045424           95 D   95 (98)
Q Consensus        95 ~   95 (98)
                      .
T Consensus        82 g   82 (85)
T 3mtn_B           82 G   82 (85)
T ss_dssp             -
T ss_pred             C
Confidence            3

>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=99.64  E-value=2.6e-15  Score=89.61  Aligned_cols=76  Identities=16%  Similarity=0.279  Sum_probs=71.3

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +.|+|++.+|..+.+.+.+++++..|+..+++..|++++.++|+|+|+.|.++.|.+++++++|++|++.+++.||
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            4688888899999999999999999999999999999999999999999999999999999999999999999998

>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=99.63  E-value=3.8e-15  Score=88.91  Aligned_cols=76  Identities=12%  Similarity=0.294  Sum_probs=72.8

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +.|+|++.+|..+.+.+.+++++..|++.+++..|++++.++|+|+|+.|.++.|.+++++.+|++|++.+++.||
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

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

Probab=99.62  E-value=7.8e-15  Score=89.02  Aligned_cols=77  Identities=9%  Similarity=0.126  Sum_probs=74.3

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecC
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFG   91 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   91 (98)
                      +.|.|.|++.+|..+.+.|.+++++..|+..++++.|++++.++|+|.|+.|.++.|.+++++++|++|++.+++.|
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            56899999999999999999999999999999999999999999999999999999999999999999999999887

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

Probab=99.60  E-value=4.8e-15  Score=92.27  Aligned_cols=82  Identities=11%  Similarity=0.155  Sum_probs=71.3

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCCc
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGGH   94 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~~   94 (98)
                      ..|.|.|++.+|..+.+.|.+++++..|+..++++.|++++.++|+|.|..|.++.|.+++++++|++|.+..++.||.-
T Consensus         3 ~~m~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~~I~~g~~i~l~~~~~gg~~   82 (88)
T 2hj8_A            3 EPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLRGGLE   82 (88)
T ss_dssp             CEEEEEEEETTSCEEEEEEESSSBHHHHHHHHHHHTCSCTTTEEEESSSSCCCTTSBHHHHHCSTTCEEEEEEC------
T ss_pred             ccEEEEEECCCCCEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEEcCCCcc
Confidence            46899999988999999999999999999999999999999999999999999999999999999999999999999976


Q ss_pred             cc
Q 045424           95 DH   96 (98)
Q Consensus        95 ~~   96 (98)
                      +|
T Consensus        83 ~~   84 (88)
T 2hj8_A           83 HH   84 (88)
T ss_dssp             --
T ss_pred             cc
Confidence            55

>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=99.60  E-value=7.7e-15  Score=91.99  Aligned_cols=79  Identities=10%  Similarity=0.228  Sum_probs=72.6

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCCcc
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGGHD   95 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~~~   95 (98)
                      |.|.|+..+|..+.+.|.+++++..|+..+++..|++++.++|+|+|..|.++.|.+++++++|++|++++++.||..-
T Consensus         2 m~i~vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~i~l~~r~~gG~~~   80 (96)
T 3k9o_B            2 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGYADL   80 (96)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECCCC----
T ss_pred             cEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCCChhHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEEcCCCCcc
Confidence            5788888899999999999999999999999999999999999999999999999999999999999999999999653

>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=99.60  E-value=1.2e-14  Score=94.43  Aligned_cols=79  Identities=11%  Similarity=0.266  Sum_probs=75.6

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      ...|.|.|+..+|..+.+.|.+++++..|+..++++.|++++.+||+|.|+.|.++.|.+++++++|++|++.+++.||
T Consensus        33 ~~~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           33 LLAMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG  111 (111)
T ss_dssp             GGCEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTTTTTCCTTCEEEEEECCCC-
T ss_pred             CccEEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEecCCC
Confidence            4579999999999999999999999999999999999999999999999999999999999999999999999999998

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

Probab=99.59  E-value=8.6e-15  Score=91.22  Aligned_cols=79  Identities=16%  Similarity=0.302  Sum_probs=69.0

Q ss_pred             cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCCc
Q 045424           16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGGH   94 (98)
Q Consensus        16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~~   94 (98)
                      -+.|.|+..+|..+.+.+.+++++..|++.++++.|++++.++|+|+|..|.++.|.+++++++|++|.+.+++.||..
T Consensus         9 ~~~i~v~~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~r~~GG~~   87 (88)
T 1sif_A            9 GLQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGGL   87 (88)
T ss_dssp             -CEEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBSGGGTCCTTCEEEEEC-------
T ss_pred             ceEEEEEeCCCCEEEEEECCCChHHHHHHHHHHHHCcChhhEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeCCCCCC
Confidence            4678888899999999999999999999999999999999999999999999999999999999999999999999975

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

Probab=99.57  E-value=4.3e-14  Score=88.21  Aligned_cols=80  Identities=9%  Similarity=0.240  Sum_probs=75.0

Q ss_pred             CCCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424           10 NKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        10 ~~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      ...+...|.|.|+..+|..+.+.|.+++++..|+..++++.|++++.++|+|+|..|.++.|..++++++|++|++.+++
T Consensus        11 ~~~~~~~m~i~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~rl   90 (91)
T 3v6c_B           11 GLVPRGSMQIFVNTLTGTHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL   90 (91)
T ss_dssp             CCCCCCSEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTCBTGGGTCCTTCEEEEECCC
T ss_pred             CCCCCCeEEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCCChhhEEEEECCeECCCcCcHHHCCCCCCCEEEEEEec
Confidence            33447889999999999999999999999999999999999999999999999999999999999999999999999875

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

Probab=99.57  E-value=3.2e-14  Score=92.22  Aligned_cols=79  Identities=11%  Similarity=0.266  Sum_probs=75.3

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      ...|.|+|++.+|..+.+.|.+++++..|+..++++.|++++.++|+|+|+.|.++.|.+++++++|++|++.+++.||
T Consensus        33 ~~~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           33 LLAMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG  111 (111)
T ss_dssp             SSCEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCCCTTTEEEEETTEECCSSCBTTTTTCCTTCEEEEEECCCC-
T ss_pred             CCeEEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHHHCcCcccEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeCCCC
Confidence            4679999999899999999999999999999999999999999999999999999999999999999999999999998

>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=1.7e-14  Score=90.89  Aligned_cols=80  Identities=13%  Similarity=0.243  Sum_probs=71.7

Q ss_pred             CCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceec
Q 045424           11 KKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAF   90 (98)
Q Consensus        11 ~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~   90 (98)
                      +.+...|.|.|++  |..+.+.|.+++++..|++.++++.|++++.++|+|.|+.|.++.|.+++++++|++|.+.+++.
T Consensus        14 ~~~~~~m~I~Vk~--g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~y~I~~gstI~lv~rl~   91 (93)
T 2l7r_A           14 LVPRGSMQLFVRA--QELHTFEVTGQETVAQIKAHVASLEGIAPEDQVVLLAGAPLEDEATLGQCGVEALTTLEVAGRML   91 (93)
T ss_dssp             ------CEEEEES--SSEEEEECCSSCBHHHHHHHHHHHHTCCGGGCEEEETTEECCTTSBHHHHTCCSSCEEEEECCCC
T ss_pred             CCCCCcEEEEEEC--CCEEEEEeCCCCcHHHHHHHHHHHhCcChhHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEecC
Confidence            3456678999987  78899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CC
Q 045424           91 GG   92 (98)
Q Consensus        91 GG   92 (98)
                      ||
T Consensus        92 GG   93 (93)
T 2l7r_A           92 GG   93 (93)
T ss_dssp             CC
T ss_pred             CC
Confidence            98

>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=99.57  E-value=2.1e-14  Score=89.44  Aligned_cols=78  Identities=17%  Similarity=0.294  Sum_probs=71.3

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCCc
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGGH   94 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~~   94 (98)
                      |.|.|++.+|..+.+.|.+++++..|+...+++.|++++.++|+|.|..|.++.|.+++++++|++|.+.+++.||..
T Consensus         1 M~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~l~l~~rl~Gg~~   78 (88)
T 4fbj_B            1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRGGGG   78 (88)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTTTTTCCTTCEEEEECBCC----
T ss_pred             CEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcChhHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEECCCCCC
Confidence            467888889999999999999999999999999999999999999999999999999999999999999999999954

>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=6.5e-14  Score=86.61  Aligned_cols=82  Identities=11%  Similarity=0.109  Sum_probs=76.6

Q ss_pred             CCcEEEEEEccCC-CEEEE-EEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecC
Q 045424           14 QHLINLIIKSQDG-DKRFF-QFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFG   91 (98)
Q Consensus        14 ~~~I~I~v~~~~g-~~~~f-~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   91 (98)
                      ...|.|.|+..+| ..+.+ .+.+++++..|+..++++.|++++.++|+|.|..|.++.|.+++++.+|++|++++++.|
T Consensus         5 ~~~m~i~Vk~~~g~~~~~l~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~~~g   84 (89)
T 1wy8_A            5 SSGMWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDYDVGLNDIIQLLVRPDS   84 (89)
T ss_dssp             SSCEEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCCTTTEEEEETTEECCSSSBHHHHTCCTTCEEEEEECCCC
T ss_pred             CCcEEEEEEECCCCceEEEEecCCCCCHHHHHHHHHHHHCcChhhEEEEECCeECCCCCCHHHCCCCCCCEEEEEEeCCC
Confidence            3569999999888 68899 599999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcc
Q 045424           92 GGHD   95 (98)
Q Consensus        92 G~~~   95 (98)
                      |..+
T Consensus        85 G~~~   88 (89)
T 1wy8_A           85 GPSS   88 (89)
T ss_dssp             SSCC
T ss_pred             CCCC
Confidence            9754

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

Probab=99.56  E-value=7.3e-14  Score=92.70  Aligned_cols=81  Identities=12%  Similarity=0.187  Sum_probs=71.9

Q ss_pred             CCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           13 PQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        13 ~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +...|+|.|++. |..+.+.|.+++++..|+..++++.|++.+.+||+|.|+.|.++.|.+++++++|++|.++.++.||
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            467899999988 8889999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             Cc
Q 045424           93 GH   94 (98)
Q Consensus        93 ~~   94 (98)
                      ..
T Consensus       108 ~~  109 (125)
T 1j8c_A          108 SS  109 (125)
T ss_dssp             --
T ss_pred             CC
Confidence            53

>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=6e-14  Score=88.20  Aligned_cols=81  Identities=14%  Similarity=0.248  Sum_probs=76.9

Q ss_pred             CCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           13 PQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        13 ~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +...|+|+|+.. |..+.+.|.+++++..|++.++++.|++++.++|+|.|+.|.++.|.+++++++|++|++++++.||
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            568899999987 8889999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             Cc
Q 045424           93 GH   94 (98)
Q Consensus        93 ~~   94 (98)
                      ..
T Consensus        93 ~~   94 (96)
T 1wx8_A           93 PS   94 (96)
T ss_dssp             SS
T ss_pred             CC
Confidence            54

>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=99.54  E-value=9.9e-14  Score=89.02  Aligned_cols=84  Identities=14%  Similarity=0.209  Sum_probs=77.1

Q ss_pred             CCCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424           10 NKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        10 ~~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      ...+...|+|+|+..++. +.+.|..++++..|+..++++.|++.+.++|+|.|+.|.++.|.+++++++|++|++++++
T Consensus        11 ~~~~~~~m~I~Vk~~~g~-~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~gi~~g~~i~l~~~~   89 (106)
T 1wx7_A           11 PVQDPHLIKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIKR   89 (106)
T ss_dssp             CCCCSSEEEEEEECSSCE-EEEEEETTCCHHHHHHHHHHHHTCCTTTEEEEETTEECCTTSCHHHHTCCTTEEEEEEECC
T ss_pred             CCCCCceEEEEEEeCCCc-EEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHcCCCCCCEEEEEEcC
Confidence            344578899999988775 6899999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCc
Q 045424           90 FGGGH   94 (98)
Q Consensus        90 ~GG~~   94 (98)
                      .||..
T Consensus        90 ~~~~~   94 (106)
T 1wx7_A           90 QHRAM   94 (106)
T ss_dssp             CCCSC
T ss_pred             CCCCC
Confidence            99854

>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=99.54  E-value=7.2e-14  Score=89.87  Aligned_cols=84  Identities=6%  Similarity=0.030  Sum_probs=76.0

Q ss_pred             CCCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424           10 NKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        10 ~~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      ++.++..|.|+|+..+|..+.+.|.+++++..|+..++++.|++.+.+||+|.|+.|.++.|.+++++.+|++|++++++
T Consensus        17 ~~~~~~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~g~ti~lv~~~   96 (106)
T 1ttn_A           17 PPNSGYECQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELKIPKDYVVQVIVSQ   96 (106)
T ss_dssp             ----CCSEEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTCCCSTTCEEEETTEECCTTSHHHHCCCSSSCEEEEECCC
T ss_pred             CCCCCCeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHHCcCcccEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeC
Confidence            44457889999999889989999999999999999999999999999999999999999999999999999999999988


Q ss_pred             cCCC
Q 045424           90 FGGG   93 (98)
Q Consensus        90 ~GG~   93 (98)
                      ..+.
T Consensus        97 ~~~~  100 (106)
T 1ttn_A           97 PVQN  100 (106)
T ss_dssp             SSCC
T ss_pred             CCCC
Confidence            7664

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

Probab=99.54  E-value=7.2e-14  Score=88.24  Aligned_cols=77  Identities=12%  Similarity=0.289  Sum_probs=72.8

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGG   93 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~   93 (98)
                      +.|+|++.+|..+.+.|.+++++..|+..+++..|++++.++|+|+|+.|.++.|.+++++.+|++|.+..++.||.
T Consensus         1 M~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~gi~~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~~~~gG~   77 (98)
T 1yx5_B            1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGR   77 (98)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHTCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECCCCC-
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEEeCCCCC
Confidence            46888888899999999999999999999999999999999999999999999999999999999999999999884

>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=99.51  E-value=2.4e-13  Score=84.32  Aligned_cols=81  Identities=16%  Similarity=0.268  Sum_probs=74.2

Q ss_pred             CCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           13 PQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        13 ~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +...|.|+|+..+|..+.+.|.+++++..|+...+++.|++++.+||+|.|+.|.++.|..++++ +|++|+++++..++
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            34679999999999999999999999999999999999999999999999999999999999999 89999999998776


Q ss_pred             Cc
Q 045424           93 GH   94 (98)
Q Consensus        93 ~~   94 (98)
                      ..
T Consensus        81 ~~   82 (90)
T 4dwf_A           81 TH   82 (90)
T ss_dssp             --
T ss_pred             CC
Confidence            43

>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=2.3e-13  Score=92.06  Aligned_cols=80  Identities=11%  Similarity=0.180  Sum_probs=73.9

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCC
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGG   93 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~   93 (98)
                      ...|.|.|++.+|..+.+.|.+++++..|++..+++.|++++.++|+|+|..|.++.|.+++++++|++|++.+++.||+
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~  158 (159)
T 3rt3_B           79 DEPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLRGGG  158 (159)
T ss_dssp             CCCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECCC---
T ss_pred             CCcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCHHHEEEEECCeecCCCCCHHHcCCCCCCEEEEEEecCCCC
Confidence            45688889988999999999999999999999999999999999999999999999999999999999999999999996

>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=99.48  E-value=5.2e-13  Score=88.84  Aligned_cols=78  Identities=12%  Similarity=0.265  Sum_probs=73.5

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      ..+.|.|++.+|..+.+.+.+++++..|++.++++.|++++.++|+|+|+.|.++.|.+++++++|++|++.+++.||
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            447888888889999999999999999999999999999999999999999999999999999999999999999998

>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=99.46  E-value=9.6e-13  Score=83.98  Aligned_cols=83  Identities=14%  Similarity=0.229  Sum_probs=76.3

Q ss_pred             CCCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424           10 NKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        10 ~~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      .+..+..|.|.|+..+|. ..+.|.+++++..|++.++++.|++++.++|+|.|+.|.++.|.+++++++|++|.+.++.
T Consensus        16 ~~~~~~~m~I~Vk~~~g~-~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~   94 (100)
T 1yqb_A           16 PRGSPHLIKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIKR   94 (100)
T ss_dssp             CSCCTTEEEEEEECSSCE-EEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBHHHHTCCTTCEEEEEECC
T ss_pred             CCCCCCeEEEEEEcCCCc-EEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHCCCCCCCEEEEEEcC
Confidence            344578899999998875 6899999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCC
Q 045424           90 FGGG   93 (98)
Q Consensus        90 ~GG~   93 (98)
                      .||-
T Consensus        95 ~~~p   98 (100)
T 1yqb_A           95 QHRA   98 (100)
T ss_dssp             CCSC
T ss_pred             CCCC
Confidence            8874

>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=99.46  E-value=8.2e-13  Score=84.20  Aligned_cols=75  Identities=9%  Similarity=0.145  Sum_probs=71.0

Q ss_pred             CCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424           13 PQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus        13 ~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      -.+.|.|+|++..|+.+.+.+.+++++..|++..+++.|++++++|++|.|+.|.+..|.+++++.||++|+++.
T Consensus        18 ~~~mIqI~Vk~~~Gkk~~v~v~p~DTI~~LK~~I~~k~Gip~~qQrLif~Gk~LkD~~TL~dY~I~dgstLhL~~   92 (93)
T 3plu_A           18 GSHMIEVVVNDRLGKKVRVKCLGEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLEDYEVHDQTNLELYY   92 (93)
T ss_dssp             --CEEEEEEECTTSCEEEEEEETTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEE
T ss_pred             CCceEEEEEECCCCCEEEEEECCcCHHHHHHHHHHHHhCCCHHHEEEEeCCEEccCcCCHHHcCCCCCCEEEEEe
Confidence            368899999999999999999999999999999999999999999999999999999999999999999999874

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

Probab=99.46  E-value=1e-12  Score=83.02  Aligned_cols=80  Identities=13%  Similarity=0.194  Sum_probs=74.8

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCC-CChhhcCCCCCCEEEEEceecCC
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYS-KTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~-~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      ...|.|.|++..+ .+.+.|.+++++..|+...+++.|++++.++++|.|+.|.++ .|.+++++.+|++|.+.+++.||
T Consensus        13 ~~~~~I~Vk~~~~-~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~~tL~~ygI~~gstl~lv~r~~gg   91 (94)
T 2kan_A           13 VRKIHVTVKFPSK-QFTVEVDRTETVSSLKDKIHIVENTPIKRMQLYYSGIELADDYRNLNEYGITEFSEIVVFLKSINR   91 (94)
T ss_dssp             SCCEEEEEECSSC-EEEEEECTTCBHHHHHHHHHHHSSSCTTTEEEEETTEEECCTTSBHHHHTCCTTEEEEEEECCCSS
T ss_pred             CCCEEEEEEcCCc-EEEEEECCCCcHHHHHHHHHHHHCcCHHHEEEEECCEECCCCcccHHHCCCCCCCEEEEEEeCCCC
Confidence            3568999998877 788999999999999999999999999999999999999999 99999999999999999999999


Q ss_pred             Cc
Q 045424           93 GH   94 (98)
Q Consensus        93 ~~   94 (98)
                      .-
T Consensus        92 ~~   93 (94)
T 2kan_A           92 AK   93 (94)
T ss_dssp             CC
T ss_pred             CC
Confidence            63

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

Probab=99.44  E-value=1.1e-12  Score=79.35  Aligned_cols=76  Identities=14%  Similarity=0.230  Sum_probs=71.3

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      ...|.|.|+..+|..+.+.+.+++++..|++.+++..|++++.++++|.|+.|.++.|.+++++.+|++|++.++.
T Consensus         5 ~~~m~i~vk~~~g~~~~~~v~~~~tV~~LK~~i~~~~~i~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~~   80 (81)
T 2dzi_A            5 SSGMQLTVKALQGRECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADGKRLSDYSIGPNSKLNLVVKP   80 (81)
T ss_dssp             SSSEEEEEEETTSCEEEEEECSSCBHHHHHHHHHHHTCCCTTTCEEEETTEECCTTSBGGGGTCCSSBCCEEECCC
T ss_pred             CCcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEeC
Confidence            3569999998889989999999999999999999999999999999999999999999999999999999998764

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

Probab=99.44  E-value=1.4e-12  Score=78.11  Aligned_cols=72  Identities=15%  Similarity=0.269  Sum_probs=67.9

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      |+|.|++ +|..+.+.+.+++++..|+..+++..|++++.++|+|.|..|.++.|.+++++.+|++|++..++
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 88888999999999999999999999999999999999999999999999999999999998654

>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=99.43  E-value=1.4e-12  Score=78.66  Aligned_cols=74  Identities=12%  Similarity=0.147  Sum_probs=69.5

Q ss_pred             cEEEEEEccCCCEE-EEE-EcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424           16 LINLIIKSQDGDKR-FFQ-FNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        16 ~I~I~v~~~~g~~~-~f~-Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      .+.|.|++.+|..+ .+. +.+++++..|+..++++.|++++.++++|.|..|.++.|.+++++.+|++|++.+++
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            47889998889885 898 999999999999999999999999999999999999999999999999999998875

>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=99.41  E-value=1.4e-12  Score=84.34  Aligned_cols=82  Identities=9%  Similarity=0.058  Sum_probs=76.6

Q ss_pred             CCcEEEEEEcc---CCCEEEEEEcC-ccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424           14 QHLINLIIKSQ---DGDKRFFQFNH-DVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        14 ~~~I~I~v~~~---~g~~~~f~Ik~-~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      ...|+|+|+..   +|..+.+.+.+ ++++..|+...++..|++++.++++|.|..|.++.|.+++++.+|++|.+.+++
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            35699999988   78889999998 999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCcc
Q 045424           90 FGGGHD   95 (98)
Q Consensus        90 ~GG~~~   95 (98)
                      .||..|
T Consensus       105 ~GGk~h  110 (111)
T 1we6_A          105 RSGPSS  110 (111)
T ss_dssp             CCSSCC
T ss_pred             CCCCCC
Confidence            999543

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

Probab=99.41  E-value=1.5e-12  Score=90.12  Aligned_cols=78  Identities=13%  Similarity=0.308  Sum_probs=72.4

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCCc
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGGH   94 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~~   94 (98)
                      |.|.|+..+|..+.+.|.+++++..|+...+++.|++++++||+|.|+.|.++.|.+++++++|++|++.+++.||..
T Consensus         1 MqI~Vk~~~Gk~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~y~I~~gstI~Lvlrl~GG~k   78 (169)
T 3l0w_B            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGGG   78 (169)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCTTTEEEEETTEECCTTSBGGGGTCCTTCEEEEEECCCC---
T ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHHCcCHHHEEEEECCccccCcCcHHHcCCCCCCEEEEEEEeccccc
Confidence            468888889999999999999999999999999999999999999999999999999999999999999999999954

>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=2.3e-12  Score=80.63  Aligned_cols=81  Identities=9%  Similarity=0.076  Sum_probs=73.8

Q ss_pred             CCcEEEEEEccCCC--EEEEEEcCccHHHHHHHHHHHhc--CCCCcceeEEECCeecCCCCChhhc--CCCCCCEEEEEc
Q 045424           14 QHLINLIIKSQDGD--KRFFQFNHDVEIKRLLIKYCETK--SQPFKSTPFLINGNRFDYSKTADQL--GLKDGDEIDAMY   87 (98)
Q Consensus        14 ~~~I~I~v~~~~g~--~~~f~Ik~~t~l~kL~~~y~~~~--g~~~~~~rF~fdG~~l~~~~Tp~~l--~medgD~Idv~~   87 (98)
                      ...|+|.|++.++.  .+.+.+.+++++..|++..++..  +++++.+|++|.|+.|.++.|.+++  ++++|.+|++.+
T Consensus         5 ~~~m~i~Vk~~~~~~~~~~v~v~~~~TV~~lK~~I~~~~~~~i~~~~QrLi~~Gk~L~D~~tL~~~~~~i~~~~~i~lv~   84 (93)
T 1wgd_A            5 SSGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDLLPKQEKRHVLHLVC   84 (93)
T ss_dssp             SCCCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECCSSSCHHHHSCSSSCSEEEEEEC
T ss_pred             CcEEEEEEEeCCCCeEEEEEecCCCCcHHHHHHHHHHHhcCCCChHHeEEEECCEECcCcCCHHHHhcCCCCCCEEEEEe
Confidence            45699999988887  56666779999999999999998  9999999999999999999999999  999999999999


Q ss_pred             eecCCCc
Q 045424           88 HAFGGGH   94 (98)
Q Consensus        88 ~q~GG~~   94 (98)
                      +..||..
T Consensus        85 ~~~gg~~   91 (93)
T 1wgd_A           85 NVKSGPS   91 (93)
T ss_dssp             CCCCCCC
T ss_pred             CCCCCCC
Confidence            9999854

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

Probab=99.40  E-value=2.4e-12  Score=88.37  Aligned_cols=83  Identities=11%  Similarity=0.233  Sum_probs=76.1

Q ss_pred             CCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceec
Q 045424           11 KKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAF   90 (98)
Q Consensus        11 ~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~   90 (98)
                      ..+...|.|.|+..+|..+.+.|.+++++..|+...++..|++++.++|+|.|..|.++.|..++++.+|++|.+.++..
T Consensus        15 ~~~~~~m~i~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~QrL~~~g~~L~d~~tL~~~~i~~~~~l~l~~~~~   94 (172)
T 3u30_A           15 VPRGSHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR   94 (172)
T ss_dssp             ----CCEEEEEEETTTEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTGGGTCCTTCEEEEEECCC
T ss_pred             CCCCCcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCccccccCCHhHcCCcccceeeeeeccc
Confidence            33467899999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             CCC
Q 045424           91 GGG   93 (98)
Q Consensus        91 GG~   93 (98)
                      ||.
T Consensus        95 gg~   97 (172)
T 3u30_A           95 GGM   97 (172)
T ss_dssp             CCE
T ss_pred             ccc
Confidence            873

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

Probab=99.40  E-value=2.5e-12  Score=83.82  Aligned_cols=77  Identities=12%  Similarity=0.253  Sum_probs=73.5

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGG   93 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~   93 (98)
                      ..|.|+..+|..+.+.|.+++++..|++.++++.|++++.++|+|.|..|.++.|.+++++.+|++|.+.+++.||.
T Consensus        10 ~~i~vk~l~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~~~~GG~   86 (114)
T 2kdi_A           10 FQIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDYNIQRESTLHLVLRLRGGS   86 (114)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTTTTTCCSSCEEEEEECCCSSC
T ss_pred             EEEEEEeCCCcEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEEcCCCc
Confidence            56788888999999999999999999999999999999999999999999999999999999999999999999995

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

Probab=99.40  E-value=3.8e-12  Score=78.51  Aligned_cols=77  Identities=14%  Similarity=0.275  Sum_probs=70.3

Q ss_pred             CCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424           11 KKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        11 ~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      ......|.|.|+..+|..+.+.+.+++++..|+...+++.|++++.+|++|.|+.|.++.|.+++++ +|++|++.++
T Consensus        12 ~~~~~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i-~g~~i~lv~R   88 (88)
T 4eew_A           12 VEEPDSLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLVER   88 (88)
T ss_dssp             ---CCEEEEEEEETTSCEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTC-TTEEEEEEEC
T ss_pred             ecCCCeEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEECCCCCcHHHcCC-CCcEEEEEEC
Confidence            3456789999999999999999999999999999999999999999999999999999999999999 8999998764

>2daf_A FLJ35834 protein; hypothetical protein FLJ35834, ubiquitin-like domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.40  E-value=5.9e-12  Score=83.26  Aligned_cols=84  Identities=17%  Similarity=0.196  Sum_probs=74.2

Q ss_pred             CCCCCCCCCCCcEEEEEE-ccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEE
Q 045424            5 SSSKNNKKPQHLINLIIK-SQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEI   83 (98)
Q Consensus         5 ~~~~~~~~~~~~I~I~v~-~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~I   83 (98)
                      +|-....++ ..|+|+|+ ...+..+.+.+.+++++..|++.+++..+++.+.+||+|+|+.|.+++|.+++++++|.+|
T Consensus         5 ~~~~~~~~~-~~itvkv~l~~~~~k~tv~v~~d~TV~dLKe~ls~~~~iP~e~qrLIy~GKiLKD~eTL~~~gIk~g~TI   83 (118)
T 2daf_A            5 SSGQESVED-SLATVKVVLIPVGQEIVIPFKVDTILKYLKDHFSHLLGIPHSVLQIRYSGKILKNNETLVQHGVKPQEIV   83 (118)
T ss_dssp             CCCCCCCCS-SCEEEEEEETTTCCEEEEEECSSSCSHHHHHHHHHHHTCCTTTEEEEETTEEECSSCCHHHHSCCSSCEE
T ss_pred             hhhhhcccC-ccEEEEEEEcCCCcEEEEEeCCCCcHHHHHHHHHhhhCCChHHEEEEECCeEcCCcchHHHcCCCCCCEE
Confidence            333444444 44999987 7778889999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEcee
Q 045424           84 DAMYHA   89 (98)
Q Consensus        84 dv~~~q   89 (98)
                      ++.+..
T Consensus        84 hLvi~s   89 (118)
T 2daf_A           84 QVEIFS   89 (118)
T ss_dssp             EEEEEE
T ss_pred             EEEEec
Confidence            998765

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

Probab=99.39  E-value=2.5e-12  Score=90.92  Aligned_cols=78  Identities=13%  Similarity=0.269  Sum_probs=75.5

Q ss_pred             cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCC
Q 045424           16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGG   93 (98)
Q Consensus        16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~   93 (98)
                      .|.|.|+..+|..+.+.|.+++++..|+...++..|++++.++|+|.|..|.++.|.+++++++|++|++.+++.||.
T Consensus       105 eMqI~VKtl~Gkt~~l~V~~s~TV~~LK~kI~~~~gIp~~~QrLi~~Gk~L~D~~tL~dygI~~gstI~LvlrlrGG~  182 (189)
T 3q3f_A          105 GGQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGG  182 (189)
T ss_dssp             CEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTCBGGGGTCCTTCEEEECCCCCCCC
T ss_pred             ceeeeeecCCCCEEEEEeCCCCcHHHHHHHHHhccCCCHHHEEEEECCEECCCCCCHHHCCCCCCCEEEEEEEcCCCC
Confidence            389999999999999999999999999999999999999999999999999999999999999999999999999995

>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=99.38  E-value=3.5e-12  Score=82.97  Aligned_cols=80  Identities=13%  Similarity=0.183  Sum_probs=74.1

Q ss_pred             CcEEEEEEccC----------CCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEE
Q 045424           15 HLINLIIKSQD----------GDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEID   84 (98)
Q Consensus        15 ~~I~I~v~~~~----------g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Id   84 (98)
                      ..|+|.|+.++          |..+.+.|.+++++..|+...++..|++++.++++|.|..|.++.|.+++++.+|++|+
T Consensus        24 ~~i~l~V~~p~~~~~~~~~L~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrL~~~Gk~L~D~~tL~~y~i~~g~~i~  103 (115)
T 1we7_A           24 GPVSIKVQVPNMQDKTEWKLNGQGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMASGAVIH  103 (115)
T ss_dssp             SCEEEEEEECCCSSSCSSCCSSEEEEEEECSCSBTHHHHHHHHHHSSCCTTTEEEEETTEEECTTSBHHHHTCCSSCEEE
T ss_pred             CCEEEEEEcCCCccccccccCCeEEEEEECCCCCHHHHHHHHHHHHCCChHHEEEEECCEECCCCCCHHHCCCCCCCEEE
Confidence            57888888764          56788999999999999999999999999999999999999999999999999999999


Q ss_pred             EEceecCCCc
Q 045424           85 AMYHAFGGGH   94 (98)
Q Consensus        85 v~~~q~GG~~   94 (98)
                      +.+++.||.-
T Consensus       104 lv~rl~GGk~  113 (115)
T 1we7_A          104 LALKERSGPS  113 (115)
T ss_dssp             EEECCCSCCS
T ss_pred             EEEEcCCCCC
Confidence            9999999953

>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=99.38  E-value=6.1e-12  Score=79.14  Aligned_cols=77  Identities=9%  Similarity=0.130  Sum_probs=70.7

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHh---cCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCET---KSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGG   93 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~---~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~   93 (98)
                      |+|.|++.+|..+.+.|.+++++..|++.+++.   .|++++.++|+|.|+.|.++.|.+++++.+|++|.+.+....|.
T Consensus         1 M~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~g~~i~l~~~~~~~~   80 (95)
T 1uel_A            1 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKNFVVVMVTKPKAV   80 (95)
T ss_dssp             CEEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECCTTSBGGGGTCCSSSEEEEEESSCCCC
T ss_pred             CEEEEEeCCCCEEEEEECCCCHHHHHHHHHHhhcccCCCChhhEEEEECCEECCCcCcHHHCCCCCCCEEEEEEeCCCCC
Confidence            468888888999999999999999999999998   78999999999999999999999999999999999998775543

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

Probab=99.38  E-value=8.2e-12  Score=79.66  Aligned_cols=79  Identities=11%  Similarity=0.218  Sum_probs=72.2

Q ss_pred             CCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecC
Q 045424           12 KPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFG   91 (98)
Q Consensus        12 ~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   91 (98)
                      .+...|.|.|+.. |..+.+.|.+++++..|++.+++..|++++.++|+|.|+.|.++.|.+++++.+|++|.+..+..+
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            3467899999987 888899999999999999999999999999999999999999999999999999999999987543

>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=99.36  E-value=7e-14  Score=92.68  Aligned_cols=78  Identities=12%  Similarity=0.258  Sum_probs=1.1

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCCc
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGGH   94 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~~   94 (98)
                      |.|.|++.+|..+.+.|.+++++..|+...++..|++++.++|+|.|..|.++.|.+++++++|++|++++++.||..
T Consensus         1 M~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~~I~~gsti~l~~rl~GG~~   78 (128)
T 3u5e_m            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGII   78 (128)
T ss_dssp             ----------------------------------------------------------------------------CC
T ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCcChHHEEEEECCEECCCCCchhhhccCCCCEEEEEEEcCCCCC
Confidence            467788888998999999999999999999999999999999999999999999999999999999999999999964

>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=99.36  E-value=1.4e-11  Score=75.22  Aligned_cols=75  Identities=11%  Similarity=0.142  Sum_probs=69.4

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHh---cCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCET---KSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~---~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      ..|.|.|+..+|..+.+.|.+++++..|++..+++   .|++++.++|+|.|+.|.++.|.+++++.+|++|.+..+.
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            45889999888999999999999999999999998   7899999999999999999999999999999999998753

>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=99.04  E-value=6.6e-14  Score=84.07  Aligned_cols=75  Identities=9%  Similarity=0.112  Sum_probs=70.4

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFG   91 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   91 (98)
                      +.|.|++.+|..+.+.+.+++++..|++.+++..|++++.++|+|+|..|.++.|.+++++++|++|+++++..|
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            457788888988899999999999999999999999999999999999999999999999999999999999877

>2kk8_A Uncharacterized protein AT4G05270; solution arabidopsis thaliana, uncharacterized putative protein, NESG, structural genomics; NMR {Arabidopsis thaliana}

Probab=99.33  E-value=1.2e-11  Score=76.51  Aligned_cols=75  Identities=9%  Similarity=0.165  Sum_probs=71.1

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCee-cCCCCChhhcCCCCCCEEEEEce
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNR-FDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~-l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      -.+++|.|+...|..+.+.|.+++++..|++..++..|++++++|++|.|+. |.++.|.+++++.+|++|.+.++
T Consensus         8 ~~~~~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            8 HSHMKFLVENLNGSSFELEVDYRDTLLVVKQKIERSQHIPVSKQTLIVDGIVILREDLTVEQCQIVPTSDIQLEVS   83 (84)
T ss_dssp             CCCEEEEEEETTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCCSSSBHHHHTCCTTSCEEEEEC
T ss_pred             cCceEEEEEecCCcEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCEEecCCcCCHHHcCCCCCCEEEEEEc
Confidence            3678999999999999999999999999999999999999999999999999 99999999999999999999764

>3m62_B UV excision repair protein RAD23; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=99.33  E-value=5.2e-12  Score=81.23  Aligned_cols=74  Identities=23%  Similarity=0.263  Sum_probs=68.9

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceec
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAF   90 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~   90 (98)
                      |.|.|+..+|..+.+.|.+++++..|+..++++.|++++.+||+|.|+.|.++.|.+++++++|++|.+.++..
T Consensus         2 m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~~i~~g~~i~lv~~~~   75 (106)
T 3m62_B            2 VSLTFKNFKKEKVPLDLEPSNTILETKTKLAQSISCEESQIKLIYSGKVLQDSKTVSECGLKDGDQVVFMVSQK   75 (106)
T ss_dssp             -CEEEECTTCCEEEECCCTTSBHHHHHHHHHHTTTSCGGGCEEEETTEECCTTSBTTTTTCCTTCEEEEECCC-
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCChhhEEEEECCEECCCcCCHHHcCCCCCCEEEEEEcCC
Confidence            57888888899999999999999999999999999999999999999999999999999999999999998753

>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=99.33  E-value=1.8e-11  Score=78.83  Aligned_cols=74  Identities=15%  Similarity=0.177  Sum_probs=70.3

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      .+.|.|+|++..|..+.+.|.+++++..|++..+++.|++++++||+|.|..|.++.|.+++++.+|++|++++
T Consensus        26 ~~mm~I~VKtl~Gk~i~lev~p~dTV~~lK~~Ia~k~Gip~~qQrLi~~Gk~L~D~~TL~dygI~~gstlhL~~   99 (100)
T 1uh6_A           26 ATMIEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDYEIHDGMNLELYY   99 (100)
T ss_dssp             CCEEEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCSSCBHHHHTCCTTEEEEEEC
T ss_pred             CCeEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCHHHEEEEECCEECCCCCCHHHcCCCCCCEEEEEe
Confidence            35599999998899999999999999999999999999999999999999999999999999999999999875

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

Probab=99.33  E-value=1.2e-11  Score=79.10  Aligned_cols=81  Identities=16%  Similarity=0.227  Sum_probs=68.9

Q ss_pred             CCCCCCCcEEEEEEccCCCEEEE--EEcCccHHHHHHHHH-HHhcCCCCcceeEEECCeecCCCCChhhcCC-CCCCEEE
Q 045424            9 NNKKPQHLINLIIKSQDGDKRFF--QFNHDVEIKRLLIKY-CETKSQPFKSTPFLINGNRFDYSKTADQLGL-KDGDEID   84 (98)
Q Consensus         9 ~~~~~~~~I~I~v~~~~g~~~~f--~Ik~~t~l~kL~~~y-~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~m-edgD~Id   84 (98)
                      .++.....|.|.|++..|..+.+  .+.+++++..|++.. ++..|++++++||+|.|+.|.++.|.+++++ ++|++|.
T Consensus        12 ~~~~~~~~m~I~VKtl~g~~~~i~v~v~~~~TV~~lK~~I~~~~~gip~~~QrLi~~Gk~L~D~~tL~dy~I~~~g~ti~   91 (98)
T 4a20_A           12 DDKMDNAAVHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTIT   91 (98)
T ss_dssp             ------CCEEEEEEECSSSCEEEEEEECTTCBHHHHHHHHHHTTSCSCGGGEEEEETTEEECTTCBGGGSCCBTTBCEEE
T ss_pred             cccCCCCCEEEEEEcCCCCEEEEEEecCCCChHHHHHHHHHHHhcCCChhhEEEEECCEECcCcCCHHHcCcCCCCCEEE
Confidence            45667888999999999986666  556999999999998 7888999999999999999999999999999 9999999


Q ss_pred             EEcee
Q 045424           85 AMYHA   89 (98)
Q Consensus        85 v~~~q   89 (98)
                      +++++
T Consensus        92 lmvsk   96 (98)
T 4a20_A           92 VMIKP   96 (98)
T ss_dssp             EEECC
T ss_pred             EEEeC
Confidence            99865

>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=99.31  E-value=1.8e-13  Score=93.83  Aligned_cols=80  Identities=13%  Similarity=0.314  Sum_probs=0.0

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCCccc
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGGHDH   96 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~~~~   96 (98)
                      |.|.|++.+|..+.+.|.+++++..|+...++..|++++.++|+|.|..|.++.|.+++++++|++|++.+++.||+-.|
T Consensus         1 MqI~VK~l~G~~~~l~V~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~dygI~~gstL~Lvlrl~GGgKkr   80 (152)
T 3u5c_f            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGGKKR   80 (152)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEEccccCcHHHcCCCCCCEEEEEeeccCCCcCc
Confidence            46778888898899999999999999999999999999999999999999999999999999999999999999997543

>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=3.1e-11  Score=76.95  Aligned_cols=80  Identities=15%  Similarity=0.110  Sum_probs=72.1

Q ss_pred             CcEEEEEEccCC----CEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCC-CChhhcCCCCCCEEEEEcee
Q 045424           15 HLINLIIKSQDG----DKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYS-KTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        15 ~~I~I~v~~~~g----~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~-~Tp~~l~medgD~Idv~~~q   89 (98)
                      ..|.|.|+...+    ..+.+.|.+++++..|+...++..|++++.++++|.|+.|.++ .|.+++++.+|++|.+..+.
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 69999999999999999999


Q ss_pred             cCCCc
Q 045424           90 FGGGH   94 (98)
Q Consensus        90 ~GG~~   94 (98)
                      .||.+
T Consensus        86 ~gg~~   90 (102)
T 1v5o_A           86 NVGLR   90 (102)
T ss_dssp             CCCCS
T ss_pred             CCCCC
Confidence            99854

>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=99.30  E-value=2.2e-11  Score=80.92  Aligned_cols=76  Identities=12%  Similarity=0.297  Sum_probs=71.9

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +.|.|++.+|..+.+.+.+++++..|+..++++.|++++.++|+|.|..|.++.|.+++++.+|++|++..++.||
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            4678888889999999999999999999999999999999999999999999999999999999999999998876

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

Probab=99.29  E-value=1.7e-11  Score=84.04  Aligned_cols=78  Identities=12%  Similarity=0.265  Sum_probs=68.8

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      ..+.|.|+..+|..+.+.|.+++++..|+...+++.|++++.++++|+|+.|.++.|..++++++|++|++.+++.||
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            446677777889999999999999999999999999999999999999999999999999999999999999999998

>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=99.27  E-value=2.7e-11  Score=75.86  Aligned_cols=76  Identities=14%  Similarity=0.155  Sum_probs=69.7

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCC-CChhhcCCCCCCEEEEEceecCC
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYS-KTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~-~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      ...|+|+|+..+|..+.+.|.+++++..|+..++++.   ++.+||+|.|+.|.++ .|.+++++++|++|++++++.+.
T Consensus         5 ~~~m~i~Vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~---~~~qrLi~~Gk~L~D~~~tL~~y~i~~g~~i~l~~~~~~~   81 (95)
T 1wia_A            5 SSGINVRLKFLNDTEELAVARPEDTVGTLKSKYFPGQ---ESQMKLIYQGRLLQDPARTLSSLNITNNCVIHCHRSPPGA   81 (95)
T ss_dssp             CCSEEEEEEETTTEEEEEEECSSSBHHHHHHHHSSST---TTTCEEEETTEECCCSSCBTTTTTCCTTEEEEEECCCCCC
T ss_pred             CCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHhhC---cCcEEEEECCEEccCCcCCHHHcCCCCCCEEEEEECCCCC
Confidence            4569999998889889999999999999999999887   8899999999999999 99999999999999999987553

>3m63_B Ubiquitin domain-containing protein DSK2; armadillo-like repeats, UBL conjugation pathway, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=99.25  E-value=6.8e-12  Score=80.22  Aligned_cols=75  Identities=15%  Similarity=0.236  Sum_probs=67.3

Q ss_pred             CCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424           13 PQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        13 ~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      ++-.|+|+|++ +|..+.+.|.+++++..|++..+++.|++++.+|++|.|+.|.++.|.+++++++|++|.+..+
T Consensus        25 ~~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           25 GAMSLNIHIKS-GQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKS   99 (101)
T ss_dssp             ----CCEEEEC-SSCCCCBCCCTTSBHHHHHHHHHHHHSCCSTTCCEEETTEECCTTSBTTTTTCCTTEEEEECCC
T ss_pred             CCcEEEEEEEE-CCEEEEEEeCCCCCHHHHHHHHHHHHCcChHHEEEEECCEECCCcCcHHHCCCCCCCEEEEEeC
Confidence            45678889987 8888899999999999999999999999999999999999999999999999999999999865

>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=99.23  E-value=1.3e-10  Score=74.75  Aligned_cols=80  Identities=13%  Similarity=0.132  Sum_probs=70.4

Q ss_pred             CCCCcEEEEEEccC----CCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424           12 KPQHLINLIIKSQD----GDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus        12 ~~~~~I~I~v~~~~----g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      ++.--.+|.|+..+    +..+.+.|.++++...|+...+++.|+++++++|+|.|+.|.++.|.+++++.+|.+| +++
T Consensus        11 ~~tg~ati~V~~~~~~~~~~~~~lev~~~~TV~~lK~kI~~k~gip~~qQrLI~~GKiL~D~~TL~~y~I~~gsti-~vl   89 (100)
T 1wju_A           11 RTTGIATIEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEEQGVAHNVKA-MVL   89 (100)
T ss_dssp             SCCCEEEEEEECCTTTCCSSSEEEEEESSSBHHHHHHHHHHHTTCCSTTCEEEETTEECCTTSBHHHHTCCSSEEE-EEE
T ss_pred             hhcceEEEEEEecCCCCCCcEEEEEeCCcCHHHHHHHHHHHHHCcCHHHeEEEeCCeECCCCCcHHHcCCCCCCEE-EEE
Confidence            34445567777666    6688999999999999999999999999999999999999999999999999999999 777


Q ss_pred             eecCC
Q 045424           88 HAFGG   92 (98)
Q Consensus        88 ~q~GG   92 (98)
                      .+.|.
T Consensus        90 ~lrg~   94 (100)
T 1wju_A           90 ELKQS   94 (100)
T ss_dssp             CCCCC
T ss_pred             EECCC
Confidence            66664

>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=99.20  E-value=5e-11  Score=77.27  Aligned_cols=79  Identities=10%  Similarity=0.088  Sum_probs=72.2

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC---------------cceeEEECCeecC-CCCChhhcCC
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF---------------KSTPFLINGNRFD-YSKTADQLGL   77 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~---------------~~~rF~fdG~~l~-~~~Tp~~l~m   77 (98)
                      +..|+|.|+..+|..+.+.|.+++++..|+.+.+++.++++               .+++|+|.|+.|. ++.|.+++++
T Consensus         5 ~~~M~I~Vk~l~g~~~~v~V~~~~TV~dLK~~I~~~~~i~~~~q~g~~~isw~~~w~q~~Li~~Gk~L~dD~~tL~dygI   84 (105)
T 1v2y_A            5 SSGMTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKLRDYGI   84 (105)
T ss_dssp             CCSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSBHHHHTC
T ss_pred             CCcEEEEEEecCCCEEEEEECCCChHHHHHHHHHHHhCCCcccccCcceeeeeecceeEEEEeCCcCccCCcCCHHHcCC
Confidence            45699999999999999999999999999999999998765               4689999999996 5699999999


Q ss_pred             CCCCEEEEEceecCC
Q 045424           78 KDGDEIDAMYHAFGG   92 (98)
Q Consensus        78 edgD~Idv~~~q~GG   92 (98)
                      .+|++|.++.++.|.
T Consensus        85 ~~g~~l~lv~~lr~~   99 (105)
T 1v2y_A           85 RNRDEVSFIKKLGQK   99 (105)
T ss_dssp             CSSEEEEEEECSCSC
T ss_pred             CCCCEEEEEehhccC
Confidence            999999999999886

>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=99.18  E-value=2.4e-10  Score=73.42  Aligned_cols=77  Identities=18%  Similarity=0.231  Sum_probs=67.3

Q ss_pred             CCcEEEEEEccCC---CEEEEEEc--------C-ccHHHHHHHHHHHhc--CCCCcc-eeEEECCeecCCCCChhhcCCC
Q 045424           14 QHLINLIIKSQDG---DKRFFQFN--------H-DVEIKRLLIKYCETK--SQPFKS-TPFLINGNRFDYSKTADQLGLK   78 (98)
Q Consensus        14 ~~~I~I~v~~~~g---~~~~f~Ik--------~-~t~l~kL~~~y~~~~--g~~~~~-~rF~fdG~~l~~~~Tp~~l~me   78 (98)
                      ...|+|.|+..++   ..+.+.|.        + ++++..|+...+++.  |++++. ++|+|.|+.|.++.|.++++++
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            3457888887777   67778844        4 499999999999999  999999 9999999999999999999999


Q ss_pred             CCCEEEEEceec
Q 045424           79 DGDEIDAMYHAF   90 (98)
Q Consensus        79 dgD~Idv~~~q~   90 (98)
                      +|++|++..+..
T Consensus        90 ~g~~i~lv~~~~  101 (107)
T 1x1m_A           90 PGSTVHVLRKSW  101 (107)
T ss_dssp             TTCEEEEEESSC
T ss_pred             CCCEEEEEeCCC
Confidence            999999987653

>2lxa_A Ubiquitin-like protein MDY2; ubiquitin-like domain, protein-protein interaction, SGT2 BIN domain, GET pathway, protein binding; NMR {Saccharomyces cerevisiae}

Probab=99.16  E-value=1.5e-10  Score=72.48  Aligned_cols=75  Identities=15%  Similarity=0.171  Sum_probs=68.4

Q ss_pred             EEEEEEccCCCEEEEEEc--CccHHHHHHHHH-HHhcCCCCcceeEEECCeecCCCCChhhcCC-CCCCEEEEEceecC
Q 045424           17 INLIIKSQDGDKRFFQFN--HDVEIKRLLIKY-CETKSQPFKSTPFLINGNRFDYSKTADQLGL-KDGDEIDAMYHAFG   91 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik--~~t~l~kL~~~y-~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~m-edgD~Idv~~~q~G   91 (98)
                      |.|.|++..|..+.+.|.  +++++..|++.. +++.|++++++|++|.|+.|.++.|.+++++ .+|.+|.|.++.-=
T Consensus         2 mqI~VKtl~g~~~~i~v~v~~~~TV~~lK~~I~~~~~gip~~~QrLi~~Gk~L~D~~tL~~y~I~~~~stl~v~~~~~~   80 (87)
T 2lxa_A            2 VHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTITVMIKPNL   80 (87)
T ss_dssp             CEEEEEECSSSCEECCEECCTTCBHHHHHHHHHHTTSCSSSTTEEEEETTEECCTTCBHHHHCCCGGGCEEEEEECCCC
T ss_pred             EEEEEEcCCCCEEEEEEcCCCCCcHHHHHHHHHHHhcCCChHHEEEEECCEECcCcCCHHHcCCCCCCCEEEEEcCCCc
Confidence            678899999988888766  999999999999 9999999999999999999999999999999 79999999887543

>2gow_A HCG-1 protein, ubiquitin-like protein 3; BC059385, structural genomics, protein structure initiative, PSI; NMR {Homo sapiens}

Probab=99.14  E-value=3.1e-10  Score=75.50  Aligned_cols=81  Identities=16%  Similarity=0.166  Sum_probs=72.4

Q ss_pred             CCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHH------hcCC--CCcceeEEECCeecCCCCChhhcCCCCCC--E
Q 045424           13 PQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCE------TKSQ--PFKSTPFLINGNRFDYSKTADQLGLKDGD--E   82 (98)
Q Consensus        13 ~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~------~~g~--~~~~~rF~fdG~~l~~~~Tp~~l~medgD--~   82 (98)
                      +...|.|+|+...|....|.|.+++++..|++..++      +.|+  +++++||+|.|+.|.++.|.+++++.+|+  +
T Consensus        14 ~~~~m~I~vktl~G~~~~lev~~s~TV~~lK~~I~~~~p~dwke~ip~~~~~qrLIy~GK~LeD~~TL~~y~I~~~~~~t   93 (125)
T 2gow_A           14 PADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTTV   93 (125)
T ss_dssp             CTTCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHSSCCCSCCCCTTCCGGGEEEESSSSEEESSCBTGGGCCCTTSEEE
T ss_pred             CCCeEEEEEEeCCCCEEEEEeCCccHHHHHHHHHHHHCCcccccCCCCChHHEEEEECCcCCCCCCcHHHcCCCCCCceE
Confidence            456799999998999999999999999999999998      5677  47999999999999999999999999888  6


Q ss_pred             EEEEceecCCC
Q 045424           83 IDAMYHAFGGG   93 (98)
Q Consensus        83 Idv~~~q~GG~   93 (98)
                      |++.++..++.
T Consensus        94 lhlv~r~~~~~  104 (125)
T 2gow_A           94 MHLVARETLPE  104 (125)
T ss_dssp             EEEEECSCCSS
T ss_pred             EEEEecCCCCc
Confidence            78888887754

>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=2.3e-09  Score=70.51  Aligned_cols=80  Identities=16%  Similarity=0.179  Sum_probs=69.4

Q ss_pred             CCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHH------hcCC--CCcceeEEECCeecCCCCChhhcCCCCCCE-
Q 045424           12 KPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCE------TKSQ--PFKSTPFLINGNRFDYSKTADQLGLKDGDE-   82 (98)
Q Consensus        12 ~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~------~~g~--~~~~~rF~fdG~~l~~~~Tp~~l~medgD~-   82 (98)
                      .|.+.|.|+|+...|..+.|.|.+++++..|++..++      +.++  +++++||+|.|+.|.++.|.+++++..++. 
T Consensus        12 ~~~~~m~I~vKtl~G~t~~lev~~s~TV~~lK~kI~~~~p~dwke~~p~p~~qqrLIy~GK~LeD~~TL~~y~I~~~~~~   91 (116)
T 1wgh_A           12 VPADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTT   91 (116)
T ss_dssp             CCSSSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTCCSSCEE
T ss_pred             CCCCeEEEEEEeCCCCEEEEEECCcCHHHHHHHHHHHhcccccccCCCCChHHEEEEECCcCCCCCCcHHHcCCCCCCce
Confidence            3678899999998999999999999999999999998      4564  589999999999999999999999988864 


Q ss_pred             -EEEEceecC
Q 045424           83 -IDAMYHAFG   91 (98)
Q Consensus        83 -Idv~~~q~G   91 (98)
                       |++.++..+
T Consensus        92 tlhLvlr~~~  101 (116)
T 1wgh_A           92 VMHLVARETL  101 (116)
T ss_dssp             EEEEEECSSC
T ss_pred             EEEEEccCCC
Confidence             566665543

>4dbg_A Ranbp-type and C3HC4-type zinc finger-containing; ubiquitin fold, ubiquitination, ligase; 2.71A {Homo sapiens} PDB: 2lgy_A

Probab=99.10  E-value=8.9e-10  Score=71.45  Aligned_cols=80  Identities=11%  Similarity=0.085  Sum_probs=65.1

Q ss_pred             CCCCCCCc--EEEEEEccCC--CEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCC-CCCCEE
Q 045424            9 NNKKPQHL--INLIIKSQDG--DKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGL-KDGDEI   83 (98)
Q Consensus         9 ~~~~~~~~--I~I~v~~~~g--~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~m-edgD~I   83 (98)
                      +..-|...  +.|.|.+..+  ..+.+.|.+++++..|++...+++|++++..|++|.|+.+.++.|.+++++ ++|++|
T Consensus        15 ~~~~~~~~i~l~v~v~d~~s~~~~i~l~V~ps~TV~~LK~~I~~k~Gipp~~QRli~ggkll~D~~TL~~ygI~~~G~t~   94 (105)
T 4dbg_A           15 PEVSPTQDIRLWVSVEDAQMHTVTIWLTVRPDMTVASLKDMVFLDYGFPPVLQQWVIGQRLARDQETLHSHGVRQNGDSA   94 (105)
T ss_dssp             -----CCCEEEEEEEEESSSCCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEEECTTCBTGGGTCCSTTCEE
T ss_pred             CCcCCCCcEEEEEEEEccCCCCceEEEEECCcChHHHHHHHHHHHhCCCHHHEEEeccCeEccCcCcHHHcCCCCCCCEE
Confidence            33345444  4555566553  578999999999999999999999999999999999998899999999999 699999


Q ss_pred             EEEce
Q 045424           84 DAMYH   88 (98)
Q Consensus        84 dv~~~   88 (98)
                      ++++-
T Consensus        95 hL~l~   99 (105)
T 4dbg_A           95 YLYLL   99 (105)
T ss_dssp             EEEEC
T ss_pred             EEEEE
Confidence            99874

>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=99.10  E-value=4.1e-10  Score=70.97  Aligned_cols=79  Identities=16%  Similarity=0.100  Sum_probs=69.1

Q ss_pred             CCCCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424            9 NNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus         9 ~~~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      +...+...|+|+|+. .+..+.+.|.+++++..|+...++..|++++.++++|.|..| ++.|.+++++.+|++|.++..
T Consensus        10 ~~~~~~~~~~i~Vk~-~g~~~~i~v~~~~TV~~LK~~I~~~tgip~~~QrL~~~Gk~L-dd~tL~~~~i~~g~~i~lv~~   87 (95)
T 1v86_A           10 GGGVGKELVDLKIIW-NKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGLVP-EDKTLREIKVTSGAKIMVVGS   87 (95)
T ss_dssp             CCCCCCCCEEEEEEE-TTEEEEEEECTTSBHHHHHHHHHHHHCSCSTTCCCBSSSBCC-SSSBHHHHCCCTTEEEEECCS
T ss_pred             CCCCCCceEEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCeeC-CcCcHHHCCCCCCCEEEEEec
Confidence            334456789999984 577888999999999999999999999999999999999999 556999999999999998765


Q ss_pred             e
Q 045424           89 A   89 (98)
Q Consensus        89 q   89 (98)
                      .
T Consensus        88 ~   88 (95)
T 1v86_A           88 T   88 (95)
T ss_dssp             S
T ss_pred             c
Confidence            4

>2kd0_A LRR repeats and ubiquitin-like domain-containing protein AT2G30105; ubiquitin-like protein, NESG, leucine-rich repeat, structural genomics; NMR {Arabidopsis thaliana}

Probab=99.09  E-value=8e-10  Score=68.27  Aligned_cols=66  Identities=14%  Similarity=0.138  Sum_probs=61.8

Q ss_pred             ccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424           23 SQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        23 ~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      ..+|..+.+.+.+++++..|+...++..|++++.++++|.|+.|.++.|.+++++.+|++|.+...
T Consensus        18 ~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~l~l~~s   83 (85)
T 2kd0_A           18 KFGGKSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVETSTLKQSDVGSGAKLMLMAS   83 (85)
T ss_dssp             EETTEEEEEEECTTSBHHHHHHHHHHHHCCCTTTCEEEETTEECCTTCBTTTTTCCTTEEEEEECC
T ss_pred             EECCEEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCeECCCcCCHHHCCCCCCCEEEEEEe
Confidence            347888899999999999999999999999999999999999999999999999999999998764

>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=99.09  E-value=9.9e-10  Score=73.29  Aligned_cols=81  Identities=15%  Similarity=0.182  Sum_probs=71.5

Q ss_pred             CCcEEEEEEccCCCEE-EEEEcCccHHHHHHHHHH-----HhcCCCC--cceeEEECCeecCCCCChhhcCCCCCC----
Q 045424           14 QHLINLIIKSQDGDKR-FFQFNHDVEIKRLLIKYC-----ETKSQPF--KSTPFLINGNRFDYSKTADQLGLKDGD----   81 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~-~f~Ik~~t~l~kL~~~y~-----~~~g~~~--~~~rF~fdG~~l~~~~Tp~~l~medgD----   81 (98)
                      .+.+.|+|+..+|..+ .+.+.+++++..|++...     ++.|+++  +++||+|.|+.|.++.|.+++++.+|+    
T Consensus        14 ~~~~~i~~kt~~G~~i~~l~v~psdTV~~lK~kI~~~~p~dkegiP~~~~qQrLIy~GK~LeD~~TLsdy~I~~~~~~~~   93 (126)
T 1se9_A           14 HNQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVSNLAGA   93 (126)
T ss_dssp             CCCEEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCTTSCTTC
T ss_pred             cccEEEEEEECCCCEEEeeecCccCHHHHHHHHHHhhcccccccCCCChhhEEEEECCeECcCCCcHHHcCCCcCCccCC
Confidence            3789999999999888 699999999999999995     4456765  899999999999999999999999994    


Q ss_pred             --EEEEEceecCCCc
Q 045424           82 --EIDAMYHAFGGGH   94 (98)
Q Consensus        82 --~Idv~~~q~GG~~   94 (98)
                        +|++.++..||.-
T Consensus        94 v~tmhlVlrl~g~~k  108 (126)
T 1se9_A           94 VTTMHVIIQAPVTEK  108 (126)
T ss_dssp             CEEEEEEECCCSSCC
T ss_pred             cEEEEEEeccCCccc
Confidence              6899999998853

>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=99.06  E-value=1.3e-09  Score=73.54  Aligned_cols=76  Identities=11%  Similarity=0.083  Sum_probs=70.5

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEE-E-CCeecCCCCChhhcCCCCCCEEEEEcee-cCC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFL-I-NGNRFDYSKTADQLGLKDGDEIDAMYHA-FGG   92 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~-f-dG~~l~~~~Tp~~l~medgD~Idv~~~q-~GG   92 (98)
                      +.|.|+..+|..+.+.+.+++++..|+...++..|+++++++|+ | .|..|.++.|.+++++.+|++|.+.+++ .|+
T Consensus         3 m~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~QrL~~~~~g~~L~d~~tL~~y~i~~~~~l~l~~~~~~~~   81 (159)
T 3rt3_B            3 WDLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVDKSDEP   81 (159)
T ss_dssp             CEEEEEETTSCEEEEECCTTCCHHHHHHHHHHHHCCCGGGEEEEEETTCCBCCTTSCGGGGTCCTTCEEEEEECCCCCC
T ss_pred             eEEEEEECCCCEEEEEeCCCCcHHHHHHHHHHHhCCCHHHEEEEEcCCCCCCCCCCCHHHcCCCCCCEEEEEccCCCCc
Confidence            67888888999999999999999999999999999999999999 9 7999999999999999999999999884 443

>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=99.06  E-value=1.4e-09  Score=71.76  Aligned_cols=76  Identities=12%  Similarity=0.133  Sum_probs=67.1

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCC-------CCCEEEEEcee
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLK-------DGDEIDAMYHA   89 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~me-------dgD~Idv~~~q   89 (98)
                      |.|+++. ....+.+.|.+++++..|+...+++.|+++++.||+|+|+.|.++.|.+++++.       ++.+|++.++ 
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 VFLMIRR-HKTTIFTDAKESSTVFELKRIVEGILKRPPEEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAFR-   80 (118)
T ss_dssp             EEEEEEE-BTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBHHHHTCCTTTSBTTBCEEEEEEEB-
T ss_pred             EEEEEec-CCEEEEEEeCCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCCCHHHcCcccccccCCCCCEEEEEec-
Confidence            5566654 223578999999999999999999999999999999999999999999999999       6999999999 


Q ss_pred             cCCCc
Q 045424           90 FGGGH   94 (98)
Q Consensus        90 ~GG~~   94 (98)
                      .||.+
T Consensus        81 ~~g~f   85 (118)
T 2fnj_B           81 ADDTF   85 (118)
T ss_dssp             SSSCB
T ss_pred             CCCce
Confidence            67654

>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=99.05  E-value=2.3e-09  Score=66.60  Aligned_cols=74  Identities=12%  Similarity=0.192  Sum_probs=66.6

Q ss_pred             CcEEEEEEccCCCEEEEEEcCc-----cHHHHHHHHHHHhcCCCCcceeEEECCeecCC-CCChhhcCCCCCCEEEEEce
Q 045424           15 HLINLIIKSQDGDKRFFQFNHD-----VEIKRLLIKYCETKSQPFKSTPFLINGNRFDY-SKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~-----t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~-~~Tp~~l~medgD~Idv~~~   88 (98)
                      ..|+|+|++ .|....+.+.++     .++..|+...+++.|++++.++++|.|..|.+ +.|.+++++.+|++|.+...
T Consensus         6 ~~~~v~Vk~-~~~~~~i~v~~~~~~~~~TV~~LK~~i~~~~gip~~~qrL~~~Gk~L~D~~~~L~~~~i~~g~~i~l~~~   84 (92)
T 1wxv_A            6 SGLTVTVTH-SNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLIGK   84 (92)
T ss_dssp             SSEEEEEEC-SSSEEEEEECCCSSSSSCBHHHHHHHHHHHTCCCTTTCEEEETTEEECCSSSBHHHHTCCSSEEEEEESC
T ss_pred             CeEEEEEEE-CCEEEEEEECCCcCcccCcHHHHHHHHHHHHCcCHHHEEEEECCeecCCCcccHHHCCCCCCCEEEEEec
Confidence            469999998 577788999995     99999999999999999999999999999998 55899999999999999865


Q ss_pred             e
Q 045424           89 A   89 (98)
Q Consensus        89 q   89 (98)
                      .
T Consensus        85 ~   85 (92)
T 1wxv_A           85 K   85 (92)
T ss_dssp             C
T ss_pred             C
Confidence            4

>2kdb_A Homocysteine-responsive endoplasmic reticulum- resident ubiquitin-like domain member...; UBL domain, membrane, polymorphism, transmembrane; NMR {Homo sapiens}

Probab=99.04  E-value=1e-09  Score=70.11  Aligned_cols=73  Identities=14%  Similarity=0.198  Sum_probs=63.8

Q ss_pred             CCcEEEEEEccCCC--EEEEEEcCccHHHHHHHHHHHhc-CCC-CcceeEEECCeecCCCCChhhc--CCCCCCEEEEE
Q 045424           14 QHLINLIIKSQDGD--KRFFQFNHDVEIKRLLIKYCETK-SQP-FKSTPFLINGNRFDYSKTADQL--GLKDGDEIDAM   86 (98)
Q Consensus        14 ~~~I~I~v~~~~g~--~~~f~Ik~~t~l~kL~~~y~~~~-g~~-~~~~rF~fdG~~l~~~~Tp~~l--~medgD~Idv~   86 (98)
                      ...|+|+|++.++.  .+.+.+.+++++..|++..+++. |.+ ++++||+|.|+.|.++.|.+++  ++++|.+|++.
T Consensus        21 ~~~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           21 GHPVTLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYPSKPLTKDQRLVYSGRLLPDHLQLKDILRKQDEYHMVHLV   99 (99)
T ss_dssp             --CEEEEEECTTSSSCCEEEEECTTSBHHHHHHHHHHHSTTCCCTTTCCEEETTEEECTTSBTHHHHTTTCSEEEEEEC
T ss_pred             CCeEEEEEEcCCCCEEEEEEEcCCCCHHHHHHHHHHHHhcCCCChhhEEEEECCEECCCCCCHHHHhcCCCCCCEEEeC
Confidence            46799999998887  57888999999999999999864 555 5999999999999999999999  99999999863

>2kjr_A CG11242; UBL, ubiquitin, ubiquitin-like, structural genomics, PSI-2, protein structure initiative; NMR {Drosophila melanogaster}

Probab=99.03  E-value=3.3e-09  Score=67.21  Aligned_cols=74  Identities=9%  Similarity=0.102  Sum_probs=65.9

Q ss_pred             CCCcEEEEEEccCCC--EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC--Ce---ec-CCCCChhhcCCCCCCEEE
Q 045424           13 PQHLINLIIKSQDGD--KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN--GN---RF-DYSKTADQLGLKDGDEID   84 (98)
Q Consensus        13 ~~~~I~I~v~~~~g~--~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~---~l-~~~~Tp~~l~medgD~Id   84 (98)
                      +...|+|.|.+..+.  .+.+++.+++++..|+....++.|++++++|++|.  |.   .| .++.|..++++++|++|.
T Consensus        12 ~~~~v~l~It~s~~~~~~~~~~v~~~~TV~~LK~kI~~~~GiP~~~QrL~~~~~g~~~~~L~~D~~tL~~Y~i~~gstih   91 (95)
T 2kjr_A           12 KSDFIKVNVSNSHNDAVAFEVKLAKDLTVAQLKTKLEILTGGCAGTMKVQVFKGDTCVSTMDNNDAQLGYYANSDGLRLH   91 (95)
T ss_dssp             CCCEEEEEEEESSCSCEEEEEEEETTCBHHHHHHHHHHHHCSCTTTEEEEEEETTEEEEECCCTTSBHHHHCCSSSCEEE
T ss_pred             CCCeEEEEEEECCCCceEEEEEeCccCHHHHHHHHHHHHHCcCHHHeEEEEecCCcccceeCCCCCCHhHCCcCCCCEEE
Confidence            578999999986654  68999999999999999999999999999999997  55   44 788999999999999998


Q ss_pred             EE
Q 045424           85 AM   86 (98)
Q Consensus        85 v~   86 (98)
                      +.
T Consensus        92 lv   93 (95)
T 2kjr_A           92 VV   93 (95)
T ss_dssp             EE
T ss_pred             EE
Confidence            75

>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=99.00  E-value=1.8e-09  Score=67.28  Aligned_cols=73  Identities=16%  Similarity=0.126  Sum_probs=66.2

Q ss_pred             CcEEEEEEccCCCEEEE-EEcCccHHHHHHHHHHHhcCCCCcceeEE---ECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424           15 HLINLIIKSQDGDKRFF-QFNHDVEIKRLLIKYCETKSQPFKSTPFL---INGNRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f-~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~---fdG~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      ..|+|+|+. .|..+.+ .|.+++++..|+...++..|+++++++++   |.|..|.++.|.+++++.+|++|.+...
T Consensus         6 ~~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            6 SGLPIIVKW-GGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLGALKLKPNTKIMMMGT   82 (90)
T ss_dssp             CSCCEEEEE-TTEEEEECSCCSSSBHHHHHHHHHHHTCCCTTTCEEESCEETTEECCTTSBHHHHTCCTTEEEEEECC
T ss_pred             ceEEEEEEE-CCEEEEEEEeCCCCCHHHHHHHHHHHHCcCHHHeEEEeeccCCcCcCCCCCHHHcCCCCCCEEEEEec
Confidence            457788875 6777788 89999999999999999999999999999   9999999999999999999999988754

>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=98.97  E-value=2.2e-09  Score=67.83  Aligned_cols=72  Identities=11%  Similarity=0.072  Sum_probs=65.6

Q ss_pred             CcEEEEEEccCCCEE-EEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424           15 HLINLIIKSQDGDKR-FFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~-~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      ..|+|+|+. .|..+ .+.|..++++..|+...++..|++++++|++|.|..|.++ |.+++++.+|++|.+...
T Consensus         6 ~~m~i~Vk~-~g~~~~~l~v~~~~TV~~lK~~I~~~tgip~~~QkLi~~Gk~L~D~-tL~~~~I~~g~~i~l~~~   78 (96)
T 1wgg_A            6 SGYSVTVKW-GKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD-DWGNIKMKNGMTVLMMGS   78 (96)
T ss_dssp             CEEEEEEEE-TTEEEEEEEEESSSCHHHHHHHHHHHTCCCTTTSCCEETTEECCSS-CCCSCCCCSSCEEECCCC
T ss_pred             cEEEEEEEE-CCEEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCcCCCCC-CHHHCCCCCCCEEEEEec
Confidence            568999985 57777 5999999999999999999999999999999999999988 999999999999988654

>3ai5_A Yeast enhanced green fluorescent protein, ubiquit; ubiquitin, fusion protein, fluore protein, transcription; HET: CR2; 1.40A {Aequorea victoria} PDB: 3ako_B*

Probab=98.96  E-value=5.1e-09  Score=78.72  Aligned_cols=76  Identities=9%  Similarity=0.238  Sum_probs=70.7

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      ...|+|.|+..+|..+.+.|.+++++..|++..+++.|++++++||+|.|+.|.++.|.+++++.+|++|++.+++
T Consensus       231 ~~~MqI~VKtl~Gk~~~leV~~s~TV~dLK~kI~~~~GIp~~~QRLi~~Gk~L~D~~TLsdygI~~gstL~LvlRL  306 (307)
T 3ai5_A          231 TGSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL  306 (307)
T ss_dssp             CCCEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTGGGTCCTTCEEEEEC--
T ss_pred             CCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEeCCeecCCCCCHHHcCCCCCCEEEEEEeC
Confidence            4678899999889999999999999999999999999999999999999999999999999999999999999875

>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=98.93  E-value=8.5e-09  Score=68.09  Aligned_cols=75  Identities=13%  Similarity=0.142  Sum_probs=66.2

Q ss_pred             EEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCC-------CCEEEEEceec
Q 045424           18 NLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKD-------GDEIDAMYHAF   90 (98)
Q Consensus        18 ~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~med-------gD~Idv~~~q~   90 (98)
                      -|+|+. ....+.+.+++++++..|+....++.|+++++.||+|+|+.|.++.|.+++++.+       +.+|.+.++. 
T Consensus         4 Fl~Ikr-~ktTI~ldve~sdTV~~lK~kI~~~~giPp~qQrLI~~Gk~LeD~kTL~dy~I~~~ta~~q~~atl~Lvlr~-   81 (118)
T 4ajy_B            4 FLMIRR-HKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAFRA-   81 (118)
T ss_dssp             EEEEEE-BTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTTTTTCCGGGSBTTBCEEEEEEECC-
T ss_pred             EEEEec-CCEEEEEEcCCCChHHHHHHHHHHHHCCCHHHeEEEeCCeECCCcCCHHHcCCCcCcccCCCCCEEEEEEec-
Confidence            345543 3447788999999999999999999999999999999999999999999999999       9999999996 


Q ss_pred             CCCc
Q 045424           91 GGGH   94 (98)
Q Consensus        91 GG~~   94 (98)
                      ||.+
T Consensus        82 ~~~f   85 (118)
T 4ajy_B           82 DDTF   85 (118)
T ss_dssp             SSCC
T ss_pred             CCCc
Confidence            5543

>2xzm_9 RPS31E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_9

Probab=98.91  E-value=1.5e-10  Score=81.90  Aligned_cols=75  Identities=11%  Similarity=0.213  Sum_probs=2.4

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCCccc
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGGHDH   96 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~~~~   96 (98)
                      |.|.|++.+|..+.+.|.+++++..|+...++..|+++++++|+|.|..|.++.|.+     ++++|++.+++.||..+|
T Consensus         1 MqI~VKtL~GktitLeV~~sdTV~~LK~kI~~keGIP~~qQRLIf~GK~LeD~~TLs-----~~STLhLvlRLrGG~~kr   75 (189)
T 2xzm_9            1 MQVQVKTLEGETKIYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAPNTELVT-----DDVTYYLSLKLLGGKKKK   75 (189)
T ss_dssp             ----------------------------------------------------------------------------CCCC
T ss_pred             CEEEEEcCCCCEEEEEECCcChHHHHHHHHHHHhCcChhHEEEEecCeECCCCCccc-----CCCEEEEEEecCCCcccc
Confidence            457788788999999999999999999999999999999999999999999988877     999999999999997654

>1wf9_A NPL4 family protein; beta-grAsp fold like domain, hypothetical protein, structural genomics, NPPSFA; NMR {Arabidopsis thaliana} SCOP: d.15.1.1

Probab=98.90  E-value=3.7e-09  Score=67.89  Aligned_cols=73  Identities=18%  Similarity=0.216  Sum_probs=65.5

Q ss_pred             CcEEEEEEccCCCEEEEEEc-CccHHHHHHHHHHHhcCCCCcceeEEECCe-----------e----cCCCCChhhcCCC
Q 045424           15 HLINLIIKSQDGDKRFFQFN-HDVEIKRLLIKYCETKSQPFKSTPFLINGN-----------R----FDYSKTADQLGLK   78 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik-~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~-----------~----l~~~~Tp~~l~me   78 (98)
                      ..|.|+|++.+|.. .+.|. +++++..|++..+++.|+++...+|.|+|.           .    +.++.|..++++.
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            34889999999965 78899 999999999999999999999999999987           4    4788899999999


Q ss_pred             CCCEEEEEce
Q 045424           79 DGDEIDAMYH   88 (98)
Q Consensus        79 dgD~Idv~~~   88 (98)
                      +|++|.+...
T Consensus        85 ~G~~L~l~~~   94 (107)
T 1wf9_A           85 HGSMVYLAYE   94 (107)
T ss_dssp             TTCEEECCCS
T ss_pred             CCCEEEEEeC
Confidence            9999988765

>2kj6_A Tubulin folding cofactor B; methods development, NESG, solution PSI-2, structural genomics, protein structure initiative; NMR {Arabidopsis thaliana}

Probab=98.88  E-value=1.2e-08  Score=64.94  Aligned_cols=73  Identities=12%  Similarity=0.120  Sum_probs=64.4

Q ss_pred             CCcEEEEEEccCC--CEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCe---e----cCCCCChhhcCCCCCCEEE
Q 045424           14 QHLINLIIKSQDG--DKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGN---R----FDYSKTADQLGLKDGDEID   84 (98)
Q Consensus        14 ~~~I~I~v~~~~g--~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~---~----l~~~~Tp~~l~medgD~Id   84 (98)
                      +..|+|.|.+...  ..+.++|.++.++..|+....++.|++++++|++|.|.   .    +.++.|..++++++|++|.
T Consensus        12 ~~~v~l~It~s~~~~~~~e~~v~~~~TV~~LK~kIe~~~Gip~~~QrLi~~g~~g~~~~~L~~D~~tL~~Y~I~~g~~Ih   91 (97)
T 2kj6_A           12 DDSVHLHITHANLKSFSADARFSPQMSVEAVKEKLWKKCGTSVNSMALELYDDSGSKVAVLSDDSRPLGFFSPFDGFRLH   91 (97)
T ss_dssp             CCCEEEEEEETTSSCCCEEEEECTTCCHHHHHHHHHHHHCCCTTSEEEEEECSSSCBCCCSSGGGSCHHHHCCCSCCEEE
T ss_pred             CceEEEEEEECCCCceEEEEEeCCCChHHHHHHHHHHHHCcCHHHeEEEEecCCCcccceecCCcCCHHHCCCCCCCEEE
Confidence            5789999987544  36899999999999999999999999999999999873   3    4778899999999999998


Q ss_pred             EE
Q 045424           85 AM   86 (98)
Q Consensus        85 v~   86 (98)
                      +.
T Consensus        92 lv   93 (97)
T 2kj6_A           92 II   93 (97)
T ss_dssp             EE
T ss_pred             EE
Confidence            86

>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=98.82  E-value=3.5e-08  Score=64.68  Aligned_cols=74  Identities=19%  Similarity=0.213  Sum_probs=64.8

Q ss_pred             CCcEEEEEEccCCC-EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECC---e---e-cCCCCChhhcCCCCCCEEEE
Q 045424           14 QHLINLIIKSQDGD-KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLING---N---R-FDYSKTADQLGLKDGDEIDA   85 (98)
Q Consensus        14 ~~~I~I~v~~~~g~-~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG---~---~-l~~~~Tp~~l~medgD~Idv   85 (98)
                      +..|+|.|.+..+. ...++|.++.++..|+...+++.|++++++|++|.|   .   . +.++.|..++++++|++|+|
T Consensus         4 ~~~v~l~V~~~~~~~~~e~~v~~~~TV~~lK~ki~~~~Gip~~~qrL~~~g~~~~~~~~l~~D~~tL~~y~i~~g~~ihv   83 (122)
T 1t0y_A            4 TEVYDLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRIHA   83 (122)
T ss_dssp             CCEEEEEEEESSCCSCEEEEEETTSBHHHHHHHHHHHHCCCTTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSEEEEE
T ss_pred             CCEEEEEEEECCCCccEEEEeCCCCcHHHHHHHHHHHhCCCHHHeEEEEecCCCccccccCCCcCCHHHCCCCCCCEEEE
Confidence            45799999886553 588999999999999999999999999999999976   3   2 37888999999999999998


Q ss_pred             Ec
Q 045424           86 MY   87 (98)
Q Consensus        86 ~~   87 (98)
                      ..
T Consensus        84 vd   85 (122)
T 1t0y_A           84 VD   85 (122)
T ss_dssp             EE
T ss_pred             Ee
Confidence            75

>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=98.81  E-value=2.1e-08  Score=62.89  Aligned_cols=73  Identities=12%  Similarity=0.100  Sum_probs=63.7

Q ss_pred             CcEEEEEEccCCC-EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECC---ee----cCCCCChhhcCCCCCCEEEEE
Q 045424           15 HLINLIIKSQDGD-KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLING---NR----FDYSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus        15 ~~I~I~v~~~~g~-~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG---~~----l~~~~Tp~~l~medgD~Idv~   86 (98)
                      ..|+|.|.+.... ...+++.+++++..|+...+++.|++++++|++|.|   ..    +.++.|..++++++|++|+|.
T Consensus         6 ~~v~l~I~~~~~~~~~~~~v~~~~TV~~lK~ki~~~~gip~~~qrL~~~~~~g~~~~~l~~D~~tL~~y~i~~g~~l~v~   85 (95)
T 1v6e_A            6 SGVMVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQEDALLGSYPVDDGCRIHVI   85 (95)
T ss_dssp             CCEEEEEEETTSSSCEEEEECTTSBHHHHHHHHHHHTCSCTTTCBCEEECSSSCEEEECCCSSSBTTSSSCCTTCEEEEB
T ss_pred             cEEEEEEEECCCCeeEEEEcCccCHHHHHHHHHHHHHCCCHHHeEEEEeCCCCccccccCCCcCCHhHCCCCCCCEEEEE
Confidence            3489999875543 588999999999999999999999999999999976   43    478899999999999999986


Q ss_pred             c
Q 045424           87 Y   87 (98)
Q Consensus        87 ~   87 (98)
                      -
T Consensus        86 d   86 (95)
T 1v6e_A           86 D   86 (95)
T ss_dssp             C
T ss_pred             E
Confidence            5

>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=98.80  E-value=8.5e-09  Score=79.09  Aligned_cols=79  Identities=10%  Similarity=0.140  Sum_probs=71.1

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHH---hcCCCCcceeEEECCeecCCCCChhhcCCCCCCEE-EEEceec
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCE---TKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEI-DAMYHAF   90 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~---~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~I-dv~~~q~   90 (98)
                      ..|.|+|+...|..+.+.|.+++++..|+...++   +.|++.+.+||+|.|+.|.++.|..++++.+|++| .+..+..
T Consensus         6 ~~M~I~VKtl~Gk~~~leV~~~~TV~~LK~~I~~~~~~~gip~~~QrLiy~GK~L~D~~tL~dygI~~gstIv~lv~k~~   85 (368)
T 1oqy_A            6 SAVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVTKTK   85 (368)
T ss_dssp             CCCCEEEEETTTEEEEECCCTTCBHHHHHHHHHHHTCSSSCCSTEEEEESSSSEECSSSBTTTTCCCTTSCEEEEEECCC
T ss_pred             ceEEEEEEeCCCCEEEEEeCCCChHHHHHHHHHHHhCcCCCChhheEEEECCeecCCcCCHHHcCCCCCCEEEEEEecCC
Confidence            4578888888899999999999999999999999   56799999999999999999999999999999998 7777777


Q ss_pred             CCC
Q 045424           91 GGG   93 (98)
Q Consensus        91 GG~   93 (98)
                      ||.
T Consensus        86 ~~~   88 (368)
T 1oqy_A           86 AGQ   88 (368)
T ss_dssp             SSS
T ss_pred             CCC
Confidence            764

>4b6w_A Tubulin-specific chaperone; CAP-Gly, ubiquitin-like; HET: MSE; 2.35A {Trypanosoma brucei brucei strain 927}

Probab=98.77  E-value=4.7e-08  Score=60.77  Aligned_cols=73  Identities=7%  Similarity=0.003  Sum_probs=62.4

Q ss_pred             cEEEEEEcc--CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE-------CCeecCCCCChhhcCCCCCCEEEEE
Q 045424           16 LINLIIKSQ--DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI-------NGNRFDYSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus        16 ~I~I~v~~~--~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f-------dG~~l~~~~Tp~~l~medgD~Idv~   86 (98)
                      .|+|.|...  .......++.++.++..|+....++.|++++++|++|       .|..+.++.|..+++++||.+|++.
T Consensus         2 ~V~v~iths~~~~~~~E~r~~~s~TI~~lK~ki~~~~Gip~~~QrLi~~~~~~~~~g~~l~d~~tL~~Y~i~~g~~ihlv   81 (86)
T 4b6w_A            2 VVKVSLTHSASRMRVPEKRYGLAQTIESIKENVFTHFATPPEYMQLQLIDDRGITIEKNMANDKQLGYYQCRDEFVIHVV   81 (86)
T ss_dssp             EEEEEEEETTCSCCEEEEEEETTSBHHHHHHHHHTTSCCCGGGEEEEEECTTSCEEESSCCTTSBGGGGTCCTTCEEEEE
T ss_pred             EEEEEEEEcCCCCeEEEEEcCccCcHHHHHHHHHHHHCCCHHHEEEEEecCCCCceeeEcCCCCCHHHCCCCCCCEEEEE
Confidence            356666532  3455689999999999999999999999999999996       4888999999999999999999987


Q ss_pred             ce
Q 045424           87 YH   88 (98)
Q Consensus        87 ~~   88 (98)
                      -.
T Consensus        82 d~   83 (86)
T 4b6w_A           82 DL   83 (86)
T ss_dssp             EC
T ss_pred             eC
Confidence            43

>2dzj_A Synaptic glycoprotein SC2; ubiquitin-like fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.74  E-value=2.7e-08  Score=62.02  Aligned_cols=71  Identities=8%  Similarity=0.119  Sum_probs=62.8

Q ss_pred             CcEEEEEEccCCCEE--EE-EEcCccHHHHHHHHHHHh-cCCCCcceeEEEC--CeecCCCCChhhcCCCCCCEEEE
Q 045424           15 HLINLIIKSQDGDKR--FF-QFNHDVEIKRLLIKYCET-KSQPFKSTPFLIN--GNRFDYSKTADQLGLKDGDEIDA   85 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~--~f-~Ik~~t~l~kL~~~y~~~-~g~~~~~~rF~fd--G~~l~~~~Tp~~l~medgD~Idv   85 (98)
                      ..|.|.|++..|...  .+ .|.+++++..|++.+++. .|++++++||+|.  |..|.++.|.+++++.+|.+|.+
T Consensus         9 ~~M~I~Vk~~~g~~~~~~l~~v~~~~TV~~lK~~I~~~~~~i~~~~QrL~~~~~Gk~L~D~~tL~~y~i~~~stl~~   85 (88)
T 2dzj_A            9 KHYEVEILDAKTREKLCFLDKVEPHATIAEIKNLFTKTHPQWYPARQSLRLDPKGKSLKDEDVLQKLPVGTTATLYF   85 (88)
T ss_dssp             CCEEEEEEESSSCCCCEEEEEECSSCBHHHHHHHHHHHCSSSCTTTCCEESSTTSCCCCTTCBTTTSSCCSEEEEEE
T ss_pred             EEEEEEEECCCCCEEeeEEeEcCCCCcHHHHHHHHHHHhcCCChHHeEEEecCCCcCcCCCCCHHHcCCCCCCEEEE
Confidence            358899998877654  47 899999999999999994 7999999999987  99999999999999999999865

>2kzr_A Ubiquitin thioesterase OTU1; structural genomics, northeast structural genomics consortiu PSI-2, protein structure initiative, hydrolase; NMR {Mus musculus}

Probab=98.72  E-value=1.6e-08  Score=62.27  Aligned_cols=71  Identities=15%  Similarity=0.178  Sum_probs=60.8

Q ss_pred             EEEEEEccCCCEEEEE-EcCccHHHHHHHHHHHhcCCCCcceeEEEC--CeecC---CCCChhhcCCCCCCEEEEEce
Q 045424           17 INLIIKSQDGDKRFFQ-FNHDVEIKRLLIKYCETKSQPFKSTPFLIN--GNRFD---YSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~-Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l~---~~~Tp~~l~medgD~Idv~~~   88 (98)
                      |.|+|++.+|..+ +. +..++++..|+...+++.|++++.++|+|.  |+.+.   ++.|.+++++.+|++|.|...
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            4678888889654 77 899999999999999999999999999986  46774   578999999999999988754

>1wjn_A Tubulin-folding protein TBCE; ubiquitin-like domain, progressive motor neuropathy, structural genomics; NMR {Mus musculus} SCOP: d.15.1.1

Probab=98.62  E-value=3.1e-07  Score=57.62  Aligned_cols=77  Identities=10%  Similarity=0.118  Sum_probs=65.3

Q ss_pred             CCCcEEEEEEcc---CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECC-------eec-CCCCChhhcCCCCCC
Q 045424           13 PQHLINLIIKSQ---DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLING-------NRF-DYSKTADQLGLKDGD   81 (98)
Q Consensus        13 ~~~~I~I~v~~~---~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG-------~~l-~~~~Tp~~l~medgD   81 (98)
                      -+..|+|.|.+.   ++..+..++.++.++.+|+...++.+|+++..+++.|.+       ..| .+..|..+++++||+
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            356799988863   677889999999999999999999999999999998863       223 567899999999999


Q ss_pred             EEEEEcee
Q 045424           82 EIDAMYHA   89 (98)
Q Consensus        82 ~Idv~~~q   89 (98)
                      +|.|....
T Consensus        86 ~I~V~d~~   93 (97)
T 1wjn_A           86 CLLVRWSG   93 (97)
T ss_dssp             EEEEECCS
T ss_pred             EEEEEecC
Confidence            99997743

>2dzm_A FAS-associated factor 1; ubiquitin-like domain, HFAF1, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.42  E-value=1.2e-06  Score=55.92  Aligned_cols=72  Identities=6%  Similarity=0.047  Sum_probs=61.1

Q ss_pred             cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE-CCeecCCCCChhhcCCCCCCEEEEEce
Q 045424           16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI-NGNRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      .+.++++. .|..+.+.|.+++++..|+...+++.|+++++.+++| .|.++.++.|..++++..|++|.+.+.
T Consensus         9 m~~~~vk~-~Gk~~~v~v~~~~TV~~LK~~I~~~tgIpp~~QkLi~~~~gkL~D~~tLs~~~I~~gstL~lvl~   81 (100)
T 2dzm_A            9 MLDFRVEY-RDRNVDVVLEDTCTVGEIKQILENELQIPVSKMLLKGWKTGDVEDSTVLKSLHLPKNNSLYVLTP   81 (100)
T ss_dssp             EEEEEEEC-SSCEEEEEEETTSBHHHHHHHHHHHHCCCTTTCCEECCSSSCCCTTSBHHHHCCCSEEEEEECCS
T ss_pred             eEEEEEEe-CCeEEEEEECCCCcHHHHHHHHHHHHCCChhHeEEEccCCCCCCCcCCHHHcCCCCCCEEEEEec
Confidence            34555554 7888899999999999999999999999999999986 333488889999999999999988654

>3shq_A UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila melanogaster}

Probab=98.40  E-value=7.4e-07  Score=67.03  Aligned_cols=74  Identities=12%  Similarity=0.081  Sum_probs=65.4

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEE---ECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFL---INGNRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~---fdG~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      .+.|+|+|+. .|..+.+.|.+++++..|+...++..|+++++++++   |.|..+.++.|.+++++.+|.+|.++-.
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   8999999999999999999999988744

>2pjh_A Protein NPL4, nuclear protein localization protein 4 homolog; UFD1, NPL4, AAA, protein binding, transport protein; NMR {Mus musculus}

Probab=98.08  E-value=2.8e-06  Score=52.01  Aligned_cols=71  Identities=21%  Similarity=0.187  Sum_probs=56.1

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCee-----cCCCCChhhcCCCCCCEEEEE
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNR-----FDYSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~-----l~~~~Tp~~l~medgD~Idv~   86 (98)
                      ..+.|+|++.+|. ..+.+.+++++..|++..++..+++.+.+.+.+.-.+     ..++.|.+++++..||.|.+.
T Consensus         3 ~~m~lRvrs~~G~-~Ri~v~~~~t~~~L~~~I~~~~~i~~~~~~l~~~~~p~~~l~~~~~~~l~~lgl~hGd~l~l~   78 (80)
T 2pjh_A            3 ESIIIRVQSPDGV-KRITATKRETAATFLKKVAKEFGFQNNGFSVYINRNKTGEITASSSKSLHLLKIKHGDLLFLF   78 (80)
T ss_dssp             CCCCCEEECSSEE-EECCCCSSCCHHHHHHHHHHHTCCCTTTCCCCCSCCGGGGSSSCCCCTTTTTCCCTTCCEEC-
T ss_pred             CcEEEEEECCCCC-EEEEcCCcChHHHHHHHHHHHcCCCCCcceEEecCCCCCcccCCCCCCHHHcCCCCCCEEEEe
Confidence            3477999999984 4566889999999999999999998766555443333     347889999999999998764

>2al3_A TUG long isoform; TUG UBL1 insulin, endocytosis/exocytosis complex; NMR {Mus musculus} SCOP: d.15.1.2

Probab=98.03  E-value=2.8e-05  Score=48.98  Aligned_cols=72  Identities=8%  Similarity=0.113  Sum_probs=67.6

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      +.|.|...+++...++|.++++|..+.+.-|+++|++.++..+.|++..|+.+..-.=.||-+|-.+++...
T Consensus        10 m~v~Vl~~n~rr~~VKvtp~t~L~~VL~eaC~K~gl~~~~~~Lkh~~k~lDLSlpfRlsgLpnnAkLELv~~   81 (90)
T 2al3_A           10 SAVSVLAPNGRRHTVKVTPSTVLLQVLEDTCRRQDFNPSEYDLKFQRTVLDLSLQWRFANLPNNAKLEMVPV   81 (90)
T ss_dssp             CCEEEECTTSCEEEECCCTTSBHHHHHHHHHHHTTCCGGGCEEEETTEEESSSCBHHHHCCCSSCEEEEECS
T ss_pred             cEEEEEcCCCcEEEEEECCCCCHHHHHHHHHHHhCCChhhCeEEeCCEeccccceeEecCCCCCCEEEEEEc
Confidence            478888899999999999999999999999999999999999999999999999999999999999998653

>2bps_A YUKD protein; ubiquitin-like protein, ubiquitin; 2.7A {Bacillus subtilis}

Probab=97.61  E-value=0.00017  Score=44.47  Aligned_cols=71  Identities=13%  Similarity=0.207  Sum_probs=60.8

Q ss_pred             CcEEEEEEc--cCCCEEEEEEcCccHHHHHHHHHHHhcCCCC-----cceeEEECCeecCCCCChhhcCCCCCCEEEE
Q 045424           15 HLINLIIKS--QDGDKRFFQFNHDVEIKRLLIKYCETKSQPF-----KSTPFLINGNRFDYSKTADQLGLKDGDEIDA   85 (98)
Q Consensus        15 ~~I~I~v~~--~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~-----~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv   85 (98)
                      .+|+|.+.-  ..++.+-++|...-++++|.+...+.++++.     ..+|..-.|..|.++++.++.++.|||.|++
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            467777763  6788899999999999999999999999864     3566666799999999999999999999986

>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=97.32  E-value=0.0038  Score=39.86  Aligned_cols=84  Identities=14%  Similarity=0.187  Sum_probs=63.9

Q ss_pred             CCCCCCCCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE--CCeecC---CCCChhhcCCCC
Q 045424            5 SSSKNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI--NGNRFD---YSKTADQLGLKD   79 (98)
Q Consensus         5 ~~~~~~~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f--dG~~l~---~~~Tp~~l~med   79 (98)
                      +++.+........+|.|+-++|..+.-++..+++++.|++-.....+.+...+.|.-  =-+.+.   .+.|.++++|-.
T Consensus         2 ~~~~p~~~~~~~t~IqIRlpdG~rl~~rF~~~~tl~~v~~fV~~~~~~~~~~f~L~t~fPrk~l~~~d~~~TL~elgL~p   81 (109)
T 2dzk_A            2 SSGSSGRDRSTIARIQFRLPDGSSFTNQFPSDAPLEEARQFAAQTVGNTYGNFSLATMFPRREFTREDYKRRLLDLELAP   81 (109)
T ss_dssp             CSCCCCCCCSCCEEEEEECSSSCEEEEEECTTSBHHHHHHHHHHHHTTSSCSCEEECSSSCCBCCTTTTTSBTGGGTCSS
T ss_pred             CCCCCCCCCCCcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHhccCCCCCceEEEcCCCCcCCcccccCCCHHHCCCCC
Confidence            345555666677888999899999999999999999999877666666556666664  233454   467999999999


Q ss_pred             CCEEEEEce
Q 045424           80 GDEIDAMYH   88 (98)
Q Consensus        80 gD~Idv~~~   88 (98)
                      ..++.|...
T Consensus        82 sa~L~v~~~   90 (109)
T 2dzk_A           82 SASVVLLPA   90 (109)
T ss_dssp             EEEEEEECC
T ss_pred             ceEEEEEEC
Confidence            988877643

>4efo_A Serine/threonine-protein kinase TBK1; ubiquitin like domain, transferase; 1.77A {Homo sapiens}

Probab=97.27  E-value=0.0013  Score=41.46  Aligned_cols=52  Identities=6%  Similarity=-0.058  Sum_probs=44.1

Q ss_pred             cEEEEEEccC-CCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecC
Q 045424           16 LINLIIKSQD-GDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFD   67 (98)
Q Consensus        16 ~I~I~v~~~~-g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~   67 (98)
                      ...|+|-+.. +...+|.|.+++++..++++.+++.|+++.+.+++|.|+.+.
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            3456776654 456789999999999999999999999999999999997654

>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=97.24  E-value=0.0017  Score=40.49  Aligned_cols=70  Identities=16%  Similarity=0.289  Sum_probs=60.5

Q ss_pred             CCCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC---CeecCCCCChhhcCCCC
Q 045424           10 NKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN---GNRFDYSKTADQLGLKD   79 (98)
Q Consensus        10 ~~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd---G~~l~~~~Tp~~l~med   79 (98)
                      .+-|...+.+.|.-...+....+|.|..||+.|+-+.|++.++++..+.|+-|   ++.|+-+.+..+|+|..
T Consensus         4 ~~~PE~TvRLvVNy~~tQKtVvRVSP~vpL~ellp~IC~Kcefdp~~~~Ll~d~~~~e~LdLskSLndlgirE   76 (91)
T 2daj_A            4 GSSGEKTVRVVINFKKTQKTIVRVSPHASLQELAPIICSKCEFDPLHTLLLKDYQSQEPLDLTKSLNDLGLRE   76 (91)
T ss_dssp             CSCCCSCEEEEEEETTTEEEEEEECSSSCTTTHHHHHHHHTTCCTTSEEEESCSSCCCBCCTTSCHHHHTCSE
T ss_pred             CCCCccEEEEEEeecCcceeEEEeCCCCcHHHHHHHHhhcccCChhhEEEecCCCCCcccchhcchhhhhhhh
Confidence            34566888888876666677899999999999999999999999999888875   67888999999999986

>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=97.20  E-value=0.0043  Score=40.57  Aligned_cols=72  Identities=15%  Similarity=0.251  Sum_probs=56.7

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE--CCeec---CCCCChhhcCCCCCCEEEEE
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI--NGNRF---DYSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f--dG~~l---~~~~Tp~~l~medgD~Idv~   86 (98)
                      .+.++|.|+-++|..+.-++..+++|..|++..... +.+...+.|.-  =.+.+   ..+.|.++++|-....+.|.
T Consensus        41 ~~~t~IqIRlPdG~rl~~rF~~~~tl~~V~~fV~~~-~~~~~~F~L~t~fPrk~l~~~d~~~TL~e~gL~psa~Liv~  117 (124)
T 1wj4_A           41 GPKAQLMLRYPDGKREQITLPEQAKLLALVKHVQSK-GYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQ  117 (124)
T ss_dssp             SCEEEEEEECTTSCEEEEEEETTSCHHHHHHHHHHH-HCCTTTEEEECSSSCCEETSSCSSSCTTTTTCCSSBCCEEE
T ss_pred             CCcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHhc-CCCCCCeEEecCCCCcCCccCCCCCCHHHCCCCCceEEEEE
Confidence            577899999999999999999999999999866554 66666777764  35556   34789999999987766554

>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=97.17  E-value=0.0051  Score=37.20  Aligned_cols=72  Identities=14%  Similarity=0.116  Sum_probs=57.3

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE--CCeec---CCCCChhhcCCCCCCEEEEE
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI--NGNRF---DYSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f--dG~~l---~~~~Tp~~l~medgD~Idv~   86 (98)
                      .+..+|.|+.++|..+.-+...+++++.|++.... .+.+...+.|.-  =.+.+   +.+.|.++++|...+++-|-
T Consensus         5 ~~~~~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            5 EPVSKLRIRTPSGEFLERRFLASNKLQIVFDFVAS-KGFPWDEYKLLSTFPRRDVTQLDPNKSLLEVKLFPQETLFLE   81 (84)
T ss_dssp             CCEEEEEEECTTSCEEEEEEETTSBHHHHHHHHHH-TTCCTTTEEEECSSSCCBGGGSCTTSBTTTTTCCSEEEEEEE
T ss_pred             CCeEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHH-cCCCCCCeEEEeCCCCCCCcCCCCCCCHHHCCCCCCCEEEEE
Confidence            35677888889999998899999999999985544 666777788774  35566   46789999999999988774

>4a3p_A Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {Homo sapiens} PDB: 4a3o_A 3pv1_A 3ppa_A* 3t9l_A 3lmn_A

Probab=97.12  E-value=0.0022  Score=45.39  Aligned_cols=68  Identities=15%  Similarity=0.049  Sum_probs=57.4

Q ss_pred             EEEEEEcCccHHHHHHHHHHHhcCCCCc-ceeEEE-C----CeecCC-CCChhhcCCCCCCEEEEEceecCCCcc
Q 045424           28 KRFFQFNHDVEIKRLLIKYCETKSQPFK-STPFLI-N----GNRFDY-SKTADQLGLKDGDEIDAMYHAFGGGHD   95 (98)
Q Consensus        28 ~~~f~Ik~~t~l~kL~~~y~~~~g~~~~-~~rF~f-d----G~~l~~-~~Tp~~l~medgD~Idv~~~q~GG~~~   95 (98)
                      .+++.+.+.+++..|++.-|+.++++.+ .+|++. +    ...|.. +.|.+++++.+|+.|-+-++...|.|-
T Consensus       141 ~~~~~~Sk~~ti~~l~~~~~~~~~i~~~~~~RlW~~~~~~~~~~L~~~~~tl~~~~l~~~Q~illE~r~~dg~WP  215 (217)
T 4a3p_A          141 VVTRRFSKADTIDTIEKEIRKIFSIPDEKETRLWNKYMSNTFEPLNKPDSTIQDAGLYQGQVLVIEQKNEDGTWP  215 (217)
T ss_dssp             EEEEEECTTSBHHHHHHHHHHHTTCCTTSCEEEEEEEETTEEEECCCTTSBHHHHTCCTTCEEEEEECCCC-CCC
T ss_pred             ceEEEEcccchHHHHHHHHHHHhCCCCCCceEEEEecCCCCeeecCCCCCCHHHhCCCCCCEEEEEEecCCCCCC
Confidence            4678899999999999999999999886 799985 2    346666 569999999999999999998888763

>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=97.09  E-value=0.0031  Score=45.02  Aligned_cols=79  Identities=13%  Similarity=0.094  Sum_probs=62.5

Q ss_pred             EEEEEEccCC--CEEEEEEcCccHHHHHHHHHHHhcCCCCc-ceeEEE-C----CeecCC-CCChhhcCCCCCCEEEEEc
Q 045424           17 INLIIKSQDG--DKRFFQFNHDVEIKRLLIKYCETKSQPFK-STPFLI-N----GNRFDY-SKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus        17 I~I~v~~~~g--~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~-~~rF~f-d----G~~l~~-~~Tp~~l~medgD~Idv~~   87 (98)
                      +.+++.....  ..+++.+.+.+++..|++.-|+.++++.+ ++|++. +    ...|.. +.|.+++++.+|+.|-+-+
T Consensus       140 ~~l~l~~~~~~~~~~~~~~Sk~~ti~~l~~~~~~~~~i~~~~~~RLW~~~~~~~~~~L~~~~~tl~d~~L~~~Q~illE~  219 (231)
T 3jyu_A          140 LELKLCENSDPTNVLSCHFSKADTIATIEKEMRKLFNIPAERETRLWNKYMSNTYEQLSKLDNTIQDAGLYQGQVLVIEP  219 (231)
T ss_dssp             EEEEEEETTEEEEEEEEEECTTCBHHHHHHHHHHHTTCCTTSCEEEEECSSSSSCEECCCTTSBTTTTTCCTTEEEEEEE
T ss_pred             ceEEEEecCCCCceEEEEecccCcHHHHHHHHHHHhCCCCCCeEEEEEecCCCCHhhhcCCCCCHHHhCCCCCCEEEEEE
Confidence            4455543222  23568889999999999999999999886 799997 2    346665 6899999999999999988


Q ss_pred             eecCCCcc
Q 045424           88 HAFGGGHD   95 (98)
Q Consensus        88 ~q~GG~~~   95 (98)
                      +-..|.|-
T Consensus       220 r~~dg~WP  227 (231)
T 3jyu_A          220 QNEDGTWP  227 (231)
T ss_dssp             CCTTSCCC
T ss_pred             ecCCCCCC
Confidence            88777664

>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=96.72  E-value=0.02  Score=36.40  Aligned_cols=72  Identities=7%  Similarity=0.080  Sum_probs=55.9

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC--CeecC--CCCChhhcCCCCCCEEEEE
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN--GNRFD--YSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l~--~~~Tp~~l~medgD~Idv~   86 (98)
                      ...++|.|+-.+|..+.-++..+++++.|++... ..+.....+.|.-.  .+.+.  .+.|.++++|....++.|.
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            4679999999999999888999999999987554 44555566776542  44554  5789999999999888664

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

Probab=96.54  E-value=0.032  Score=32.56  Aligned_cols=67  Identities=22%  Similarity=0.359  Sum_probs=49.1

Q ss_pred             cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      .++|+|-...+ ...+.+...+++..|.+..    +++...+.+..||+.+..+.     -+.+||.|+++.--.||
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            36777755333 2356677778999888654    67777888999999988765     79999999998654443

>2kc2_A Talin-1, F1; FERM, adhesion, cell membrane, cell projection, cytoplasm, cytoskeleton, membrane, phosphoprotein, structural protein; NMR {Mus musculus}

Probab=96.53  E-value=0.012  Score=39.02  Aligned_cols=69  Identities=14%  Similarity=0.234  Sum_probs=55.5

Q ss_pred             EEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCc-cee------------------------------------EE
Q 045424           18 NLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFK-STP------------------------------------FL   60 (98)
Q Consensus        18 ~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~-~~r------------------------------------F~   60 (98)
                      .|+|+-.||...++.|..+.+...++...|.+.|+... .+-                                    +.
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            46777789999999999999999999999999999743 222                                    22


Q ss_pred             E--CCeecCCCCChhhcCCCCCCEEEEE
Q 045424           61 I--NGNRFDYSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus        61 f--dG~~l~~~~Tp~~l~medgD~Idv~   86 (98)
                      .  .+..|+++.|.-+.|+.++|++-..
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            2  1367888999999999999987553

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

Probab=96.43  E-value=0.019  Score=33.71  Aligned_cols=57  Identities=26%  Similarity=0.300  Sum_probs=43.0

Q ss_pred             EEEcCccHHHHHHHHHHHhcCCCC--cceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           31 FQFNHDVEIKRLLIKYCETKSQPF--KSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        31 f~Ik~~t~l~kL~~~y~~~~g~~~--~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +.+ ...++..|.+..+.+.++..  ..+.+..||+.+...+|    -+.|||+|.++.--.||
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 56899999999987655432  67889999999765444    59999999998766665

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

Probab=96.41  E-value=0.014  Score=34.91  Aligned_cols=65  Identities=11%  Similarity=0.148  Sum_probs=47.7

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGG   93 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~   93 (98)
                      |+|++.  ......+.+...+++..|.    +..|++.+.+....||+.+..++      +-+||.|++..---||-
T Consensus         3 v~Vkl~--g~~~~~~ev~~g~Tv~dLL----~~Lgl~~~~VvV~vNG~~v~~d~------~l~GD~VeIv~~V~G~~   67 (74)
T 2l32_A            3 VTVEVV--GEETSEVAVDDDGTYADLV----RAVDLSPHEVTVLVDGRPVPEDQ------SVEVDRVKVLRLIKGGL   67 (74)
T ss_dssp             EEEECS--SSSEEEEECSTTCSHHHHH----HTTCCCSSCCCEECCCCCCCTTS------SSCCCCEEECSSCSCC-
T ss_pred             EEEEEe--CccceeEEcCCCCcHHHHH----HHcCCCcceEEEEECCEECCHHH------CCCCCEEEEEEeecccc
Confidence            455553  3345568888888988886    57899998998888999887777      23599999976544553

>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=96.01  E-value=0.009  Score=36.06  Aligned_cols=67  Identities=21%  Similarity=0.348  Sum_probs=47.4

Q ss_pred             CCCEEEEEEcCccHHHHHHHHHHHhcCCC-CcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCCccc
Q 045424           25 DGDKRFFQFNHDVEIKRLLIKYCETKSQP-FKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGGHDH   96 (98)
Q Consensus        25 ~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~-~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~~~~   96 (98)
                      +|+...+.....+++..|.+.    .+++ ...+-...||+-|..+ .-++.-|.|||.|+++.---||..-|
T Consensus         6 NGe~~e~~~~~~~Tl~~LL~~----l~~~~~~~vAVavNg~iVpr~-~~~~~~L~dGD~IEIv~~VgGG~~~~   73 (78)
T 2k5p_A            6 NGKPSTVDGAESLNVTELLSA----LKVAQAEYVTVELNGEVLERE-AFDATTVKDGDAVEFLYFMGGGKLEH   73 (78)
T ss_dssp             TTEEEECSSCSCEEHHHHHHH----HTCSCTTTCCEEETTEECCTT-HHHHCEECSSBCEEECCCCCCSCCCC
T ss_pred             CCEEEEcCCCCCCcHHHHHHH----cCCCCCCcEEEEECCEECChH-HcCcccCCCCCEEEEEeeecCCCchh
Confidence            566555422156788888764    4677 7778899999877554 45566799999999987766775443

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

Probab=95.84  E-value=0.017  Score=35.66  Aligned_cols=68  Identities=22%  Similarity=0.213  Sum_probs=45.6

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCc-cHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHD-VEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~-t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      ...|+|.|   +|+.+.  +... .++..|.+..    +++...+.+..||+.+..+ .-++.-|.|||.|+++.- +||
T Consensus        18 ~~~M~I~v---NGe~~e--l~~~~~Tv~dLL~~L----~~~~~~vaVavNg~iV~~~-~~~~~~L~dGD~Vei~~~-V~G   86 (87)
T 1tyg_B           18 GGRHMLQL---NGKDVK--WKKDTGTIQDLLASY----QLENKIVIVERNKEIIGKE-RYHEVELCDRDVIEIVHF-VGG   86 (87)
T ss_dssp             ----CEEE---TTEEEC--CSSSCCBHHHHHHHT----TCTTSCCEEEETTEEECGG-GTTTSBCCSSSEEEEEEE-CCC
T ss_pred             CcceEEEE---CCEEEE--CCCCCCcHHHHHHHh----CCCCCCEEEEECCEECChh-hcCCcCCCCCCEEEEEcc-ccc
Confidence            34566666   666544  4555 7888888654    6777788899999988654 223345999999999874 444

>2kvr_A Ubiquitin carboxyl-terminal hydrolase 7; USP7, ubiquitin-like domain, UBL, ubiquitin specific protease, HOST-virus interaction, nucleus, protease; NMR {Homo sapiens}

Probab=95.13  E-value=0.021  Score=37.58  Aligned_cols=35  Identities=9%  Similarity=0.113  Sum_probs=32.5

Q ss_pred             EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC
Q 045424           28 KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN   62 (98)
Q Consensus        28 ~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd   62 (98)
                      ...|+|.++++|..|+..+++.+|++.+.+|||.=
T Consensus        57 ~~~~rv~k~~~~~~~~~~va~~lg~~~~~~RlW~~   91 (130)
T 2kvr_A           57 YTVFKVLKNSSLAEFVQSLSQTMGFPQDQIRLWPM   91 (130)
T ss_dssp             CEEEECCTTSBHHHHHHHHHHHHCCCGGGCEEEEC
T ss_pred             cceEEEeccCcHHHHHHHHHHHhCCCcccEEEEEe
Confidence            35799999999999999999999999999999983

>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=95.12  E-value=0.084  Score=32.40  Aligned_cols=45  Identities=4%  Similarity=-0.022  Sum_probs=41.2

Q ss_pred             cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC
Q 045424           16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN   62 (98)
Q Consensus        16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd   62 (98)
                      .++|||+..  ..+.++|.+..++..|.+..+++.+++.+.++|.|.
T Consensus         5 ~~~VKV~~~--~tvairvp~~~~y~~L~~~l~~kL~l~~~~~~LsYk   49 (83)
T 1oey_A            5 AYTLKVHYK--YTVVMKTQPGLPYSQVRDMVSKKLELRLEHTKLSYR   49 (83)
T ss_dssp             CEEEEEESS--SEEEEEECTTCCHHHHHHHHHHHTTCCGGGCCEEEC
T ss_pred             cEEEEEEEE--EEEEEECCCCCCHHHHHHHHHHHhCCCcceeEEEee
Confidence            489999986  689999999999999999999999999999999984

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

Probab=95.06  E-value=0.046  Score=31.38  Aligned_cols=61  Identities=20%  Similarity=0.169  Sum_probs=42.7

Q ss_pred             CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           25 DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        25 ~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +|..+.  +...+++..|.+..    +++...+.+..||+.+... .-.+.-+.|||.|+++.--.||
T Consensus         6 Ng~~~~--~~~~~tv~~ll~~l----~~~~~~v~vavN~~~v~~~-~~~~~~L~~gD~v~i~~~V~GG   66 (66)
T 1f0z_A            6 NDQAMQ--CAAGQTVHELLEQL----DQRQAGAALAINQQIVPRE-QWAQHIVQDGDQILLFQVIAGG   66 (66)
T ss_dssp             SSCEEC--CCTTCCHHHHHHHH----TCCCSSEEEEETTEEECHH-HHTTCCCCTTEEECEEESCCCC
T ss_pred             CCEEEE--cCCCCcHHHHHHHc----CCCCCCEEEEECCEECCch-hcCCcCCCCCCEEEEEeecccC
Confidence            666544  45667888888765    5677788899999988653 1123458999999998754443

>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=94.52  E-value=0.029  Score=35.46  Aligned_cols=59  Identities=25%  Similarity=0.355  Sum_probs=41.1

Q ss_pred             EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC----CeecC--------------CCCChhhcCCCCCCEEEEE
Q 045424           28 KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN----GNRFD--------------YSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus        28 ~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd----G~~l~--------------~~~Tp~~l~medgD~Idv~   86 (98)
                      .+.+.|.++.+|+.+++..|++..+...+-.+...    |..|.              -+.+..+|+++||++|.|.
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            45678899999999999999965444332222222    33322              2456789999999999885

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

Probab=94.39  E-value=0.26  Score=29.44  Aligned_cols=61  Identities=16%  Similarity=0.174  Sum_probs=46.2

Q ss_pred             CEEEEEEcCccHHHHHHHHHHHhcC-C-----C-----CcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           27 DKRFFQFNHDVEIKRLLIKYCETKS-Q-----P-----FKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        27 ~~~~f~Ik~~t~l~kL~~~y~~~~g-~-----~-----~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      .+..+.+....++..|++..+.++. +     +     ...+.+..||+.+.. +    --+.|||+|.++.--.||
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-G----EATAAGDELALFPPVSGG   89 (89)
T ss_dssp             SEEEEECCTTCBHHHHHHHHHHHCGGGHHHHBCTTSCBCTTSEEEETTEECCT-T----SBCCTTCEEEEECCCSCC
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHCcHHHHHHhccCCcccccEEEEECCEECCC-C----cccCCCCEEEEECCCCCC
Confidence            5677888777899999999888763 1     1     123788889999875 3    349999999998876665

>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=94.24  E-value=0.35  Score=29.58  Aligned_cols=61  Identities=18%  Similarity=0.298  Sum_probs=43.6

Q ss_pred             CEEEEEEcCccHHHHHHHHHHHhcC-C----------CCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           27 DKRFFQFNHDVEIKRLLIKYCETKS-Q----------PFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        27 ~~~~f~Ik~~t~l~kL~~~y~~~~g-~----------~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      ....+.+...+++..|++..+.++. +          ....+.+..||+.+..     +.-+.|||+|.++.--.||
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            4667888778899999999887642 1          1245778889998863     4469999999987754444

>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=94.01  E-value=0.14  Score=29.90  Aligned_cols=59  Identities=15%  Similarity=0.112  Sum_probs=41.5

Q ss_pred             EEEEEEcCccHHHHHHHHHHHhcC-----CCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           28 KRFFQFNHDVEIKRLLIKYCETKS-----QPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        28 ~~~f~Ik~~t~l~kL~~~y~~~~g-----~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      ...+. ....++..|++..+.++.     +....+.+..||+.+..     +--+.|||+|.++.--.||
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            44554 456789999988876542     22345778899998852     4469999999998765554

>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=93.96  E-value=0.69  Score=29.91  Aligned_cols=70  Identities=16%  Similarity=0.226  Sum_probs=51.0

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHh-cCCCCcceeEEE--CCeecC-CCCChhhcCCCCCCEEE
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCET-KSQPFKSTPFLI--NGNRFD-YSKTADQLGLKDGDEID   84 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~-~g~~~~~~rF~f--dG~~l~-~~~Tp~~l~medgD~Id   84 (98)
                      ...+|.|+-.||..+.-++..++++..|++-.... .+.....+.|..  =.+.+. .+.|.++++|...-+|.
T Consensus        51 ~~t~IqIRlpdG~rl~~rF~~~~tl~~v~~fV~~~~~~~~~~~f~L~t~fPrk~l~d~~~TL~eagL~psavl~  124 (127)
T 1s3s_G           51 PTTNIQIRLADGGRLVQKFNHSHRISDIRLFIVDARPAMAATSFVLMTTFPNKELADENQTLKEANLLNAVIVQ  124 (127)
T ss_dssp             CCCCEEEEETTTTEEEEECCSSCBHHHHHHHHHHHCSGGGTSCEEEEETTTTEECCSTTCBHHHHTCSSCEEEE
T ss_pred             CcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHHhCcCCCCCCeEEecCCCCCCCCCCCCcHHHCCCcCceEEE
Confidence            45666666689999999999999999999876554 233345566654  355565 37899999999865554

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

Probab=93.93  E-value=0.11  Score=30.25  Aligned_cols=60  Identities=10%  Similarity=0.104  Sum_probs=43.0

Q ss_pred             CEEEEEEcCccHHHHHHHHHHHhcCCCCcce--eEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           27 DKRFFQFNHDVEIKRLLIKYCETKSQPFKST--PFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        27 ~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~--rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      ....+.+....++..|.+....++. ....+  .+..||+.+..+     .-+.|||.|+++.--.||
T Consensus        16 ~~~~~~~~~~~tv~~ll~~l~~~~p-~~~~v~~~v~vNg~~v~~~-----~~L~~gD~V~i~ppv~GG   77 (77)
T 2q5w_D           16 AQEDIVLEQALTVQQFEDLLFERYP-QINNKKFQVAVNEEFVQKS-----DFIQPNDTVALIPPVSGG   77 (77)
T ss_dssp             SEEECCCSSCEEHHHHHHHHHHHCG-GGTTCCCEEEETTEEECTT-----SEECTTCEEEEECSCCCC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHCc-chhcceEEEEECCEECCCC-----CCcCCCCEEEEECCCCCC
Confidence            3456666677899999998877642 11334  788899998753     469999999997654444

>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=93.81  E-value=0.11  Score=29.50  Aligned_cols=60  Identities=23%  Similarity=0.362  Sum_probs=41.8

Q ss_pred             CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           25 DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        25 ~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +|+.+.+   ...++..|.+..    +++...+.+..||+.+..+ .-.+.-+.|||.|+++.--.||
T Consensus         5 Ng~~~~~---~~~tv~~ll~~l----~~~~~~v~vavN~~~v~~~-~~~~~~L~dgD~v~i~~~V~GG   64 (64)
T 2cu3_A            5 NGEPRPL---EGKTLKEVLEEM----GVELKGVAVLLNEEAFLGL-EVPDRPLRDGDVVEVVALMQGG   64 (64)
T ss_dssp             TTEEECC---TTCCHHHHHHHH----TBCGGGEEEEETTEEEEGG-GCCCCCCCTTCEEEEEECCCC-
T ss_pred             CCEEEEc---CCCcHHHHHHHc----CCCCCcEEEEECCEECCcc-ccCCcCCCCCCEEEEEeecccC
Confidence            5665544   567888888765    5667788899999988653 1122369999999998754443

>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=93.73  E-value=0.71  Score=33.40  Aligned_cols=68  Identities=12%  Similarity=0.040  Sum_probs=51.3

Q ss_pred             CCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC-cceeEEE--CCe--ecCCCCChhhcCCCCCC
Q 045424           13 PQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF-KSTPFLI--NGN--RFDYSKTADQLGLKDGD   81 (98)
Q Consensus        13 ~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~-~~~rF~f--dG~--~l~~~~Tp~~l~medgD   81 (98)
                      ....+.++|.-.|| .+.|.|..+++.+.|++..|++.|+.. +-+-+.|  +|.  .|.++.+..+.+...+.
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            46789999999999 788999999999999999999999954 4455555  555  47777777665444333

>2ylm_A Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70A {Homo sapiens}

Probab=93.08  E-value=0.36  Score=38.16  Aligned_cols=77  Identities=21%  Similarity=0.251  Sum_probs=59.4

Q ss_pred             CCCCcEEEEEEc--cCCCEE----EEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC------CeecC-CCCChhhc--C
Q 045424           12 KPQHLINLIIKS--QDGDKR----FFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN------GNRFD-YSKTADQL--G   76 (98)
Q Consensus        12 ~~~~~I~I~v~~--~~g~~~----~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd------G~~l~-~~~Tp~~l--~   76 (98)
                      .++..|-|.++-  +....+    ++.|++++++..|....+++.|++.++=-.+|.      -++|. .+.|.++.  +
T Consensus       126 ~~~~~iLlFlK~yDp~~q~L~~~G~~~v~~~~kv~~l~~~i~~~~g~p~dt~l~lyEEi~~~~ie~l~~~~~t~~~~~~e  205 (530)
T 2ylm_A          126 DKDHDVMLFLKMYDPKTRSLNYCGHIYTPISCKIRDLLPVMCDRAGFIQDTSLILYEEVKPNLTERIQDYDVSLDKALDE  205 (530)
T ss_dssp             CTTTEEEEEEEEEETTTTEEEEEEEEEEETTCBGGGTHHHHHHHHTCCTTCCEEEEEEEETTEEEECCCSSSBHHHHSTT
T ss_pred             CCCCcEEEEEEeeCCCCCEEEEEEEEEECCCCCHHHHHHHHHHHcCCCCCCceEEEEecCCCceeEcccccccHHHHHhc
Confidence            345667777775  445555    588999999999999999999998854444444      45678 89999999  9


Q ss_pred             CCCCCEEEEEce
Q 045424           77 LKDGDEIDAMYH   88 (98)
Q Consensus        77 medgD~Idv~~~   88 (98)
                      +.|||+|-+...
T Consensus       206 L~~GdII~fQ~~  217 (530)
T 2ylm_A          206 LMDGDIIVFQKD  217 (530)
T ss_dssp             CCTTEEEEEEEC
T ss_pred             ccCCCEEEEEec
Confidence            999998866543

>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=92.63  E-value=0.69  Score=28.45  Aligned_cols=79  Identities=16%  Similarity=0.230  Sum_probs=62.2

Q ss_pred             CCcEEEEEEcc-C-C-CEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE-CCeecCCCCChhhcCCCCCCEEEEEce-
Q 045424           14 QHLINLIIKSQ-D-G-DKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI-NGNRFDYSKTADQLGLKDGDEIDAMYH-   88 (98)
Q Consensus        14 ~~~I~I~v~~~-~-g-~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG~~l~~~~Tp~~l~medgD~Idv~~~-   88 (98)
                      ..+++.+|.-. | . ....+.|-..+||..+..--|+.++++....-.+- ||.=|++.+|+...=|+.|..+-+..+ 
T Consensus         8 ~~kVtFkItltSdpklpfkvlsVPE~~PftAVlkfaaEeF~vp~~TsAiiT~dGiGInP~QtAGnvFlKhGseLrlIPRD   87 (92)
T 1j0g_A            8 MSKVSFKITLTSDPRLPYKVLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRIIPRD   87 (92)
T ss_dssp             SCEEEEEEEETTSTTCCEEEEEEETTSBHHHHHHHHHHHTTCCSSSEEEECTTSCCCCCSSBHHHHHHHTCSEEEEEECC
T ss_pred             CceEEEEEEEccCCCCCceEEecCccCchHHHHHHHHHHcCCCccceEEEecCCcccChhhccchhhhhcCceeEecccc
Confidence            46777777532 2 2 23478999999999999999999999886655444 899999999999999999999988854 


Q ss_pred             ecCC
Q 045424           89 AFGG   92 (98)
Q Consensus        89 q~GG   92 (98)
                      .+||
T Consensus        88 RVG~   91 (92)
T 1j0g_A           88 RVGS   91 (92)
T ss_dssp             SSCC
T ss_pred             cccC
Confidence            3443

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

Probab=92.51  E-value=0.65  Score=27.45  Aligned_cols=61  Identities=31%  Similarity=0.358  Sum_probs=41.1

Q ss_pred             EEEcCccHHHHHHHHHHHhcC------C--C---CcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           31 FQFNHDVEIKRLLIKYCETKS------Q--P---FKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        31 f~Ik~~t~l~kL~~~y~~~~g------~--~---~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +.+....++..|++..+.++.      +  +   ...+.+..||+.+...+ -.+.-+.|||+|.++.--.||
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            345556899999999887752      1  0   14678889999886321 123349999999987654444

>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=92.45  E-value=0.93  Score=32.35  Aligned_cols=64  Identities=13%  Similarity=0.088  Sum_probs=47.9

Q ss_pred             cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC-cceeEEE---CCe--ecCCCCChhhcCCCCC
Q 045424           16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF-KSTPFLI---NGN--RFDYSKTADQLGLKDG   80 (98)
Q Consensus        16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~-~~~rF~f---dG~--~l~~~~Tp~~l~medg   80 (98)
                      .|+++|.-.|| .+.|.|..+++-+.|++..|++.|+.. .-+-|.|   +|.  .|..+.+..+.+...+
T Consensus         1 ~i~~~V~l~d~-~~~~~v~~~tt~~el~~~v~~~l~L~e~~~FgL~~~~~~~~~~wLd~~~~l~~q~~~~~   70 (294)
T 1ef1_A            1 TISVRVTTMDA-ELEFAIQPNTTGKQLFDQVVKTIGLREVWFFGLQYQDTKGFSTWLKLNKKVTAQDVRKE   70 (294)
T ss_dssp             CEEEEEEETTE-EEEEEECTTCBHHHHHHHHHHHHTCCCGGGEEEEEEBTTSCEEECCSSSBGGGSCBCCC
T ss_pred             CEEEEEEECCc-eEEEEECCCCcHHHHHHHHHHHcCCCCcceeEEEEECCCCceeecccccCHHhhccCCC
Confidence            47788888888 688999999999999999999999954 4455555   444  4666666666544333

>1wz3_A Autophagy 12B, ATG12B, APG12B; ubiquitin-fold, plant protein; 1.80A {Arabidopsis thaliana} SCOP: d.15.1.7

Probab=92.02  E-value=0.38  Score=30.02  Aligned_cols=64  Identities=9%  Similarity=0.060  Sum_probs=44.6

Q ss_pred             CCCCCCcEEEEEEccCCCE----EEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECC-eecCCCCChhhc
Q 045424           10 NKKPQHLINLIIKSQDGDK----RFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLING-NRFDYSKTADQL   75 (98)
Q Consensus        10 ~~~~~~~I~I~v~~~~g~~----~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG-~~l~~~~Tp~~l   75 (98)
                      .+.+.++|+|+++...+.+    ..|.|..+.++..++.-..++..++  .+-++.+. -.-..++|..+|
T Consensus         7 ~~~~~~KV~V~~~~~~~~P~l~k~KflV~~~~t~~~~~~~lRkrL~l~--alFlyvn~~~~Ps~d~~m~~L   75 (96)
T 1wz3_A            7 SPNSVQKIVVHLRATGGAPILKQSKFKVSGSDKFANVIDFLRRQLHSD--SLFVYVNSAFSPNPDESVIDL   75 (96)
T ss_dssp             -----CEEEEEEEECTTCCCCSCCEEEEETTSBTHHHHHHHHHHHTCS--SCEEEEEEEECCCTTSBHHHH
T ss_pred             CCCCCCeEEEEEEECCCCCcccccEEEeCCCCcHHHHHHHHHHhcCCc--eEEEEECCcccCChhhHHHHH
Confidence            3345788999998764433    4899999999999999999999887  44443344 234557788877

>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=91.39  E-value=1.5  Score=26.76  Aligned_cols=61  Identities=11%  Similarity=0.184  Sum_probs=50.4

Q ss_pred             EEEEEEcCccHHHHHHHHHHHh-cCC-----CCcceeEEECC--eecCCCCChhhcCCCCCCEEEEEce
Q 045424           28 KRFFQFNHDVEIKRLLIKYCET-KSQ-----PFKSTPFLING--NRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        28 ~~~f~Ik~~t~l~kL~~~y~~~-~g~-----~~~~~rF~fdG--~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      ..-+-|...++|..+-++.+-. .|.     +-+.++..++|  +.+..+.|.++-+|..-|+|||+.+
T Consensus        14 ~~LV~VDt~dTmdqVA~kvA~HsVGrRV~p~p~~~~rVr~~G~~~~~pr~~tvae~gl~P~e~vev~~~   82 (83)
T 2inc_C           14 IQLVPVDTEDTMDQVAEKCAYHSINRRVHPQPEKILRVRRHEDGTLFPRGMIVSDAGLRPTETLDIIFM   82 (83)
T ss_dssp             EEEEEECTTCBHHHHHHHHHTTTBTTTBCCCTTSEEEEEETTTCCEECTTCBGGGSCCCTTCEEEEEEE
T ss_pred             EEEEEecCCCcHHHHHHHHhhhhcceecCCCCCCeEEEEecCCccCCCCCCEeeccCCCCceEEEEEEc
Confidence            3467888999999998888763 333     22478999999  9999999999999999999999874

>2ylm_A Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70A {Homo sapiens}

Probab=90.89  E-value=0.25  Score=39.05  Aligned_cols=35  Identities=9%  Similarity=0.113  Sum_probs=32.3

Q ss_pred             EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC
Q 045424           28 KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN   62 (98)
Q Consensus        28 ~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd   62 (98)
                      ...|+|.+++++..|++..++..|++.+.+|||.=
T Consensus        37 ~~~~rv~k~~~~~~l~~~va~~lg~~~~~~RlW~~   71 (530)
T 2ylm_A           37 YTVFKVLKNSSLAEFVQSLSQTMGFPQDQIRLWPM   71 (530)
T ss_dssp             CEEEEEETTSBHHHHHHHHHHHHTSCGGGEEEEEE
T ss_pred             cceEEEcCcCCHHHHHHHHHHHhCcCcccEEEEEE
Confidence            34799999999999999999999999999999973

>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=90.71  E-value=2.3  Score=31.50  Aligned_cols=70  Identities=17%  Similarity=0.210  Sum_probs=57.3

Q ss_pred             cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCC----CCcceeEEE------CCeecCCCCChhhcCCCCCCEEEE
Q 045424           16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQ----PFKSTPFLI------NGNRFDYSKTADQLGLKDGDEIDA   85 (98)
Q Consensus        16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~----~~~~~rF~f------dG~~l~~~~Tp~~l~medgD~Idv   85 (98)
                      .+.++|.-. +...++.+.+++++..+....+++.+-    +.+..-++.      .|..|..+.|.+.+++.+|+.|+.
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            356677655 666789999999999999999888753    567877777      467899999999999999999876


Q ss_pred             E
Q 045424           86 M   86 (98)
Q Consensus        86 ~   86 (98)
                      .
T Consensus        82 ~   82 (371)
T 3ivf_A           82 R   82 (371)
T ss_dssp             E
T ss_pred             c
Confidence            5

>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=90.67  E-value=1.7  Score=26.72  Aligned_cols=46  Identities=11%  Similarity=0.026  Sum_probs=39.3

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC-cceeEEE
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF-KSTPFLI   61 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~-~~~rF~f   61 (98)
                      ..|+||+.- +|..+.+++.++.++..|.+..++++++.. ..+.+.|
T Consensus         5 ~~vkvK~~~-~gdi~~~~v~~~i~~~~L~~kv~~~~~~~~~~~f~lky   51 (89)
T 1vd2_A            5 SQVRVKAYY-RGDIMITHFEPSISFEGLCNEVRDMCSFDNEQLFTMKW   51 (89)
T ss_dssp             SCEEEEEES-SSCEEEEEECTTCCHHHHHHHHHHHTTCCSSCCEEEEE
T ss_pred             CeEEEEEEe-CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCeEEEEE
Confidence            558888864 677889999999999999999999999875 4588887

>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=90.16  E-value=1.5  Score=27.02  Aligned_cols=60  Identities=7%  Similarity=0.017  Sum_probs=43.4

Q ss_pred             CCcEEEEEEccCCCE----EEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCe-ecCCCCChhhc
Q 045424           14 QHLINLIIKSQDGDK----RFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGN-RFDYSKTADQL   75 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~----~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~-~l~~~~Tp~~l   75 (98)
                      .++|+|+++...+.+    ..|.|..+.++..++.-.+++.++  +.+-++.+.. .-.+++|..+|
T Consensus         6 ~~Kv~vrfk~~g~~P~l~k~KflV~~~~t~~~~v~~lRkrL~l--~alFlyVNn~f~Ps~d~~~~~L   70 (91)
T 3w1s_C            6 IQKIQIKFQPIGSIGQLKPSVCKISMSQSFAMVILFLKRRLKM--DHVYCYINNSFAPSPQQNIGEL   70 (91)
T ss_dssp             CCEEEEEEEECCC-------EEEEETTSBHHHHHHHHHHHHTC--SCCEEEETTTBCCCTTSBHHHH
T ss_pred             CCeEEEEEEecCCCCcccccEEEcCCCCCHHHHHHHHHHhhCC--ceEEEEECCccCCCcccHHHHH
Confidence            467999998754433    379999999999999999999998  4554444765 34456777765

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

Probab=89.53  E-value=1  Score=25.50  Aligned_cols=65  Identities=9%  Similarity=0.083  Sum_probs=40.5

Q ss_pred             EEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           19 LIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        19 I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      |+|..++|....  +...+++..|...+....  ....+-...||+.+..+     .-+++||.|+++.--.+.
T Consensus         3 i~i~~p~g~~~~--~~~g~T~~dla~~i~~~l--~~~~vaa~vNg~lvdl~-----~~L~~~~~Veivt~~~~~   67 (73)
T 2kmm_A            3 VMVFTPKGEIKR--LPQGATALDFAYSLHSDL--GDHCIGAKVNHKLVPLS-----YVLNSGDQVEVLSSKSLE   67 (73)
T ss_dssp             EEEECTTCCEEE--ECTTCBHHHHHHHHCSHH--HHTEEEEEETTEECCTT-----CBCCSSSBEEEEECCCCC
T ss_pred             EEEEcCCCCEEE--cCCCCcHHHHHHHHhhcc--ccceEEEEECCEEeCCC-----cCcCCCCEEEEEECCCCc
Confidence            555556787644  556677777766552221  12345556799877664     556789999988654443

>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=89.47  E-value=1.2  Score=27.43  Aligned_cols=69  Identities=14%  Similarity=0.183  Sum_probs=50.2

Q ss_pred             CCcEEEEEEccCCCE----EEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE-CCee-cCCCCChhhc----CCCCCCEE
Q 045424           14 QHLINLIIKSQDGDK----RFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI-NGNR-FDYSKTADQL----GLKDGDEI   83 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~----~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG~~-l~~~~Tp~~l----~medgD~I   83 (98)
                      ..+|+|+++.....+    ..|.|..+.++..++.-..++..+++++--|+| +..- -.+++|..+|    . +||-.+
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            357889988754432    489999999999999999999999887666666 6543 3457787665    4 555544

>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=89.24  E-value=4.3  Score=29.95  Aligned_cols=48  Identities=13%  Similarity=0.218  Sum_probs=41.4

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC-cceeEEE
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF-KSTPFLI   61 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~-~~~rF~f   61 (98)
                      ...+.++|.-.||....|.|..+++-+.|++..|++.|+.. +-+-+.+
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            46688899999999999999999999999999999999954 5566655

>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=89.00  E-value=2.8  Score=33.46  Aligned_cols=66  Identities=15%  Similarity=0.104  Sum_probs=49.2

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC-cceeEEE---CC--eecCCCCChhhcCCCCCC
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF-KSTPFLI---NG--NRFDYSKTADQLGLKDGD   81 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~-~~~rF~f---dG--~~l~~~~Tp~~l~medgD   81 (98)
                      ..|.++|.-.|| .+.|.|..+++...|++..|.+.|+.. .-+-|.|   +|  ..|.++.+..+.+...+.
T Consensus         3 k~i~v~V~llDg-t~e~~vd~~tt~~ell~~V~~~LgL~e~~~FGL~~~d~~~~~~WLd~~k~i~~q~~~~~~   74 (575)
T 2i1j_A            3 KSMNVRVTTMDA-ELEFAIQQTTTGKQLFDQVVKTIGLREVWFFGLQYTDSKGDLTWIKLYKKVMQQDVKKEN   74 (575)
T ss_dssp             CEEEEEEECSSC-EEEEEEETTCBHHHHHHHHHHHHTCCCGGGEEEEEEBTTSCEEECCTTSBGGGSCBCCCS
T ss_pred             ceEEEEEEeCCC-eEEEEECCCCCHHHHHHHHHHHcCCCCccceeEEEEecCcchhHhhccccHHHhcccCCC
Confidence            568899998898 678999999999999999999999954 4556665   23  256666666655443333

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

Probab=88.95  E-value=0.29  Score=28.78  Aligned_cols=53  Identities=19%  Similarity=0.264  Sum_probs=39.0

Q ss_pred             EEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           31 FQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        31 f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +.+...+++..|.+.    .+++...+.+..||+.+..+     .-+.|||.|+++.--.||
T Consensus        25 ~~~~~~~Tv~dLl~~----L~~~~~~v~VavNg~~v~~~-----~~L~dGD~V~i~ppv~GG   77 (77)
T 1rws_A           25 IEWREGMKVRDILRA----VGFNTESAIAKVNGKVVLED-----DEVKDGDFVEVIPVVSGG   77 (77)
T ss_dssp             CCCCSSCCHHHHHHT----TTCSSCSSCEEETTEEECSS-----SCCCSSCCCBCSCCCCCC
T ss_pred             EECCCCCcHHHHHHH----hCCCCcCEEEEECCEECCCC-----CCcCCCCEEEEEcccccC
Confidence            344566788887754    45667788899999998764     569999999987654444

>1rrb_A RAF-1 RBD, RAF proto-oncogene serine/threonine-protein kinase; RAS-binding domain, transferase, riken structural genomics/proteomics initiative; NMR {Rattus norvegicus} SCOP: d.15.1.5

Probab=88.85  E-value=3.2  Score=26.48  Aligned_cols=65  Identities=14%  Similarity=0.300  Sum_probs=45.5

Q ss_pred             EEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEE-E----CC--eecCCCCChhhcCCCCCCEEEEE
Q 045424           19 LIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFL-I----NG--NRFDYSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus        19 I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~-f----dG--~~l~~~~Tp~~l~medgD~Idv~   86 (98)
                      |++.-++++...+.|++..++..-..+--++.|+.++.+..+ .    +|  .+|.=+.-..+|.   |++|.|-
T Consensus        21 ir~hLPNqQrT~V~VrpG~tlrdaL~KaLk~R~L~pe~C~Vy~~~~~~~~~~~~i~WdtDi~~L~---geEL~Ve   92 (107)
T 1rrb_A           21 IRVFLPNKQRTVVNVRNGMSLHDCLMKALKVRGLQPECCAVFRLLQEHKGKKARLDWNTDAASLI---GEELQVD   92 (107)
T ss_dssp             EEEECTTTCCEEEECCTTCBHHHHHHHHHHHHTCCTTTEEEEECCCSCSSSCEECCTTCBHHHHT---TSEEEEE
T ss_pred             EEEECCCCCeEEEEecCCcCHHHHHHHHHHHcCCCHHHceeEEccccCCCcccccchhhhhhhcc---CcEEEEE
Confidence            444448888889999999999998888888999987665544 3    35  2444444455543   6666664

>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=88.57  E-value=1  Score=32.60  Aligned_cols=61  Identities=13%  Similarity=0.031  Sum_probs=45.5

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC-cceeEEE---CCe--ecCCCCChhh
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF-KSTPFLI---NGN--RFDYSKTADQ   74 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~-~~~rF~f---dG~--~l~~~~Tp~~   74 (98)
                      ...|.++|.-.||....|.|...++-+.|++..|++.|+.. .-+-|.|   +|.  .|+.+.+..+
T Consensus        15 ~~~~~~~V~lldgt~~~~~vd~~tt~~el~~~v~~~l~L~e~~~FgL~~~~~~~~~~wLd~~k~i~~   81 (296)
T 3qij_A           15 YFQGHCKVSLLDDTVYECVVEKHAKGQDLLKRVCEHLNLLEEDYFGLAIWDNATSKTWLDSAKEIKK   81 (296)
T ss_dssp             --CCEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHTCSSGGGEEEEEEEETTEEEECCTTSBHHH
T ss_pred             CceEEEEEEccCCCEEEEEECCCCCHHHHHHHHHHHcCCCCcceeEEEEEcCCCccchhccchhHHH
Confidence            56788888889999999999999999999999999999964 4455555   232  3555555444

>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=88.57  E-value=1.7  Score=25.93  Aligned_cols=61  Identities=13%  Similarity=0.184  Sum_probs=42.6

Q ss_pred             EEEEcCccHHHHHHHHHHHhcCC------C-------CcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           30 FFQFNHDVEIKRLLIKYCETKSQ------P-------FKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        30 ~f~Ik~~t~l~kL~~~y~~~~g~------~-------~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      .+.. ..+++..|++..++++.-      +       ...+.+..||+.+...+-+ +.-+.|||+|.++.--.||
T Consensus        20 ~~~~-~~~Tv~~ll~~L~~~~p~l~~~l~~~~~~g~~~~~~~v~VN~~~v~~~~~~-~~~L~~gDeV~i~Ppv~GG   93 (93)
T 3dwg_C           20 SVSA-SGDTLGAVISDLEANYSGISERLMDPSSPGKLHRFVNIYVNDEDVRFSGGL-ATAIADGDSVTILPAVAGG   93 (93)
T ss_dssp             EEEE-CCSBHHHHHHHHHHHSTTHHHHHBCSSSTTSBCTTEEEEETTEEGGGTTGG-GCBCCTTCEEEEEECCTTC
T ss_pred             EEec-CCCCHHHHHHHHHHHChhHHHHHhccccCCcccCCEEEEECCEEccCcCCC-CcCCCCCCEEEEECCCCCC
Confidence            3444 457899999999887631      1       1247889999988753222 3348999999988776665

>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=88.24  E-value=1.5  Score=27.25  Aligned_cols=69  Identities=16%  Similarity=0.167  Sum_probs=49.5

Q ss_pred             CcEEEEEEcc--CC-CEEEEEEcCccHHHHHHHHHH--Hhc-CCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424           15 HLINLIIKSQ--DG-DKRFFQFNHDVEIKRLLIKYC--ETK-SQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        15 ~~I~I~v~~~--~g-~~~~f~Ik~~t~l~kL~~~y~--~~~-g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      +.|.|.|.-.  +. ..+.+.+...+++..+.++..  +.+ .++.+.+.+..+|+.+.     .+--|.|||.|+++.-
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            4566666542  32 234678889999999998874  333 56666788888998886     3444999999999753

>3u7z_A Putative metal binding protein rumgna_00854; the binding protein, transport protein, structural genomics, center for structural genomics; 1.30A {Ruminococcus gnavus}

Probab=87.84  E-value=1.7  Score=27.37  Aligned_cols=73  Identities=18%  Similarity=0.284  Sum_probs=45.6

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCcc-HHHHHH-HHHH--Hhc-----------CCC--Ccc---eeEEECCeecCCCCChh
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDV-EIKRLL-IKYC--ETK-----------SQP--FKS---TPFLINGNRFDYSKTAD   73 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t-~l~kL~-~~y~--~~~-----------g~~--~~~---~rF~fdG~~l~~~~Tp~   73 (98)
                      ...|+|.|...++....|.|.+.- .|..+| +++.  ...           |+.  .+.   -.|.-+|+.+..  -+.
T Consensus         6 ~k~i~i~v~~~~~~~~~~~v~t~g~tL~dvLk~~~~ve~e~s~~G~fITsI~G~~ad~~~~~yW~~~vng~~~~~--Ga~   83 (101)
T 3u7z_A            6 EKHITVTVIHGDQTENVFEFDTDAKYLGEVLESENLVDGESGEYGLFITTVDEETADDSKQQWWCITKGGEQVNT--SAD   83 (101)
T ss_dssp             CEEEEEEEECTTSCEEEEEEEECCSBHHHHHHHTTCEEEECCTTSCEEEEETTEECCGGGTEEEEEEETTEECCS--CGG
T ss_pred             eeEEEEEEEcCCCceeEEEEcCCccHHHHHHHHcCccccccccccceEEEEcCEecCCCCCCEEEEEECCEEhhh--chh
Confidence            467999999999988878777332 344444 3331  000           110  111   124447777664  788


Q ss_pred             hcCCCCCCEEEEEce
Q 045424           74 QLGLKDGDEIDAMYH   88 (98)
Q Consensus        74 ~l~medgD~Idv~~~   88 (98)
                      ++-++|||.|.+.+.
T Consensus        84 ~~~v~dGD~i~~~~t   98 (101)
T 3u7z_A           84 QTPVSDGDAFELTLK   98 (101)
T ss_dssp             GCBCCTTCEEEEEEE
T ss_pred             heEecCCCEEEEEEe
Confidence            999999999998764

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

Probab=87.60  E-value=3.2  Score=25.23  Aligned_cols=65  Identities=20%  Similarity=0.229  Sum_probs=42.4

Q ss_pred             CEEEEEEc--CccHHHHHHHHHHHhcCCCC---------c----ceeEEECCeecCCCCChhhcCCCCCCEEEEEceecC
Q 045424           27 DKRFFQFN--HDVEIKRLLIKYCETKSQPF---------K----STPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFG   91 (98)
Q Consensus        27 ~~~~f~Ik--~~t~l~kL~~~y~~~~g~~~---------~----~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   91 (98)
                      .+..+.+.  ..+++..|.+..++++.-..         .    .+.+..||+.+..... .+.-+.|||+|.++.--.|
T Consensus        20 ~~~~~~l~~~~~~Tv~~L~~~L~~~~~~~~~~l~~~~~~~~lr~~~~v~VN~~~~~~~~~-~d~~L~dgDeVa~~Ppv~G   98 (99)
T 2qjl_A           20 RVHKIKMDKEDPVTVGDLIDHIVSTMINNPNDVSIFIEDDSIRPGIITLINDTDWELEGE-KDYILEDGDIISFTSTLHG   98 (99)
T ss_dssp             CEEEEEECSCSCCBHHHHHHHHHHHTCSSGGGHHHHEETTEECTTEEEEETTEEGGGGTG-GGCBCCTTCEEEEEECTTC
T ss_pred             cEEEEecCCCCCCcHHHHHHHHHHHCchhhHHHhhhccCCccccCeEEEECCEEccccCC-CCcCcCCCCEEEEECCCCC
Confidence            45566665  56899999999888763111         1    2457778886542211 2335999999998876555


Q ss_pred             C
Q 045424           92 G   92 (98)
Q Consensus        92 G   92 (98)
                      |
T Consensus        99 G   99 (99)
T 2qjl_A           99 G   99 (99)
T ss_dssp             C
T ss_pred             C
Confidence            5

>2zjd_A Microtubule-associated proteins 1A/1B light chain 3B precursor; autophagy, LC3, microtubule-associated protein 1 light chain 3, cytoplasm, cytoplasmic vesicle, lipoprotein; 1.56A {Homo sapiens} SCOP: d.15.1.3 PDB: 2z0e_B 2zzp_B 2z0d_B 1ugm_A 1v49_A 2k6q_A 3eci_A

Probab=87.40  E-value=4.4  Score=26.46  Aligned_cols=72  Identities=18%  Similarity=0.158  Sum_probs=52.7

Q ss_pred             CCcEEEEEEccCCC-------EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEE-E-CCeecCCCCChhhcC----CCCC
Q 045424           14 QHLINLIIKSQDGD-------KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFL-I-NGNRFDYSKTADQLG----LKDG   80 (98)
Q Consensus        14 ~~~I~I~v~~~~g~-------~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~-f-dG~~l~~~~Tp~~l~----medg   80 (98)
                      .++|.|.|.-..+.       ...|.|..+.++..++....++.+++.++--|+ | ++.....++|..+|-    =+||
T Consensus        33 P~kIPVIvEk~~~s~~~P~Ldk~KflVp~~~tv~qf~~~iRkrL~l~~~~alFl~~vn~~~p~~~~~m~~lY~~~kdeDG  112 (130)
T 2zjd_A           33 PTKIPVIIERYKGEKQLPVLDKTKFLVPDHVNMSELIKIIRRRLQLNANQAFFLLVNGHSMVSVSTPISEVYESEKDEDG  112 (130)
T ss_dssp             TTEEEEEEEECTTCCSSCCCSCCEEEEETTCBHHHHHHHHHHHHTCCTTCCEEEEETTTEECCTTSBHHHHHHHHCCTTS
T ss_pred             CCceEEEEEEcCCCCcCccccccEEEcCCCCcHHHHHHHHHHHhCCCCCceEEEEEECCccCCccchHHHHHHHhCCCCC
Confidence            47888888644332       247999999999999999999999988777777 7 454555677888872    2666


Q ss_pred             CEEEE
Q 045424           81 DEIDA   85 (98)
Q Consensus        81 D~Idv   85 (98)
                      -..-.
T Consensus       113 fLyv~  117 (130)
T 2zjd_A          113 FLYMV  117 (130)
T ss_dssp             CEEEE
T ss_pred             EEEEE
Confidence            54433

>2juo_A GA-binding protein alpha chain; OST, ubiquitin, transcription factor, ensemble, DNA-binding, nucleus, transcription regulation; NMR {Mus musculus}

Probab=87.36  E-value=2.4  Score=26.15  Aligned_cols=60  Identities=8%  Similarity=0.048  Sum_probs=52.9

Q ss_pred             EEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424           30 FFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        30 ~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      .-.|.-.+|+..|.+....+.|++.+...|+..+..|.+..+.-+-..+-...+.+.++-
T Consensus         6 ~qhmDI~epL~~Lk~LLe~Rl~i~L~~y~f~LQd~~L~~~k~LvdQcVqgeGlVQinvqi   65 (89)
T 2juo_A            6 SQAIDINEPIGNLKKLLEPRLQCSLDAHEICLQDIQLDPDRSLFDQGVKTDGTVQLSVQV   65 (89)
T ss_dssp             EEEEESSSBGGGHHHHSHHHHCSCCSSCEEEETTEECCTTSBTTTSSCCCCSEEEEEEEE
T ss_pred             hhhccccCcHHHHHHHHHHHhcCCcccCeEEeeccccCCCccHHHhhcccccEEEEEEEE
Confidence            445666789999999999999999999999998888999999999999999888777655

>1zps_A PRA-CH, phosphoribosyl-AMP cyclohydrolase; histidine biosynthesis; 1.70A {Methanothermobacterthermautotrophicus} SCOP: b.168.1.1

Probab=86.67  E-value=0.27  Score=32.85  Aligned_cols=81  Identities=14%  Similarity=0.220  Sum_probs=58.3

Q ss_pred             CCCcEEEEEEc-cCCCEEEEEEcCccHHHHHHHHHHHhcC--CCCcceeEEECCeecCCCCChhhcCCC-CCCEEEEEce
Q 045424           13 PQHLINLIIKS-QDGDKRFFQFNHDVEIKRLLIKYCETKS--QPFKSTPFLINGNRFDYSKTADQLGLK-DGDEIDAMYH   88 (98)
Q Consensus        13 ~~~~I~I~v~~-~~g~~~~f~Ik~~t~l~kL~~~y~~~~g--~~~~~~rF~fdG~~l~~~~Tp~~l~me-dgD~Idv~~~   88 (98)
                      ++..|...+++ ..|..+-+.---...|.+=.   .....  -+.+..++|..|+.--..+...++.+. |+|.|-+.++
T Consensus        20 ~~GLipaIvQd~~tg~VLMlayMN~EAl~~Tl---~tg~~~y~SRSR~~LW~KGetSG~~Q~v~~i~~DCD~D~LL~~V~   96 (138)
T 1zps_A           20 GEDLIIAVAQDHETGEVLMVAYMNREALRRTL---ETGTAHYWSTSRGKLWLKGESSGHVQRVKDVLVDCDGDAVVLKVE   96 (138)
T ss_dssp             SCCCEEEEEEETTTCCEEEEEEECHHHHHHHH---HHSBCEEEETTTTEEEETTTTTSCCEEEEEEEECTTSSEEEEEEE
T ss_pred             CCCcEEEEEEECCCCCEEEEEecCHHHHHHHH---hcCcEEEEcCCCCccccCccCCCCcEEEEEEEecCCCCEEEEEEE
Confidence            46789999998 46776654433334444322   22222  155677899999988888888888888 9999999999


Q ss_pred             ecCCCccc
Q 045424           89 AFGGGHDH   96 (98)
Q Consensus        89 q~GG~~~~   96 (98)
                      |.|+.+|-
T Consensus        97 q~G~aCHt  104 (138)
T 1zps_A           97 QEGGACHT  104 (138)
T ss_dssp             ESSCSSTT
T ss_pred             ecCCcccC
Confidence            99997663

>1eo6_A GATE-16, golgi-associated ATPase enhancer of 16 KD; ubiquitin fold, protein binding; 1.80A {Bos taurus} SCOP: d.15.1.3

Probab=86.45  E-value=3  Score=26.64  Aligned_cols=62  Identities=19%  Similarity=0.274  Sum_probs=47.4

Q ss_pred             CCcEEEEEEccCCC------EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE-CCeecCCCCChhhc
Q 045424           14 QHLINLIIKSQDGD------KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI-NGNRFDYSKTADQL   75 (98)
Q Consensus        14 ~~~I~I~v~~~~g~------~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG~~l~~~~Tp~~l   75 (98)
                      .++|.|.|.-..+.      ...|.|..+.++..++....++.+++.++--|+| ++.....+.|..+|
T Consensus        26 P~~IPVIve~~~~s~~p~l~k~KflVp~~~tv~~f~~~iRk~l~l~~~~alfl~vn~~~p~~~~~m~~L   94 (117)
T 1eo6_A           26 PDRVPVIVEKVSGSQIVDIDKRKYLVPSDITVAQFMWIIRKRIQLPSEKAIFLFVDKTVPQSSLTMGQL   94 (117)
T ss_dssp             TTEEEEEEEECTTCSSCCCSCCEEEEETTSBHHHHHHHHHHHHTCCTTSCCEEEBTTBCCCTTSBHHHH
T ss_pred             CCeEEEEEEecCCCCCCcccceEEEcCCCCCHHHHHHhhHHhhcCCCCCcEEEEECCEecCccchHHHH
Confidence            36788888755432      3479999999999999999999999876655666 66655567778777

>2r2q_A Gamma-aminobutyric acid receptor-associated protein-like 1; autophagy, ubiquitin homolog, structural genomics consortium, SGC, microtubule; 1.65A {Homo sapiens} PDB: 2l8j_A 1kjt_A 1kot_A 3d32_A 3dow_A 1gnu_A 1klv_A 1km7_A

Probab=85.99  E-value=3.7  Score=25.86  Aligned_cols=62  Identities=16%  Similarity=0.173  Sum_probs=47.2

Q ss_pred             CCcEEEEEEccCCC------EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE-CCeecCCCCChhhc
Q 045424           14 QHLINLIIKSQDGD------KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI-NGNRFDYSKTADQL   75 (98)
Q Consensus        14 ~~~I~I~v~~~~g~------~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG~~l~~~~Tp~~l   75 (98)
                      .++|.|.|....+.      ...|.|..+.++..++....++.+++.++--|+| ++.....++|..+|
T Consensus        25 p~~IPVive~~~~~~~p~l~k~KflVp~~~tv~~~~~~iRk~l~l~~~~alfl~vn~~~p~~~~~m~~L   93 (110)
T 2r2q_A           25 PDRVPVIVEKAPKARVPDLDKRKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVNNTIPPTSATMGQL   93 (110)
T ss_dssp             TTEEEEEEEECTTCCSCCCSCCEEEEETTCBHHHHHHHHHHHTTCCTTSCCEEEBTTBCCCTTSBHHHH
T ss_pred             CCceEEEEEecCCCCCCccceeEEEeCCCCcHHHHHHHHHHHhcCCCCCcEEEEECCEecCccChHHHH
Confidence            36788888765432      2379999999999999999999999876655666 66655667778777

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

Probab=85.39  E-value=2.2  Score=26.07  Aligned_cols=56  Identities=25%  Similarity=0.345  Sum_probs=37.4

Q ss_pred             ccHHHHHHHHHHHhcC-CCC---------cce-------eEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           36 DVEIKRLLIKYCETKS-QPF---------KST-------PFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        36 ~t~l~kL~~~y~~~~g-~~~---------~~~-------rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      ..++..|.+..+.++. +..         ..+       .+..||+.+...+ -.+.-+.|||+|.++.--.||
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            5899999999887742 110         124       7888998875332 223358999999987754444

>3rui_B Autophagy-related protein 8; autophagosome formation, non-canonical E1, ATP BI UBL, ATG8, ATG12, ATG10, ATG3, UBL activation, thiolation; 1.91A {Saccharomyces cerevisiae} SCOP: d.15.1.3 PDB: 2kq7_A 2zpn_A 3vxw_A 2kwc_A 2li5_A 3vh3_B 3vh4_B*

Probab=85.16  E-value=4.1  Score=26.16  Aligned_cols=62  Identities=13%  Similarity=0.184  Sum_probs=46.2

Q ss_pred             CCcEEEEEEccCCC------EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE-CCeecCCCCChhhc
Q 045424           14 QHLINLIIKSQDGD------KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI-NGNRFDYSKTADQL   75 (98)
Q Consensus        14 ~~~I~I~v~~~~g~------~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG~~l~~~~Tp~~l   75 (98)
                      .++|-|.|.-..+.      ...|.|..+.++..++....++..++.++--|+| ++.....+.|..+|
T Consensus        28 P~riPVIvE~~~~~~~P~ldk~KflVp~~~tv~qf~~~iRkrl~l~~~~alFl~Vn~~~p~~~~~m~~l   96 (118)
T 3rui_B           28 KNRIPVICEKAEKSDIPEIDKRKYLVPADLTVGQFVYVIRKRIMLPPEKAIFIFVNDTLPPTAALMSAI   96 (118)
T ss_dssp             SSEEEEEEEECTTCCSCCCSCCEEEEETTSBHHHHHHHHHHHTTCCTTCCEEEEBTTBCCCTTSBHHHH
T ss_pred             CCceEEEEEeCCCCCCCccccceEEcCCCCCHHHHHHHHHHHhCcCCCccEEEEECCccCCccchHHHH
Confidence            46677777654332      2379999999999999999999999887666666 66555557777665

>1q1o_A Cell division control protein 24; PB1 domain, PCCR, PC motif, OPCA motif, yeast, cell polarity, protein-protein interaction; NMR {Saccharomyces cerevisiae} SCOP: d.15.2.2 PDB: 2kfj_A 2kfk_B

Probab=84.96  E-value=1.5  Score=27.51  Aligned_cols=47  Identities=11%  Similarity=-0.007  Sum_probs=35.9

Q ss_pred             CcEEEEEEccC-------CCEEEEEEcCccHHHHHHHHHHHhcCCC-C----cceeEEE
Q 045424           15 HLINLIIKSQD-------GDKRFFQFNHDVEIKRLLIKYCETKSQP-F----KSTPFLI   61 (98)
Q Consensus        15 ~~I~I~v~~~~-------g~~~~f~Ik~~t~l~kL~~~y~~~~g~~-~----~~~rF~f   61 (98)
                      ..|.|||...+       +..+.+.|.++.+|..|+++..++.++. .    ..+++.|
T Consensus         4 ~sikVKv~y~~~~~~~~~~d~~~i~V~~~i~f~~L~~kI~~Kl~~~~~~~i~~~~klkY   62 (98)
T 1q1o_A            4 GSILFRISYNNNSNNTSSSEIFTLLVEKVWNFDDLIMAINSKISNTHNNNISPITKIKY   62 (98)
T ss_dssp             SCEEEEEEECSSCSSCCCCEEEEEEECTTCCHHHHHHHHHHHHHHHCSSCCCCCCCEEE
T ss_pred             ccEEEEEEecCcccccccCcEEEEEecCCCCHHHHHHHHHHHHcCCccccccceeEEEE
Confidence            44888988653       4457899999999999999999998863 1    2356766

>3h9d_A ATG8, microtubule-associated protein 1A/1B, light chain putative; autophagy, lipidation, ubiquitin-like, S protein; 2.30A {Trypanosoma brucei} SCOP: d.15.1.0

Probab=84.61  E-value=4.4  Score=26.05  Aligned_cols=62  Identities=11%  Similarity=0.133  Sum_probs=47.1

Q ss_pred             CCcEEEEEEccCCC------EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE-CCeecCCCCChhhc
Q 045424           14 QHLINLIIKSQDGD------KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI-NGNRFDYSKTADQL   75 (98)
Q Consensus        14 ~~~I~I~v~~~~g~------~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG~~l~~~~Tp~~l   75 (98)
                      .++|-|.|.-..+.      ...|.|..+.++..++....++..+++++--|+| ++.....+.|..+|
T Consensus        29 P~rIPVIvEr~~~~~~P~Ldk~KflVp~~~tv~qf~~~iRkrl~l~~~~alFl~Vn~~~p~~~~~m~~l   97 (119)
T 3h9d_A           29 PDRLPIICEKVYNSDIGELDRCKFLVPSDLTVGQFVSVLRKRVQLEAESALFVYTNDTVLPSSAQMADI   97 (119)
T ss_dssp             TTEEEEEEEECTTSSCCCCSSCEEEEETTCBHHHHHHHHHHHHTCCTTSCCEEEETTEECCTTSBHHHH
T ss_pred             CCeEEEEEEecCCCCCCccCcceEEcCCCCCHHHHHHHHHHHhCCCccceEEEEECCcCCCccchHHHH
Confidence            46677777654332      2379999999999999999999999887656666 88766667787766

>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=83.83  E-value=6.2  Score=24.93  Aligned_cols=61  Identities=21%  Similarity=0.201  Sum_probs=40.5

Q ss_pred             EEEEEEcC---ccHHHHHHHHHHHhc-CC----------CCcceeEEECCeec---CCCCChhhcCCCCCCEEEEEceec
Q 045424           28 KRFFQFNH---DVEIKRLLIKYCETK-SQ----------PFKSTPFLINGNRF---DYSKTADQLGLKDGDEIDAMYHAF   90 (98)
Q Consensus        28 ~~~f~Ik~---~t~l~kL~~~y~~~~-g~----------~~~~~rF~fdG~~l---~~~~Tp~~l~medgD~Idv~~~q~   90 (98)
                      .+.+.+..   ..++..|++..++++ ++          -...+.++.||+.+   ..-+|    -++|||+|.++-..-
T Consensus        31 ~~~vel~~~~~~~TV~~Ll~~L~~~~~~~~~~lf~~~g~lr~~i~VlVN~~di~~l~gldt----~L~dGDeV~iip~va  106 (114)
T 1wgk_A           31 KHQVALPGQEEPWDIRNLLVWIKKNLLKERPELFIQGDSVRPGILVLINDADWELLGELDY----QLQDQDSILFISTLH  106 (114)
T ss_dssp             EEEEEECCCSSCCBHHHHHHHHTTTTCCSCHHHHCCSSSCCSSEEEEESSSBHHHHCTTTC----BCCSSEEEEEEECSC
T ss_pred             EEEEEeCCCCCCCCHHHHHHHHHHHccchhHhhCccCCcccCCeEEEECCeeeeccCCcCc----CCCCCCEEEEeCCCC
Confidence            55677773   258999999998876 11          12235566788744   33333    489999988877666


Q ss_pred             CC
Q 045424           91 GG   92 (98)
Q Consensus        91 GG   92 (98)
                      ||
T Consensus       107 GG  108 (114)
T 1wgk_A          107 GG  108 (114)
T ss_dssp             CC
T ss_pred             CC
Confidence            66

>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=83.77  E-value=5.5  Score=24.31  Aligned_cols=61  Identities=11%  Similarity=0.123  Sum_probs=50.9

Q ss_pred             EEEEEEcCccHHHHHHHHHHHh-cCC----CCcceeEEECCee--cCCCCChhhcCCCCCCEEEEEce
Q 045424           28 KRFFQFNHDVEIKRLLIKYCET-KSQ----PFKSTPFLINGNR--FDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        28 ~~~f~Ik~~t~l~kL~~~y~~~-~g~----~~~~~rF~fdG~~--l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      ..-+-+...+++..+-++.+.. .|.    .+.-++...+|..  +..+.|.++.|+..-|+|||+.+
T Consensus        16 ~~Lv~VDt~dtmdqVA~k~A~h~VGrrv~p~pg~lrVr~~G~~~~~Pr~mtVaeaGl~Pme~vev~~~   83 (84)
T 3ge3_C           16 VQLVVVDLNDSMDQVAEKVAYHCVNRRVAPREGVMRVRKHRSTELFPRDMTIAESGLNPTEVIDVVFE   83 (84)
T ss_dssp             EEEEEEETTCBHHHHHHHHHHTTBTTTBCCCSSCEEEEETTCSCBCCTTCBHHHHCCCTTCEEEEEEC
T ss_pred             EEEEEecCCCcHHHHHHHHhhhhcceeeCCCCCcEEEEECCCcccCCCCCEeeccCCCcceEEEEEEc
Confidence            4468899999999999888764 343    2248899999998  99999999999999999999863

>3m95_A Autophagy related protein ATG8; alpha slash beta, receptor, transport protein; 2.40A {Bombyx mori} SCOP: d.15.1.3

Probab=81.54  E-value=5.8  Score=25.77  Aligned_cols=71  Identities=13%  Similarity=0.028  Sum_probs=50.4

Q ss_pred             CCcEEEEEEccCCC------EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE-CCeecCCCCChhhcC----CCCCCE
Q 045424           14 QHLINLIIKSQDGD------KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI-NGNRFDYSKTADQLG----LKDGDE   82 (98)
Q Consensus        14 ~~~I~I~v~~~~g~------~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG~~l~~~~Tp~~l~----medgD~   82 (98)
                      .++|-|.|.-..+.      ...|.|..+.++..++....++..+++++--|+| ++.....+.|..+|-    =+||=.
T Consensus        34 P~rIPVIvEr~~~s~lP~LdK~KflVp~~~tv~qf~~~IRkrl~L~~~~alFl~Vnn~lPs~s~~m~~lY~~~kdeDGfL  113 (125)
T 3m95_A           34 PDRVPVIVEKAPKARLGDLDKKKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVNNVIPPTSATMGSLYQEHHDEDFFL  113 (125)
T ss_dssp             TTEEEEEEEECTTCSSCCCSCCEEEEETTSBHHHHHHHHHHHTTCCTTSCCEEEBTTBCCCTTSBHHHHHHHHCCTTSCE
T ss_pred             CCeEEEEEEecCCCCCccccCCEEEcCCCCEeeeehhhhHhhcCCCccccEEEEECCccCCccchHHHHHHHcCCCCCeE
Confidence            45677777544332      2479999999999999999999999887766666 665555577777663    256654


Q ss_pred             EE
Q 045424           83 ID   84 (98)
Q Consensus        83 Id   84 (98)
                      .-
T Consensus       114 Y~  115 (125)
T 3m95_A          114 YI  115 (125)
T ss_dssp             EE
T ss_pred             EE
Confidence            43

---

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	98
d1wm3a_	72	d.15.1.1 (A:) SUMO-2 {Human (Homo sapiens) [TaxId:	1e-12
d2uyzb1	77	d.15.1.1 (B:20-96) SUMO-1 (smt3 homologue) {Human	1e-11
d1euvb_	79	d.15.1.1 (B:) SUMO-1 (smt3 homologue) {Baker's yea	4e-08

>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 = 55.9 bits (135), Expect = 1e-12
 Identities = 20/69 (28%), Positives = 32/69 (46%)

Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          INL +  QDG    F+      + +L+  YCE +    +   F  +G   + + T  QL 
Sbjct: 2  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 61

Query: 77 LKDGDEIDA 85
          ++D D ID 
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 = 53.2 bits (128), Expect = 1e-11
 Identities = 20/70 (28%), Positives = 33/70 (47%)

Query: 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG 76
          I L +  QD  +  F+      +K+L   YC+ +  P  S  FL  G R   + T  +LG
Sbjct: 3  IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELG 62

Query: 77 LKDGDEIDAM 86
          +++ D I+  
Sbjct: 63 MEEEDVIEVY 72

>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 = 44.4 bits (105), Expect = 4e-08
 Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 1/80 (1%)

Query: 13 PQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTA 72
          P+  INL +      + FF+      ++RL+  + + + +   S  FL +G R    +T 
Sbjct: 1  PETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTP 59

Query: 73 DQLGLKDGDEIDAMYHAFGG 92
          + L ++D D I+A     GG
Sbjct: 60 EDLDMEDNDIIEAHREQIGG 79

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	98
d2uyzb1	77	SUMO-1 (smt3 homologue) {Human (Homo sapiens) [Tax	99.96
d1euvb_	79	SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomy	99.96
d1wm3a_	72	SUMO-2 {Human (Homo sapiens) [TaxId: 9606]}	99.96
d1ogwa_	76	Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}	99.61
d1wh3a_	87	2'-5'-oligoadenylate synthetase-like protein, OASL	99.55
d1uh6a_	100	Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculu	99.53
d1z2ma2	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.53
d1ttna1	80	Dendritic cell-derived ubiquitin-like protein {Hum	99.52
d2zeqa1	78	Ubiquitin-like domain of parkin {Mouse (Mus muscul	99.5
d1j8ca_	103	Ubiquitin-like N-terminal domain of PLIC-2 {Human	99.5
d1bt0a_	73	Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxI	99.49
d1zkha1	86	Splicing factor 3 subunit 1, C-terminal domain {Hu	99.47
d1m94a_	73	Ubiquitin-like modifier protein hub1 {Baker's yeas	99.46
d1wx8a1	83	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	99.43
d2faza1	76	Ubiquitin-like PHD and RING finger domain-containi	99.41
d1we6a_	111	Splicing factor 3 subunit 1, C-terminal domain {Th	99.39
d2bwfa1	73	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.39
d1yqba1	84	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	99.38
d1oqya4	77	Ubiquitin-like domain of Rad23 homolog A (Hhr23a)	99.38
d1wgha_	116	Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculu	99.38
d1z2ma1	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.37
d1wy8a1	76	Ubiquitin-like PHD and RING finger domain-containi	99.35
d1uela_	95	Ubiquitin-like domain of Rad23 homolog B (Hhr23B)	99.34
d1wx9a1	73	Large proline-rich protein BAT3 {Human (Homo sapie	99.33
d1v5oa_	102	1700011n24rik protein {Mouse (Mus musculus) [TaxId	99.25
d1v86a_	95	hypothetical D7wsu128e protein {Mouse (Mus musculu	99.24
d1se9a_	101	Hypothetical protein At3g01050 {Thale cress (Arabi	99.24
d1wjua_	100	NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens	99.17
d1wiaa_	95	Ubiquitin-like protein bab25500 (2010008E23Rik) {M	99.16
d1v2ya_	105	Ubiquitin-like protein 3300001g02rik {Mouse (Mus m	99.15
d1wgga_	96	Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (M	99.13
d1wxva1	81	Bag-family molecular chaperone regulator-1 {Human	99.0
d1wjna_	97	Tubulin-folding protein TbcE {Mouse (Mus musculus)	98.99
d1wgda_	93	Homocysteine-responsive endoplasmic reticulum-resi	98.91
d1v5ta_	90	8430435i17rik protein {Mouse (Mus musculus) [TaxId	98.89
d1v6ea_	95	Ubiquitin-like domain of tubulin folding cofactor	98.82
d2c9wb1	103	Elongin B {Human (Homo sapiens) [TaxId: 9606]}	98.81
d1t0ya_	90	Ubiquitin-like domain of tubulin folding cofactor	98.66
d1x1ma1	94	Ubiquitin-like protein 7 {Mouse (Mus musculus) [Ta	98.51
d2al3a1	76	Tether containing UBX domain for GLUT4 (Tug) {Mous	98.06
d2cr5a1	96	UBX domain-containing protein 6 (Reproduction 8) {	97.27
d1i42a_	89	p47 {Rat (Rattus norvegicus) [TaxId: 10116]}	96.99
d1h8ca_	82	Fas-associated factor 1, Faf1 {Human (Homo sapiens	96.86
d1wf9a1	94	NPL4-like protein 1 {Thale cress (Arabidopsis thal	96.84
d1wj4a_	124	Hypothetical protein KIAA0794 {Human (Homo sapiens	96.44
d1ip9a_	85	Bud emergence mediator Bemp1 {Baker's yeast (Sacch	96.03
d1y8xb1	92	UBA3 {Human (Homo sapiens) [TaxId: 9606]}	94.6
d1vjka_	88	Molybdopterin synthase subunit MoaD {Pyrococcus fu	94.38
d2npta1	105	Mitogen activated protein kinase kinase 5, Map2k5	94.0
d1ef1a3	84	Moesin {Human (Homo sapiens) [TaxId: 9606]}	92.88
d1j0ga_	92	Hypothetical protein 1810045k17 {Mouse (Mus muscul	92.86
d1wxma1	73	A-Raf proto-oncogene serine/threonine-protein kina	90.36
d1zud21	65	Thiamin biosynthesis sulfur carrier protein ThiS {	89.67
d1zpsa1	124	Phosphoribosyl-AMP cyclohydrolase HisI {Methanobac	89.5
d1wfya_	104	Regulator of G-protein signaling 14, RGS14 {Mouse	89.32
d1c1yb_	77	c-Raf1 RBD {Human (Homo sapiens) [TaxId: 9606]}	88.98
d1oeya_	82	Neutrophil cytosol factor 2 (p67phox component of	88.61
d3d32a1	118	GABA(A) receptor associated protein GABARAP {Human	88.14
d2bkfa1	85	Next to BRCA1 gene 1 protein, NBR1 (KIAA0049) {Hum	88.14
d1eo6a_	116	Golgi-associated ATPase enhancer of 16 kD, Gate-16	87.84
d1gg3a3	81	Erythroid membrane protein 4.1R {Human (Homo sapie	87.07
d1tygb_	65	Thiamin biosynthesis sulfur carrier protein ThiS {	87.0
d1v8ca1	87	MoaD-related protein, N-terminal domain {Thermus t	86.78
d1wgra_	100	Growth factor receptor-bound protein 7, GRB-7 {Hum	86.64
d1h4ra3	84	Merlin {Human (Homo sapiens) [TaxId: 9606]}	84.11
d1ryja_	70	Hypothetical protein MTH1743 {Archaeon Methanobact	83.05

>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=99.96  E-value=2.4e-30  Score=158.35  Aligned_cols=77  Identities=27%  Similarity=0.526  Sum_probs=75.5

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecC
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFG   91 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   91 (98)
                      ++|+|+|++++|..++|+|++++||++||++||++.|++.++++|+|+|.+|.+++||++|+|||||+|||+++|+|
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

>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=1.6e-29  Score=155.17  Aligned_cols=79  Identities=27%  Similarity=0.540  Sum_probs=76.7

Q ss_pred             CCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           13 PQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        13 ~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      |+.+|+|+|++ +|.+++|+|+++++|++||++||++.|++.++++|+|+|++|.+++||++|+|+|||+|+|+++|+||
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            67899999986 78899999999999999999999999999999999999999999999999999999999999999998

>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=3.2e-29  Score=151.96  Aligned_cols=71  Identities=28%  Similarity=0.538  Sum_probs=69.9

Q ss_pred             cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEE
Q 045424           16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus        16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~   86 (98)
                      +|+|+|++++|+.+.|+|+++++|++||++||++.|++.++++|+|||++|.+++||++|+|||||+||||
T Consensus         1 ~I~lkv~~~~g~~v~f~vk~~t~l~kl~~~y~~~~~~~~~~~~f~fdG~~i~~~~Tp~~l~med~D~Idv~   71 (72)
T d1wm3a_           1 HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVF   71 (72)
T ss_dssp             CEEEEEECTTSCEEEEEECTTSCTHHHHHHHHHHHTCCTTTCEEEETTEECCTTCCTTTTTCCTTEEEEEE
T ss_pred             CEEEEEECCCCCEEEEEEcCCChHHHHHHHHHHHhCCCccceEEEECCEEcCCCCCHHHcCCCCCCEEEEE
Confidence            69999999999999999999999999999999999999999999999999999999999999999999997

>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=99.61  E-value=3.6e-15  Score=89.56  Aligned_cols=76  Identities=12%  Similarity=0.297  Sum_probs=73.5

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      |.|.|+..+|+.+.+.|.+++++..|++..+++.|++++.++|+|.|+.|.++.|.+++++++|++|++.++..||
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            4688888999999999999999999999999999999999999999999999999999999999999999999998

>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=99.55  E-value=3.3e-14  Score=87.39  Aligned_cols=81  Identities=17%  Similarity=0.185  Sum_probs=77.0

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCC
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGG   93 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~   93 (98)
                      +..|.|.|+..+|+.+.+.|.+++++..|+...+++.|++++++||+|.|+.|.++.|.+++++++|++|++..++.||-
T Consensus         5 s~~mqI~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~stl~l~~r~~~gp   84 (87)
T d1wh3a_           5 SSGIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYGIQDSDTLILSKKKGSGP   84 (87)
T ss_dssp             SSSEEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTCCCTTTEEEEETTEECCSSSBHHHHTCCTTEEEEEEECSCCCS
T ss_pred             CCcEEEEEECCCCCEEEEEECCcCcHHHHHHHHHHHHCcChHHeEEEeeceEcCCCCcHHHcCCCCCCEEEEEecCCCCC
Confidence            46799999999999999999999999999999999999999999999999999999999999999999999999998874


Q ss_pred             c
Q 045424           94 H   94 (98)
Q Consensus        94 ~   94 (98)
                      .
T Consensus        85 ~   85 (87)
T d1wh3a_          85 S   85 (87)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.53  E-value=4.9e-14  Score=89.22  Aligned_cols=75  Identities=15%  Similarity=0.180  Sum_probs=72.1

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      ...|.|.|++..|+.+.+.|.+++++..|++..+++.|++++.++|+|.|+.|.++.|.+++++.||++|+++++
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            577999999999999999999999999999999999999999999999999999999999999999999999874

>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=99.53  E-value=7.7e-14  Score=83.51  Aligned_cols=75  Identities=8%  Similarity=0.115  Sum_probs=71.9

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      +.|.|.|+..+|+.+.+.|.+++++..|+...+++.|++++.++|+|.|+.|.++.|.+++++++|++|++.+++
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            578999999999999999999999999999999999999999999999999999999999999999999998763

>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=99.52  E-value=5.5e-14  Score=85.13  Aligned_cols=77  Identities=6%  Similarity=0.041  Sum_probs=73.3

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecC
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFG   91 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   91 (98)
                      ..|.|+|+..+|..+.+.|.+++++..|+...+++.|++++.++|+|.|+.|.++.|.+++++++|++|++.+.+..
T Consensus         2 ~e~qi~Vk~~~G~~~~l~V~~~~tV~~lK~~I~~~~~ip~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lvi~~p~   78 (80)
T d1ttna1           2 YECQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELKIPKDYVVQVIVSQPV   78 (80)
T ss_dssp             CSEEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTCCCSTTCEEEETTEECCTTSHHHHCCCSSSCEEEEECCCSS
T ss_pred             CeEEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCcccEEEEECceEcCCCCcHHHcCCCCCCEEEEEecCCC
Confidence            56889999999999999999999999999999999999999999999999999999999999999999999998754

>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=99.50  E-value=1.1e-13  Score=83.69  Aligned_cols=75  Identities=9%  Similarity=0.111  Sum_probs=72.4

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFG   91 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   91 (98)
                      +.|.|+..+|..+.+.|.+++++..|+...+++.|++++.++|+|.|+.|.++.|.+++++++|++|++.++..|
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            678999989999999999999999999999999999999999999999999999999999999999999998877

>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=2.5e-13  Score=85.73  Aligned_cols=75  Identities=13%  Similarity=0.220  Sum_probs=69.4

Q ss_pred             CCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424           13 PQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        13 ~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      +...|+|+|++.++ ...|.|.+++++..|+...+++.|++.+.++|+|.|+.|.++.|.+++++++|++|+++++
T Consensus        29 ~~~~i~V~Vk~~~~-~~~i~V~~~~tV~~LK~~I~~~~gi~~~~qrLi~~Gk~L~D~~tL~~~~I~~g~~I~lvlr  103 (103)
T d1j8ca_          29 EPKIIKVTVKTPKE-KEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVIK  103 (103)
T ss_dssp             CCCCEEEEEECSSC-EEEEEECTTCCHHHHHHHHHHHHCSCSSSEEEEETTEEESTTSCGGGTTCSSSEEEEEEEC
T ss_pred             CCCeEEEEEECCCc-cEEEEECCCChHHHHHHHHHHHHCcCHHHeeeeeeeecccCCCcHHHcCCCCCCEEEEEEC
Confidence            35679999998665 5789999999999999999999999999999999999999999999999999999999874

>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=99.49  E-value=1.2e-13  Score=82.13  Aligned_cols=73  Identities=15%  Similarity=0.237  Sum_probs=69.3

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      +.|.|++.+|+.+.+.|.+++++..|+...+++.|++++.+||+|.|+.|.++.|.+++++++|++|++.+++
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            4688888999999999999999999999999999999999999999999999999999999999999998863

>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=99.47  E-value=3e-13  Score=83.19  Aligned_cols=67  Identities=15%  Similarity=0.209  Sum_probs=64.9

Q ss_pred             CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecC
Q 045424           25 DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFG   91 (98)
Q Consensus        25 ~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   91 (98)
                      +|..+.+.|.+++++..|+...+++.|++.+.++++|.|..|.++.|.+++++++|++|++.++++|
T Consensus        20 ~G~~~~l~v~~~~tV~~lK~~I~~~~~ip~~~q~Li~~Gk~L~D~~tL~dY~I~~gsti~l~~r~RG   86 (86)
T d1zkha1          20 NGQVLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMANGAVIHLALKERG   86 (86)
T ss_dssp             SSCEEEEEECTTSBHHHHHHHHHHHTCCCTTTEEEEETTEEECTTSBHHHHTCCTTEEEEEEESCCC
T ss_pred             CCeEEEEEECCCChHHHHHHHHHhhhcCChHHEEEEeCCcCcCCCCCHHHcCCCCCCEEEEEEecCC
Confidence            6778999999999999999999999999999999999999999999999999999999999999887

>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=99.46  E-value=1.8e-13  Score=81.62  Aligned_cols=71  Identities=8%  Similarity=0.121  Sum_probs=68.4

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      |.|.|+...|+.+.+.|.+++++..|+...+++.|++++.++++|+|+.|.++.|.+++++++|++|+++.
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            68899999999999999999999999999999999999999999999999999999999999999999874

>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=99.43  E-value=3.2e-13  Score=82.23  Aligned_cols=75  Identities=12%  Similarity=0.228  Sum_probs=69.5

Q ss_pred             CCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424           13 PQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        13 ~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      ++..|+|.|++.++ ...|.|.+++++..|+...+++.|++++.++|+|.|+.|.++.|.+++++++|++|+++++
T Consensus         7 ~~~~i~v~Vk~~~~-~~~i~v~~~~tV~~lK~~I~~~~~v~~~~qrL~f~Gk~L~d~~tL~~~gI~~gs~I~lv~r   81 (83)
T d1wx8a1           7 SSRIIRVSVKTPQD-CHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQRGILDGSTVHVVVR   81 (83)
T ss_dssp             CSCEEEEEEECSSS-EEEEEEETTCCHHHHHHHHHHHTCSCTTTBCCEETTEECCTTSCHHHHTCCTTEEEECCBC
T ss_pred             CCCeEEEEEEcCCC-cEEEEECCCChHHHHHHHHHHHhCCChhHEEEEEEhhccccCCcHHHcCCCCCCEEEEEEe
Confidence            46779999998655 5689999999999999999999999999999999999999999999999999999998875

>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=99.41  E-value=1e-12  Score=78.96  Aligned_cols=73  Identities=12%  Similarity=0.152  Sum_probs=67.3

Q ss_pred             EEEEEEccCCC-EEEE-EEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424           17 INLIIKSQDGD-KRFF-QFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        17 I~I~v~~~~g~-~~~f-~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      +.|.|++.+|. ...+ .+.+++++..|+...+++.|++++++||+|.|+.|.++.|.+++++++|++|++.+++
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            46888888996 5566 5999999999999999999999999999999999999999999999999999999875

>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=99.39  E-value=1.2e-12  Score=84.06  Aligned_cols=80  Identities=9%  Similarity=0.069  Sum_probs=72.7

Q ss_pred             cEEEEEEc---cCCCEEEEEEcC-ccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecC
Q 045424           16 LINLIIKS---QDGDKRFFQFNH-DVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFG   91 (98)
Q Consensus        16 ~I~I~v~~---~~g~~~~f~Ik~-~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G   91 (98)
                      .++|+|+-   .+|..+.+.|.+ ++++..|+...+++.|+++++++++|.|+.|.++.|.+++++++|++|++.++.+|
T Consensus        27 ~~ti~V~v~~~~~G~~i~l~v~~~sdtV~~lK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~ynI~~gsti~L~lr~rG  106 (111)
T d1we6a_          27 PATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAHYNVGAGEILTLSLRERS  106 (111)
T ss_dssp             CEEEEECCTTCSSSCCEEEEESCSSSBHHHHHHHHHHHTTCCTTTSEEECSSSBCCTTSBTTTTTCSSSCEEEEECSSCC
T ss_pred             CEEEEEEcccCCCCeEEEEEecCCccHHHHHHHHHHHHHCCCccceEEEEeeEEccccCCHHHcCCCCCCEEEEEeeCCC
Confidence            46666654   368899999987 89999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcc
Q 045424           92 GGHD   95 (98)
Q Consensus        92 G~~~   95 (98)
                      |-.+
T Consensus       107 G~~~  110 (111)
T d1we6a_         107 GPSS  110 (111)
T ss_dssp             SSCC
T ss_pred             CCCC
Confidence            9654

>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=99.39  E-value=2.2e-12  Score=76.68  Aligned_cols=73  Identities=15%  Similarity=0.251  Sum_probs=66.9

Q ss_pred             cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424           16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      .|+|+|++. +....+.|.+++++..|+...+++.|+++++++++|.|+.|.++.|.+++++.+|++|++..+|
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            378888874 4568899999999999999999999999999999999999999999999999999999998764

>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=99.38  E-value=1.7e-12  Score=79.13  Aligned_cols=75  Identities=17%  Similarity=0.269  Sum_probs=69.7

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceec
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAF   90 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~   90 (98)
                      ..|+|.|+..++ ...|.|.++.++..|++..+++.|++++.++++|.|..|.++.|.+++++++|++|++.+++.
T Consensus         6 ~~i~I~Vkt~~~-~~~~~V~~~~tV~~lK~~i~~~~gi~~~~qrL~~~Gk~L~D~~tL~~y~i~~gsti~lv~r~~   80 (84)
T d1yqba1           6 HLIKVTVKTPKD-KEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIKRQ   80 (84)
T ss_dssp             TEEEEEEECSSC-EEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBHHHHTCCTTCEEEEEECCC
T ss_pred             CEEEEEEEcCCC-cEEEEECCCCcHHHHHHHHHHHHCcCchhEEEEEeeeeccccCcHHHcCCCCCCEEEEEECCC
Confidence            469999998655 578999999999999999999999999999999999999999999999999999999998764

>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=99.38  E-value=5.5e-13  Score=80.02  Aligned_cols=72  Identities=13%  Similarity=0.166  Sum_probs=67.8

Q ss_pred             cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcC---CCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424           16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKS---QPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus        16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g---~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      .|+|+|+..+|..+.+.|.+++++..|+...+++.|   ++++++||+|.|+.|.++.|.+++++.+|++|.+++
T Consensus         2 ~~~i~vk~l~g~~~~l~v~~~~TV~~lK~~i~~~~g~~~i~~~~qrLi~~Gk~L~D~~tL~~y~I~~~s~i~~~v   76 (77)
T d1oqya4           2 AVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMV   76 (77)
T ss_dssp             CCCEEEEETTTEEEEECCCTTCBHHHHHHHHHHHTCSSSCCSTEEEEESSSSEECSSSBTTTTCCCTTSCEEEEE
T ss_pred             cEEEEEECCCCCEEEEEECCCCcHHHHHHHHHHhcCCCCCChHHEEeEECCcCccCCCcHHHcCCCCCCEEEEEE
Confidence            578899999999999999999999999999999987   788999999999999999999999999999998875

>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=99.38  E-value=3.1e-12  Score=82.71  Aligned_cols=82  Identities=17%  Similarity=0.157  Sum_probs=73.1

Q ss_pred             CCCCCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHH--------HHhcCCCCcceeEEECCeecCCCCChhhcCCCC
Q 045424            8 KNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKY--------CETKSQPFKSTPFLINGNRFDYSKTADQLGLKD   79 (98)
Q Consensus         8 ~~~~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y--------~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~med   79 (98)
                      .....|.+.|+|+|+..+|....|.|.+++++..|+..+        ++..+++++++|++|.|+.|.++.|.+++++.+
T Consensus         8 ~s~~~~~~~i~i~v~~l~Gk~~~~~v~p~~TV~~lK~~I~~~~p~~~~e~~~~~~~~qRLiy~Gk~L~D~~tL~~~~i~~   87 (116)
T d1wgha_           8 MSSHVPADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPF   87 (116)
T ss_dssp             CCCCCCSSSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTCCS
T ss_pred             ccCCCCCCeEEEEEEEcCCCEEEEEECCcchHHHHHHHHHhhcccccccccCCChHHeEEEECCEEecCCCCHHHcCCCC
Confidence            445568899999999999999999999999999999999        467789999999999999999999999999999


Q ss_pred             CCEEEEEcee
Q 045424           80 GDEIDAMYHA   89 (98)
Q Consensus        80 gD~Idv~~~q   89 (98)
                      |+++.+++..
T Consensus        88 g~~~~lhlv~   97 (116)
T d1wgha_          88 GKTTVMHLVA   97 (116)
T ss_dssp             SCEEEEEEEE
T ss_pred             CCEEEEEEEe
Confidence            9986555443

>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=99.37  E-value=2.3e-12  Score=77.25  Aligned_cols=72  Identities=11%  Similarity=0.152  Sum_probs=68.2

Q ss_pred             EEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE--CCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424           18 NLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI--NGNRFDYSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        18 ~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f--dG~~l~~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      .|+|+..+|..+.+.|.+++++..|+...+++.|++++++|++|  .|+.|.++.|.+++++++|++|.+.+++
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            57788889999999999999999999999999999999999999  5999999999999999999999999876

>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=99.35  E-value=6.9e-12  Score=75.28  Aligned_cols=72  Identities=11%  Similarity=0.137  Sum_probs=65.9

Q ss_pred             EEEEEEccCCC-EEEE-EEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424           17 INLIIKSQDGD-KRFF-QFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        17 I~I~v~~~~g~-~~~f-~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      +.|.|+..+|. ..++ .|.+++++..|+...+++.|++.++++|+|.|+.|.++.|.+++++++|++|+++++
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            46778888884 5665 699999999999999999999999999999999999999999999999999999876

>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=99.34  E-value=7.4e-12  Score=77.58  Aligned_cols=76  Identities=11%  Similarity=0.155  Sum_probs=69.1

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcC---CCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKS---QPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g---~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +.|.|+..+|..+.+.|.+++++..|+...+++.|   ++.+.+||+|.|+.|.++.|.+++++++|++|.+++++...
T Consensus         1 M~I~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~~~~i~~~~qrLi~~Gk~L~d~~tL~~y~I~~~s~i~lv~~~~~~   79 (95)
T d1uela_           1 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKNFVVVMVTKPKA   79 (95)
T ss_dssp             CEEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECCTTSBGGGGTCCSSSEEEEEESSCCC
T ss_pred             CEEEEEeCCCCEEEEEECCCccHHHHHHHHHhhhcccCCCccceEEEECCeEccCCCcHHHcCCCCCCEEEEEECCCCC
Confidence            46778888999999999999999999999999876   67899999999999999999999999999999999876554

>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=99.33  E-value=2e-12  Score=76.87  Aligned_cols=72  Identities=17%  Similarity=0.319  Sum_probs=67.3

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      |.|.|++.+|....+.|.++++...|+...+++.|++++.+||+|.|+.|.++.|.+++++ +|.+|+++.++
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            5789999999999999999999999999999999999999999999999999999999999 57899887654

>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=99.25  E-value=2.1e-11  Score=76.91  Aligned_cols=78  Identities=15%  Similarity=0.150  Sum_probs=68.4

Q ss_pred             CcEEEEE----EccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecC-CCCChhhcCCCCCCEEEEEcee
Q 045424           15 HLINLII----KSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFD-YSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        15 ~~I~I~v----~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~-~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      .-+.|+|    ++.++..+.+.|.+++++..|+...+.+.|++.++++|+|+|+.|. ++.|.++++++|||+|.+..+.
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            3456666    4556888999999999999999999999999999999999999996 5679999999999999998876


Q ss_pred             cCC
Q 045424           90 FGG   92 (98)
Q Consensus        90 ~GG   92 (98)
                      .++
T Consensus        86 ~~~   88 (102)
T d1v5oa_          86 NVG   88 (102)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            655

>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=99.24  E-value=2.7e-11  Score=75.35  Aligned_cols=84  Identities=17%  Similarity=0.140  Sum_probs=74.9

Q ss_pred             CCCCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424            9 NNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus         9 ~~~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      ......+.|+|+|.. +++.+.+.|.+++++..|++..++..|+++++++++|.|. +.++.|..++++.+|++|.++..
T Consensus        10 ~~~~~~~~i~v~V~~-~~k~~~i~v~~~~TV~~LK~~I~~~tgvp~~~q~Li~~g~-l~D~~tL~~~~I~~gs~i~lvgs   87 (95)
T d1v86a_          10 GGGVGKELVDLKIIW-NKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGL-VPEDKTLREIKVTSGAKIMVVGS   87 (95)
T ss_dssp             CCCCCCCCEEEEEEE-TTEEEEEEECTTSBHHHHHHHHHHHHCSCSTTCCCBSSSB-CCSSSBHHHHCCCTTEEEEECCS
T ss_pred             ccCCCccEEEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEeccc-ccCCCcHHHCCCCCCCEEEEEec
Confidence            344457889999985 7788899999999999999999999999999999999996 89999999999999999999987


Q ss_pred             ecCCCc
Q 045424           89 AFGGGH   94 (98)
Q Consensus        89 q~GG~~   94 (98)
                      ..+|-+
T Consensus        88 ~~~gps   93 (95)
T d1v86a_          88 TISGPS   93 (95)
T ss_dssp             SCCCCS
T ss_pred             CCCCCC
Confidence            777643

>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=99.24  E-value=9.8e-11  Score=74.00  Aligned_cols=79  Identities=14%  Similarity=0.184  Sum_probs=70.7

Q ss_pred             CCCcEEEEEEccCCCEE-EEEEcCccHHHHHHHHHHHh-----cCCC--CcceeEEECCeecCCCCChhhcCCCCCC---
Q 045424           13 PQHLINLIIKSQDGDKR-FFQFNHDVEIKRLLIKYCET-----KSQP--FKSTPFLINGNRFDYSKTADQLGLKDGD---   81 (98)
Q Consensus        13 ~~~~I~I~v~~~~g~~~-~f~Ik~~t~l~kL~~~y~~~-----~g~~--~~~~rF~fdG~~l~~~~Tp~~l~medgD---   81 (98)
                      ..+.|.|+++..+|..+ .|.|.+++++..|++...+.     .|++  ++++||+|.|+.|.++.|.+++++.+|+   
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            35789999999999988 59999999999999999775     5665  6799999999999999999999999999   


Q ss_pred             ---EEEEEceecC
Q 045424           82 ---EIDAMYHAFG   91 (98)
Q Consensus        82 ---~Idv~~~q~G   91 (98)
                         +|+++++...
T Consensus        84 ~~~tmHlVvrpp~   96 (101)
T d1se9a_          84 AVTTMHVIIQAPV   96 (101)
T ss_dssp             CCEEEEEEECCCS
T ss_pred             CceEEEEEeCCCC
Confidence               9999987654

>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=99.17  E-value=2.9e-10  Score=71.34  Aligned_cols=85  Identities=13%  Similarity=0.134  Sum_probs=71.3

Q ss_pred             CCCCCCCCcEEEEEEc----cCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEE
Q 045424            8 KNNKKPQHLINLIIKS----QDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEI   83 (98)
Q Consensus         8 ~~~~~~~~~I~I~v~~----~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~I   83 (98)
                      +..-.+....+|.|.-    ..++.+.+.|+.++++..|+...+++.|++++.++++|.|+.|.++.|.+++++.+|++|
T Consensus         7 ~~~f~~tg~ati~V~~~~~~~~g~~~~lev~~~~TV~~LK~~I~~~~gi~~~~qkLi~~Gk~L~d~~tL~~~gI~~~s~i   86 (100)
T d1wjua_           7 GDNYRTTGIATIEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEEQGVAHNVKA   86 (100)
T ss_dssp             CCSSSCCCEEEEEEECCTTTCCSSSEEEEEESSSBHHHHHHHHHHHTTCCSTTCEEEETTEECCTTSBHHHHTCCSSEEE
T ss_pred             cccccccceEEEEEEEeeccCCCeEEEEEECCCcHHHHHHHHHHHHHCCCCeeEEEEEcccCcCCCcCHHHcCCCCCCEE
Confidence            3344455555555554    357889999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEceecCC
Q 045424           84 DAMYHAFGG   92 (98)
Q Consensus        84 dv~~~q~GG   92 (98)
                      .|...+...
T Consensus        87 ~vi~~~~~~   95 (100)
T d1wjua_          87 MVLELKQSS   95 (100)
T ss_dssp             EEECCCCCC
T ss_pred             EEEEcCCCC
Confidence            887655443

>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=99.16  E-value=2e-10  Score=71.56  Aligned_cols=79  Identities=14%  Similarity=0.134  Sum_probs=70.0

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecC-CCCChhhcCCCCCCEEEEEceecCC
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFD-YSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~-~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +..|+|+|++.+|....+.|.+++++..|+...   +..+.+.+||+|.|+.|. +..|.++++++||++|++.+++.++
T Consensus         5 ~s~m~i~vK~l~~~~~~v~v~~~~TV~~lK~~i---~~~~~~~qrLi~~Gk~L~dd~~tL~~y~i~~g~~v~l~~~~~~~   81 (95)
T d1wiaa_           5 SSGINVRLKFLNDTEELAVARPEDTVGTLKSKY---FPGQESQMKLIYQGRLLQDPARTLSSLNITNNCVIHCHRSPPGA   81 (95)
T ss_dssp             CCSEEEEEEETTTEEEEEEECSSSBHHHHHHHH---SSSTTTTCEEEETTEECCCSSCBTTTTTCCTTEEEEEECCCCCC
T ss_pred             CCcEEEEEEcCCCCEEEEEECCcCcHHHHHHHH---hcCCcceeEEEECCEEcccCCCCHHHcCCCCCCEEEEEEcCCCC
Confidence            568999999999999999999999999999765   456779999999999997 5689999999999999999988777


Q ss_pred             Ccc
Q 045424           93 GHD   95 (98)
Q Consensus        93 ~~~   95 (98)
                      ...
T Consensus        82 ~~~   84 (95)
T d1wiaa_          82 AVS   84 (95)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            544

>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=99.15  E-value=3.1e-11  Score=76.40  Aligned_cols=77  Identities=10%  Similarity=0.110  Sum_probs=69.6

Q ss_pred             CCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCccee---------------EEECCeecCCC-CChhhcC
Q 045424           13 PQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTP---------------FLINGNRFDYS-KTADQLG   76 (98)
Q Consensus        13 ~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~r---------------F~fdG~~l~~~-~Tp~~l~   76 (98)
                      .+.-|+|+|+..+|..+.+.|.+++++..|+.+.+++.++++++.|               ++|.|+.|.++ .|..+++
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            4578999999999999999999999999999999999999876654               99999999765 5999999


Q ss_pred             CCCCCEEEEEcee
Q 045424           77 LKDGDEIDAMYHA   89 (98)
Q Consensus        77 medgD~Idv~~~q   89 (98)
                      +++||+|.++.++
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

>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=99.13  E-value=7.5e-11  Score=73.39  Aligned_cols=73  Identities=10%  Similarity=0.048  Sum_probs=67.0

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      +..|+|+|+..++....+.|.+++++..|++.+++..|+++++++|+|.|+.|.+ +|..++++.+|++|.++.
T Consensus         5 s~~~~I~VK~~~~~~~~v~v~~~~tV~~lK~~i~~~~gvp~~~QkLi~~Gk~L~d-~tL~~~gi~~g~~i~lv~   77 (96)
T d1wgga_           5 SSGYSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKD-DDWGNIKMKNGMTVLMMG   77 (96)
T ss_dssp             CCEEEEEEEETTEEEEEEEEESSSCHHHHHHHHHHHTCCCTTTSCCEETTEECCS-SCCCSCCCCSSCEEECCC
T ss_pred             CCceEEEEEeCCCCEEEEEECCCCcHHHHHHHhhhhcCccceeeEEeecCcccCC-CcHHHCCCCCCCEEEEEe
Confidence            5789999998777667899999999999999999999999999999999999986 599999999999998863

>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=99.00  E-value=2e-09  Score=64.88  Aligned_cols=72  Identities=13%  Similarity=0.240  Sum_probs=62.2

Q ss_pred             EEEEEEccCCCEEEEEE-----cCccHHHHHHHHHHHhcCCCCcceeEEECCeecC-CCCChhhcCCCCCCEEEEEcee
Q 045424           17 INLIIKSQDGDKRFFQF-----NHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFD-YSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~I-----k~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~-~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      |+|+|.. .+....+.|     ..++++..|++..++..|++++.++++|.|..|. ++.|.+++++.+|++|.+..+.
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            6788865 556666666     5788999999999999999999999999999996 5679999999999999998653

>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=98.99  E-value=1.3e-09  Score=67.67  Aligned_cols=74  Identities=11%  Similarity=0.148  Sum_probs=64.5

Q ss_pred             CCcEEEEEEcc---CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCee-------cC-CCCChhhcCCCCCCE
Q 045424           14 QHLINLIIKSQ---DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNR-------FD-YSKTADQLGLKDGDE   82 (98)
Q Consensus        14 ~~~I~I~v~~~---~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~-------l~-~~~Tp~~l~medgD~   82 (98)
                      +..|+|+|++.   ++..++.++.++.++..|+....+.+|++.+.++|+|.|..       |. ++.|..+++++||++
T Consensus         7 ~~~iti~i~~~~~~~~~~~~~kv~~~~TV~~LK~~i~~~~gip~~~qrL~y~~~~~~~~~~~l~~d~~tL~~YgI~dg~~   86 (97)
T d1wjna_           7 GQLLTLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSKMPGREIELENDLQPLQFYSVENGDC   86 (97)
T ss_dssp             SCEEEEEEEESSCSSSCCEEEEEETTSBHHHHHHHHHTTTTCCTTTCEEEEECTTSCSCEEECCCSSSBSGGGTCCTTCE
T ss_pred             CCeEEEEEEeCCCCCCceEEEEcCCCCCHHHHHHHHHHHHCcChHHeEEEecCCCCCcccceecCCCcCHhhccCCCCCE
Confidence            46788988864   45678999999999999999999999999999999998764       33 688999999999999


Q ss_pred             EEEEc
Q 045424           83 IDAMY   87 (98)
Q Consensus        83 Idv~~   87 (98)
                      |.|..
T Consensus        87 I~V~~   91 (97)
T d1wjna_          87 LLVRW   91 (97)
T ss_dssp             EEEEC
T ss_pred             EEEEe
Confidence            99864

>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=98.91  E-value=7.1e-09  Score=63.93  Aligned_cols=79  Identities=9%  Similarity=0.071  Sum_probs=67.0

Q ss_pred             CCcEEEEEEccCCC--EEEEEEcCccHHHHHHHHHHHhcC--CCCcceeEEECCeecCCCCChhhcCC--CCCCEEEEEc
Q 045424           14 QHLINLIIKSQDGD--KRFFQFNHDVEIKRLLIKYCETKS--QPFKSTPFLINGNRFDYSKTADQLGL--KDGDEIDAMY   87 (98)
Q Consensus        14 ~~~I~I~v~~~~g~--~~~f~Ik~~t~l~kL~~~y~~~~g--~~~~~~rF~fdG~~l~~~~Tp~~l~m--edgD~Idv~~   87 (98)
                      +..|+|.|++.++.  .+.+.+.+++++..|++..++..+  ++++++|++|.|+.|.++.|..++..  +++.+|++..
T Consensus         5 s~~i~l~Ik~~~~~~~~~~~~v~~~~TV~~LK~~I~~~~~~~~~~~~qrLIy~Gk~L~D~~~L~d~~~~~~~~~viHLV~   84 (93)
T d1wgda_           5 SSGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDLLPKQEKRHVLHLVC   84 (93)
T ss_dssp             SCCCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECCSSSCHHHHSCSSSCSEEEEEEC
T ss_pred             CCcEEEEEECCCCCceeEEEEcCCCCcHHHHHHHHHHHcCCCCChHHEEEEECCeEccCCCCHHHhCcccCCCCEEEEEe
Confidence            45688888887664  478899999999999999999976  78899999999999999999999964  4556999988


Q ss_pred             eecCC
Q 045424           88 HAFGG   92 (98)
Q Consensus        88 ~q~GG   92 (98)
                      +...+
T Consensus        85 ~~~~~   89 (93)
T d1wgda_          85 NVKSG   89 (93)
T ss_dssp             CCCCC
T ss_pred             cCCCC
Confidence            77654

>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=98.89  E-value=2.6e-09  Score=65.24  Aligned_cols=76  Identities=16%  Similarity=0.103  Sum_probs=66.1

Q ss_pred             CCcEEEEEEccCCCEEEE-EEcCccHHHHHHHHHHHhcCCCCcceeEE---ECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424           14 QHLINLIIKSQDGDKRFF-QFNHDVEIKRLLIKYCETKSQPFKSTPFL---INGNRFDYSKTADQLGLKDGDEIDAMYHA   89 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f-~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~---fdG~~l~~~~Tp~~l~medgD~Idv~~~q   89 (98)
                      +..|+|.|+. .|....+ .|.+++++..|++..+++.|+++++++++   |.|..|.++.|..++++.+|++|.+....
T Consensus         5 s~~~~i~Vk~-~~~~~~i~~v~~~~tV~~LK~~i~~~t~vp~~~QkLi~~~~~Gk~L~D~~tL~~~~i~~g~~i~lv~s~   83 (90)
T d1v5ta_           5 SSGLPIIVKW-GGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLGALKLKPNTKIMMMGTR   83 (90)
T ss_dssp             CCSCCEEEEE-TTEEEEECSCCSSSBHHHHHHHHHHHTCCCTTTCEEESCEETTEECCTTSBHHHHTCCTTEEEEEECCC
T ss_pred             CCcEEEEEEE-CCeEEEEEEeCCCCcHHHHHHHHHHHHcCCHHHhhhhhhccCCcCCCCcCcHHHcCCCCCCEEEEEeeC
Confidence            4567777775 5556666 59999999999999999999999999999   69999999999999999999999998654


Q ss_pred             c
Q 045424           90 F   90 (98)
Q Consensus        90 ~   90 (98)
                      -
T Consensus        84 ~   84 (90)
T d1v5ta_          84 E   84 (90)
T ss_dssp             S
T ss_pred             C
Confidence            3

>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=98.82  E-value=1.3e-08  Score=62.94  Aligned_cols=80  Identities=14%  Similarity=0.127  Sum_probs=69.5

Q ss_pred             CCcEEEEEEcc-CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCe-------ecCCCCChhhcCCCCCCEEEE
Q 045424           14 QHLINLIIKSQ-DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGN-------RFDYSKTADQLGLKDGDEIDA   85 (98)
Q Consensus        14 ~~~I~I~v~~~-~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~-------~l~~~~Tp~~l~medgD~Idv   85 (98)
                      +.-|+|.|.+. +......++.++.++..|+.+.....|+++++++++|.|.       .+.++.|..+++++||.+|+|
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            46788999874 5556789999999999999999999999999999999776       477899999999999999999


Q ss_pred             EceecCCC
Q 045424           86 MYHAFGGG   93 (98)
Q Consensus        86 ~~~q~GG~   93 (98)
                      ..+...|-
T Consensus        85 vd~~p~~~   92 (95)
T d1v6ea_          85 IDHSGSGP   92 (95)
T ss_dssp             BCCSCCSS
T ss_pred             EeCCCCCC
Confidence            88765553

>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=98.81  E-value=2.4e-08  Score=62.90  Aligned_cols=75  Identities=13%  Similarity=0.140  Sum_probs=63.8

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCC-------EEEEEcee
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGD-------EIDAMYHA   89 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD-------~Idv~~~q   89 (98)
                      |.|+++. .+..+.+.|.+++++..|+...+++.|++++++||+|.|+.|.++.|..++++.+++       .+...++.
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            5666665 444678999999999999999999999999999999999999999999999997665       56666665


Q ss_pred             cCC
Q 045424           90 FGG   92 (98)
Q Consensus        90 ~GG   92 (98)
                      .|+
T Consensus        81 ~~~   83 (103)
T d2c9wb1          81 DDT   83 (103)
T ss_dssp             TTE
T ss_pred             CCC
Confidence            554

>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=98.66  E-value=1.3e-07  Score=57.71  Aligned_cols=78  Identities=19%  Similarity=0.208  Sum_probs=66.0

Q ss_pred             CcEEEEEEcc-CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCe-------ecCCCCChhhcCCCCCCEEEEE
Q 045424           15 HLINLIIKSQ-DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGN-------RFDYSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus        15 ~~I~I~v~~~-~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~-------~l~~~~Tp~~l~medgD~Idv~   86 (98)
                      +.+.|+|.+. .+..+..++.++.++..|+.......|++++.+++.|.|.       ...++.|..+++++||.+|+| 
T Consensus         3 ~~~~l~it~~~t~~~~E~r~~~~~TV~~LK~kle~~~Gip~~~q~L~~~~~~~~~~~~l~dd~~~L~~ygi~dG~~Ihv-   81 (90)
T d1t0ya_           3 EVYDLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRIHA-   81 (90)
T ss_dssp             CEEEEEEEESSCCSCEEEEEETTSBHHHHHHHHHHHHCCCTTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSEEEEE-
T ss_pred             cEEEEEEEECCCccEEEEecCCCCCHHHHHHHHHHHHCCChhheEEEEeCCCCCcccccccCCCCHHHCCCCCCCEEEE-
Confidence            5678888763 3456889999999999999999999999999999998765       456788999999999999999 


Q ss_pred             ceecCCC
Q 045424           87 YHAFGGG   93 (98)
Q Consensus        87 ~~q~GG~   93 (98)
                      +...||.
T Consensus        82 vd~~~~~   88 (90)
T d1t0ya_          82 VDVTGGN   88 (90)
T ss_dssp             EECTTCC
T ss_pred             EeCCCCC
Confidence            5666664

>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=98.51  E-value=3.4e-07  Score=56.63  Aligned_cols=53  Identities=13%  Similarity=0.168  Sum_probs=47.4

Q ss_pred             ccHHHHHHHHHHHhcC--C-CCcceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424           36 DVEIKRLLIKYCETKS--Q-PFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        36 ~t~l~kL~~~y~~~~g--~-~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      +.+...|++..+++..  . +++++||+|.|+.|.++.|.+++++++|.+|+++.+
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            5679999999998865  3 358999999999999999999999999999999875

>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=98.06  E-value=1.6e-05  Score=47.19  Aligned_cols=69  Identities=9%  Similarity=0.137  Sum_probs=65.5

Q ss_pred             EEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424           19 LIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus        19 I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~   87 (98)
                      |.|.+.+|+..++++.+++.|..+.+.-|+++|++.++..+.|.+..|+.+..-.-.||-+|..+|+..
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            677889999999999999999999999999999999999999999999999999999999999998864

>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=97.27  E-value=0.0017  Score=38.74  Aligned_cols=73  Identities=7%  Similarity=0.074  Sum_probs=57.0

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECC--eecC--CCCChhhcCCCCCCEEEEEc
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLING--NRFD--YSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG--~~l~--~~~Tp~~l~medgD~Idv~~   87 (98)
                      ...++|.|+-.+|..+.-++..+++++.|++ |.+..+.....++|+...  ..+.  .+.|.+++|+....++.|.-
T Consensus        14 ~~~~~i~iRlPdG~r~~r~F~~~dtl~~l~~-fv~~~~~~~~~f~l~~~~Pr~~~~~d~~~TL~e~gl~p~~~L~v~~   90 (96)
T d2cr5a1          14 EEVVTVALRCPNGRVLRRRFFKSWNSQVLLD-WMMKVGYHKSLYRLSTSFPRRALEVEGGSSLEDIGITVDTVLNVEE   90 (96)
T ss_dssp             SSEEEEEEECTTSCEEEEEEESSSBTHHHHH-HHHHHTCCTTTEEEECSSSCCBCCCCSSCBHHHHTCSSCEEEEEEE
T ss_pred             CCeEEEEEECCCCCEEEEEECCcccHHHHHH-HHHHhccCcccceeecCCCceecCccCCCcHHHCCCCCCCEEEEec
Confidence            4679999999999999989999999999995 555556566677776543  3342  46799999999998887754

>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=96.99  E-value=0.0066  Score=35.81  Aligned_cols=68  Identities=18%  Similarity=0.265  Sum_probs=52.9

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHh-cCCCCcceeEEEC--Ceec-CCCCChhhcCCCCCC
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCET-KSQPFKSTPFLIN--GNRF-DYSKTADQLGLKDGD   81 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~-~g~~~~~~rF~fd--G~~l-~~~~Tp~~l~medgD   81 (98)
                      .+..+|.|+.+||..+..++..+++++.|++-.... .+.....+.|.-.  -+.+ +.+.|.+++||.+.-
T Consensus        12 ~p~t~I~iRlPdG~~~~~~F~~~~tl~dv~~~v~~~~~~~~~~~f~L~t~~Prr~l~d~~~TL~e~gL~~s~   83 (89)
T d1i42a_          12 EPTTNIQIRLADGGRLVQKFNHSHRISDIRLFIVDARPAMAATSFVLMTTFPNKELADENQTLKEANLLNAV   83 (89)
T ss_dssp             SCCEEEEEEETTTCCEEEEECSSSCGGGHHHHHHHHCTTTSSCCEEEEETTTTEECCCCSSCSGGGTTCCSE
T ss_pred             CCcEEEEEEcCCCCEEEEEECCchhHHHHHHHHHHhCccCCCCCEEEecCCCCcccCCCcCcHHHCCCcCce
Confidence            456788888899999999999999999999877554 3556667888765  3344 468899999999653

>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=96.86  E-value=0.011  Score=34.04  Aligned_cols=72  Identities=13%  Similarity=0.076  Sum_probs=56.7

Q ss_pred             CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE--CCeecC---CCCChhhcCCCCCCEEEEEc
Q 045424           15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI--NGNRFD---YSKTADQLGLKDGDEIDAMY   87 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f--dG~~l~---~~~Tp~~l~medgD~Idv~~   87 (98)
                      +.++|.|+-++|..+.-++..+++++.|++-... .+.+...+.|.-  -.+.+.   .+.|.+++|+-...++.|-.
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            4567889999999999999999999999977654 466666677665  455563   46799999999998887654

>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=96.84  E-value=0.0019  Score=39.23  Aligned_cols=69  Identities=16%  Similarity=0.216  Sum_probs=53.3

Q ss_pred             EEEEccCCCEEEEEE-cCccHHHHHHHHHHHhcCCCCcceeEEEC--------------CeecC-CCCChhhcCCCCCCE
Q 045424           19 LIIKSQDGDKRFFQF-NHDVEIKRLLIKYCETKSQPFKSTPFLIN--------------GNRFD-YSKTADQLGLKDGDE   82 (98)
Q Consensus        19 I~v~~~~g~~~~f~I-k~~t~l~kL~~~y~~~~g~~~~~~rF~fd--------------G~~l~-~~~Tp~~l~medgD~   82 (98)
                      |+|++.+|.+ .+.| +++.++..|+...++..+++.+..++..|              -..+. +..+.++|++++|-+
T Consensus         3 iRiRsrdG~e-Rv~v~~~~~Tl~~LK~~Ie~~L~VPv~~Q~LSl~~~llL~k~P~~~~~~~~l~d~~~~L~sl~i~hGsi   81 (94)
T d1wf9a1           3 LRVRSRDGLE-RVSVDGPHITVSQLKTLIQDQLQIPIHNQTLSTNRNLLLAKSPSDFLAFTDMADPNLRISSLNLAHGSM   81 (94)
T ss_dssp             EEEECSSCEE-EEEECCTTSBHHHHHHHHHHHSCCCTTTCCCBSSGGGGTCCSHHHHTTCCSSCCTTCBGGGTCCCTTCE
T ss_pred             EEEEecCCce-EEEecCCCCcHHHHHHHHHHHhCCCcccceeecChhhhccCCccccchhhhccCCccCHHHcCccCceE
Confidence            7899999964 5566 45679999999999999999988887543              11233 345689999999999


Q ss_pred             EEEEce
Q 045424           83 IDAMYH   88 (98)
Q Consensus        83 Idv~~~   88 (98)
                      |.+..+
T Consensus        82 vyL~y~   87 (94)
T d1wf9a1          82 VYLAYE   87 (94)
T ss_dssp             EECCCS
T ss_pred             EEEEee
Confidence            987653

>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=96.44  E-value=0.022  Score=35.38  Aligned_cols=77  Identities=18%  Similarity=0.310  Sum_probs=57.5

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC--Ceec---CCCCChhhcCCCCCCEEEEEce
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN--GNRF---DYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l---~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      .+..+|.|+-.+|..+.-++..+++++.|++-... .+.....+.|+..  -+.|   +.+.|.++++|-...+|  +++
T Consensus        41 ~p~~~l~iRlPdG~r~~r~F~~~~tl~~l~~~v~~-~~~~~~~~~L~~~fPr~~l~~~d~~~TL~e~gL~P~~~L--~ve  117 (124)
T d1wj4a_          41 GPKAQLMLRYPDGKREQITLPEQAKLLALVKHVQS-KGYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETV--FVQ  117 (124)
T ss_dssp             SCEEEEEEECTTSCEEEEEEETTSCHHHHHHHHHH-HHCCTTTEEEECSSSCCEETSSCSSSCTTTTTCCSSBCC--EEE
T ss_pred             CCceEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cccCCcceEEeecccccccccccccCcHHHcCCCCCCEE--EEE
Confidence            34678888889999999999999999999876544 4555667776653  3334   35789999999998887  556


Q ss_pred             ecCCC
Q 045424           89 AFGGG   93 (98)
Q Consensus        89 q~GG~   93 (98)
                      +.|..
T Consensus       118 e~~~~  122 (124)
T d1wj4a_         118 ESGPS  122 (124)
T ss_dssp             ECCST
T ss_pred             ecCCC
Confidence            66654

>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=96.03  E-value=0.025  Score=33.04  Aligned_cols=52  Identities=10%  Similarity=0.004  Sum_probs=42.5

Q ss_pred             CCCCCCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE
Q 045424            7 SKNNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI   61 (98)
Q Consensus         7 ~~~~~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f   61 (98)
                      .+....+...|+||+.- ++..+.|.|.++.++..|++..++++++  ..+++.|
T Consensus         3 ~~s~~~~~~~ikVKv~~-~~D~~~~~l~~~it~~dL~~kI~~rf~~--~~~~lkY   54 (85)
T d1ip9a_           3 MGSSTSGLKTTKIKFYY-KDDIFALMLKGDTTYKELRSKIAPRIDT--DNFKLQT   54 (85)
T ss_dssp             CSCCCCCCCCEEEEECB-TTCCEEEEECSCCCHHHHHHHHHHHHTS--SCEEEEE
T ss_pred             CCCCCCCCCCEEEEEEE-CCcEEEEEeCCCCCHHHHHHHHHHHhCC--CceEEEE
Confidence            34455667889999975 6677899999999999999999999975  4577877

>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=94.60  E-value=0.056  Score=32.38  Aligned_cols=57  Identities=25%  Similarity=0.350  Sum_probs=43.2

Q ss_pred             EEEEcCccHHHHHHHHHHHhcC--CCCcceeEEECCee--cC--------------CCCChhhcCCCCCCEEEEE
Q 045424           30 FFQFNHDVEIKRLLIKYCETKS--QPFKSTPFLINGNR--FD--------------YSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus        30 ~f~Ik~~t~l~kL~~~y~~~~g--~~~~~~rF~fdG~~--l~--------------~~~Tp~~l~medgD~Idv~   86 (98)
                      .+.|.++.+|+.|.+.+|++-.  +..-+++...+|..  |.              -+.|..+||++||++|.|.
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            4678899999999999999744  44456666667652  11              1467889999999999885

>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=94.38  E-value=0.2  Score=28.43  Aligned_cols=56  Identities=16%  Similarity=0.305  Sum_probs=43.7

Q ss_pred             CCEEEEEEcCccHHHHHHHHHHHhcCC-----------CCcceeEEECCeecCCCCChhhcCCCCCCEEEEE
Q 045424           26 GDKRFFQFNHDVEIKRLLIKYCETKSQ-----------PFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus        26 g~~~~f~Ik~~t~l~kL~~~y~~~~g~-----------~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~   86 (98)
                      .....+.+....++..|++..+++++-           ....+++..||+.+.. +|    -+.|||+|-++
T Consensus        18 ~~~~~~~~~~~~Tv~~l~~~L~~~~~~~~~~l~~~~~~~~~~i~iavN~~~~~~-d~----~L~~gDevai~   84 (88)
T d1vjka_          18 VDEEEIELPEGARVRDLIEEIKKRHEKFKEEVFGEGYDEDADVNIAVNGRYVSW-DE----ELKDGDVVGVF   84 (88)
T ss_dssp             SSEEEEEECTTCBHHHHHHHHHHHCGGGGGSCBCSSSCTTSSBEEEETTBCCCT-TC----BCCTTCEEEEE
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHChHHHHHhhhccccccccEEEEEcceEcCC-Cc----CcCCCCEEEEe
Confidence            357789999999999999999887642           2356788889988854 33    38999999876

>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=94.00  E-value=0.11  Score=31.57  Aligned_cols=59  Identities=15%  Similarity=0.168  Sum_probs=44.6

Q ss_pred             CCCcEEEEEEccCCCEEEEEEc--CccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEE
Q 045424           13 PQHLINLIIKSQDGDKRFFQFN--HDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAM   86 (98)
Q Consensus        13 ~~~~I~I~v~~~~g~~~~f~Ik--~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~   86 (98)
                      .++.+.|+++.+++..+-+.|.  +.-.|..+.+++++...               ....|.-+++=||||.|.|.
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            3678889999999999999998  48899999999988654               22334445666889988874

>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=92.88  E-value=0.096  Score=30.40  Aligned_cols=63  Identities=13%  Similarity=0.140  Sum_probs=45.7

Q ss_pred             cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC-c--ceeEE-ECCe--ecCCCCChhhcCCCC
Q 045424           16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF-K--STPFL-INGN--RFDYSKTADQLGLKD   79 (98)
Q Consensus        16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~-~--~~rF~-fdG~--~l~~~~Tp~~l~med   79 (98)
                      .|+|+|...|+ ++.|.|++.++=+.|++..|+..|+.. .  .++|. -+|+  .|+.+..........
T Consensus         1 t~~v~V~~LD~-~~~~~v~~~a~G~~l~~~Vc~~l~L~E~dYFGL~y~d~~~~~~WLd~~k~l~kq~~~~   69 (84)
T d1ef1a3           1 TISVRVTTMDA-ELEFAIQPNTTGKQLFDQVVKTIGLREVWFFGLQYQDTKGFSTWLKLNKKVTAQDVRK   69 (84)
T ss_dssp             CEEEEEEETTE-EEEEEECTTCBHHHHHHHHHHHHTCCCGGGEEEEEEBTTSCEEECCSSSBGGGSCBCC
T ss_pred             CEEEEEEEcCC-EEEEEEcCCChHHHHHHHHHHHcCCcccccceEEEECCCCCeEeccCCCchhhhccCC
Confidence            47889998887 599999999999999999999999854 3  33443 2343  455666555543333

>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=92.86  E-value=0.46  Score=27.74  Aligned_cols=78  Identities=15%  Similarity=0.167  Sum_probs=61.4

Q ss_pred             CCCcEEEEEEcc-C-CC-EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEE-ECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424           13 PQHLINLIIKSQ-D-GD-KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFL-INGNRFDYSKTADQLGLKDGDEIDAMYH   88 (98)
Q Consensus        13 ~~~~I~I~v~~~-~-g~-~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~-fdG~~l~~~~Tp~~l~medgD~Idv~~~   88 (98)
                      ...+++.+|.-. | .. ...+.|-..+||..+..--+|.+.++...--.+ -||.=|++.+|....=|+.|..+....+
T Consensus         7 ~~~kvtfkitltSdp~lpfkvlsVpE~aPftAVlkfaAEeFkV~~~TSAiITndGvGINP~QtAg~vFlKhGselrliPR   86 (92)
T d1j0ga_           7 TMSKVSFKITLTSDPRLPYKVLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRIIPR   86 (92)
T ss_dssp             CSCEEEEEEEETTSTTCCEEEEEEETTSBHHHHHHHHHHHTTCCSSSEEEECTTSCCCCCSSBHHHHHHHTCSEEEEEEC
T ss_pred             ccceEEEEEEEccCCCCccEEEecCccCchHHHHHHHHHHcCCCccceeEEecCccccChhhccchhhhhcCceeeeccc
Confidence            356777777532 2 22 347899999999999999999999987655444 4899999999999999999999988865


Q ss_pred             ec
Q 045424           89 AF   90 (98)
Q Consensus        89 q~   90 (98)
                      -+
T Consensus        87 DR   88 (92)
T d1j0ga_          87 DR   88 (92)
T ss_dssp             CS
T ss_pred             cc
Confidence            43

>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=90.36  E-value=0.84  Score=25.72  Aligned_cols=43  Identities=5%  Similarity=0.020  Sum_probs=37.8

Q ss_pred             EEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEE
Q 045424           18 NLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFL   60 (98)
Q Consensus        18 ~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~   60 (98)
                      +|+|.=+||..-.+.+++..+++.+...-|++.|+..+.+..+
T Consensus         2 ~iRv~LPngq~T~V~vrpG~tir~~L~k~l~kRgl~~~~~~V~   44 (73)
T d1wxma1           2 TVKVYLPNKQRTVVTVRDGMSVYDSLDKALKVRGLNQDCCVVY   44 (73)
T ss_dssp             EEEEECSSSCEEEEECCSSCBSHHHHHHHHHTTTCCSSSEEEE
T ss_pred             eEEEEcCCCCeEEEEecCCCCHHHHHHHHHHHcCCCHHHEEEE
Confidence            4566668999999999999999999999999999999887654

>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=89.67  E-value=0.54  Score=25.59  Aligned_cols=61  Identities=21%  Similarity=0.201  Sum_probs=43.9

Q ss_pred             CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           25 DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        25 ~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +|..  +.+...+++..|.+    ..+++...+-...||+-|.. +.=.+.-|.+||.|+++.---||
T Consensus         5 Ng~~--~~~~~~~tl~~ll~----~l~~~~~~vaV~vN~~ivpk-~~~~~~~L~~gD~ieIv~~v~GG   65 (65)
T d1zud21           5 NDQA--MQCAAGQTVHELLE----QLDQRQAGAALAINQQIVPR-EQWAQHIVQDGDQILLFQVIAGG   65 (65)
T ss_dssp             TTEE--ECCCTTCBHHHHHH----HHTCCCTTEEEEETTEECCG-GGTTTCBCCTTCEEEEEECCCCC
T ss_pred             CCEE--EEcCCCCcHHHHHH----HcCCCCCcEEEEECCEEcCH-HHHhhccCCCCCEEEEEEEecCC
Confidence            4543  44567788988885    45788888889999977754 33456679999999997654443

>d1zpsa1 b.168.1.1 (A:8-131) Phosphoribosyl-AMP cyclohydrolase HisI {Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All beta proteins
fold: HisI-like
superfamily: HisI-like
family: HisI-like
domain: Phosphoribosyl-AMP cyclohydrolase HisI
species: Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=89.50  E-value=0.81  Score=28.43  Aligned_cols=84  Identities=14%  Similarity=0.235  Sum_probs=60.1

Q ss_pred             CCCCCCcEEEEEEcc-CCCEEEEEEcCccHHHHHHHHHHHhcCC--CCcceeEEECCeecCCCCChhhcCCC-CCCEEEE
Q 045424           10 NKKPQHLINLIIKSQ-DGDKRFFQFNHDVEIKRLLIKYCETKSQ--PFKSTPFLINGNRFDYSKTADQLGLK-DGDEIDA   85 (98)
Q Consensus        10 ~~~~~~~I~I~v~~~-~g~~~~f~Ik~~t~l~kL~~~y~~~~g~--~~~~~rF~fdG~~l~~~~Tp~~l~me-dgD~Idv   85 (98)
                      +...+.-|...+++. .|..+.+.---...|.+=+   ......  +.+.-++|..|+.--..+...++.+. |+|.|-+
T Consensus        10 ~~n~~gLiP~ivqd~~tg~VLMlaymN~eAl~~Tl---~tg~~~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~D~ll~   86 (124)
T d1zpsa1          10 NINGEDLIIAVAQDHETGEVLMVAYMNREALRRTL---ETGTAHYWSTSRGKLWLKGESSGHVQRVKDVLVDCDGDAVVL   86 (124)
T ss_dssp             CSSSCCCEEEEEEETTTCCEEEEEEECHHHHHHHH---HHSBCEEEETTTTEEEETTTTTSCCEEEEEEEECTTSSEEEE
T ss_pred             CCCCCCceeEEEEECCCCCEEEEEEcCHHHHHHHH---hcCcEEEEEhhhhhhhhhhhhcCCeeEEEEEEcCCCCCEEEE
Confidence            334456899999884 5777665554445555433   222221  55677899999888888888888887 9999999


Q ss_pred             EceecCCCccc
Q 045424           86 MYHAFGGGHDH   96 (98)
Q Consensus        86 ~~~q~GG~~~~   96 (98)
                      .++|.||.+|-
T Consensus        87 ~V~q~G~aCHt   97 (124)
T d1zpsa1          87 KVEQEGGACHT   97 (124)
T ss_dssp             EEEESSCSSTT
T ss_pred             EEecccceeec
Confidence            99999997764

>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=89.32  E-value=0.36  Score=29.23  Aligned_cols=58  Identities=5%  Similarity=0.014  Sum_probs=49.0

Q ss_pred             CCCCCCcEEEEEEccC-CCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecC
Q 045424           10 NKKPQHLINLIIKSQD-GDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFD   67 (98)
Q Consensus        10 ~~~~~~~I~I~v~~~~-g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~   67 (98)
                      ++.=.++|.+++.-.. ++.+.++.|++.++...+.....++|+..+.+..+-.|+...
T Consensus        10 eV~lE~Rv~F~LdLp~~~k~I~VkaKptK~l~EvLrpIL~KYgl~l~~v~v~~~ge~~~   68 (104)
T d1wfya_          10 EVRLENRITFQLELVGLERVVRISAKPTKRLQEALQPILAKHGLSLDQVVLHRPGEKQP   68 (104)
T ss_dssp             CCCCCSCEEEEEEESSSSSEEEEEECSSSBTTTTTHHHHTTTTCCTTTCCBCCTTCSSC
T ss_pred             EEEEeeeEEEEEEcCCCCcEEEEEeCCCCcHHHHHHHHHHHhCCChhHeEEEeCCCccc
Confidence            3334678888888777 899999999999999999999999999999998888776433

>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=88.98  E-value=1.2  Score=25.36  Aligned_cols=44  Identities=5%  Similarity=0.111  Sum_probs=37.3

Q ss_pred             EEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE
Q 045424           18 NLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI   61 (98)
Q Consensus        18 ~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f   61 (98)
                      +|+|.=+||..-.+.+++..+++.+...-+++.|+..+.+..+-
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            34455589999899999999999999999999999988777543

>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=88.61  E-value=0.2  Score=29.19  Aligned_cols=44  Identities=5%  Similarity=-0.013  Sum_probs=39.4

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN   62 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd   62 (98)
                      -+|||+..  -.+.+++.+..++..|-+..+++..++.+..+|.|.
T Consensus         6 ~~vkVh~~--fTVal~v~~G~~y~~L~~lvs~KL~l~~~~~~LSY~   49 (82)
T d1oeya_           6 YTLKVHYK--YTVVMKTQPGLPYSQVRDMVSKKLELRLEHTKLSYR   49 (82)
T ss_dssp             EEEEEESS--SEEEEEECTTCCHHHHHHHHHHHTTCCGGGCCEEEC
T ss_pred             EEEEEEEE--EEEEEEccCCCCHHHHHHHHHHHhCCChhheEEEec
Confidence            46888763  678999999999999999999999999999999994

>d3d32a1 d.15.1.3 (A:1-118) GABA(A) receptor associated protein GABARAP {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: GABARAP-like
domain: GABA(A) receptor associated protein GABARAP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.14  E-value=0.91  Score=27.71  Aligned_cols=62  Identities=15%  Similarity=0.156  Sum_probs=48.2

Q ss_pred             CCcEEEEEEccCCC------EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE-CCeecCCCCChhhc
Q 045424           14 QHLINLIIKSQDGD------KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI-NGNRFDYSKTADQL   75 (98)
Q Consensus        14 ~~~I~I~v~~~~g~------~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG~~l~~~~Tp~~l   75 (98)
                      .++|-|.|....+.      ...|-|..+.++..++.....+.+++.++--|+| +|.....++|..++
T Consensus        28 PdriPVIve~~~~s~lp~ldk~KflVp~d~tv~qf~~~iRkrl~l~~~~alflfvn~~~~~~~~ti~~l   96 (118)
T d3d32a1          28 PDRVPVIVEKAPKARIGDLDKKKYLVPSDLTVGQFYFLIRKRIHLRAEDALFFFVNNVIPPTSATMGQL   96 (118)
T ss_dssp             TTEEEEEEEECTTCCSCCCSCSEEEEETTCBHHHHHHHHHHHHTCCTTSCCEEEBTTBCCCTTCBHHHH
T ss_pred             CCCceEEEEEcCCCCCcccccceEEecCCccHHHHHHHHHHHhCCCccceEEEEECCcccCccccHHHH
Confidence            35777777643332      2379999999999999999999999887766666 77777778899887

>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=88.14  E-value=1  Score=26.18  Aligned_cols=44  Identities=5%  Similarity=-0.025  Sum_probs=36.8

Q ss_pred             CcEEEEEEccCCCEEEEEEc--CccHHHHHHHHHHHhcCCCCcceeEEE
Q 045424           15 HLINLIIKSQDGDKRFFQFN--HDVEIKRLLIKYCETKSQPFKSTPFLI   61 (98)
Q Consensus        15 ~~I~I~v~~~~g~~~~f~Ik--~~t~l~kL~~~y~~~~g~~~~~~rF~f   61 (98)
                      +.|+||+. ..|..+.|++.  .++.+..|....+.+++++  .+.+.|
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            57899997 47888889986  5688999999999999985  577777

>d1eo6a_ d.15.1.3 (A:) Golgi-associated ATPase enhancer of 16 kD, Gate-16 {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: GABARAP-like
domain: Golgi-associated ATPase enhancer of 16 kD, Gate-16
species: Cow (Bos taurus) [TaxId: 9913]

Probab=87.84  E-value=1.1  Score=27.18  Aligned_cols=61  Identities=21%  Similarity=0.302  Sum_probs=46.8

Q ss_pred             CcEEEEEEccCC------CEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE-CCeecCCCCChhhc
Q 045424           15 HLINLIIKSQDG------DKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI-NGNRFDYSKTADQL   75 (98)
Q Consensus        15 ~~I~I~v~~~~g------~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG~~l~~~~Tp~~l   75 (98)
                      ++|-|.|....+      ....|-|..+.++..++.....+.+++.++--|+| +|..+..+.|..++
T Consensus        27 ~rIPVIve~~~~~~l~~ldk~KfLVP~dltv~qf~~vIRkrl~l~~~~alflfv~~~l~~~s~~i~~l   94 (116)
T d1eo6a_          27 DRVPVIVEKVSGSQIVDIDKRKYLVPSDITVAQFMWIIRKRIQLPSEKAIFLFVDKTVPQSSLTMGQL   94 (116)
T ss_dssp             TEEEEEEEECTTCSSCCCSCCEEEEETTSBHHHHHHHHHHHHTCCTTSCCEEEBTTBCCCTTSBHHHH
T ss_pred             CCceEEEEECCcCcCCcccCcEEeecCCCcHHHHHHHHHHHcCCCccceEEEEECCcccchhhhHHHH
Confidence            467777754222      23479999999999999999999999876666666 77777778888877

>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=87.07  E-value=0.62  Score=26.53  Aligned_cols=37  Identities=14%  Similarity=0.052  Sum_probs=32.8

Q ss_pred             EEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC
Q 045424           18 NLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF   54 (98)
Q Consensus        18 ~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~   54 (98)
                      ..+|.-.||..+.|.|.+.+.=+.|++..|+..|+..
T Consensus         2 ~C~V~lLD~~~~~~~v~~~~~G~~l~~~Vc~~l~l~E   38 (81)
T d1gg3a3           2 HCKVSLLDDTVYECVVEKHAKGQDLLKRVCEHLNLLE   38 (81)
T ss_dssp             EEEEECTTSCEEEEECCTTCCHHHHHHHHHHHHTTCS
T ss_pred             EEEEEecCCCEEEEEECCCCcHHHHHHHHHHHcCCcc
Confidence            4566668999999999999999999999999999854

>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=87.00  E-value=0.9  Score=24.60  Aligned_cols=60  Identities=22%  Similarity=0.277  Sum_probs=42.8

Q ss_pred             CCCEEEEEEcCcc-HHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           25 DGDKRFFQFNHDV-EIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        25 ~g~~~~f~Ik~~t-~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +|+.  +.+..+. ++..|.+    ..+++.+.+-.-+||+-|..++ -++.-|.+||.|+++. -+||
T Consensus         5 NG~~--~~~~~~~~tl~~LL~----~l~~~~~~vAVevN~~iv~k~~-~~~~~L~~gD~IEIv~-~vgG   65 (65)
T d1tygb_           5 NGKD--VKWKKDTGTIQDLLA----SYQLENKIVIVERNKEIIGKER-YHEVELCDRDVIEIVH-FVGG   65 (65)
T ss_dssp             TTEE--ECCSSSCCBHHHHHH----HTTCTTSCCEEEETTEEECGGG-TTTSBCCSSSEEEEEE-ECCC
T ss_pred             CCEE--EEcCCCcccHHHHHH----HcCCCCCcEEEEECCEEcCHHH-cCcccCCCCCEEEEEE-eecC
Confidence            5554  3445543 7888864    4578888899999998886543 3445599999999875 5665

>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=86.78  E-value=0.65  Score=26.28  Aligned_cols=60  Identities=13%  Similarity=0.242  Sum_probs=42.0

Q ss_pred             EEEcCccHHHHHHHHHHHhcC-C---------CCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           31 FQFNHDVEIKRLLIKYCETKS-Q---------PFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        31 f~Ik~~t~l~kL~~~y~~~~g-~---------~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +.+. .+++..|++..++++. +         -...+++..||+.+...+ ..+--++|||+|.++.-..||
T Consensus        18 ~~v~-~~Tv~~ll~~L~~~~p~l~~~l~~~~~~~~~v~i~vng~~i~~~~-~~~~~l~~gdeV~i~PpvsGG   87 (87)
T d1v8ca1          18 LELP-GATVGEVLENLVRAYPALKEELFEGEGLAERVSVFLEGRDVRYLQ-GLSTPLSPGATLDLFPPVAGG   87 (87)
T ss_dssp             EECC-CSBHHHHHHHHHHHCGGGHHHHEETTEECTTCEEEETTEEGGGTT-GGGCBCCTTCEEEEECSCCSE
T ss_pred             EEEc-CCCHHHHHHHHHHHCHHHHHHhcccccccceEEEEEcCeeeeccc-CCcccCCCCCEEEEECCCCCC
Confidence            3444 4679999999988773 1         124577889999886432 223348999999998877776

>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=86.64  E-value=0.92  Score=26.50  Aligned_cols=63  Identities=6%  Similarity=0.029  Sum_probs=46.9

Q ss_pred             CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcc-eeEE--E-C-C--eecCCCCChhhcC
Q 045424           14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKS-TPFL--I-N-G--NRFDYSKTADQLG   76 (98)
Q Consensus        14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~-~rF~--f-d-G--~~l~~~~Tp~~l~   76 (98)
                      ..++.|+|-..+|....+.|..+++.+.|....+++.++.... +.++  + + |  +.|.+.+-|-++-
T Consensus         7 ~~~~vvkv~~~dg~~k~l~V~~~tTa~eV~~~l~~K~~~~~~~~f~L~E~~~~~~leR~L~d~E~vl~v~   76 (100)
T d1wgra_           7 GRPHVVKVYSEDGACRSVEVAAGATARHVCEMLVQRAHALSDETWGLVECHPHLALERGLEDHESVVEVQ   76 (100)
T ss_dssp             CSCEEEEEEETTSCEEEEEECTTCCHHHHHHHHHCSSSCCCCCCCCEEEEETTTTEEEEECSSSCHHHHH
T ss_pred             CCceEEEEEecCCCEEEEEECCCCcHHHHHHHHHHHhCCCCCCCeEEEEecCCCcceeecCchHhHHHHH
Confidence            4567788888899999999999999999999999999985422 1111  1 2 3  5677777666653

>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=84.11  E-value=2.3  Score=24.06  Aligned_cols=59  Identities=15%  Similarity=0.117  Sum_probs=43.4

Q ss_pred             cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCc---ceeEEECCe--ecCCCCChhhc
Q 045424           16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFK---STPFLINGN--RFDYSKTADQL   75 (98)
Q Consensus        16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~---~~rF~fdG~--~l~~~~Tp~~l   75 (98)
                      .|+++|...|+ ++.|.|.+.++=+.|++..|+..|+...   .+++.-+|.  .|+.+......
T Consensus         2 ~~~v~V~lLD~-~le~~v~~~a~G~~L~d~Vc~~L~L~E~~YFGL~y~~~~~~~WLd~~k~l~kq   65 (84)
T d1h4ra3           2 TFTVRIVTMDA-EMEFNCEMKWKGKDLFDLVCRTLGLRETWFFGLQYTIKDTVAWLKMDKKVLDH   65 (84)
T ss_dssp             EEEEEEECSSC-EEEEEEETTCBHHHHHHHHHHHHTCCCGGGEEEEEEETTEEEECCTTSBGGGS
T ss_pred             eEEEEEEEcCC-cEEEEEcCCChHHHHHHHHHHHcCCcccccceEEEecCCceEEccCCCchhhh
Confidence            57888888887 5899999999999999999999998542   344444554  34445554443

>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=83.05  E-value=2.4  Score=23.35  Aligned_cols=66  Identities=23%  Similarity=0.356  Sum_probs=48.2

Q ss_pred             EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424           17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG   92 (98)
Q Consensus        17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG   92 (98)
                      +++++...++.. .+.....++++.+.    ....++.+++...-+|+.+.++     -.+.|||+|++..--.||
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            567777666644 34455555555554    4677899999999999988754     468999999998776676