Citrus Sinensis ID: 034095

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100----
Protein Sequence
MSATGGGGGGGQEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYGRLNTGHCR
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccEEEEEEEccccEEEEEEEcccHHHHHHHHHHHcccccccEEEEEEccEEccccccccccccccccEEEEEEEEEcccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccEEEEEEEcccccEEEEEEEcccccHHHHHHHHHHccccHHHEEEEEccEEcccccccccccEEEEEEEccccccccccccc
Coil and Loop (DISEMBL)
msatgggggggqeedkkpvdqsahinlkvkgqdgneVFFRIKRSTQLKKLMNAYCDRQSVELNSIAflfdgrrlrgeqtpDEVILLFCAFCsckygrlntghcr
Flexible Loop (DISEMBL)
msatgggggggqeedkkpvDQSAHInlkvkgqdgnevfFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYGRLNTGHCR
Low Complexity Region (SEG)
MSATgggggggQEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYGRLNTGHCR
Disordered region (IsUnstruct)
*******************************QDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYGRLN*****
Disordered Region (DISOPRED)
*************************NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYGRLNT****
Disordered Region (DISEMBL)
******************VDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYGRLNTGHCR
Disordered Region (DISPRO)
********************QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYGRLNT**C*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSATGGGGGGGQEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYGRLNTGHCR
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	104	2.2.26 [Sep-21-2011]
P55852	100	Small ubiquitin-related m	yes	no	0.730	0.76	0.855	1e-32
Q9FLP6	103	Small ubiquitin-related m	no	no	0.721	0.728	0.831	3e-31
P55857	100	Small ubiquitin-related m	yes	no	0.730	0.76	0.779	4e-30
O13351	117	Ubiquitin-like protein pm	yes	no	0.769	0.683	0.512	2e-17
Q9FLP5	111	Small ubiquitin-related m	no	no	0.673	0.630	0.541	2e-16
B3H5R8	97	Putative small ubiquitin-	no	no	0.663	0.711	0.521	1e-15
Q6DEP7	102	Small ubiquitin-related m	yes	no	0.576	0.588	0.516	7e-13
Q5EAX4	102	Small ubiquitin-related m	N/A	no	0.576	0.588	0.516	7e-13
P55853	91	Small ubiquitin-related m	yes	no	0.653	0.747	0.453	2e-12
Q8QGH2	101	Small ubiquitin-related m	yes	no	0.576	0.594	0.5	3e-12

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

 Score =  138 bits (347), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 65/76 (85%), Positives = 69/76 (90%)

Query: 10 GGQEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF 69
            QEEDKKP D  AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV++NSIAFLF
Sbjct: 3  ANQEEDKKPGDGGAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDMNSIAFLF 62

Query: 70 DGRRLRGEQTPDEVIL 85
          DGRRLR EQTPDE+ +
Sbjct: 63 DGRRLRAEQTPDELDM 78

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

 Score =  133 bits (335), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 69/83 (83%), Positives = 71/83 (85%), Gaps = 8/83 (9%)

Query: 1  MSATGGGGGGGQEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV 60
          MSAT        EEDKKP DQ AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV
Sbjct: 1  MSAT-------PEEDKKP-DQGAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV 52

Query: 61 ELNSIAFLFDGRRLRGEQTPDEV 83
          + NSIAFLFDGRRLR EQTPDE+
Sbjct: 53 DFNSIAFLFDGRRLRAEQTPDEL 75

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 =  129 bits (325), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 67/86 (77%), Positives = 71/86 (82%), Gaps = 10/86 (11%)

Query: 1  MSATGGGGGGGQEEDKKPVDQS---AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDR 57
          MSA G       EEDKKP       AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDR
Sbjct: 1  MSAAG-------EEDKKPAGGEGGGAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDR 53

Query: 58 QSVELNSIAFLFDGRRLRGEQTPDEV 83
          QSV++N+IAFLFDGRRLRGEQTPDE+
Sbjct: 54 QSVDMNAIAFLFDGRRLRGEQTPDEL 79

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

 Score = 87.4 bits (215), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 42/82 (51%), Positives = 54/82 (65%), Gaps = 2/82 (2%)

Query: 2  SATGGGGGGGQEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVE 61
          SA     G   ++D KP   + HINLKV GQD NEVFF+IK++T+  KLM  YC RQ   
Sbjct: 15 SAITPTTGDTSQQDVKP--STEHINLKVVGQDNNEVFFKIKKTTEFSKLMKIYCARQGKS 72

Query: 62 LNSIAFLFDGRRLRGEQTPDEV 83
          +NS+ FL DG R+R +QTP E+
Sbjct: 73 MNSLRFLVDGERIRPDQTPAEL 94

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

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

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

 Score = 84.3 bits (207), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 39/72 (54%), Positives = 55/72 (76%), Gaps = 2/72 (2%)

Query: 14 EDKKPVDQS--AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDG 71
          +D KP+DQ   AH+ LKVK QDG+EV F+ K+S  LKKLM  YCDR+ ++L++ AF+F+G
Sbjct: 5  QDDKPIDQEQEAHVILKVKSQDGDEVLFKNKKSAPLKKLMYVYCDRRGLKLDAFAFIFNG 64

Query: 72 RRLRGEQTPDEV 83
           R+ G +TPDE+
Sbjct: 65 ARIGGLETPDEL 76

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

 Score = 81.3 bits (199), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 36/69 (52%), Positives = 53/69 (76%)

Query: 15 DKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRL 74
          DKKP+  S+HI +KVK QD   V+FRIKR  +L+K+M+AY D+  VE++++ FLFDG R+
Sbjct: 5  DKKPLIPSSHITVKVKNQDDICVYFRIKRDVELRKMMHAYSDKVGVEMSTLRFLFDGNRI 64

Query: 75 RGEQTPDEV 83
          +  QTP+E+
Sbjct: 65 KLNQTPNEL 73

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|Q6DEP7|SUMO1_XENTR Small ubiquitin-related modifier 1 OS=Xenopus tropicalis GN=sumo1 PE=3 SV=1

 Score = 72.4 bits (176), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 31/60 (51%), Positives = 44/60 (73%)

Query: 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEV 83
          +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FLF+G+R+   QTP E+
Sbjct: 22 YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRISDHQTPKEL 81

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

Xenopus tropicalis (taxid: 8364)

>sp|Q5EAX4|SMO1B_XENLA Small ubiquitin-related modifier 1-B OS=Xenopus laevis GN=sumo1-b PE=3 SV=1

 Score = 72.4 bits (176), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 31/60 (51%), Positives = 44/60 (73%)

Query: 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEV 83
          +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FLF+G+R+   QTP E+
Sbjct: 22 YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRISDHQTPKEL 81

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

Xenopus laevis (taxid: 8355)

>sp|P55853|SUMO_CAEEL Small ubiquitin-related modifier OS=Caenorhabditis elegans GN=smo-1 PE=1 SV=1

 Score = 71.2 bits (173), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 34/75 (45%), Positives = 47/75 (62%), Gaps = 7/75 (9%)

Query: 20 DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQT 79
          D + +I +KV GQD NEV FR+K  T + KL  +Y DR  V +NS+ FLFDGRR+  + T
Sbjct: 10 DNAEYIKIKVVGQDSNEVHFRVKYGTSMAKLKKSYADRTGVAVNSLRFLFDGRRINDDDT 69

Query: 80 P-------DEVILLF 87
          P       D+VI ++
Sbjct: 70 PKTLEMEDDDVIEVY 84

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. Plays a role in a number of cellular processes such as nuclear transport, DNA replication and repair, mitosis and signal transduction. Covalent attachment to its substrates requires prior activation by the E1 complex aos-1-uba-2 and linkage to the E2 enzyme ubc-9, and can be promoted by an E3 ligase such as gei-17. Required for embryonic development, fertility, vulval morphogenesis and inhibition of vulval cell fates.

Caenorhabditis elegans (taxid: 6239)

>sp|Q8QGH2|SUMO1_CHICK Small ubiquitin-related modifier 1 OS=Gallus gallus GN=SUMO1 PE=3 SV=1

 Score = 70.5 bits (171), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 30/60 (50%), Positives = 43/60 (71%)

Query: 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEV 83
          +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FLF+G+R+    TP E+
Sbjct: 21 YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRITDNHTPKEL 80

Ubiquitin-like protein that can be covalently attached to proteins as a monomer or a lysine-linked polymer. Covalent attachment via an isopeptide bond to its substrates requires prior activation by the E1 complex SAE1-SAE2 and linkage to the E2 enzyme UBE2I. This post-translational modification on lysine residues of proteins plays a crucial role in a number of cellular processes such as nuclear transport, DNA replication and repair, mitosis and signal transduction. Polymeric SUMO1 chains are also susceptible to polyubiquitination which functions as a signal for proteasomal degradation of modified proteins.

Gallus gallus (taxid: 9031)

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	104
225470236	103	PREDICTED: small ubiquitin-related modif	0.788	0.796	0.903	6e-36
147862318	104	hypothetical protein VITISV_032072 [Viti	0.788	0.788	0.903	9e-36
224064888	103	predicted protein [Populus trichocarpa]	0.769	0.776	0.887	5e-34
224064886	105	predicted protein [Populus trichocarpa]	0.740	0.733	0.909	7e-34
224131676	103	predicted protein [Populus trichocarpa]	0.769	0.776	0.887	1e-33
351726472	103	uncharacterized protein LOC100305708 [Gl	0.778	0.786	0.855	6e-33
449466075	100	PREDICTED: small ubiquitin-related modif	0.692	0.72	0.944	7e-33
449463252	100	PREDICTED: small ubiquitin-related modif	0.730	0.76	0.894	1e-32
356567836	114	PREDICTED: small ubiquitin-related modif	0.740	0.675	0.883	1e-32
116783570	102	unknown [Picea sitchensis] gi|116784220|	0.798	0.813	0.795	1e-32

>gi|225470236|ref|XP_002262911.1| PREDICTED: small ubiquitin-related modifier 2 [Vitis vinifera] gi|296090483|emb|CBI40814.3| unnamed protein product [Vitis vinifera]

 Score =  154 bits (389), Expect = 6e-36,   Method: Compositional matrix adjust.
 Identities = 75/83 (90%), Positives = 78/83 (93%), Gaps = 1/83 (1%)

Query: 1  MSATGGGGGGGQEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV 60
          MSATGG  GG QEEDKKP DQ AHINLKVKGQDGNEVFFRIKRSTQL+KLM+AYCDRQSV
Sbjct: 1  MSATGGAAGG-QEEDKKPTDQGAHINLKVKGQDGNEVFFRIKRSTQLRKLMSAYCDRQSV 59

Query: 61 ELNSIAFLFDGRRLRGEQTPDEV 83
          ELNSIAFLFDGRRLRGEQTPDE+
Sbjct: 60 ELNSIAFLFDGRRLRGEQTPDEL 82

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147862318|emb|CAN79327.1| hypothetical protein VITISV_032072 [Vitis vinifera]

 Score =  154 bits (388), Expect = 9e-36,   Method: Compositional matrix adjust.
 Identities = 75/83 (90%), Positives = 78/83 (93%), Gaps = 1/83 (1%)

Query: 1  MSATGGGGGGGQEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV 60
          MSATGG  GG QEEDKKP DQ AHINLKVKGQDGNEVFFRIKRSTQL+KLM+AYCDRQSV
Sbjct: 1  MSATGGAAGG-QEEDKKPTDQGAHINLKVKGQDGNEVFFRIKRSTQLRKLMSAYCDRQSV 59

Query: 61 ELNSIAFLFDGRRLRGEQTPDEV 83
          ELNSIAFLFDGRRLRGEQTPDE+
Sbjct: 60 ELNSIAFLFDGRRLRGEQTPDEL 82

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  147 bits (372), Expect = 5e-34,   Method: Compositional matrix adjust.
 Identities = 71/80 (88%), Positives = 73/80 (91%)

Query: 6  GGGGGGQEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSI 65
          G  G  QEEDKKP DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVE NSI
Sbjct: 3  GATGQPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEFNSI 62

Query: 66 AFLFDGRRLRGEQTPDEVIL 85
          AFLFDGRRLRGEQTPDE+ +
Sbjct: 63 AFLFDGRRLRGEQTPDELDM 82

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224064886|ref|XP_002301600.1| predicted protein [Populus trichocarpa] gi|222843326|gb|EEE80873.1| predicted protein [Populus trichocarpa]

 Score =  147 bits (371), Expect = 7e-34,   Method: Compositional matrix adjust.
 Identities = 70/77 (90%), Positives = 73/77 (94%)

Query: 9  GGGQEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFL 68
          G  QEEDKKP DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVE+NSIAFL
Sbjct: 6  GQPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEINSIAFL 65

Query: 69 FDGRRLRGEQTPDEVIL 85
          FDGRRLRGEQTPDE+ +
Sbjct: 66 FDGRRLRGEQTPDELDM 82

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  146 bits (369), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 71/80 (88%), Positives = 73/80 (91%)

Query: 6  GGGGGGQEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSI 65
          G  G  QEEDKKP DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVE NSI
Sbjct: 3  GVTGQPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEFNSI 62

Query: 66 AFLFDGRRLRGEQTPDEVIL 85
          AFLFDGRRLRGEQTPDE+ +
Sbjct: 63 AFLFDGRRLRGEQTPDELDM 82

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  144 bits (363), Expect = 6e-33,   Method: Compositional matrix adjust.
 Identities = 71/83 (85%), Positives = 75/83 (90%), Gaps = 2/83 (2%)

Query: 1  MSATGGGGGGGQEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV 60
          MSA+GG G   QEE+KKP DQ AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV
Sbjct: 1  MSASGGRGS--QEEEKKPSDQGAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV 58

Query: 61 ELNSIAFLFDGRRLRGEQTPDEV 83
          + NSIAFLFDGRRLR EQTPDE+
Sbjct: 59 DFNSIAFLFDGRRLRAEQTPDEL 81

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449466075|ref|XP_004150752.1| PREDICTED: small ubiquitin-related modifier 2-like [Cucumis sativus] gi|449505442|ref|XP_004162471.1| PREDICTED: small ubiquitin-related modifier 2-like [Cucumis sativus]

 Score =  144 bits (363), Expect = 7e-33,   Method: Compositional matrix adjust.
 Identities = 68/72 (94%), Positives = 70/72 (97%)

Query: 12 QEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDG 71
          QEEDKKP DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV+LNSIAFLFDG
Sbjct: 9  QEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDLNSIAFLFDG 68

Query: 72 RRLRGEQTPDEV 83
          RRLR EQTPDE+
Sbjct: 69 RRLRAEQTPDEL 80

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449463252|ref|XP_004149348.1| PREDICTED: small ubiquitin-related modifier 2-like [Cucumis sativus] gi|449503205|ref|XP_004161886.1| PREDICTED: small ubiquitin-related modifier 2-like [Cucumis sativus]

 Score =  143 bits (361), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 68/76 (89%), Positives = 71/76 (93%)

Query: 8  GGGGQEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAF 67
          G   QEEDKKP DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV+LNSIAF
Sbjct: 3  GVTNQEEDKKPTDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDLNSIAF 62

Query: 68 LFDGRRLRGEQTPDEV 83
          LFDGRRLR EQTP+E+
Sbjct: 63 LFDGRRLRAEQTPEEL 78

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  143 bits (361), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 68/77 (88%), Positives = 71/77 (92%)

Query: 7  GGGGGQEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIA 66
          GG G QEE+KKP DQ AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV+ NSIA
Sbjct: 5  GGRGSQEEEKKPSDQGAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDFNSIA 64

Query: 67 FLFDGRRLRGEQTPDEV 83
          FLFDGRRLR EQTPDE+
Sbjct: 65 FLFDGRRLRAEQTPDEL 81

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|116783570|gb|ABK23000.1| unknown [Picea sitchensis] gi|116784220|gb|ABK23261.1| unknown [Picea sitchensis]

 Score =  143 bits (360), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 66/83 (79%), Positives = 73/83 (87%)

Query: 1  MSATGGGGGGGQEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV 60
          M   G     GQEE++KP+DQ AHINLKVKGQDGNEVFFRIKRSTQL+KLMNAYCDRQS+
Sbjct: 1  MDDRGNAAPAGQEEERKPLDQGAHINLKVKGQDGNEVFFRIKRSTQLRKLMNAYCDRQSI 60

Query: 61 ELNSIAFLFDGRRLRGEQTPDEV 83
          + NSIAFLFDGRRLRGEQTPDE+
Sbjct: 61 DFNSIAFLFDGRRLRGEQTPDEL 83

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

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	104
TAIR|locus:2116332	100	SUMO1 "AT4G26840" [Arabidopsis	0.692	0.72	0.902	1.1e-30
TAIR|locus:2161675	116	SUMO2 "small ubiquitin-like mo	0.673	0.603	0.773	1.5e-26
TAIR|locus:2161695	111	SUMO3 "small ubiquitin-like mo	0.673	0.630	0.541	5.3e-17
POMBASE|SPBC365.06	117	pmt3 "SUMO" [Schizosaccharomyc	0.769	0.683	0.5	6.7e-17
TAIR|locus:4515103735	97	AT5G55856 "AT5G55856" [Arabido	0.663	0.711	0.521	1.6e-15
UNIPROTKB|G4MPJ3	109	MGG_05737 "Uncharacterized pro	0.548	0.522	0.586	2.3e-14
ASPGD|ASPL0000057787	94	sumO [Emericella nidulans (tax	0.615	0.680	0.544	3e-14
GENEDB_PFALCIPARUM|PFE0285c	100	PFE0285c "ubiquitin-like prote	0.634	0.66	0.477	6.2e-14
UNIPROTKB|Q8I444	100	PfSUMO "Small ubiquitin-relate	0.634	0.66	0.477	6.2e-14
UNIPROTKB|A8MU27	147	SUMO3 "Small ubiquitin-related	0.721	0.510	0.486	7.9e-14

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

 Score = 338 (124.0 bits), Expect = 1.1e-30, P = 1.1e-30
 Identities = 65/72 (90%), Positives = 68/72 (94%)

Query:    12 QEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDG 71
             QEEDKKP D  AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV++NSIAFLFDG
Sbjct:     5 QEEDKKPGDGGAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDMNSIAFLFDG 64

Query:    72 RRLRGEQTPDEV 83
             RRLR EQTPDE+
Sbjct:    65 RRLRAEQTPDEL 76

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 = 299 (110.3 bits), Expect = 1.5e-26, P = 1.5e-26
 Identities = 65/84 (77%), Positives = 67/84 (79%)

Query:    13 EEDKKPVDQSAHINLKVKGQ-------------DGNEVFFRIKRSTQLKKLMNAYCDRQS 59
             EEDKKP DQ AHINLKVKGQ             DGNEVFFRIKRSTQLKKLMNAYCDRQS
Sbjct:     6 EEDKKP-DQGAHINLKVKGQAFFVVGTWLVIDTDGNEVFFRIKRSTQLKKLMNAYCDRQS 64

Query:    60 VELNSIAFLFDGRRLRGEQTPDEV 83
             V+ NSIAFLFDGRRLR EQTPDE+
Sbjct:    65 VDFNSIAFLFDGRRLRAEQTPDEL 88

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

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

 Score = 209 (78.6 bits), Expect = 5.3e-17, P = 5.3e-17
 Identities = 39/72 (54%), Positives = 55/72 (76%)

Query:    14 EDKKPVDQS--AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDG 71
             +D KP+DQ   AH+ LKVK QDG+EV F+ K+S  LKKLM  YCDR+ ++L++ AF+F+G
Sbjct:     5 QDDKPIDQEQEAHVILKVKSQDGDEVLFKNKKSAPLKKLMYVYCDRRGLKLDAFAFIFNG 64

Query:    72 RRLRGEQTPDEV 83
              R+ G +TPDE+
Sbjct:    65 ARIGGLETPDEL 76

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 = 208 (78.3 bits), Expect = 6.7e-17, P = 6.7e-17
 Identities = 41/82 (50%), Positives = 53/82 (64%)

Query:     2 SATXXXXXXXQEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVE 61
             SA         ++D KP   + HINLKV GQD NEVFF+IK++T+  KLM  YC RQ   
Sbjct:    15 SAITPTTGDTSQQDVKP--STEHINLKVVGQDNNEVFFKIKKTTEFSKLMKIYCARQGKS 72

Query:    62 LNSIAFLFDGRRLRGEQTPDEV 83
             +NS+ FL DG R+R +QTP E+
Sbjct:    73 MNSLRFLVDGERIRPDQTPAEL 94

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 = 195 (73.7 bits), Expect = 1.6e-15, P = 1.6e-15
 Identities = 36/69 (52%), Positives = 53/69 (76%)

Query:    15 DKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRL 74
             DKKP+  S+HI +KVK QD   V+FRIKR  +L+K+M+AY D+  VE++++ FLFDG R+
Sbjct:     5 DKKPLIPSSHITVKVKNQDDICVYFRIKRDVELRKMMHAYSDKVGVEMSTLRFLFDGNRI 64

Query:    75 RGEQTPDEV 83
             +  QTP+E+
Sbjct:    65 KLNQTPNEL 73

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

UNIPROTKB|G4MPJ3 MGG_05737 "Uncharacterized protein" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 184 (69.8 bits), Expect = 2.3e-14, P = 2.3e-14
 Identities = 34/58 (58%), Positives = 46/58 (79%)

Query:    24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPD 81
             H+N+KV   + NEVFF+IKRST+L+KLMNA+CDRQ   L+ + FLFDG+R++   TPD
Sbjct:    33 HLNIKVT-DNNNEVFFKIKRSTKLEKLMNAFCDRQGKSLSQVRFLFDGQRVQPTDTPD 89

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

ASPGD|ASPL0000057787 sumO [Emericella nidulans (taxid:162425)]

 Score = 183 (69.5 bits), Expect = 3.0e-14, P = 3.0e-14
 Identities = 37/68 (54%), Positives = 50/68 (73%)

Query:    14 EDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRR 73
             E   PV+   H+N+KV   + NEVFF+IKR+T LKKLM+A+CDRQ  + +++ FLFDG R
Sbjct:    10 EAPAPVE---HLNIKVT-DNNNEVFFKIKRTTTLKKLMDAFCDRQGKQPSTVRFLFDGTR 65

Query:    74 LRGEQTPD 81
             +R E TPD
Sbjct:    66 VRPEDTPD 73

GO:0016925 "protein sumoylation" evidence=IEA;ISA

GO:0031386 "protein tag" evidence=IEA;ISA

GO:0005654 "nucleoplasm" evidence=IDA

GO:1900560 "austinol biosynthetic process" evidence=IMP

GO:1900563 "dehydroaustinol biosynthetic process" evidence=IMP

GO:0045461 "sterigmatocystin biosynthetic process" evidence=IMP

GO:0036182 "asperthecin metabolic process" evidence=IMP

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

GO:0005940 "septin ring" evidence=IEA

GO:0030998 "linear element" evidence=IEA

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

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

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

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

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

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

GO:0000723 "telomere maintenance" evidence=IEA

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

 Score = 180 (68.4 bits), Expect = 6.2e-14, P = 6.2e-14
 Identities = 32/67 (47%), Positives = 48/67 (71%)

Query:    18 PVD-QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRG 76
             PV+ Q  HI +KV+  DG EVFF+IKR T+L+KLM  YC+R    + ++ FL+DG R+ G
Sbjct:    15 PVNNQGEHIQVKVRSPDGAEVFFKIKRKTKLEKLMEVYCNRLGQSMEAVRFLYDGDRIHG 74

Query:    77 EQTPDEV 83
             + TP+++
Sbjct:    75 DNTPEQL 81

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 = 180 (68.4 bits), Expect = 6.2e-14, P = 6.2e-14
 Identities = 32/67 (47%), Positives = 48/67 (71%)

Query:    18 PVD-QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRG 76
             PV+ Q  HI +KV+  DG EVFF+IKR T+L+KLM  YC+R    + ++ FL+DG R+ G
Sbjct:    15 PVNNQGEHIQVKVRSPDGAEVFFKIKRKTKLEKLMEVYCNRLGQSMEAVRFLYDGDRIHG 74

Query:    77 EQTPDEV 83
             + TP+++
Sbjct:    75 DNTPEQL 81

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

UNIPROTKB|A8MU27 SUMO3 "Small ubiquitin-related modifier 3" [Homo sapiens (taxid:9606)]

 Score = 179 (68.1 bits), Expect = 7.9e-14, P = 7.9e-14
 Identities = 37/76 (48%), Positives = 51/76 (67%)

Query:    12 QEEDKKPVD-QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD 70
             +E+ K+ V  ++ HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F FD
Sbjct:     3 EEKPKEGVKTENDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFD 62

Query:    71 GRRLRGEQTPDEVILL 86
             G+ +    TP + I+L
Sbjct:    63 GQPINETDTPAQGIIL 78

GO:0005634 "nucleus" evidence=IEA

GO:0016925 "protein sumoylation" 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)
P55852	SUMO1_ARATH	No assigned EC number	0.8552	0.7307	0.76	yes	no
P55857	SUMO1_ORYSJ	No assigned EC number	0.7790	0.7307	0.76	yes	no
O13351	PMT3_SCHPO	No assigned EC number	0.5121	0.7692	0.6837	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

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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	104
cd01763	87	cd01763, Sumo, Small ubiquitin-related modifier (S	2e-36
COG5227	103	COG5227, SMT3, Ubiquitin-like protein (sentrin) [P	6e-22
pfam11976	72	pfam11976, Rad60-SLD, Ubiquitin-2 like Rad60 SUMO-	2e-20
smart00213	72	smart00213, UBQ, Ubiquitin homologues	1e-12
pfam00240	69	pfam00240, ubiquitin, Ubiquitin family	3e-07

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

 Score =  118 bits (297), Expect = 2e-36
 Identities = 46/69 (66%), Positives = 54/69 (78%)

Query: 14 EDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRR 73
          E     + S HINLKVKGQDGNEVFF+IKRST LKKLM AYC RQ + +NS+ FLFDG+R
Sbjct: 1  EKSGKGEISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQR 60

Query: 74 LRGEQTPDE 82
          +R  QTPD+
Sbjct: 61 IRDNQTPDD 69

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 = 82.3 bits (203), Expect = 6e-22
 Identities = 34/68 (50%), Positives = 49/68 (72%), Gaps = 2/68 (2%)

Query: 15 DKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRL 74
            KP+  + HINLKV  QDG E+FF+IK++T  KKLM+A+  RQ   ++S+ FLFDG+R+
Sbjct: 17 LVKPI--TKHINLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRI 74

Query: 75 RGEQTPDE 82
            +QTP +
Sbjct: 75 DLDQTPGD 82

Length = 103

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

 Score = 77.6 bits (192), Expect = 2e-20
 Identities = 23/59 (38%), Positives = 36/59 (61%), Gaps = 1/59 (1%)

Query: 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV-ELNSIAFLFDGRRLRGEQTPDE 82
          I +K+KG+DG EVF ++K +T L KL+NAY  ++ +     +  +FDG RL    T  +
Sbjct: 1  IRIKLKGKDGKEVFIKVKPTTTLSKLINAYRKKRGIPADQQVRLIFDGERLDPNDTVAD 59

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

>gnl|CDD|214563 smart00213, UBQ, Ubiquitin homologues

 Score = 57.3 bits (139), Expect = 1e-12
 Identities = 12/58 (20%), Positives = 24/58 (41%)

Query: 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDE 82
          I L VK  DG  +   +K S  + +L     +   +       ++ G+ L  ++T  +
Sbjct: 1  IELTVKTLDGKTITLEVKPSDTVSELKEKIAELTGIPPEQQRLIYKGKVLEDDRTLAD 58

Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression. Length = 72

>gnl|CDD|215813 pfam00240, ubiquitin, Ubiquitin family

 Score = 43.8 bits (104), Expect = 3e-07
 Identities = 11/53 (20%), Positives = 23/53 (43%)

Query: 30 KGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDE 82
          K  DG  +   +  S  + +L     D++ + ++    +F G+ L  + T  E
Sbjct: 1  KTLDGKTITLEVDPSDTVSELKEKIEDKEGIPVDQQRLIFSGKVLEDDTTLSE 53

This family contains a number of ubiquitin-like proteins: SUMO (smt3 homologue), Nedd8, Elongin B, Rub1, and Parkin. A number of them are thought to carry a distinctive five-residue motif termed the proteasome-interacting motif (PIM), which may have a biologically significant role in protein delivery to proteasomes and recruitment of proteasomes to transcription sites. Length = 69

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	104
KOG1769	99	consensus Ubiquitin-like proteins [Posttranslation	100.0
COG5227	103	SMT3 Ubiquitin-like protein (sentrin) [Posttransla	99.96
cd01763	87	Sumo Small ubiquitin-related modifier (SUMO). Smal	99.91
PF11976	72	Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; Inter	99.9
cd01806	76	Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also kn	99.2
cd01809	72	Scythe_N Ubiquitin-like domain of Scythe protein.	98.91
cd01812	71	BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-ter	98.77
PF00240	69	ubiquitin: Ubiquitin family; InterPro: IPR000626 U	98.75
cd01803	76	Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40	98.74
smart00213	64	UBQ Ubiquitin homologues. Ubiquitin-mediated prote	98.71
cd01807	74	GDX_N ubiquitin-like domain of GDX. GDX contains a	98.69
PTZ00044	76	ubiquitin; Provisional	98.69
cd01769	69	UBL Ubiquitin-like domain of UBL. UBLs function by	98.67
cd01798	70	parkin_N amino-terminal ubiquitin-like of parkin p	98.62
cd01805	77	RAD23_N Ubiquitin-like domain of RAD23. RAD23 belo	98.6
cd01791	73	Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also know	98.56
cd01810	74	ISG15_repeat2 ISG15 ubiquitin-like protein, second	98.5
cd01804	78	midnolin_N Ubiquitin-like domain of midnolin. midn	98.46
cd01792	80	ISG15_repeat1 ISG15 ubiquitin-like protein, first	98.43
cd01802	103	AN1_N ubiquitin-like domain of AN1. AN1 (also know	98.4
cd01808	71	hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC	98.36
cd01794	70	DC_UbP_C dendritic cell derived ubiquitin-like pro	98.33
cd01793	74	Fubi Fubi ubiquitin-like protein. Fubi is a ubiqui	98.3
cd01797	78	NIRF_N amino-terminal ubiquitin-like domain of Np9	98.29
cd01796	71	DDI1_N DNA damage inducible protein 1 ubiquitin-li	98.1
cd00196	69	UBQ Ubiquitin-like proteins. Ubiquitin homologs; I	98.02
cd01800	76	SF3a120_C Ubiquitin-like domain of Mammalian splic	97.99
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	97.95
KOG0005	70	consensus Ubiquitin-like protein [Cell cycle contr	97.6
cd01799	75	Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HO	97.57
PF11543	80	UN_NPL4: Nuclear pore localisation protein NPL4; I	97.56
cd01813	74	UBP_N UBP ubiquitin processing protease. The UBP (	97.42
KOG0010	493	consensus Ubiquitin-like protein [Posttranslationa	97.04
PF11470	65	TUG-UBL1: GLUT4 regulating protein TUG; InterPro:	97.01
cd01790	79	Herp_N Homocysteine-responsive endoplasmic reticul	96.93
PLN02560	308	enoyl-CoA reductase	96.48
cd01815	75	BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC	96.45
cd01789	84	Alp11_N Ubiquitin-like domain of Alp11 tubulin-fol	96.35
PF08817	79	YukD: WXG100 protein secretion system (Wss), prote	96.29
cd01814	113	NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and AT	96.25
PF00789	82	UBX: UBX domain; InterPro: IPR001012 The UBX domai	95.87
cd01801	77	Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-	95.83
PF14560	87	Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2K	95.35
cd06409	86	PB1_MUG70 The MUG70 protein is a product of the me	94.9
cd01774	85	Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 i	94.1
KOG0011	340	consensus Nucleotide excision repair factor NEF2,	94.09
PRK08364	70	sulfur carrier protein ThiS; Provisional	93.87
PF12436	249	USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-sp	93.6
COG5417	81	Uncharacterized small protein [Function unknown]	93.14
PF13881	111	Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB	92.66
PF03671	76	Ufm1: Ubiquitin fold modifier 1 protein; InterPro:	92.48
smart00455	70	RBD Raf-like Ras-binding domain.	92.06
cd01795	107	USP48_C USP ubiquitin-specific protease. The USP (	92.01
cd01766	82	Ufm1 Urm1-like ubiquitin domain. Ufm1 (ubiquitin-f	91.43
cd00754	80	MoaD Ubiquitin domain of MoaD-like proteins. MoaD	91.37
KOG0006	446	consensus E3 ubiquitin-protein ligase (Parkin prot	90.28
smart00166	80	UBX Domain present in ubiquitin-regulatory protein	89.97
cd01767	77	UBX UBX (ubiquitin regulatory X) domain. The UBX (	89.64
PRK06944	65	sulfur carrier protein ThiS; Provisional	89.41
PRK06437	67	hypothetical protein; Provisional	89.23
smart00666	81	PB1 PB1 domain. Phox and Bem1p domain, present in	89.16
KOG4248	1143	consensus Ubiquitin-like protein, regulator of apo	88.91
cd01770	79	p47_UBX p47-like ubiquitin domain. p47_UBX p47 is	88.6
TIGR01687	88	moaD_arch MoaD family protein, archaeal. Members o	88.14
PRK07440	70	hypothetical protein; Provisional	87.73
cd01777	87	SNX27_RA Ubiquitin domain of SNX27 (sorting nexin	87.68
cd06407	82	PB1_NLP A PB1 domain is present in NIN like protei	87.45
PRK05659	66	sulfur carrier protein ThiS; Validated	87.13
cd01811	80	OASL_repeat1 2'-5' oligoadenylate synthetase-like	86.94
cd06396	81	PB1_NBR1 The PB1 domain is an essential part of NB	86.84
KOG3439	116	consensus Protein conjugation factor involved in a	86.57
cd06406	80	PB1_P67 A PB1 domain is present in p67 proteins wh	86.5
PF00564	84	PB1: PB1 domain; InterPro: IPR000270 The Phox and	86.05
PRK06488	65	sulfur carrier protein ThiS; Validated	85.89
cd06408	86	PB1_NoxR The PB1 domain is present in the Epichloe	85.39
PRK06083	84	sulfur carrier protein ThiS; Provisional	85.2
KOG0003	128	consensus Ubiquitin/60s ribosomal protein L40 fusi	85.15
PRK08053	66	sulfur carrier protein ThiS; Provisional	84.16
smart00295	207	B41 Band 4.1 homologues. Also known as ezrin/radix	83.53
PRK05863	65	sulfur carrier protein ThiS; Provisional	83.42
cd01771	80	Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated fac	83.0
PF00788	93	RA: Ras association (RalGDS/AF-6) domain; InterPro	82.82
PLN02799	82	Molybdopterin synthase sulfur carrier subunit	82.55
TIGR01682	80	moaD molybdopterin converting factor, subunit 1, n	81.83
cd01760	72	RBD Ubiquitin-like domain of RBD-like S/T kinases.	81.5

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

Probab=100.00  E-value=9.6e-33  Score=187.42  Aligned_cols=74  Identities=53%  Similarity=0.816  Sum_probs=72.3

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      ..+|+|||++|++++++|+||++|||+|||++||+++|+++++|||+|||+||.+.+||++|+|||||.|+|.-
T Consensus        18 ~~hi~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~   91 (99)
T KOG1769|consen   18 SEHINLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQ   91 (99)
T ss_pred             cceEEEEEecCCCCEEEEEeecCChHHHHHHHHHHHcCCccceEEEEECCcCcCCCCChhhhCCcCCcEEEEEe
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999964

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

Probab=99.96  E-value=4.8e-30  Score=172.70  Aligned_cols=82  Identities=41%  Similarity=0.671  Sum_probs=77.4

Q ss_pred             CCCCCCCCCCCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCce
Q 034095           11 GQEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAF   90 (104)
Q Consensus        11 ~~~~~~kp~~~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdi   90 (104)
                      +..+++||+  ..+|+|||.+|+|++++|+||.+|+|+|||+|||.++|.+.++|||+|||+||..++||.+|+|||||+
T Consensus        13 ~~~p~vkp~--t~hinLkvv~qd~telfFkiKktT~f~klm~af~~rqGK~m~slRfL~dG~rI~~dqTP~dldmEdnd~   90 (103)
T COG5227          13 NENPLVKPI--TKHINLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRIDLDQTPGDLDMEDNDE   90 (103)
T ss_pred             ccCcccccc--ccccceEEecCCCCEEEEEEeccchHHHHHHHHHHHhCcCcceeEEEEcceecCCCCChhhcCCccchH
Confidence            456778885  689999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeee
Q 034095           91 CSCK   94 (104)
Q Consensus        91 i~~~   94 (104)
                      |.+.
T Consensus        91 iEav   94 (103)
T COG5227          91 IEAV   94 (103)
T ss_pred             HHHH
Confidence            9765

>cd01763 Sumo Small ubiquitin-related modifier (SUMO)

Probab=99.91  E-value=4.8e-24  Score=140.45  Aligned_cols=76  Identities=59%  Similarity=0.892  Sum_probs=73.3

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeeec
Q 034095           21 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYG   96 (104)
Q Consensus        21 ~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~   96 (104)
                      ++.+|+|+|++++|..+.|+|+++++|++||++||++.|++++.+||+|+|.+|.+++||++|+|+|||+|||.+.
T Consensus         8 ~~~~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           8 ISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLE   83 (87)
T ss_pred             CCCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeECCCCCCHHHcCCCCCCEEEEEEe
Confidence            4789999999999999999999999999999999999999999999999999999999999999999999999753

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=99.90  E-value=7.1e-24  Score=133.47  Aligned_cols=71  Identities=32%  Similarity=0.632  Sum_probs=66.9

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCcc-ceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL-NSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~-~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      |+|+|++++|..+.|+|+++++|++||++||++.+++. ++++|.|||++|.+++||++++|+|||+|+|.|
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 999999999999999999999999999999986

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=99.20  E-value=1.5e-10  Score=72.47  Aligned_cols=71  Identities=13%  Similarity=0.274  Sum_probs=67.6

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      +.|.|+..+|..+.+++.++...+.|.+.++++.|++++..|++|+|..+.++.|.++++++||+.|.+..
T Consensus         1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~g~~L~d~~tl~~~~i~~g~~i~l~~   71 (76)
T cd01806           1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLVL   71 (76)
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCeEccCCCCHHHcCCCCCCEEEEEE
Confidence            35788888999999999999999999999999999999999999999999999999999999999999986

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.

>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein

Probab=98.91  E-value=1.2e-08  Score=63.11  Aligned_cols=70  Identities=17%  Similarity=0.252  Sum_probs=66.3

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      |+|.|+..+|..+.+.+.++.+...|.+..+++.|++++..+++|+|..+.++.|.+++++.+|..|.+.
T Consensus         1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~l~l~   70 (72)
T cd01809           1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDETLSEYKVEDGHTIHLV   70 (72)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCEECCCcCcHHHCCCCCCCEEEEE
Confidence            5788888899999999999999999999999999999999999999999999999999999999999875

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.

>cd01812 BAG1_N Ubiquitin-like domain of BAG1

Probab=98.77  E-value=3.9e-08  Score=60.92  Aligned_cols=69  Identities=17%  Similarity=0.151  Sum_probs=63.5

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      |+|.|+.. |....+.+.++.....|++..++..|++++..+++|+|..+.++.|..++++.+|+.|.|.
T Consensus         1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~l~d~~~L~~~~i~~g~~l~v~   69 (71)
T cd01812           1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAETLDMSGVKDGSKVMLL   69 (71)
T ss_pred             CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCcccCccCcHHHcCCCCCCEEEEe
Confidence            56777775 7777899999999999999999999999999999999999999999999999999999775

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).

>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=98.75  E-value=9.4e-08  Score=59.00  Aligned_cols=64  Identities=8%  Similarity=0.170  Sum_probs=60.4

Q ss_pred             cCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           32 QDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        32 ~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .+|..+.+.|.+++....|.+..++..+++++..+++|+|+.+.++.|-.++++.+|++|.+.+
T Consensus         3 ~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L~d~~tL~~~~i~~~~~I~l~~   66 (69)
T PF00240_consen    3 LSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKELDDDKTLSDYGIKDGSTIHLVI   66 (69)
T ss_dssp             TTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEESTTSBTGGGTTSTTEEEEEEE
T ss_pred             CCCcEEEEEECCCCCHHHhhhhcccccccccccceeeeeeecccCcCcHHHcCCCCCCEEEEEE
Confidence            4677889999999999999999999999999999999999999999999999999999988764

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 ....

>cd01803 Ubiquitin Ubiquitin

Probab=98.74  E-value=1e-07  Score=59.56  Aligned_cols=70  Identities=13%  Similarity=0.227  Sum_probs=66.2

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .|.|+..+|..+.+.+.++.....|.+..+++.|++++..+++|+|..+.++.|-+++++.+|+.|.+..
T Consensus         2 ~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~i~l~~   71 (76)
T cd01803           2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL   71 (76)
T ss_pred             EEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCcHHHcCCCCCCEEEEEE
Confidence            4677888899999999999999999999999999999999999999999999999999999999999876

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

>smart00213 UBQ Ubiquitin homologues

Probab=98.71  E-value=9e-08  Score=57.35  Aligned_cols=63  Identities=16%  Similarity=0.296  Sum_probs=57.4

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCc
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCA   89 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgd   89 (104)
                      .|.|+..+ ....+.+.+++....|....+++.|++++..+++|+|..+.++.|..++++.+|+
T Consensus         2 ~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~~g~~L~d~~tL~~~~i~~~~   64 (64)
T smart00213        2 ELTVKTLD-GTITLEVKPSDTVSELKEKIAELTGIPVEQQRLIYKGKVLEDDRTLADYNIQDGS   64 (64)
T ss_pred             EEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEECCCCCCHHHcCCcCCC
Confidence            56666666 5778999999999999999999999999999999999999999999999999985

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

>cd01807 GDX_N ubiquitin-like domain of GDX

Probab=98.69  E-value=1.7e-07  Score=59.28  Aligned_cols=70  Identities=17%  Similarity=0.177  Sum_probs=64.9

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .|.|+..+|..+.+.|.+++..+.|.+..+++.|++.+..+++|+|+.+.+++|.+++++.+|+.|.+..
T Consensus         2 ~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~l~l~~   71 (74)
T cd01807           2 FLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDKRLSDYSIGPNAKLNLVV   71 (74)
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCCHHHCCCCCCCEEEEEE
Confidence            4667777899999999999999999999999999999999999999999999999999999999997653

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

>PTZ00044 ubiquitin; Provisional

Probab=98.69  E-value=1.8e-07  Score=58.89  Aligned_cols=71  Identities=8%  Similarity=0.265  Sum_probs=66.7

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeeec
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYG   96 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~   96 (104)
                      .|.|+..+|..+.+.+.+++....|....+++.|++++..|++|+|..+.++.|-+++++.+|+.|.+..-
T Consensus         2 ~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~l~~~~i~~~~~i~l~~~   72 (76)
T PTZ00044          2 QILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMVLQ   72 (76)
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEEccCCCcHHHcCCCCCCEEEEEEE
Confidence            46777889999999999999999999999999999999999999999999999999999999999998764

>cd01769 UBL Ubiquitin-like domain of UBL

Probab=98.67  E-value=1.8e-07  Score=56.69  Aligned_cols=67  Identities=12%  Similarity=0.174  Sum_probs=62.0

Q ss_pred             EEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           29 VKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        29 V~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      |+..+|..+.+.+.++++++.|.+.++++.|++.+..+++|+|+.+..+.|..++++.+|+.|.|+.
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            4555788889999999999999999999999999999999999999999999999999999998864

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.

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

Probab=98.62  E-value=2.8e-07  Score=57.56  Aligned_cols=67  Identities=22%  Similarity=0.307  Sum_probs=63.0

Q ss_pred             EEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           28 KVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        28 kV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      .|+...|..+.+.+.++...+.|.+..+++.|++.+..+++|.|+.+..++|.+++++.+|..+.+.
T Consensus         2 ~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li~~G~~L~d~~~l~~~~i~~~stl~l~   68 (70)
T cd01798           2 YVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGKELRNTTTIQECDLGQQSILHAV   68 (70)
T ss_pred             EEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEE
Confidence            4667789999999999999999999999999999999999999999999999999999999999874

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.

>cd01805 RAD23_N Ubiquitin-like domain of RAD23

Probab=98.60  E-value=5.3e-07  Score=56.80  Aligned_cols=70  Identities=10%  Similarity=0.162  Sum_probs=64.5

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCC--ccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV--ELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~--~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .|.|...+|....+.+.+++....|.+..+++.|+  +++..+++|+|..+.++.|-+++++.+|+.|-|.+
T Consensus         2 ~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~i~~~~   73 (77)
T cd01805           2 KITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDTTLEEYKIDEKDFVVVMV   73 (77)
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCEEccCCCCHHHcCCCCCCEEEEEE
Confidence            46667778889899999999999999999999999  99999999999999999999999999999988764

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=98.56  E-value=6.6e-07  Score=57.35  Aligned_cols=71  Identities=8%  Similarity=0.017  Sum_probs=66.8

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      +.|.|.+..|..+.+.+.+++..+.|.+..+++.|++++..|+.|.|..+.++.|-+++++.+|..|...|
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            57888898899988999999999999999999999999999999999999999999999999999998876

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.

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

Probab=98.50  E-value=9e-07  Score=56.00  Aligned_cols=69  Identities=16%  Similarity=0.267  Sum_probs=64.3

Q ss_pred             EEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           27 LKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        27 lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      |.|+...|..+.+.|.++.....|.+..+++.|++.+..+++|+|+.+.++.|..++++.+|+.+++..
T Consensus         1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~D~~tL~~~~i~~~~tl~l~~   69 (74)
T cd01810           1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNL   69 (74)
T ss_pred             CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCCHHHcCCCCCCEEEEEE
Confidence            356778899999999999999999999999999999999999999999999999999999999998764

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.

>cd01804 midnolin_N Ubiquitin-like domain of midnolin

Probab=98.46  E-value=1.9e-06  Score=55.42  Aligned_cols=71  Identities=15%  Similarity=0.152  Sum_probs=65.7

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeeec
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYG   96 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~   96 (104)
                      ++|.|+...|....+.+.+++..+.|.+..+++.+++++..|+.|.|..+.++ |-++++++||+.|.+..+
T Consensus         2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~   72 (78)
T cd01804           2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPT   72 (78)
T ss_pred             eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEee
Confidence            56788888888889999999999999999999999999999999999999988 999999999999998764

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.

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

Probab=98.43  E-value=1.4e-06  Score=55.98  Aligned_cols=74  Identities=18%  Similarity=0.058  Sum_probs=67.8

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEE--EECCEecCCCCCccccCCcCCceeeeeeccc
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAF--LFDGRRLRGEQTPDEVILLFCAFCSCKYGRL   98 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF--~fdG~rI~~~~TP~~L~Medgdii~~~~~~~   98 (104)
                      +.|.|+...|..+.+.+.++.....|.+..+++.|++.+..|+  .|+|..+.++.|-+++++.+|+.|.+..-.+
T Consensus         3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~l~l~~~~~   78 (80)
T cd01792           3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLLVVQNC   78 (80)
T ss_pred             eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEEEEEcc
Confidence            6788888889999899999999999999999999999999999  8999999999999999999999998876543

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.

>cd01802 AN1_N ubiquitin-like domain of AN1

Probab=98.40  E-value=3.7e-06  Score=57.17  Aligned_cols=75  Identities=7%  Similarity=0.049  Sum_probs=70.4

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeeec
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYG   96 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~   96 (104)
                      .+.+.|.|+...|..+.+.|.+++....|.+.-+++.|++.+..+++|.|+.+.++.|-+++++.+|+.|++...
T Consensus        25 ~~~M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~~Gk~L~D~~tL~dy~I~~~stL~l~~~   99 (103)
T cd01802          25 YDTMELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEYCLNDYNISEGCTLKLVLA   99 (103)
T ss_pred             CCCEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEe
Confidence            456888899999999999999999999999999999999999999999999999999999999999999998764

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.

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

Probab=98.36  E-value=4.3e-06  Score=52.38  Aligned_cols=70  Identities=16%  Similarity=0.202  Sum_probs=62.4

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      |+|.|+...|.. .+.+.++.....|.+..+++.|++...+++.|.|+.+.++.|-+++++++|..|.+..
T Consensus         1 ~~i~vk~~~g~~-~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li~~Gk~L~d~~tL~~~~i~~~stl~l~~   70 (71)
T cd01808           1 IKVTVKTPKDKE-EIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGKILKDTDTLTQHNIKDGLTVHLVI   70 (71)
T ss_pred             CEEEEEcCCCCE-EEEECCCChHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEE
Confidence            346666767764 7999999999999999999999999999999999999999999999999999998753

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.

>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein

Probab=98.33  E-value=4.2e-06  Score=53.04  Aligned_cols=69  Identities=16%  Similarity=0.209  Sum_probs=64.7

Q ss_pred             EEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           27 LKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        27 lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      |||+...|..+.+.+.+++....|...-+++.|++....|++|.|+.+.++.|..+.++.+|..|.|.+
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            477788899999999999999999999999999999999999999999999999999999999998864

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.

>cd01793 Fubi Fubi ubiquitin-like protein

Probab=98.30  E-value=7.2e-06  Score=51.81  Aligned_cols=68  Identities=10%  Similarity=0.113  Sum_probs=61.3

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .|.|+.  +....+.|.+++....|...-+++.|++.+..+++|.|+.+.+++|.+++++.++..|++..
T Consensus         2 qi~vk~--~~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~Gk~L~D~~tL~~~~i~~~~tl~l~~   69 (74)
T cd01793           2 QLFVRA--QNTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAG   69 (74)
T ss_pred             EEEEEC--CCEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCeECCCCCCHHHcCCCCCCEEEEEE
Confidence            345555  35678999999999999999999999999999999999999999999999999999999864

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.

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

Probab=98.29  E-value=6.4e-06  Score=53.21  Aligned_cols=70  Identities=16%  Similarity=0.201  Sum_probs=62.9

Q ss_pred             EEEEEccCCCE-EEEE-EeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           26 NLKVKGQDGNE-VFFR-IKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        26 ~lkV~~~~g~~-v~Fk-IK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .|.|+...|.. +.+. +.++...+.|.+.-+++.|++.+..|++|.|+.+.+++|-+++++.+|++|.+..
T Consensus         2 ~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk~L~D~~tL~~y~i~~~~~i~l~~   73 (78)
T cd01797           2 WIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQMEDGHTLFDYNVGLNDIIQLLV   73 (78)
T ss_pred             EEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCEECCCCCCHHHcCCCCCCEEEEEE
Confidence            46677778887 4674 7899999999999999999999999999999999999999999999999999864

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.

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

Probab=98.10  E-value=1.7e-05  Score=50.03  Aligned_cols=65  Identities=8%  Similarity=0.073  Sum_probs=57.3

Q ss_pred             EEcc-CCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCC-CCccccCCcCCceeee
Q 034095           29 VKGQ-DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGE-QTPDEVILLFCAFCSC   93 (104)
Q Consensus        29 V~~~-~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~-~TP~~L~Medgdii~~   93 (104)
                      |+.. .|..+.+.+.++...+.|...-+++.|++.+..+++|+|+.+..+ .|-+++++.+|++|-+
T Consensus         3 v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~l~l   69 (71)
T cd01796           3 VYTARSETTFSLDVDPDLELENFKALCEAESGIPASQQQLIYNGRELVDNKRLLALYGVKDGDLVVL   69 (71)
T ss_pred             EEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEECCeEccCCcccHHHcCCCCCCEEEE
Confidence            4444 677789999999999999999999999999999999999999887 4678999999998753

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.

>cd00196 UBQ Ubiquitin-like proteins

Probab=98.02  E-value=5.1e-05  Score=42.29  Aligned_cols=64  Identities=16%  Similarity=0.111  Sum_probs=58.3

Q ss_pred             ccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           31 GQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        31 ~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      ..++....+.+..+++++.|.+..+++.|.+.+.+++.++|..+....+..+....+|+.|.+.
T Consensus         4 ~~~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~   67 (69)
T cd00196           4 LNDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLV   67 (69)
T ss_pred             ecCCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEE
Confidence            3378888899999999999999999999999999999999999999988888899999998875

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.

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

Probab=97.99  E-value=3.9e-05  Score=48.77  Aligned_cols=63  Identities=10%  Similarity=0.123  Sum_probs=58.7

Q ss_pred             CCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           33 DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        33 ~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      +|..+.+.+.+++....|.+.-.+..|++++..+++|.|..+..+.|-+++++.+|++|.|..
T Consensus         6 ~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~   68 (76)
T cd01800           6 NGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQL   68 (76)
T ss_pred             CCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEE
Confidence            567778999999999999999999999999999999999999999999999999999998765

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.

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=97.95  E-value=4.7e-05  Score=62.23  Aligned_cols=73  Identities=14%  Similarity=0.178  Sum_probs=67.2

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcC---CccceEEEEECCEecCCCCCccccCCcCCceeeeeeccc
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQS---VELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYGRL   98 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g---~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~~~   98 (104)
                      +|.|+...|..+.+.|..+.....|.+..++..|   ++.+..|++|.|+.|.++.|-+++++.+|++|-|+.++-
T Consensus         2 kItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd~tL~dy~I~e~~~Ivvmv~k~   77 (378)
T TIGR00601         2 TLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVREYKIKEKDFVVVMVSKP   77 (378)
T ss_pred             EEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCCCcHHHcCCCCCCEEEEEeccC
Confidence            5677777888889999999999999999999998   999999999999999999999999999999999988764

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).

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

Probab=97.60  E-value=0.0001  Score=46.80  Aligned_cols=67  Identities=15%  Similarity=0.308  Sum_probs=62.7

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceee
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCS   92 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~   92 (104)
                      .|||+.-.|.++.+.|-++++..++.+...++-|+|+..-|++|-|...+++.|++...++.|-++-
T Consensus         2 ~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp~qqrli~~gkqm~DD~tA~~Y~~~~GSVlH   68 (70)
T KOG0005|consen    2 LIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYAGKQMNDDKTAAHYNLLGGSVLH   68 (70)
T ss_pred             eeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhhhccccccccccHHHhhhccceeEe
Confidence            4688888899999999999999999999999999999999999999999999999999999997763

>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1

Probab=97.57  E-value=0.00057  Score=43.88  Aligned_cols=62  Identities=8%  Similarity=0.003  Sum_probs=54.8

Q ss_pred             CCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecC-CCCCccccCCc-CCceeeeee
Q 034095           33 DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLR-GEQTPDEVILL-FCAFCSCKY   95 (104)
Q Consensus        33 ~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~-~~~TP~~L~Me-dgdii~~~~   95 (104)
                      .|..+.+.+.++...+.|...-+++.|++++..|+ |+|.++. ++.|-++++++ +||.+-+.|
T Consensus        11 ~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~~   74 (75)
T cd01799          11 HTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLYI   74 (75)
T ss_pred             CCCeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEEe
Confidence            56777899999999999999999999999999999 9999996 66999999999 778775543

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.

>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=97.56  E-value=0.00012  Score=47.75  Aligned_cols=70  Identities=19%  Similarity=0.209  Sum_probs=44.7

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEEC---CEec--CCCCCccccCCcCCceeee
Q 034095           23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD---GRRL--RGEQTPDEVILLFCAFCSC   93 (104)
Q Consensus        23 ~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fd---G~rI--~~~~TP~~L~Medgdii~~   93 (104)
                      ..+-|+|++.+|.. ++.+.++..+..|++...+..+++.+++.++.+   ...+  ..++|-++|++..||++-+
T Consensus         3 ~~milRvrS~dG~~-Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmlyL   77 (80)
T PF11543_consen    3 SSMILRVRSKDGMK-RIEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLYL   77 (80)
T ss_dssp             ---EEEEE-SSEEE-EEEE-TTSBHHHHHHHHHHHS---TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE-
T ss_pred             ccEEEEEECCCCCE-EEEcCCcccHHHHHHHHHHHcCCCCcceEEEecCCCCcccccCCcCCHHHcCCCCccEEEE
Confidence            46789999999966 778999999999999999999999888776554   3445  4689999999999999854

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.

>cd01813 UBP_N UBP ubiquitin processing protease

Probab=97.42  E-value=0.001  Score=42.42  Aligned_cols=67  Identities=13%  Similarity=-0.018  Sum_probs=58.3

Q ss_pred             EEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEE---CCEecCCCCCccccCCcCCceeeee
Q 034095           27 LKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF---DGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        27 lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~f---dG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      |.|.- .|....+.+..++++..|.+.-++..|++++.-+++|   .|..+.++.|-.++++.+|+.|-++
T Consensus         3 i~vk~-~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g~~i~lm   72 (74)
T cd01813           3 VIVKW-GGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDVKISALKLKPNTKIMMM   72 (74)
T ss_pred             EEEEE-CCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCcCHHHcCCCCCCEEEEE
Confidence            34433 5666678999999999999999999999999999996   8999999999999999999998653

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=97.04  E-value=0.0035  Score=53.05  Aligned_cols=76  Identities=12%  Similarity=0.149  Sum_probs=70.0

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeeeccc
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYGRL   98 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~~~   98 (104)
                      ...|.|+|+..+. ...|.|-.+...+-|.+.-+.+.+.+.+.++++|.|+-+++++|-..+++.||=-|-+.|..-
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            3578888888777 668999999999999999999999999999999999999999999999999999999988764

>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=97.01  E-value=0.0024  Score=40.44  Aligned_cols=62  Identities=13%  Similarity=0.080  Sum_probs=43.1

Q ss_pred             EEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCce
Q 034095           29 VKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAF   90 (104)
Q Consensus        29 V~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdi   90 (104)
                      |...+++...+++.+++.|..+.+.-|++.+++.+...+.+++..|.-+.+-.-.++-+|+-
T Consensus         1 vi~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h~~k~ldlslp~R~snL~n~ak   62 (65)
T PF11470_consen    1 VICYNFRRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLKHNNKPLDLSLPFRLSNLPNNAK   62 (65)
T ss_dssp             EE-TTS-EEEE---TTSBHHHHHHHHHHHTT--GGG-EEEETTEEESSS-BHHHH---SS-E
T ss_pred             CCccCCcEEEEEECCCCCHHHHHHHHHHHcCCCccceEEEECCEEeccccceeecCCCCCCE
Confidence            45678899999999999999999999999999999999999999998777666666666653

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.

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

Probab=96.93  E-value=0.0085  Score=39.24  Aligned_cols=69  Identities=9%  Similarity=0.022  Sum_probs=58.8

Q ss_pred             EEEEEEccCCCEEEEEE--eCCchHHHHHHHHHHHcC--CccceEEEEECCEecCCCCCccccC--CcCCceeee
Q 034095           25 INLKVKGQDGNEVFFRI--KRSTQLKKLMNAYCDRQS--VELNSIAFLFDGRRLRGEQTPDEVI--LLFCAFCSC   93 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkI--K~tt~L~kLm~aY~~~~g--~~~~~lrF~fdG~rI~~~~TP~~L~--Medgdii~~   93 (104)
                      |+|.|+..++....|.|  .++...+.|.+.-++..+  .+++..|++|.|+-+.+++|-+++.  +.+|-.|-.
T Consensus         2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~tL~~~~~~~~~~~tiHL   76 (79)
T cd01790           2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHLKLRDVLRKQDEYHMVHL   76 (79)
T ss_pred             eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchhhHHHHhhcccCCceEEE
Confidence            78999998988877777  799999999999998875  4579999999999999999999985  777766643

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.

>PLN02560 enoyl-CoA reductase

Probab=96.48  E-value=0.014  Score=46.49  Aligned_cols=69  Identities=16%  Similarity=0.152  Sum_probs=57.5

Q ss_pred             EEEEEccCCCEE---EEEEeCCchHHHHHHHHHHHcCC-ccceEEEEEC---CE----ecCCCCCccccCCcCCceeeee
Q 034095           26 NLKVKGQDGNEV---FFRIKRSTQLKKLMNAYCDRQSV-ELNSIAFLFD---GR----RLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        26 ~lkV~~~~g~~v---~FkIK~tt~L~kLm~aY~~~~g~-~~~~lrF~fd---G~----rI~~~~TP~~L~Medgdii~~~   94 (104)
                      +|.|+..+|..+   .+.+.++++.+.|.++++++.+. +++..|+.++   |.    .+..+.|-.++++.+|..|-|+
T Consensus         2 ~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gstLy~k   81 (308)
T PLN02560          2 KVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTVVFK   81 (308)
T ss_pred             EEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCCCHHhcCCCCCceEEEE
Confidence            455667677776   68899999999999999999885 8899999983   43    6788889999999999988776

>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP

Probab=96.45  E-value=0.008  Score=39.11  Aligned_cols=52  Identities=19%  Similarity=0.154  Sum_probs=45.3

Q ss_pred             CchHHHHHHHHHHHc--CC-ccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           44 STQLKKLMNAYCDRQ--SV-ELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        44 tt~L~kLm~aY~~~~--g~-~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      ++.-..|.+..+++.  |+ +.+..|++|.|+.+.++.|-++.++.+|++|-++.
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            446778888888886  46 48999999999999999999999999999998875

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.

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

Probab=96.35  E-value=0.046  Score=35.48  Aligned_cols=70  Identities=13%  Similarity=0.107  Sum_probs=55.4

Q ss_pred             EEEEEEcc-CCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEE-EECCE-----ec-CCCCCccccCCcCCceeeee
Q 034095           25 INLKVKGQ-DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAF-LFDGR-----RL-RGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        25 I~lkV~~~-~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF-~fdG~-----rI-~~~~TP~~L~Medgdii~~~   94 (104)
                      |+|.|.+. .......++.++.+...|.+.-....|++++..|+ +|+|.     .+ .++.|-.+++++||..|-|.
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            34555543 23344677999999999999999999999999999 57888     34 46788999999999998764

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.

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

Probab=96.29  E-value=0.018  Score=36.78  Aligned_cols=70  Identities=13%  Similarity=0.103  Sum_probs=51.0

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCcc---c---eEEEE-ECCEecCCCCCccccCCcCCceeee
Q 034095           24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL---N---SIAFL-FDGRRLRGEQTPDEVILLFCAFCSC   93 (104)
Q Consensus        24 ~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~---~---~lrF~-fdG~rI~~~~TP~~L~Medgdii~~   93 (104)
                      .+.|.|...+|..+-+.+-.+.|++.|+..-.+..+.+.   .   .+++. -+|..+.+++|-++.+..|||++-+
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            467777775678899999999999999999999877522   2   46666 6899999999999999999998754

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.

>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4

Probab=96.25  E-value=0.0099  Score=41.55  Aligned_cols=70  Identities=17%  Similarity=0.219  Sum_probs=61.1

Q ss_pred             CcEEEEEEccCCCEE-EEEEeCCchHHHHHHHHHHHcC-------CccceEEEEECCEecCCCCCccccCCcCCceee
Q 034095           23 AHINLKVKGQDGNEV-FFRIKRSTQLKKLMNAYCDRQS-------VELNSIAFLFDGRRLRGEQTPDEVILLFCAFCS   92 (104)
Q Consensus        23 ~~I~lkV~~~~g~~v-~FkIK~tt~L~kLm~aY~~~~g-------~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~   92 (104)
                      +.|.||.+-.||+.| -|++.+++.-..|.+.-.+..+       .+.+.++++|.|+.+..+.|-+++++-=||+++
T Consensus         3 ~~~e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~TL~d~~~p~g~~~~   80 (113)
T cd01814           3 EQIEIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSKTVGECRSPVGDIAG   80 (113)
T ss_pred             ccEEEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCCcHHHhCCcccccCC
Confidence            467899999999999 9999999999999999885553       448999999999999999999999977777754

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

>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=95.87  E-value=0.17  Score=31.93  Aligned_cols=72  Identities=25%  Similarity=0.268  Sum_probs=56.3

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccce-EEEE--ECCEecCCCC--CccccCCcCCceeee
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNS-IAFL--FDGRRLRGEQ--TPDEVILLFCAFCSC   93 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~-lrF~--fdG~rI~~~~--TP~~L~Medgdii~~   93 (104)
                      .+.++|+|+-.+|..+.-+..++.+++.|++.-......+... +++.  |--..+..++  |-+++++--+..+-|
T Consensus         4 ~~~~~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v   80 (82)
T PF00789_consen    4 SDVVRIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIV   80 (82)
T ss_dssp             SSEEEEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEE
T ss_pred             CCEEEEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEE
Confidence            4678999999999999999999999999997766665555444 7775  5567777654  889998888777654

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 ....

>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13

Probab=95.83  E-value=0.051  Score=34.43  Aligned_cols=53  Identities=11%  Similarity=0.117  Sum_probs=44.7

Q ss_pred             eCCchHHHHHHHHHHHcC-CccceEEEE--ECCEecCCCCCccccCCcCCceeeee
Q 034095           42 KRSTQLKKLMNAYCDRQS-VELNSIAFL--FDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        42 K~tt~L~kLm~aY~~~~g-~~~~~lrF~--fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      .++.....|.+++++..+ ++.+..|+.  +.|..|..+.|-.++++.+|..|-|+
T Consensus        20 ~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~d~~tL~~~gv~~g~~lyvK   75 (77)
T cd01801          20 SGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKDDDTLVDLGVGAGATLYVR   75 (77)
T ss_pred             CCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccCCcccHhhcCCCCCCEEEEe
Confidence            466789999999999875 577887775  78999999999999999999877664

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.

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

Probab=95.35  E-value=0.14  Score=32.98  Aligned_cols=70  Identities=9%  Similarity=0.075  Sum_probs=55.4

Q ss_pred             EEEEEEccCC--CEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEEC----CEec----CCCCCccccCCcCCceeeee
Q 034095           25 INLKVKGQDG--NEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD----GRRL----RGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        25 I~lkV~~~~g--~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fd----G~rI----~~~~TP~~L~Medgdii~~~   94 (104)
                      |+|.|.+..-  ..+..++.++.++..|...-....|++++..++.+-    +..+    .++.|-.++++.||+.|-|.
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            6677776554  377899999999999999999999999999998874    3333    35788889999999999774

>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=94.90  E-value=0.12  Score=34.46  Aligned_cols=50  Identities=22%  Similarity=0.312  Sum_probs=43.2

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCcc---ceEEEEE---CCEecC
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL---NSIAFLF---DGRRLR   75 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~---~~lrF~f---dG~rI~   75 (104)
                      ..|++++.|..++|++.++..+..|+++-++|.|.+.   +.+.+.|   +|..|.
T Consensus         2 ~FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~YlDDEgD~Vl   57 (86)
T cd06409           2 AFKFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSYVDDEGDIVL   57 (86)
T ss_pred             cEEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEEEcCCCCEEE
Confidence            3688899999999999999999999999999999886   6888888   465553

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

>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain

Probab=94.10  E-value=0.88  Score=29.74  Aligned_cols=71  Identities=14%  Similarity=0.025  Sum_probs=55.6

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECC--EecC--------CCCCccccCCcCCcee
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDG--RRLR--------GEQTPDEVILLFCAFC   91 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG--~rI~--------~~~TP~~L~Medgdii   91 (104)
                      .+.++|.|+-.+|+.+.-+...+.+++.|++.... .+..+..+++..+=  +.+.        .+.|-+++||....++
T Consensus         2 ~~~~~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~-~~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~L   80 (85)
T cd01774           2 PDTVKIVFKLPNGTRVERRFLFTQSLRVIHDFLFS-LKETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEVL   80 (85)
T ss_pred             CceEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-CCCCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccEE
Confidence            35678888899999999999999999999998843 45556778877754  5554        3679999999888776


Q ss_pred             ee
Q 034095           92 SC   93 (104)
Q Consensus        92 ~~   93 (104)
                      -|
T Consensus        81 ~V   82 (85)
T cd01774          81 FV   82 (85)
T ss_pred             EE
Confidence            55

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.

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

Probab=94.09  E-value=0.19  Score=40.92  Aligned_cols=72  Identities=14%  Similarity=0.158  Sum_probs=63.3

Q ss_pred             EEEEccCCCEEEEEEeCCchHHHHHHHHHHHcC--CccceEEEEECCEecCCCCCccccCCcCCceeeeeeccc
Q 034095           27 LKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQS--VELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYGRL   98 (104)
Q Consensus        27 lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g--~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~~~   98 (104)
                      |.|+.-.+......++++..+..++..-+...|  .+...-+++|+|+-+.++.|-.+....+++||-|..-+-
T Consensus         3 lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~tv~Eykv~E~~fiVvMlsK~   76 (340)
T KOG0011|consen    3 LTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDETTVGEYKVKEKKFIVVMLSKD   76 (340)
T ss_pred             eEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceeccCCcchhhhccccCceEEEEEecC
Confidence            445555666778899999999999999999998  888999999999999999999999999999999976543

>PRK08364 sulfur carrier protein ThiS; Provisional

Probab=93.87  E-value=0.69  Score=28.88  Aligned_cols=60  Identities=13%  Similarity=0.160  Sum_probs=45.6

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      |+|++-+.. .+..+.+...+.++.|.+.    .+++...+....||+-+.     .+--+.+||.|.++
T Consensus         5 m~v~vng~~-~~~~~~~~~~~tv~~ll~~----l~~~~~~v~v~vNg~iv~-----~~~~l~~gD~Veii   64 (70)
T PRK08364          5 IRVKVIGRG-IEKEIEWRKGMKVADILRA----VGFNTESAIAKVNGKVAL-----EDDPVKDGDYVEVI   64 (70)
T ss_pred             EEEEEeccc-cceEEEcCCCCcHHHHHHH----cCCCCccEEEEECCEECC-----CCcCcCCCCEEEEE
Confidence            677774432 2446777888888888855    478888999999999994     45669999999886

>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=93.60  E-value=0.21  Score=38.42  Aligned_cols=71  Identities=11%  Similarity=0.163  Sum_probs=50.0

Q ss_pred             cEEEEEEccCCCEE----EEEEeCCchHHHHHHHHHHHcCCccceEEEEECC------EecCCCCCccccCCcCCceeee
Q 034095           24 HINLKVKGQDGNEV----FFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDG------RRLRGEQTPDEVILLFCAFCSC   93 (104)
Q Consensus        24 ~I~lkV~~~~g~~v----~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG------~rI~~~~TP~~L~Medgdii~~   93 (104)
                      -|-||.=|.....+    ++-|.++.+++.|....+++.|++.++=-.+|+-      +.|..+.|-+..++.|||||-+
T Consensus        70 LlFlK~fDp~~q~L~~iGh~~v~~~~~v~~l~~~i~~~~g~p~~t~l~lyEEi~~~~ie~i~~~~t~~~~el~~GdIi~f  149 (249)
T PF12436_consen   70 LLFLKYFDPETQTLRYIGHVYVPKNDKVSELVPLINERAGLPPDTPLLLYEEIKPNMIEPIDPNQTFEKAELQDGDIICF  149 (249)
T ss_dssp             EEEEEEEETTTTEEEEEEEEEEETT-BGGGTHHHHHHHHT--TT--EEEEEEEETTEEEE--SSSBHHHTT--TTEEEEE
T ss_pred             EEEEEeeCCCCCEEEEEeEEEECCCCCHHHHHHHHHHHcCCCCCCceEEEEEeccceeeEcCCCCchhhcccCCCCEEEE
Confidence            34555557766665    7889999999999999999999988765555643      5577899999999999999976


Q ss_pred             e
Q 034095           94 K   94 (104)
Q Consensus        94 ~   94 (104)
                      =
T Consensus       150 Q  150 (249)
T PF12436_consen  150 Q  150 (249)
T ss_dssp             E
T ss_pred             E
Confidence            3

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.

>COG5417 Uncharacterized small protein [Function unknown]

Probab=93.14  E-value=1.1  Score=29.58  Aligned_cols=70  Identities=11%  Similarity=0.188  Sum_probs=57.9

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCcc-----ceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL-----NSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~-----~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      ||+-....+|.+.-.++.---|.++|..--.+...++.     ..+|..=.++-+.+++--.+.+..||||.-.|
T Consensus         7 VTvD~t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~LeiL   81 (81)
T COG5417           7 VTVDFTNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEIL   81 (81)
T ss_pred             EEEEeEecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEeC
Confidence            45556778899999999999999999999888765433     45667677899999999999999999997654

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

Probab=92.66  E-value=1.3  Score=30.43  Aligned_cols=68  Identities=22%  Similarity=0.255  Sum_probs=52.5

Q ss_pred             CcEEEEEEccCCC-EEEEEEeCCchHHHHHHHHHHHc-------CCccceEEEEECCEecCCCCCccccCCcCCce
Q 034095           23 AHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQ-------SVELNSIAFLFDGRRLRGEQTPDEVILLFCAF   90 (104)
Q Consensus        23 ~~I~lkV~~~~g~-~v~FkIK~tt~L~kLm~aY~~~~-------g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdi   90 (104)
                      +.|+||.+-.+|. ...|..-+++.-..|.+.--..-       -.+.+.+|++|.|+-|.++.|-.++.+--|+.
T Consensus         1 ~~i~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~~~~~~~~   76 (111)
T PF13881_consen    1 DKIELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDCRLPSGET   76 (111)
T ss_dssp             TSEEEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGGT--TTSE
T ss_pred             CeEEEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHhCCCCCCC
Confidence            3688999988999 66999999999999998776542       23568999999999999999999998887774

>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=92.48  E-value=0.65  Score=30.33  Aligned_cols=65  Identities=14%  Similarity=0.172  Sum_probs=45.7

Q ss_pred             cEEEEEEc---cCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEE-CCEecCCCCCccccCCcCC
Q 034095           24 HINLKVKG---QDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF-DGRRLRGEQTPDEVILLFC   88 (104)
Q Consensus        24 ~I~lkV~~---~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~f-dG~rI~~~~TP~~L~Medg   88 (104)
                      ++++|+.-   ..--...|.|-..+||..+.+.-|+...++..+--.+- ||.-|++.||.-+.-|..|
T Consensus         2 kvtfKI~ltsDp~~p~kv~sVPE~apftaVlkfaAeeF~vp~~tsaiItndG~GInP~QTag~vflKhG   70 (76)
T PF03671_consen    2 KVTFKITLTSDPKLPYKVISVPEEAPFTAVLKFAAEEFKVPPATSAIITNDGVGINPQQTAGNVFLKHG   70 (76)
T ss_dssp             EEEEEEEESTSSTS-EEEEEEETTSBHHHHHHHHHHHTTS-SSSEEEEESSS-EE-TTSBHHHHHHHT-
T ss_pred             cEEEEEEEccCCCCcceEEecCCCCchHHHHHHHHHHcCCCCceEEEEecCCcccccchhhhhhHhhcC
Confidence            45555542   22233478899999999999999999999886555544 8999999999987766555

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.

>smart00455 RBD Raf-like Ras-binding domain

Probab=92.06  E-value=1.4  Score=27.77  Aligned_cols=45  Identities=9%  Similarity=0.220  Sum_probs=40.2

Q ss_pred             EEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECC
Q 034095           27 LKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDG   71 (104)
Q Consensus        27 lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG   71 (104)
                      .+|.-++|......+|++.++..+...-|++.|+.+......+-|
T Consensus         2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~l~~~~~~v~~~g   46 (70)
T smart00455        2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKKRGLNPECCVVRLRG   46 (70)
T ss_pred             eEEECCCCCEEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEcC
Confidence            466778999999999999999999999999999999888887754

>cd01795 USP48_C USP ubiquitin-specific protease

Probab=92.01  E-value=0.69  Score=32.03  Aligned_cols=60  Identities=18%  Similarity=0.063  Sum_probs=54.5

Q ss_pred             EEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCC-CCCccccCCcCCceeeeee
Q 034095           36 EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRG-EQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        36 ~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~-~~TP~~L~Medgdii~~~~   95 (104)
                      ++...|.+++.+..|...--++.++++..=+++|||+-+.+ ..|-.++++--+.+|-+|+
T Consensus        16 ~~~L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~Lli   76 (107)
T cd01795          16 EKALLVSANQTLKELKIQIMHAFSVAPFDQNLSIDGKILSDDCATLGTLGVIPESVILLKA   76 (107)
T ss_pred             CceEEeCccccHHHHHHHHHHHhcCCcccceeeecCceeccCCccHHhcCCCCCCEEEEEe
Confidence            56778999999999999999999999999999999998886 6688899999999999987

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,

>cd01766 Ufm1 Urm1-like ubiquitin domain

Probab=91.43  E-value=0.7  Score=30.41  Aligned_cols=68  Identities=16%  Similarity=0.221  Sum_probs=52.2

Q ss_pred             cEEEEEEccCCCEE---EEEEeCCchHHHHHHHHHHHcCCccceEEEEE-CCEecCCCCCccccCCcCCcee
Q 034095           24 HINLKVKGQDGNEV---FFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF-DGRRLRGEQTPDEVILLFCAFC   91 (104)
Q Consensus        24 ~I~lkV~~~~g~~v---~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~f-dG~rI~~~~TP~~L~Medgdii   91 (104)
                      +++.|+.-.....+   .++|-..+||..+.+.-|+...++..+--.+- ||.-|++.||+-..-|..|--+
T Consensus         2 KVtFkitltSdp~lpfkvlsVpE~aPftAvlkfaAEeFkv~~~TsAiiTndGvGINP~qtAGnvflkhgsel   73 (82)
T cd01766           2 KVTFKITLTSDPKLPFKVLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSEL   73 (82)
T ss_pred             ceEEEEEecCCCCCcceEEeccccCchHHHHHHHHHhcCCCccceeEEecCccccChhhcccceeeecCCEe
Confidence            45556554333333   56788999999999999999999886655544 8999999999999988877544

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.

>cd00754 MoaD Ubiquitin domain of MoaD-like proteins

Probab=91.37  E-value=1.3  Score=27.31  Aligned_cols=54  Identities=15%  Similarity=0.110  Sum_probs=42.9

Q ss_pred             EEEEEEeCCchHHHHHHHHHHHcC----CccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           36 EVFFRIKRSTQLKKLMNAYCDRQS----VELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        36 ~v~FkIK~tt~L~kLm~aY~~~~g----~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      +..+.+...+.++.|.+...++.+    .....+.+..||+.+.     .+.-+.+||.|.++
T Consensus        17 ~~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~-----~~~~l~~gD~v~i~   74 (80)
T cd00754          17 EEELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVR-----LDTPLKDGDEVAII   74 (80)
T ss_pred             eEEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcC-----CCcccCCCCEEEEe
Confidence            456677678899999999988864    3567889999999998     33459999999875

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.

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

Probab=90.28  E-value=1  Score=37.24  Aligned_cols=46  Identities=20%  Similarity=0.369  Sum_probs=42.3

Q ss_pred             EEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCcc
Q 034095           36 EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPD   81 (104)
Q Consensus        36 ~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~   81 (104)
                      .+.+.|+-+|....|.+..+++.|++.+.|+.+|-|+.++.+-|-.
T Consensus        15 ~l~v~v~~~t~I~~lke~Vak~~gvp~D~L~viFaGKeLs~~ttv~   60 (446)
T KOG0006|consen   15 GLPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELSNDTTVQ   60 (446)
T ss_pred             ceeEEEecCCCHHHHHHHHHHhhCCChhheEEEEeccccccCceee
Confidence            3577889999999999999999999999999999999999888777

>smart00166 UBX Domain present in ubiquitin-regulatory proteins

Probab=89.97  E-value=3.4  Score=26.04  Aligned_cols=71  Identities=15%  Similarity=0.139  Sum_probs=52.0

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEE--CCEecCC---CCCccccCCcCCceeee
Q 034095           23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF--DGRRLRG---EQTPDEVILLFCAFCSC   93 (104)
Q Consensus        23 ~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~f--dG~rI~~---~~TP~~L~Medgdii~~   93 (104)
                      +..+|.|+-.+|..+.-+...+++++.|++......+.+...+.|.-  --+.+..   +.|-.++++--+..+-|
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            45678888899999999999999999999988555555555666654  3444443   35888888776666544

Present in FAF1 and Shp1p.

>cd01767 UBX UBX (ubiquitin regulatory X) domain

Probab=89.64  E-value=3.5  Score=25.73  Aligned_cols=67  Identities=15%  Similarity=0.146  Sum_probs=49.0

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEE--CCEecC---CCCCccccCCcCCcee
Q 034095           24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF--DGRRLR---GEQTPDEVILLFCAFC   91 (104)
Q Consensus        24 ~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~f--dG~rI~---~~~TP~~L~Medgdii   91 (104)
                      ..+|+|+-.+|+.+.-+...+++++.|++.--.... +...+.++-  -.+.+.   .+.|-+++|+....++
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            357888889999998899999999999987654432 255566654  345554   4889999999955443

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.

>PRK06944 sulfur carrier protein ThiS; Provisional

Probab=89.41  E-value=3  Score=25.00  Aligned_cols=55  Identities=11%  Similarity=0.097  Sum_probs=37.6

Q ss_pred             CCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           33 DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        33 ~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      +|..  +.+...+.+..|.+.+    ++. ..+.+..||+.+...+ -.+.-+.+||.|.++-
T Consensus         6 Ng~~--~~~~~~~tl~~ll~~l----~~~-~~~~v~vN~~~v~~~~-~~~~~L~~gD~vei~~   60 (65)
T PRK06944          6 NQQT--LSLPDGATVADALAAY----GAR-PPFAVAVNGDFVARTQ-HAARALAAGDRLDLVQ   60 (65)
T ss_pred             CCEE--EECCCCCcHHHHHHhh----CCC-CCeEEEECCEEcCchh-cccccCCCCCEEEEEe
Confidence            4544  4556677788888765    333 4578899999986432 2233499999999873

>PRK06437 hypothetical protein; Provisional

Probab=89.23  E-value=3.4  Score=25.65  Aligned_cols=52  Identities=4%  Similarity=0.017  Sum_probs=42.0

Q ss_pred             CCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           34 GNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        34 g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      +.+..+.+...+.++.|.+.    .+++...+-...||+.|.     .+.-+.+||.|.++
T Consensus        10 ~~~~~~~i~~~~tv~dLL~~----Lgi~~~~vaV~vNg~iv~-----~~~~L~dgD~Veiv   61 (67)
T PRK06437         10 HINKTIEIDHELTVNDIIKD----LGLDEEEYVVIVNGSPVL-----EDHNVKKEDDVLIL   61 (67)
T ss_pred             CcceEEEcCCCCcHHHHHHH----cCCCCccEEEEECCEECC-----CceEcCCCCEEEEE
Confidence            34456778888888888865    588999999999999996     56678899999886

>smart00666 PB1 PB1 domain

Probab=89.16  E-value=2  Score=26.70  Aligned_cols=44  Identities=14%  Similarity=0.320  Sum_probs=37.1

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEE
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF   69 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~f   69 (104)
                      ++|||.- .+....|.+.+..+|..|...-+++.+.+...+++.|
T Consensus         2 ~~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y   45 (81)
T smart00666        2 VDVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKY   45 (81)
T ss_pred             ccEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEE
Confidence            4667765 5556699999999999999999999998878888888

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.

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

Probab=88.91  E-value=1.1  Score=41.38  Aligned_cols=68  Identities=16%  Similarity=0.191  Sum_probs=62.5

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      +|+|+.-|..+..|.|.--...+.+.+.-.++++++.+.=|++|.|+-|..++|-.+.+. ||-+|-+.
T Consensus         4 ~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~ni~s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlv   71 (1143)
T KOG4248|consen    4 NVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVNIPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLV   71 (1143)
T ss_pred             ceeeeecccceeEEEechHHHHHHHHHHHHHhcccccccceeeecceeeccchhhhhccC-CCeEEEee
Confidence            477777788888999999999999999999999999999999999999999999999999 99888653

>cd01770 p47_UBX p47-like ubiquitin domain

Probab=88.60  E-value=4.7  Score=25.83  Aligned_cols=68  Identities=13%  Similarity=0.261  Sum_probs=50.7

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcC-CccceEEEE--ECCEecCC-CCCccccCCcCCcee
Q 034095           24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQS-VELNSIAFL--FDGRRLRG-EQTPDEVILLFCAFC   91 (104)
Q Consensus        24 ~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g-~~~~~lrF~--fdG~rI~~-~~TP~~L~Medgdii   91 (104)
                      ..+|.|+-.||+.+.-+...+.+++.|++.-....+ -....+.+.  |=.+.+.. +.|-++++|.+.-++
T Consensus         4 ~t~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s~v~   75 (79)
T cd01770           4 TTSIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKELSDESLTLKEANLLNAVIV   75 (79)
T ss_pred             eeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcccCCCCCcHHHCCCcCcEEE
Confidence            457888889999998899999999999987766543 223556664  55665554 789999999975554

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.

>TIGR01687 moaD_arch MoaD family protein, archaeal

Probab=88.14  E-value=4.2  Score=25.81  Aligned_cols=56  Identities=14%  Similarity=0.109  Sum_probs=41.4

Q ss_pred             CEEEEEEeCCchHHHHHHHHHHHcCC-----------ccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           35 NEVFFRIKRSTQLKKLMNAYCDRQSV-----------ELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        35 ~~v~FkIK~tt~L~kLm~aY~~~~g~-----------~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      .++.+.+. .+.++.|++..+++..-           -...+.+..||+.+..++.   ..++|||.|.++
T Consensus        16 ~~~~v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~~~~---~~l~dgdev~i~   82 (88)
T TIGR01687        16 KSEEIEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDWGLG---TELKDGDVVAIF   82 (88)
T ss_pred             ceEEEEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCccCC---CCCCCCCEEEEe
Confidence            34555665 78899999999888641           1245899999999986542   569999999875

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.

>PRK07440 hypothetical protein; Provisional

Probab=87.73  E-value=4.9  Score=25.16  Aligned_cols=61  Identities=16%  Similarity=0.178  Sum_probs=46.1

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        24 ~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      .|+|+|   +|..  +.+.....+..|.+    ..+++...+-.-.||+-|..++= ++..+.+||.|.++
T Consensus         4 ~m~i~v---NG~~--~~~~~~~tl~~lL~----~l~~~~~~vav~~N~~iv~r~~w-~~~~L~~gD~IEIv   64 (70)
T PRK07440          4 PITLQV---NGET--RTCSSGTSLPDLLQ----QLGFNPRLVAVEYNGEILHRQFW-EQTQVQPGDRLEIV   64 (70)
T ss_pred             ceEEEE---CCEE--EEcCCCCCHHHHHH----HcCCCCCeEEEEECCEEeCHHHc-CceecCCCCEEEEE
Confidence            577777   5544  56667777887775    67889999999999999985433 34459999999886

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

Probab=87.68  E-value=1.3  Score=29.72  Aligned_cols=42  Identities=12%  Similarity=0.288  Sum_probs=37.5

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEE
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIA   66 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lr   66 (104)
                      +.|+|.=+||..+..+|+++..-+.++++-|++.|+|....+
T Consensus         2 V~L~V~Lpdg~~i~V~v~~s~~a~~Vleav~~kl~L~~e~~~   43 (87)
T cd01777           2 VELRIALPDKATVTVRVRKNATTDQVYQALVAKAGMDSYTQN   43 (87)
T ss_pred             eEEEEEccCCCEEEEEEEEcccHHHHHHHHHHHhCCCHHHHh
Confidence            568888889999999999999999999999999999875543

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.

>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=87.45  E-value=2.9  Score=27.18  Aligned_cols=44  Identities=14%  Similarity=0.258  Sum_probs=36.4

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCcc-ceEEEEE
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL-NSIAFLF   69 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~-~~lrF~f   69 (104)
                      ++||+.- +|..+.|++.++..+..|.+.-+++.+++. ..+.+.|
T Consensus         1 ~~vK~~~-~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY   45 (82)
T cd06407           1 VRVKATY-GEEKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKY   45 (82)
T ss_pred             CEEEEEe-CCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEE
Confidence            3566544 667789999999999999999999999865 7788887

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

>PRK05659 sulfur carrier protein ThiS; Validated

Probab=87.13  E-value=4.4  Score=24.40  Aligned_cols=55  Identities=13%  Similarity=0.154  Sum_probs=40.4

Q ss_pred             CCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           33 DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        33 ~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      +|..  +.+...+.+..|.+    ..+++...+-..+||+-|...+- .+.-+.|||.|.++
T Consensus         6 NG~~--~~~~~~~tl~~lL~----~l~~~~~~vav~vNg~iv~r~~~-~~~~l~~gD~vei~   60 (66)
T PRK05659          6 NGEP--RELPDGESVAALLA----REGLAGRRVAVEVNGEIVPRSQH-ASTALREGDVVEIV   60 (66)
T ss_pred             CCeE--EEcCCCCCHHHHHH----hcCCCCCeEEEEECCeEeCHHHc-CcccCCCCCEEEEE
Confidence            5544  45666677777765    46888899999999988886543 34459999999886

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

Probab=86.94  E-value=6  Score=26.09  Aligned_cols=68  Identities=12%  Similarity=0.165  Sum_probs=50.5

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEE---CCEe--cCCCCCccccCCcCCceeee
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF---DGRR--LRGEQTPDEVILLFCAFCSC   93 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~f---dG~r--I~~~~TP~~L~Medgdii~~   93 (104)
                      |.|.|.--......|+|++.+|.+||.+.--...+.+- .-|+.|   .|+|  ++..+|-++.|+--+=.|-+
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            35666666677889999999999999999998888754 566666   3443  66788888888765544433

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.

>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=86.84  E-value=3.4  Score=27.22  Aligned_cols=48  Identities=17%  Similarity=0.264  Sum_probs=38.2

Q ss_pred             EEEEEEccCCCEEEEEEeC--CchHHHHHHHHHHHcCCccceEEEEE---CCEecC
Q 034095           25 INLKVKGQDGNEVFFRIKR--STQLKKLMNAYCDRQSVELNSIAFLF---DGRRLR   75 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~--tt~L~kLm~aY~~~~g~~~~~lrF~f---dG~rI~   75 (104)
                      |+||+. ..|..+.|++.+  +..+..|...-+++.+++  .+...|   ||+.|.
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            466764 478888999999  889999999999999998  666666   455544

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.

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

Probab=86.57  E-value=6.6  Score=27.59  Aligned_cols=62  Identities=10%  Similarity=0.226  Sum_probs=46.6

Q ss_pred             CCcEEEEEEccCCCEE----EEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecC--CCCCcccc
Q 034095           22 SAHINLKVKGQDGNEV----FFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLR--GEQTPDEV   83 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v----~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~--~~~TP~~L   83 (104)
                      .++|+|+++...+.-+    .|+|.++.++.++...--+..+++.+.=-|+|=.....  ++++-.+|
T Consensus        28 ~~kV~i~l~aiG~~PilK~~k~~i~~t~tfa~vi~Flkk~Lkl~as~slflYVN~sFAPsPDq~v~~L   95 (116)
T KOG3439|consen   28 IRKVQIRLRAIGDAPILKKSKFKINPTQTFAKVILFLKKFLKLQASDSLFLYVNNSFAPSPDQIVGNL   95 (116)
T ss_pred             cceEEEEEeccCCCcceecceEEeCcchhhHHHHHHHHHHhCCcccCeEEEEEcCccCCCchhHHHHH
Confidence            4789999887554333    89999999999999999999999888888888444333  35554444

>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=86.50  E-value=2.7  Score=27.68  Aligned_cols=44  Identities=14%  Similarity=0.219  Sum_probs=39.1

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEEC
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD   70 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fd   70 (104)
                      ..|||.-+.  .|.++|.+.-+++.|.+.-++|.+++.+.+++.|-
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            467887765  78999999999999999999999999999999984

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

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

Probab=86.05  E-value=5  Score=24.87  Aligned_cols=45  Identities=7%  Similarity=0.136  Sum_probs=35.9

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEE
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF   69 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~f   69 (104)
                      +.||+.-.+.....+.+.....|..|.+.-+++.+.+...+++.|
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            556665533333338999999999999999999999888999988

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 ....

>PRK06488 sulfur carrier protein ThiS; Validated

Probab=85.89  E-value=5  Score=24.27  Aligned_cols=54  Identities=19%  Similarity=0.148  Sum_probs=38.1

Q ss_pred             CCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           33 DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        33 ~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      +|..+.+   ..+.+..|.+..    +++...+..-.||+-|..++ =.+.-+.|||.|.++
T Consensus         6 Ng~~~~~---~~~tl~~Ll~~l----~~~~~~vavavN~~iv~~~~-~~~~~L~dgD~Ieiv   59 (65)
T PRK06488          6 NGETLQT---EATTLALLLAEL----DYEGNWLATAVNGELVHKEA-RAQFVLHEGDRIEIL   59 (65)
T ss_pred             CCeEEEc---CcCcHHHHHHHc----CCCCCeEEEEECCEEcCHHH-cCccccCCCCEEEEE
Confidence            5666554   345677777653    77778889999999998532 223558999999886

>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=85.39  E-value=5.5  Score=26.48  Aligned_cols=44  Identities=14%  Similarity=0.262  Sum_probs=37.6

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEE
Q 034095           24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF   69 (104)
Q Consensus        24 ~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~f   69 (104)
                      +|+|||.- .|..+.+.|.++..|+.|.+.-.++.++. ..|+..|
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            67888874 67788999999999999999999999985 5777766

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

>PRK06083 sulfur carrier protein ThiS; Provisional

Probab=85.20  E-value=5.3  Score=26.16  Aligned_cols=61  Identities=11%  Similarity=0.132  Sum_probs=46.7

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        24 ~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      .++|.|   +|..  +.+.....+..|.+.    .+++...+-.-.||+-|..+ .=++.-+.+||.|.++
T Consensus        18 ~m~I~V---NG~~--~~~~~~~tl~~LL~~----l~~~~~~vAVevNg~iVpr~-~w~~t~L~egD~IEIv   78 (84)
T PRK06083         18 LITISI---NDQS--IQVDISSSLAQIIAQ----LSLPELGCVFAINNQVVPRS-EWQSTVLSSGDAISLF   78 (84)
T ss_pred             eEEEEE---CCeE--EEcCCCCcHHHHHHH----cCCCCceEEEEECCEEeCHH-HcCcccCCCCCEEEEE
Confidence            566776   6655  556677778888775    58889999999999999753 3445569999999986

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

Probab=85.15  E-value=0.51  Score=33.23  Aligned_cols=64  Identities=14%  Similarity=0.256  Sum_probs=56.5

Q ss_pred             EEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceee
Q 034095           29 VKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCS   92 (104)
Q Consensus        29 V~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~   92 (104)
                      |..-.|..++..+-++.....|....-++-|++++-.++.|+|..+.+.-|-++.+|.--|-|-
T Consensus         5 ~~~~~GKT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~   68 (128)
T KOG0003|consen    5 VKTLTGKTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLH   68 (128)
T ss_pred             EEEeeCceEEEEecccchHHHHHHHhccccCCCHHHHHHHhcccccccCCcccccCccchhhhh
Confidence            4444678889999999999999999999999999999999999999999999999998776653

>PRK08053 sulfur carrier protein ThiS; Provisional

Probab=84.16  E-value=7.4  Score=23.75  Aligned_cols=55  Identities=7%  Similarity=-0.014  Sum_probs=40.1

Q ss_pred             CCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           33 DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        33 ~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      +|..  +.+...+.+..|.+.    .+.+...+.+-.||+-|..+ ..++.-+.+||.|.++
T Consensus         6 Ng~~--~~~~~~~tl~~ll~~----l~~~~~~vaVavN~~iv~r~-~w~~~~L~~gD~Ieii   60 (66)
T PRK08053          6 NDQP--MQCAAGQTVHELLEQ----LNQLQPGAALAINQQIIPRE-QWAQHIVQDGDQILLF   60 (66)
T ss_pred             CCeE--EEcCCCCCHHHHHHH----cCCCCCcEEEEECCEEeChH-HcCccccCCCCEEEEE
Confidence            5555  455666678877753    67777889999999999743 3344469999999876

>smart00295 B41 Band 4

Probab=83.53  E-value=4.2  Score=28.76  Aligned_cols=39  Identities=26%  Similarity=0.395  Sum_probs=35.7

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCc
Q 034095           23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVE   61 (104)
Q Consensus        23 ~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~   61 (104)
                      ..+.|+|.-.||+.+.+.+..++.-+.|++.-|++.|+.
T Consensus         2 ~~~~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~   40 (207)
T smart00295        2 KPRVLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIR   40 (207)
T ss_pred             CcEEEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCC
Confidence            357889999999999999999999999999999999984

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.

>PRK05863 sulfur carrier protein ThiS; Provisional

Probab=83.42  E-value=5  Score=24.54  Aligned_cols=54  Identities=15%  Similarity=0.081  Sum_probs=40.8

Q ss_pred             CCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           33 DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        33 ~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      +|..  +.+...+.+..|.+.    .+++...+-..+||.-|...+=.. . +.|||.|.++
T Consensus         6 NG~~--~~~~~~~tl~~ll~~----l~~~~~~vav~~N~~iv~r~~~~~-~-L~~gD~ieIv   59 (65)
T PRK05863          6 NEEQ--VEVDEQTTVAALLDS----LGFPEKGIAVAVDWSVLPRSDWAT-K-LRDGARLEVV   59 (65)
T ss_pred             CCEE--EEcCCCCcHHHHHHH----cCCCCCcEEEEECCcCcChhHhhh-h-cCCCCEEEEE
Confidence            5544  455566777777764    688999999999999888654443 3 8999999986

>cd01771 Faf1_UBX Faf1 UBX domain

Probab=83.00  E-value=9.3  Score=24.57  Aligned_cols=69  Identities=20%  Similarity=0.146  Sum_probs=49.4

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEEC--CEec---CCCCCccccCCcCCceee
Q 034095           23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD--GRRL---RGEQTPDEVILLFCAFCS   92 (104)
Q Consensus        23 ~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fd--G~rI---~~~~TP~~L~Medgdii~   92 (104)
                      +.++|.|+-.+|+.+.-+...+++|+.|++.... .|.+...+++.-.  =+.+   ..+.|-.+++|--.+.+-
T Consensus         3 ~~~~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~-~~~~~~~f~L~t~fPRk~~~~~d~~~TL~e~gL~p~~~L~   76 (80)
T cd01771           3 PISKLRVRTPSGDFLERRFLGDTPLQVLLNFVAS-KGYPIDEYKLLSSWPRRDLTQLDPNFTLLELKLYPQETLI   76 (80)
T ss_pred             CeEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCCCCcCCCCCCcHHHcCCCCCcEEE
Confidence            4678889999999999999999999999998865 3666667776532  1222   235677777776555443

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.

>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=82.82  E-value=9.1  Score=23.80  Aligned_cols=63  Identities=16%  Similarity=0.291  Sum_probs=47.5

Q ss_pred             EEEEEEccCCC----EEEEEEeCCchHHHHHHHHHHHcCC--ccceEEEE-E----C-CEecCCCCCccccCCcC
Q 034095           25 INLKVKGQDGN----EVFFRIKRSTQLKKLMNAYCDRQSV--ELNSIAFL-F----D-GRRLRGEQTPDEVILLF   87 (104)
Q Consensus        25 I~lkV~~~~g~----~v~FkIK~tt~L~kLm~aY~~~~g~--~~~~lrF~-f----d-G~rI~~~~TP~~L~Med   87 (104)
                      -.|+|-..+++    ...++|..+|+-+.|+.+-+++.++  ++..+.++ +    + -+.|.++.-|..+-+.+
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            46888888888    8899999999999999999999997  55667664 2    1 23455666666555444

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 ....

>PLN02799 Molybdopterin synthase sulfur carrier subunit

Probab=82.55  E-value=5.8  Score=24.89  Aligned_cols=55  Identities=5%  Similarity=0.029  Sum_probs=40.3

Q ss_pred             CEEEEEEeCCchHHHHHHHHHHHc-CCcc--ceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           35 NEVFFRIKRSTQLKKLMNAYCDRQ-SVEL--NSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        35 ~~v~FkIK~tt~L~kLm~aY~~~~-g~~~--~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      ++..+.+...+.+..|.+....+. ++..  ..+.+..||+.+.     .+.-++|||-|.++
T Consensus        19 ~~~~~~~~~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~~v~-----~~~~l~dgDeVai~   76 (82)
T PLN02799         19 SDMTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEEYTT-----ESAALKDGDELAII   76 (82)
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHChhHHHHhhCcEEEECCEEcC-----CCcCcCCCCEEEEe
Confidence            456777778888999998887765 2222  4567888999874     34458999999876

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

Probab=81.83  E-value=10  Score=23.69  Aligned_cols=54  Identities=7%  Similarity=0.065  Sum_probs=41.5

Q ss_pred             EEEEEEeCC-chHHHHHHHHHHHcC-C--ccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           36 EVFFRIKRS-TQLKKLMNAYCDRQS-V--ELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        36 ~v~FkIK~t-t~L~kLm~aY~~~~g-~--~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      +..+.+... +.++.|.+..+++.. +  ....+++..||+.+..     +.-++|||-|.++
T Consensus        17 ~~~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~~-----~~~l~dgDevai~   74 (80)
T TIGR01682        17 EETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVTD-----DALLNEGDEVAFI   74 (80)
T ss_pred             eEEEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcCC-----CcCcCCCCEEEEe
Confidence            346677666 789999999988874 1  2366889999999883     5679999999875

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

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

Probab=81.50  E-value=7.2  Score=24.85  Aligned_cols=44  Identities=7%  Similarity=0.270  Sum_probs=37.5

Q ss_pred             EEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEEC
Q 034095           27 LKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD   70 (104)
Q Consensus        27 lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fd   70 (104)
                      ++|.=+||+.....+++...++-+.+.-|++.|+.+...-.++-
T Consensus         2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~l~~~~~~v~~~   45 (72)
T cd01760           2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRGLNPECCDVFLL   45 (72)
T ss_pred             EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEe
Confidence            46777889999999999999999999999999998866655553

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.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	104
3ix6_A	360	Crystal Structure Of Thymidylate Synthase Thya From		3e-13
1a5r_A	103	Structure Determination Of The Small Ubiquitin-Rela		3e-13
3kyd_D	115	Human Sumo E1~sumo1-amp Tetrahedral Intermediate Mi		3e-13
1z5s_B	82	Crystal Structure Of A Complex Between Ubc9, Sumo-1		3e-13
2iy0_B	82	Senp1 (Mutant) Sumo1 Rangap Length = 82		4e-13
1tgz_B	80	Structure Of Human Senp2 In Complex With Sumo-1 Len		4e-13
2iy1_B	83	Senp1 (Mutant) Full Length Sumo1 Length = 83		4e-13
1y8r_C	97	Sumo E1 Activating Enzyme Sae1-Sae2-Sumo1-Mg-Atp Co		4e-13
2kqs_A	99	Phosphorylation Of Sumo-Interacting Motif By Ck2 En		4e-13
3kyc_D	97	Human Sumo E1 Complex With A Sumo1-Amp Mimic Length		4e-13
1wz0_A	104	Solution Structure Of Human Sumo-2 (Smt3b), A Ubiqu		4e-13
2uyz_B	79	Non-Covalent Complex Between Ubc9 And Sumo1 Length		4e-13
2bf8_B	77	Crystal Structure Of Sumo Modified Ubiquitin Conjug		4e-13
2g4d_B	78	Crystal Structure Of Human Senp1 Mutant (C603s) In		4e-13
2d07_B	93	Crystal Structure Of Sumo-3-Modified Thymine-Dna Gl		5e-13
2awt_A	95	Solution Structure Of Human Small Ubiquitin-Like Mo		5e-13
2io1_B	94	Crystal Structure Of Human Senp2 In Complex With Pr		8e-13
3v7o_A	227	Crystal Structure Of The C-Terminal Domain Of Ebola		8e-13
3uqb_A	209	Crystal Structure Of A Smt Fusion Peptidyl-Prolyl C		8e-13
3uf8_A	209	Crystal Structure Of A Smt Fusion Peptidyl-Prolyl C		8e-13
4ggq_C	209	Crystal Structure Of A Smt Fusion Peptidyl-Prolyl C		8e-13
3vaw_A	209	Crystal Structure Of A Smt Fusion Peptidyl-Prolyl C		9e-13
3uqa_A	209	Crystal Structure Of A Smt Fusion Peptidyl-Prolyl C		9e-13
2io3_B	81	Crystal Structure Of Human Senp2 In Complex With Ra		1e-12
1wm3_A	72	Crystal Structure Of Human Sumo-2 Protein Length =		1e-12
2io0_B	91	Crystal Structure Of Human Senp2 In Complex With Pr		1e-12
2iyd_B	81	Senp1 Covalent Complex With Sumo-2 Length = 81		1e-12
1wm2_A	78	Crystal Structure Of Human Sumo-2 Protein Length =		1e-12
2ckh_B	79	Senp1-sumo2 Complex Length = 79		1e-12
3uin_B	80	Complex Between Human Rangap1-Sumo2, Ubc9 And The I		1e-12
3pge_A	200	Structure Of Sumoylated Pcna Length = 200		1e-12
1l2n_A	101	Smt3 Solution Structure Length = 101		2e-12
1euv_B	86	X-Ray Structure Of The C-Terminal Ulp1 Protease Dom		2e-12
2eke_C	106	Structure Of A Sumo-Binding-Motif Mimic Bound To Sm		2e-12
2k1f_A	88	Sumo-3 From Drosophila Melanogaster (Dsmt3) Length		2e-12
3qht_A	98	Crystal Structure Of The Monobody Ysmb-1 Bound To Y		2e-12
3rzw_C	99	Crystal Structure Of The Monobody Ysmb-9 Bound To H		2e-12
3tix_A	207	Crystal Structure Of The Chp1-Tas3 Complex Core Len		2e-12
4da1_A	389	Crystal Structure Of Branched-Chain Alpha-Ketoacid		4e-12
3v60_A	84	Structure Of S. Cerevisiae Pcna Conjugated To Sumo		5e-12
2k8h_A	110	Solution Structure Of Sumo From Trypanosoma Brucei		9e-12
1u4a_A	87	Solution Structure Of Human Sumo-3 C47s Length = 87		9e-12
3v62_A	84	Structure Of The S. Cerevisiae Srs2 C-Terminal Doma		2e-10

>pdb|3IX6|A Chain A, Crystal Structure Of Thymidylate Synthase Thya From Brucella Melitensis Length = 360

Iteration: 1
 Score = 70.1 bits (170), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 33/71 (46%), Positives = 51/71 (71%), Gaps = 3/71 (4%)
Query: 14 EDKKPVDQSAHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGR 72
          E K  V    HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FL+DG 
Sbjct: 11 EVKPEVKPETHINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 68
Query: 73 RLRGEQTPDEV 83
          R++ +QTP+++
Sbjct: 69 RIQADQTPEDL 79

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

Iteration: 1
 Score = 70.1 bits (170), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 33/69 (47%), Positives = 47/69 (68%), Gaps = 3/69 (4%)
Query: 15 DKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRL 74
          DKK   +  +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FLF+G+R+
Sbjct: 17 DKK---EGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRI 73
Query: 75 RGEQTPDEV 83
              TP E+
Sbjct: 74 ADNHTPKEL 82

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

Iteration: 1
 Score = 69.7 bits (169), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 33/69 (47%), Positives = 47/69 (68%), Gaps = 3/69 (4%)
Query: 15 DKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRL 74
          DKK   +  +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FLF+G+R+
Sbjct: 34 DKK---EGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRI 90
Query: 75 RGEQTPDEV 83
              TP E+
Sbjct: 91 ADNHTPKEL 99

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

Iteration: 1
 Score = 69.7 bits (169), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 30/65 (46%), Positives = 45/65 (69%)
Query: 19 VDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQ 78
          + +  +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FLF+G+R+    
Sbjct: 1  MGEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNH 60
Query: 79 TPDEV 83
          TP E+
Sbjct: 61 TPKEL 65

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

Iteration: 1
 Score = 69.7 bits (169), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 30/60 (50%), Positives = 43/60 (71%)
Query: 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEV 83
          +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FLF+G+R+    TP E+
Sbjct: 2  YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKEL 61

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

Iteration: 1
 Score = 69.7 bits (169), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 30/63 (47%), Positives = 44/63 (69%)
Query: 21 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTP 80
          +  +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FLF+G+R+    TP
Sbjct: 1  EGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTP 60
Query: 81 DEV 83
           E+
Sbjct: 61 KEL 63

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

Iteration: 1
 Score = 69.7 bits (169), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 30/60 (50%), Positives = 43/60 (71%)
Query: 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEV 83
          +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FLF+G+R+    TP E+
Sbjct: 2  YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKEL 61

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

Iteration: 1
 Score = 69.7 bits (169), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 33/69 (47%), Positives = 47/69 (68%), Gaps = 3/69 (4%)
Query: 15 DKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRL 74
          DKK   +  +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FLF+G+R+
Sbjct: 15 DKK---EGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRI 71
Query: 75 RGEQTPDEV 83
              TP E+
Sbjct: 72 ADNHTPKEL 80

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

Iteration: 1
 Score = 69.7 bits (169), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 33/69 (47%), Positives = 47/69 (68%), Gaps = 3/69 (4%)
Query: 15 DKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRL 74
          DKK   +  +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FLF+G+R+
Sbjct: 17 DKK---EGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRI 73
Query: 75 RGEQTPDEV 83
              TP E+
Sbjct: 74 ADNHTPKEL 82

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

Iteration: 1
 Score = 69.7 bits (169), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 33/69 (47%), Positives = 47/69 (68%), Gaps = 3/69 (4%)
Query: 15 DKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRL 74
          DKK   +  +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FLF+G+R+
Sbjct: 15 DKK---EGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRI 71
Query: 75 RGEQTPDEV 83
              TP E+
Sbjct: 72 ADNHTPKEL 80

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

Iteration: 1
 Score = 69.7 bits (169), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 35/71 (49%), Positives = 45/71 (63%), Gaps = 5/71 (7%)
Query: 15 DKKP-----VDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF 69
          D+KP      + + HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F F
Sbjct: 10 DEKPKEGVKTENNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 69
Query: 70 DGRRLRGEQTP 80
          DG+ +    TP
Sbjct: 70 DGQPINETDTP 80

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

Iteration: 1
 Score = 69.7 bits (169), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 30/60 (50%), Positives = 43/60 (71%)
Query: 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEV 83
          +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FLF+G+R+    TP E+
Sbjct: 3  YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKEL 62

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

Iteration: 1
 Score = 69.7 bits (169), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 30/60 (50%), Positives = 43/60 (71%)
Query: 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEV 83
          +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FLF+G+R+    TP E+
Sbjct: 1  YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKEL 60

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

Iteration: 1
 Score = 69.7 bits (169), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 30/60 (50%), Positives = 43/60 (71%)
Query: 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEV 83
          +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FLF+G+R+    TP E+
Sbjct: 2  YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKEL 61

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

Iteration: 1
 Score = 69.3 bits (168), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 35/71 (49%), Positives = 45/71 (63%), Gaps = 5/71 (7%)
Query: 15 DKKP-----VDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF 69
          D+KP      + + HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F F
Sbjct: 3  DEKPKEGVKTENNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 62
Query: 70 DGRRLRGEQTP 80
          DG+ +    TP
Sbjct: 63 DGQPINETDTP 73

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

Iteration: 1
 Score = 69.3 bits (168), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 35/71 (49%), Positives = 45/71 (63%), Gaps = 5/71 (7%)
Query: 15 DKKP-----VDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF 69
          D+KP      + + HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F F
Sbjct: 3  DEKPKEGVKTENNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 62
Query: 70 DGRRLRGEQTP 80
          DG+ +    TP
Sbjct: 63 DGQPINETDTP 73

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

Iteration: 1
 Score = 68.6 bits (166), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 32/60 (53%), Positives = 41/60 (68%)
Query: 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEV 83
          HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F FDG+ +    TP ++
Sbjct: 7  HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQL 66

>pdb|3V7O|A Chain A, Crystal Structure Of The C-Terminal Domain Of Ebola Virus Vp30 (Strain Reston-89) Length = 227

Iteration: 1
 Score = 68.6 bits (166), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 33/71 (46%), Positives = 51/71 (71%), Gaps = 3/71 (4%)
Query: 14 EDKKPVDQSAHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGR 72
          E K  V    HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FL+DG 
Sbjct: 11 EVKPEVKPETHINLKVS--DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 68
Query: 73 RLRGEQTPDEV 83
          R++ +QTP+++
Sbjct: 69 RIQADQTPEDL 79

>pdb|3UQB|A Chain A, Crystal Structure Of A Smt Fusion Peptidyl-Prolyl Cis-Trans Isomerase With Surface Mutation D44g From Burkholderia Pseudomallei Complexed With Fk506 Length = 209

Iteration: 1
 Score = 68.6 bits (166), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 33/71 (46%), Positives = 51/71 (71%), Gaps = 3/71 (4%)
Query: 14 EDKKPVDQSAHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGR 72
          E K  V    HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FL+DG 
Sbjct: 11 EVKPEVKPETHINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 68
Query: 73 RLRGEQTPDEV 83
          R++ +QTP+++
Sbjct: 69 RIQADQTPEDL 79

>pdb|3UF8|A Chain A, Crystal Structure Of A Smt Fusion Peptidyl-Prolyl Cis-Trans Isomerase With A G95a Surface Mutation From Burkholderia Pseudomallei Complexed With Fk506 Length = 209

Iteration: 1
 Score = 68.6 bits (166), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 33/71 (46%), Positives = 51/71 (71%), Gaps = 3/71 (4%)
Query: 14 EDKKPVDQSAHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGR 72
          E K  V    HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FL+DG 
Sbjct: 11 EVKPEVKPETHINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 68
Query: 73 RLRGEQTPDEV 83
          R++ +QTP+++
Sbjct: 69 RIQADQTPEDL 79

>pdb|4GGQ|C Chain C, Crystal Structure Of A Smt Fusion Peptidyl-Prolyl Cis-Trans Isomerase From Burkholderia Pseudomallei Complexed With Cj40 Length = 209

Iteration: 1
 Score = 68.6 bits (166), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 33/71 (46%), Positives = 51/71 (71%), Gaps = 3/71 (4%)
Query: 14 EDKKPVDQSAHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGR 72
          E K  V    HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FL+DG 
Sbjct: 11 EVKPEVKPETHINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 68
Query: 73 RLRGEQTPDEV 83
          R++ +QTP+++
Sbjct: 69 RIQADQTPEDL 79

>pdb|3VAW|A Chain A, Crystal Structure Of A Smt Fusion Peptidyl-Prolyl Cis-Trans Isomerase With Surface Mutation V3i From Burkholderia Pseudomallei Complexed With Fk506 Length = 209

Iteration: 1
 Score = 68.6 bits (166), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 33/71 (46%), Positives = 51/71 (71%), Gaps = 3/71 (4%)
Query: 14 EDKKPVDQSAHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGR 72
          E K  V    HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FL+DG 
Sbjct: 11 EVKPEVKPETHINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 68
Query: 73 RLRGEQTPDEV 83
          R++ +QTP+++
Sbjct: 69 RIQADQTPEDL 79

>pdb|3UQA|A Chain A, Crystal Structure Of A Smt Fusion Peptidyl-Prolyl Cis-Trans Isomerase With Surface Mutation A54e From Burkholderia Pseudomallei Complexed With Fk506 Length = 209

Iteration: 1
 Score = 68.6 bits (166), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 33/71 (46%), Positives = 51/71 (71%), Gaps = 3/71 (4%)
Query: 14 EDKKPVDQSAHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGR 72
          E K  V    HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FL+DG 
Sbjct: 11 EVKPEVKPETHINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 68
Query: 73 RLRGEQTPDEV 83
          R++ +QTP+++
Sbjct: 69 RIQADQTPEDL 79

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

Iteration: 1
 Score = 68.6 bits (166), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 32/60 (53%), Positives = 41/60 (68%)
Query: 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEV 83
          HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F FDG+ +    TP ++
Sbjct: 5  HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQL 64

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

Iteration: 1
 Score = 68.2 bits (165), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 32/60 (53%), Positives = 41/60 (68%)
Query: 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEV 83
          HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F FDG+ +    TP ++
Sbjct: 1  HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQL 60

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

Iteration: 1
 Score = 68.2 bits (165), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 32/60 (53%), Positives = 41/60 (68%)
Query: 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEV 83
          HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F FDG+ +    TP ++
Sbjct: 5  HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQL 64

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

Iteration: 1
 Score = 68.2 bits (165), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 32/60 (53%), Positives = 41/60 (68%)
Query: 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEV 83
          HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F FDG+ +    TP ++
Sbjct: 3  HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQL 62

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

Iteration: 1
 Score = 68.2 bits (165), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 32/57 (56%), Positives = 39/57 (68%)
Query: 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTP 80
          HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F FDG+ +    TP
Sbjct: 6  HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTP 62

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

Iteration: 1
 Score = 68.2 bits (165), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 32/60 (53%), Positives = 41/60 (68%)
Query: 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEV 83
          HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F FDG+ +    TP ++
Sbjct: 3  HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQL 62

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

Iteration: 1
 Score = 68.2 bits (165), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 32/60 (53%), Positives = 41/60 (68%)
Query: 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEV 83
          HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F FDG+ +    TP ++
Sbjct: 4  HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQL 63

>pdb|3PGE|A Chain A, Structure Of Sumoylated Pcna Length = 200

Iteration: 1
 Score = 67.8 bits (164), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 33/71 (46%), Positives = 51/71 (71%), Gaps = 3/71 (4%)
Query: 14 EDKKPVDQSAHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGR 72
          E K  V    HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FL+DG 
Sbjct: 19 EVKPEVKPETHINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 76
Query: 73 RLRGEQTPDEV 83
          R++ +QTP+++
Sbjct: 77 RIQADQTPEDL 87

>pdb|1L2N|A Chain A, Smt3 Solution Structure Length = 101

Iteration: 1
 Score = 67.8 bits (164), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 33/71 (46%), Positives = 51/71 (71%), Gaps = 3/71 (4%)
Query: 14 EDKKPVDQSAHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGR 72
          E K  V    HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FL+DG 
Sbjct: 13 EVKPEVKPETHINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 70
Query: 73 RLRGEQTPDEV 83
          R++ +QTP+++
Sbjct: 71 RIQADQTPEDL 81

>pdb|1EUV|B Chain B, X-Ray Structure Of The C-Terminal Ulp1 Protease Domain In Complex With Smt3, The Yeast Ortholog Of Sumo Length = 86

Iteration: 1
 Score = 67.8 bits (164), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 33/71 (46%), Positives = 51/71 (71%), Gaps = 3/71 (4%)
Query: 14 EDKKPVDQSAHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGR 72
          E K  V    HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FL+DG 
Sbjct: 1  EVKPEVKPETHINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 58
Query: 73 RLRGEQTPDEV 83
          R++ +QTP+++
Sbjct: 59 RIQADQTPEDL 69

>pdb|2EKE|C Chain C, Structure Of A Sumo-Binding-Motif Mimic Bound To Smt3p- Ubc9p: Conservation Of A Noncovalent Ubiquitin-Like Protein-E2 Complex As A Platform For Selective Interactions Within A Sumo Pathway Length = 106

Iteration: 1
 Score = 67.8 bits (164), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 33/71 (46%), Positives = 51/71 (71%), Gaps = 3/71 (4%)
Query: 14 EDKKPVDQSAHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGR 72
          E K  V    HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FL+DG 
Sbjct: 21 EVKPEVKPETHINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 78
Query: 73 RLRGEQTPDEV 83
          R++ +QTP+++
Sbjct: 79 RIQADQTPEDL 89

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

Iteration: 1
 Score = 67.4 bits (163), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 32/66 (48%), Positives = 43/66 (65%)
Query: 15 DKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRL 74
          D+K   ++ HINLKV GQD   V F+IK+ T L+KLMNAYCDR  + +  + F FDG+ +
Sbjct: 3  DEKKGGETEHINLKVLGQDNAVVQFKIKKHTPLRKLMNAYCDRAGLSMQVVRFRFDGQPI 62
Query: 75 RGEQTP 80
              TP
Sbjct: 63 NENDTP 68

>pdb|3QHT|A Chain A, Crystal Structure Of The Monobody Ysmb-1 Bound To Yeast Sumo Length = 98

Iteration: 1
 Score = 67.4 bits (163), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 33/71 (46%), Positives = 51/71 (71%), Gaps = 3/71 (4%)
Query: 14 EDKKPVDQSAHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGR 72
          E K  V    HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FL+DG 
Sbjct: 13 EVKPEVKPETHINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 70
Query: 73 RLRGEQTPDEV 83
          R++ +QTP+++
Sbjct: 71 RIQADQTPEDL 81

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

Iteration: 1
 Score = 67.0 bits (162), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 32/69 (46%), Positives = 46/69 (66%), Gaps = 3/69 (4%)
Query: 15 DKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRL 74
          DKK   +  +I LKV GQD +E+ F++K +T LKKL  +Y  RQ V +NS+ FLF+G+R+
Sbjct: 17 DKK---EGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYAQRQGVPMNSLRFLFEGQRI 73
Query: 75 RGEQTPDEV 83
              TP E+
Sbjct: 74 ADNHTPKEL 82

>pdb|3TIX|A Chain A, Crystal Structure Of The Chp1-Tas3 Complex Core Length = 207

Iteration: 1
 Score = 67.0 bits (162), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 32/71 (45%), Positives = 50/71 (70%), Gaps = 3/71 (4%)
Query: 14  EDKKPVDQSAHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGR 72
           E K  V    HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FL+DG 
Sbjct: 47  EVKPEVKPETHINLKVS--DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLTFLYDGI 104
Query: 73  RLRGEQTPDEV 83
            ++ +QTP+++
Sbjct: 105 EIQADQTPEDL 115

>pdb|4DA1|A Chain A, Crystal Structure Of Branched-Chain Alpha-Ketoacid Dehydrogenase Phosphatase With Mg (Ii) Ions At The Active Site Length = 389

Iteration: 1
 Score = 66.2 bits (160), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 32/73 (43%), Positives = 51/73 (69%), Gaps = 3/73 (4%)
Query: 12 QEEDKKPVDQSAHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD 70
          + E K  V    HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FL+D
Sbjct: 18 KPEVKPEVKPETHINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYD 75
Query: 71 GRRLRGEQTPDEV 83
          G R++ +Q P+++
Sbjct: 76 GIRIQADQAPEDL 88

>pdb|3V60|A Chain A, Structure Of S. Cerevisiae Pcna Conjugated To Sumo On Lysine 164 Length = 84

Iteration: 1
 Score = 65.9 bits (159), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 30/62 (48%), Positives = 48/62 (77%), Gaps = 3/62 (4%)
Query: 23 AHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPD 81
           HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FL+DG R++ +QTP+
Sbjct: 8  THINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPE 65
Query: 82 EV 83
          ++
Sbjct: 66 DL 67

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

Iteration: 1
 Score = 65.1 bits (157), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 29/64 (45%), Positives = 44/64 (68%)
Query: 20 DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQT 79
          +++A + +KV   DG E+FFRIK  T LKKL++ YC +Q +  NS+ FLFDG  +   +T
Sbjct: 22 EETALVAVKVVNADGAEMFFRIKSRTALKKLIDTYCKKQGISRNSVRFLFDGTPIDETKT 81
Query: 80 PDEV 83
          P+E+
Sbjct: 82 PEEL 85

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

Iteration: 1
 Score = 65.1 bits (157), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 31/57 (54%), Positives = 38/57 (66%)
Query: 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTP 80
          HINLKV GQDG+ V F+IKR T L KLM AY +RQ + +  I F FDG+ +    TP
Sbjct: 3  HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYSERQGLSMRQIRFRFDGQPINETDTP 59

>pdb|3V62|A Chain A, Structure Of The S. Cerevisiae Srs2 C-Terminal Domain In Complex With Pcna Conjugated To Sumo On Lysine 164 Length = 84

Iteration: 1
 Score = 60.5 bits (145), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 28/62 (45%), Positives = 44/62 (70%), Gaps = 3/62 (4%)
Query: 23 AHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPD 81
           HINL V   DG+ E+FF I  +T L++LM A+  RQ  E++S+ FL+DG R++ +QTP+
Sbjct: 8  THINLXVS--DGSSEIFFXIXXTTPLRRLMEAFAXRQGXEMDSLRFLYDGIRIQADQTPE 65
Query: 82 EV 83
          ++
Sbjct: 66 DL 67

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	104
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	6e-29
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	2e-28
2d07_B	93	Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Ho	6e-28
1wm3_A	72	Ubiquitin-like protein SMT3B; ubiquitin fold, half	1e-27
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	1e-27
3kyd_D	115	Small ubiquitin-related modifier 1; SUMO, thioeste	2e-27
2eke_C	106	Ubiquitin-like protein SMT3; UBC9, SUMO binding mo	2e-27
2jxx_A	97	Nfatc2-interacting protein; nuclear factor of acti	3e-27
3v7o_A	227	Minor nucleoprotein VP30; ssgcid, seattle structur	4e-27
3tix_A	207	Ubiquitin-like protein SMT3, RNA-induced transcri	6e-27
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	9e-27
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	2e-26
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	2e-26
3a4r_A	79	Nfatc2-interacting protein; ubiquitin fold, coiled	2e-25
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	3e-20
2l76_A	95	Nfatc2-interacting protein; ubiquitin-like domain,	2e-17

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

 Score = 99.6 bits (248), Expect = 6e-29
 Identities = 34/84 (40%), Positives = 49/84 (58%), Gaps = 2/84 (2%)

Query: 1  MSATGGGGGGGQEEDKKPV--DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQ 58
          MS  GG       E  +    +++A + +KV   DG E+FFRIK  T LKKL++ YC +Q
Sbjct: 1  MSNNGGEPSNNGGEGAEGTCKEETALVAVKVVNADGAEMFFRIKSRTALKKLIDTYCKKQ 60

Query: 59 SVELNSIAFLFDGRRLRGEQTPDE 82
           +  NS+ FLFDG  +   +TP+E
Sbjct: 61 GISRNSVRFLFDGTPIDETKTPEE 84

>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 = 98.0 bits (244), Expect = 2e-28
 Identities = 34/81 (41%), Positives = 48/81 (59%)

Query: 2  SATGGGGGGGQEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVE 61
          S+   G    + ++    + + HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + 
Sbjct: 2  SSGSSGMADEKPKEGVKTENNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLS 61

Query: 62 LNSIAFLFDGRRLRGEQTPDE 82
          +  I F FDG+ +    TP +
Sbjct: 62 MRQIRFRFDGQPINETDTPAQ 82

>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 = 96.4 bits (240), Expect = 6e-28
 Identities = 32/71 (45%), Positives = 45/71 (63%)

Query: 12 QEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDG 71
          + ++    + + HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F FDG
Sbjct: 5  KPKEGVKTENNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDG 64

Query: 72 RRLRGEQTPDE 82
          + +    TP +
Sbjct: 65 QPINETDTPAQ 75

>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 = 95.2 bits (237), Expect = 1e-27
 Identities = 32/59 (54%), Positives = 40/59 (67%)

Query: 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDE 82
          HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F FDG+ +    TP +
Sbjct: 1  HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQ 59

>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 = 95.7 bits (238), Expect = 1e-27
 Identities = 32/71 (45%), Positives = 45/71 (63%)

Query: 12 QEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDG 71
            ED     +  +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FLF+G
Sbjct: 9  STEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEG 68

Query: 72 RRLRGEQTPDE 82
          +R+    TP E
Sbjct: 69 QRIADNHTPKE 79

>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 = 95.8 bits (238), Expect = 2e-27
 Identities = 32/71 (45%), Positives = 45/71 (63%)

Query: 12 QEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDG 71
            ED     +  +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FLF+G
Sbjct: 28 STEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEG 87

Query: 72 RRLRGEQTPDE 82
          +R+    TP E
Sbjct: 88 QRIADNHTPKE 98

>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 = 95.8 bits (238), Expect = 2e-27
 Identities = 31/71 (43%), Positives = 48/71 (67%), Gaps = 1/71 (1%)

Query: 12 QEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDG 71
            E K  V    HINLKV     +E+FF+IK++T L++LM A+  RQ  E++S+ FL+DG
Sbjct: 19 GSEVKPEVKPETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDG 77

Query: 72 RRLRGEQTPDE 82
           R++ +QTP++
Sbjct: 78 IRIQADQTPED 88

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

 Score = 94.6 bits (235), Expect = 3e-27
 Identities = 18/84 (21%), Positives = 39/84 (46%), Gaps = 2/84 (2%)

Query: 1  MSATGGGGGGGQE-EDKKPVDQSAHINLKVKGQDGNEVF-FRIKRSTQLKKLMNAYCDRQ 58
          M ++            +   + S  + L+V+G++ ++     + R + LK LM+ Y +  
Sbjct: 1  MGSSHHHHHHSSGLVPRGSTETSQQLQLRVQGKEKHQTLEVSLSRDSPLKTLMSHYEEAM 60

Query: 59 SVELNSIAFLFDGRRLRGEQTPDE 82
           +    ++F FDG +L G + P +
Sbjct: 61 GLSGRKLSFFFDGTKLSGRELPAD 84

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

 Score = 98.3 bits (244), Expect = 4e-27
 Identities = 31/71 (43%), Positives = 48/71 (67%), Gaps = 1/71 (1%)

Query: 12 QEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDG 71
            E K  V    HINLKV     +E+FF+IK++T L++LM A+  RQ  E++S+ FL+DG
Sbjct: 9  SGEVKPEVKPETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDG 67

Query: 72 RRLRGEQTPDE 82
           R++ +QTP++
Sbjct: 68 IRIQADQTPED 78

>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 = 97.2 bits (241), Expect = 6e-27
 Identities = 30/71 (42%), Positives = 48/71 (67%), Gaps = 1/71 (1%)

Query: 12  QEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDG 71
           + E K  V    HINLKV     +E+FF+IK++T L++LM A+  RQ  E++S+ FL+DG
Sbjct: 45  KPEVKPEVKPETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLTFLYDG 103

Query: 72  RRLRGEQTPDE 82
             ++ +QTP++
Sbjct: 104 IEIQADQTPED 114

>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 = 93.3 bits (232), Expect = 9e-27
 Identities = 32/61 (52%), Positives = 41/61 (67%)

Query: 22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPD 81
          + HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F FDG+ +    TP 
Sbjct: 3  NDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPA 62

Query: 82 E 82
          +
Sbjct: 63 Q 63

>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 = 93.0 bits (231), Expect = 2e-26
 Identities = 32/63 (50%), Positives = 41/63 (65%)

Query: 20 DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQT 79
            + HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F FDG+ +    T
Sbjct: 3  HMNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDT 62

Query: 80 PDE 82
          P +
Sbjct: 63 PAQ 65

>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 = 92.1 bits (229), Expect = 2e-26
 Identities = 30/59 (50%), Positives = 42/59 (71%)

Query: 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDE 82
          +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FLF+G+R+    TP E
Sbjct: 3  YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKE 61

>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 = 89.9 bits (223), Expect = 2e-25
 Identities = 16/64 (25%), Positives = 36/64 (56%), Gaps = 1/64 (1%)

Query: 20 DQSAHINLKVKGQDGNEVF-FRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQ 78
            S  + L+V+G++ +++    +   + LK LM+ Y +   +  + ++F FDG +L G++
Sbjct: 3  LGSQELRLRVQGKEKHQMLEISLSPDSPLKVLMSHYEEAMGLSGHKLSFFFDGTKLSGKE 62

Query: 79 TPDE 82
           P +
Sbjct: 63 LPAD 66

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

 Score = 79.9 bits (196), Expect = 3e-20
 Identities = 33/85 (38%), Positives = 53/85 (62%), Gaps = 2/85 (2%)

Query: 1  MSATGGGGGGGQEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV 60
          MS         + E K  V    HINLKV     +E+FF+IK++T L++LM A+  RQ  
Sbjct: 7  MS-DSEVNQEAKPEVKPEVKPETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGK 64

Query: 61 ELNSIAFLFDGRRLRGEQTPDEVIL 85
          E++S+ FL+DG R++ +QTP+++ +
Sbjct: 65 EMDSLRFLYDGIRIQADQTPEDLDM 89

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

 Score = 69.7 bits (170), Expect = 2e-17
 Identities = 13/70 (18%), Positives = 26/70 (37%), Gaps = 1/70 (1%)

Query: 14 EDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRR 73
          E     +      LK++ +  + V   ++ S  L+ +++       V  + I  LF    
Sbjct: 11 EGPTLPETPRLFPLKIRCR-ADLVRLPLRMSEPLQSVVDHMATHLGVSPSRILLLFGETE 69

Query: 74 LRGEQTPDEV 83
          L    TP  +
Sbjct: 70 LSPTATPRTL 79

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	104
2l76_A	95	Nfatc2-interacting protein; ubiquitin-like domain,	99.97
3kyd_D	115	Small ubiquitin-related modifier 1; SUMO, thioeste	99.97
2jxx_A	97	Nfatc2-interacting protein; nuclear factor of acti	99.96
2d07_B	93	Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Ho	99.96
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	99.95
1wm3_A	72	Ubiquitin-like protein SMT3B; ubiquitin fold, half	99.95
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	99.95
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	99.95
3tix_A	207	Ubiquitin-like protein SMT3, RNA-induced transcri	99.95
2eke_C	106	Ubiquitin-like protein SMT3; UBC9, SUMO binding mo	99.95
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	99.95
3a4r_A	79	Nfatc2-interacting protein; ubiquitin fold, coiled	99.95
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	99.94
3v7o_A	227	Minor nucleoprotein VP30; ssgcid, seattle structur	99.94
3uf8_A	209	Ubiquitin-like protein SMT3, peptidyl-prolyl CIS-	99.92
3ix6_A	360	TS, tsase, thymidylate synthase; niaid, ssgcid, se	99.9
4da1_A	389	Protein phosphatase 1K, mitochondrial; metal-ION-a	99.9
3goe_A	82	DNA repair protein RAD60; SUMO-like domain, sumoyl	99.89
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	99.72
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	99.66
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	99.12
4hcn_B	98	Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidas	99.12
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	99.07
3v6c_B	91	Ubiquitin; structural genomics, structural genomic	99.04
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	99.04
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	99.03
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	99.03
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	99.02
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	99.01
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	99.0
3vdz_A	111	Ubiquitin-40S ribosomal protein S27A; gadolinium,	98.96
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	98.96
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	98.96
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	98.95
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	98.91
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	98.91
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	98.9
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	98.89
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	98.86
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	98.84
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	98.84
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	98.82
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	98.81
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	98.77
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	98.77
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	98.77
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	98.75
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	98.74
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	98.74
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	98.72
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	98.72
3plu_A	93	Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-	98.71
1uh6_A	100	Ubiquitin-like 5; beta-grAsp fold, structural geno	98.7
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	98.69
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	98.69
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	98.63
1wia_A	95	Hypothetical ubiquitin-like protein (riken cDNA 20	98.58
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	98.56
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	97.96
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	98.54
2daf_A	118	FLJ35834 protein; hypothetical protein FLJ35834, u	98.54
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	98.53
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	98.5
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	98.5
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	98.45
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	98.42
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	98.39
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	98.37
4a20_A	98	Ubiquitin-like protein MDY2; protein binding, GET-	98.37
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	98.32
1we6_A	111	Splicing factor, putative; structural genomics, ub	98.32
1x1m_A	107	Ubiquitin-like protein SB132; structural genomics,	98.25
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	98.24
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	98.21
3u5c_f	152	40S ribosomal protein S31; translation, ribosome,	98.18
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	98.17
1wju_A	100	NEDD8 ultimate buster-1; ubiquitin-like domain, st	98.16
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	98.15
1wxv_A	92	BAG-family molecular chaperone regulator-1; struct	98.09
2lxa_A	87	Ubiquitin-like protein MDY2; ubiquitin-like domain	98.07
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	98.07
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	98.05
1wgg_A	96	Ubiquitin carboxyl-terminal hydrolase 14; ubiquiti	97.99
1v5t_A	90	8430435I17RIK protein; hypothetical protein, ubiqu	97.96
1wgh_A	116	Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fo	97.94
1v2y_A	105	3300001G02RIK protein; hypothetical protein, ubiqu	97.92
2gow_A	125	HCG-1 protein, ubiquitin-like protein 3; BC059385,	97.89
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	97.88
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	97.85
2kdb_A	99	Homocysteine-responsive endoplasmic reticulum- res	97.83
4dbg_A	105	Ranbp-type and C3HC4-type zinc finger-containing;	97.82
1wf9_A	107	NPL4 family protein; beta-grAsp fold like domain,	97.81
1se9_A	126	Ubiquitin family; ubiquitin-like, cell-free, wheat	97.79
2kjr_A	95	CG11242; UBL, ubiquitin, ubiquitin-like, structura	97.76
2kzr_A	86	Ubiquitin thioesterase OTU1; structural genomics,	97.6
1v6e_A	95	Cytoskeleton-associated protein 1; tubulin-specifi	97.5
2kj6_A	97	Tubulin folding cofactor B; methods development, N	97.5
1t0y_A	122	Tubulin folding cofactor B; ubiquitin-like, cytosk	97.48
2dzj_A	88	Synaptic glycoprotein SC2; ubiquitin-like fold, st	97.45
2fnj_B	118	Transcription elongation factor B polypeptide 2; b	97.42
4ajy_B	118	Transcription elongation factor B polypeptide 2; E	97.33
1wjn_A	97	Tubulin-folding protein TBCE; ubiquitin-like domai	97.29
2al3_A	90	TUG long isoform; TUG UBL1 insulin, endocytosis/ex	97.03
2pjh_A	80	Protein NPL4, nuclear protein localization protein	96.53
4b6w_A	86	Tubulin-specific chaperone; CAP-Gly, ubiquitin-lik	96.5
3shq_A	320	UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila	96.36
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	96.31
2bps_A	81	YUKD protein; ubiquitin-like protein, ubiquitin; 2	95.99
2dzm_A	100	FAS-associated factor 1; ubiquitin-like domain, HF	94.92
3qx1_A	84	FAS-associated factor 1; UBX, protein binding, P97	94.72
2cr5_A	109	Reproduction 8; UBX domain, D0H8S2298E protein, st	94.37
2kvr_A	130	Ubiquitin carboxyl-terminal hydrolase 7; USP7, ubi	93.12
1ryj_A	70	Unknown; beta/alpha protein, structural genomics,	93.1
4efo_A	94	Serine/threonine-protein kinase TBK1; ubiquitin li	92.5
2daj_A	91	KIAA0977 protein, COBL-like 1; ubiquitin-like doma	92.45
3jyu_A	231	Ubiquitin carboxyl-terminal hydrolase; domain in u	92.23
2dzk_A	109	UBX domain-containing protein 2; ubiquitin-like fo	92.19
1wj4_A	124	KIAA0794 protein; UBX domain, beta-grAsp fold, str	92.1
1oey_A	83	P67-PHOX, neutrophil cytosol factor 2; immune syst	91.79
3rpf_C	74	Molybdopterin converting factor, subunit 1 (MOAD);	91.49
1j0g_A	92	Hypothetical protein 1810045K17; ubiquitin-like fo	90.9
2ylm_A	530	Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70	88.71
4a3p_A	217	Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {H	88.06
2ylm_A	530	Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70	86.7
1f0z_A	66	THis protein; ubiquitin fold, transport protein; N	84.41
1tyg_B	87	YJBS; alpha beta barrel, protein-protein complex,	84.11
3po0_A	89	Small archaeal modifier protein 1; ubiquitin-like	83.6
1s3s_G	127	P47 protein; AAA ATPase, protein-protein complex,	82.28
2l32_A	74	Small archaeal modifier protein 2; protein BIN; NM	80.59

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

Probab=99.97  E-value=8.1e-32  Score=181.16  Aligned_cols=77  Identities=19%  Similarity=0.291  Sum_probs=72.1

Q ss_pred             CCCCCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           17 KPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        17 kp~~~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      +|. .+.+|+|||++ +|++++|+||++|||+|||++||++.|++++++||+|||.||++++||++|+|||||+|||..
T Consensus        15 ~~~-~~~~IniKV~~-~g~ev~FkIK~tt~l~KL~~aYc~r~gv~~~sirFlfDG~rI~~~~TP~~L~meD~DiID~~~   91 (95)
T 2l76_A           15 LPE-TPRLFPLKIRC-RADLVRLPLRMSEPLQSVVDHMATHLGVSPSRILLLFGETELSPTATPRTLKLGVADIIDCVV   91 (95)
T ss_dssp             CCS-CCCCEEEEEEC-SSSEEEEEECSSSCTHHHHHHHHHHHTSCGGGEEEEETTEECCTTSCHHHHTCCSSCEEEEEE
T ss_pred             CCC-CCCeEEEEEEc-CCcEEEEEEecCChHHHHHHHHHhhcCCChhhEEEEECCcCCCCCCCHhHcCCCCCCEEEEEE
Confidence            443 47789999995 799999999999999999999999999999999999999999999999999999999999963

>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=99.97  E-value=8.6e-32  Score=186.33  Aligned_cols=93  Identities=35%  Similarity=0.558  Sum_probs=72.4

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCc
Q 034095            1 MSATGGGGGGGQEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTP   80 (104)
Q Consensus         1 m~~~~~~~~~~~~~~~kp~~~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP   80 (104)
                      ||+++ .++++.++.+|+  ++.+|+|+|++++|++++|+|+++|||+|||++||++.|++++++||+|||+||.+++||
T Consensus        20 ~~~~~-~~~~~~~~~~k~--~~~~I~LKV~~qdg~ev~fkIk~tt~L~KLm~aY~er~Gl~~~~irFlFDG~rI~~~~TP   96 (115)
T 3kyd_D           20 MSDQE-AKPSTEDLGDKK--EGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTP   96 (115)
T ss_dssp             ----------------------CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHHTCCTTSEEEEETTEECCTTCCT
T ss_pred             ccccc-ccCccccccCCC--CCCeEEEEEEcCCCCEEEEEEccCChHHHHHHHHHHHhCCChhhEEEEECCeECCCCCCH
Confidence            56443 333344444444  478999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccCCcCCceeeeeec
Q 034095           81 DEVILLFCAFCSCKYG   96 (104)
Q Consensus        81 ~~L~Medgdii~~~~~   96 (104)
                      ++|+|||||+|||..-
T Consensus        97 ~dL~MEDgD~IdV~~~  112 (115)
T 3kyd_D           97 KELGMEEEDVIEVYQE  112 (115)
T ss_dssp             TTTTCCTTCEEEEEEC
T ss_pred             HHcCCCCCCEEEEEee
Confidence            9999999999999763

>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=3.5e-30  Score=173.45  Aligned_cols=74  Identities=23%  Similarity=0.456  Sum_probs=71.3

Q ss_pred             CCCcEEEEEEccCCC-EEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           21 QSAHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        21 ~~~~I~lkV~~~~g~-~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      ++.+|+|+|++++|+ +++|+||++|||++||++||++.|++++++||+|||+||.+++||++|+|||||+|||.
T Consensus        22 ~~~~I~LkV~~~dg~~~v~fkIk~~t~l~kLm~aY~~~~g~~~~~vrF~FDG~rI~~~~TP~dLdMEDgD~IDv~   96 (97)
T 2jxx_A           22 TSQQLQLRVQGKEKHQTLEVSLSRDSPLKTLMSHYEEAMGLSGRKLSFFFDGTKLSGRELPADLGMESGDLIEVW   96 (97)
T ss_dssp             SCSEEEEEEEESSSSCEEEEEEETTSCHHHHHHHHHHHTTCSSSCCEEEETTEECCSCSCHHHHTCCTTEEEEEE
T ss_pred             CCCeEEEEEEcCCCCEEEEEEECCCChHHHHHHHHHHHHCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEe
Confidence            468999999999995 89999999999999999999999999999999999999999999999999999999994

>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=99.96  E-value=1.4e-28  Score=163.14  Aligned_cols=81  Identities=42%  Similarity=0.626  Sum_probs=72.4

Q ss_pred             CCCCCCCCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeee
Q 034095           14 EDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSC   93 (104)
Q Consensus        14 ~~~kp~~~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~   93 (104)
                      +.+++. ++.+|+|+|++++|++++|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|||||+|||
T Consensus         8 ~~~~~~-~~~~i~ikV~~~~g~~i~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~dl~medgD~Idv   86 (93)
T 2d07_B            8 EGVKTE-NNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDV   86 (93)
T ss_dssp             --------CCEEEEEEECTTSCEEEEEEETTSCHHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEE
T ss_pred             ccCCCC-CCCeEEEEEECCCCCEEEEEEccCCHHHHHHHHHHHHhCCCccceEEEECCEEcCCCCCHHHcCCCCCCEEEE
Confidence            444443 4689999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ee
Q 034095           94 KY   95 (104)
Q Consensus        94 ~~   95 (104)
                      .+
T Consensus        87 ~~   88 (93)
T 2d07_B           87 FQ   88 (93)
T ss_dssp             EE
T ss_pred             Ee
Confidence            76

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

Probab=99.95  E-value=9.4e-29  Score=169.45  Aligned_cols=95  Identities=35%  Similarity=0.579  Sum_probs=82.2

Q ss_pred             CCCCCCCCCCC---CCCCCCCCCCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCC
Q 034095            1 MSATGGGGGGG---QEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGE   77 (104)
Q Consensus         1 m~~~~~~~~~~---~~~~~kp~~~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~   77 (104)
                      ||.++. .++|   ...+.++++++.+|+|+|++++|.+++|+|+++|+|++||++||++.|++++++||+|||++|.++
T Consensus         1 ~~~~~~-~~~~~~~~~~~~~~~~~~~~I~IkVk~~~g~~i~fkVk~~t~l~kL~~ay~ek~gi~~~~~rfiFdG~~L~~~   79 (110)
T 2k8h_A            1 MSNNGG-EPSNNGGEGAEGTCKEETALVAVKVVNADGAEMFFRIKSRTALKKLIDTYCKKQGISRNSVRFLFDGTPIDET   79 (110)
T ss_dssp             CCCCCC-CCCCCCCCCCCCCCCCCCCCEEEEEEETTSCCEEEEECTTSSHHHHHHHHHHHHTCCSSSCEEESSSCBCCSS
T ss_pred             CCCCCC-CcccCCCccccCCCCCCCCeEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCC
Confidence            776642 2223   123344556688999999999999999999999999999999999999999999999999999999


Q ss_pred             CCccccCCcCCceeeeeec
Q 034095           78 QTPDEVILLFCAFCSCKYG   96 (104)
Q Consensus        78 ~TP~~L~Medgdii~~~~~   96 (104)
                      +||++|+|||||+|||.+-
T Consensus        80 ~Tp~dl~mEDgD~Idv~~~   98 (110)
T 2k8h_A           80 KTPEELGMEDDDVIDAMVE   98 (110)
T ss_dssp             SHHHHHHCSSEEEEEEECC
T ss_pred             CCHHHcCCCCCCEEEEEEc
Confidence            9999999999999999764

>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=154.77  Aligned_cols=72  Identities=44%  Similarity=0.682  Sum_probs=70.0

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        24 ~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      +|+|+|++++|++++|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|||||+|||.+
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            589999999999999999999999999999999999999999999999999999999999999999999963

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

Probab=99.95  E-value=2.2e-28  Score=182.62  Aligned_cols=93  Identities=34%  Similarity=0.607  Sum_probs=72.4

Q ss_pred             CCCCCCCCCCCCCCCCCCC-CCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCC
Q 034095            1 MSATGGGGGGGQEEDKKPV-DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQT   79 (104)
Q Consensus         1 m~~~~~~~~~~~~~~~kp~-~~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~T   79 (104)
                      ||+.+-++.  ..+++||. +++.+|+|||+ ++|.+++|+|+++|||++||++||++.|++++++||+|||+||.+++|
T Consensus         7 ~~~~~~~~~--~~~~~kp~~~~~~~I~LkV~-~~g~~v~fkIk~~t~l~kL~~ay~er~Gi~~~~~RF~FdG~rI~~~~T   83 (200)
T 3pge_A            7 MSDSEVNQE--AKPEVKPEVKPETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQT   83 (200)
T ss_dssp             --------------------CCCCCEEEEEE-CSSCEEEEEECTTSCTHHHHHHHHHHHSSCGGGEEEEETTEECCTTCC
T ss_pred             cchhhhccc--cccccCCCCCCCCeEEEEEe-cCCCEEEEEEecCCHHHHHHHHHHHHhCCChhhEEEEECCEEcCCCCC
Confidence            666544443  24677787 56889999997 499999999999999999999999999999999999999999999999


Q ss_pred             ccccCCcCCceeeeeec
Q 034095           80 PDEVILLFCAFCSCKYG   96 (104)
Q Consensus        80 P~~L~Medgdii~~~~~   96 (104)
                      |++|+|||||+|||..=
T Consensus        84 P~dL~MEdgD~Idv~~~  100 (200)
T 3pge_A           84 PEDLDMEDNDIIEAHRE  100 (200)
T ss_dssp             TTTTTCCTTEEEEEEEC
T ss_pred             HHHcCCCCCCEEEEEec
Confidence            99999999999999753

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

Probab=99.95  E-value=2.8e-28  Score=165.40  Aligned_cols=75  Identities=43%  Similarity=0.660  Sum_probs=72.9

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           21 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        21 ~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .+.+|+|+|++++|++++|+|+++|+|++||++||++.|++++.+||+|||++|.+++||++|+|||||+|||.+
T Consensus        21 ~~~~I~IkVk~~~g~~i~~kVk~~t~l~kL~~~y~ek~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~   95 (104)
T 1wz0_A           21 NNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQ   95 (104)
T ss_dssp             CSCCEEEEEECSSSCEEEEEECTTSCHHHHHHHHHHHHTCCTTTSCEESSSSBCCTTSCTTTTTCCTTEEEEECC
T ss_pred             CCCeEEEEEECCCCCEEEEEEcCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEEE
Confidence            468999999999999999999999999999999999999999999999999999999999999999999999976

>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=99.95  E-value=1.6e-28  Score=183.52  Aligned_cols=84  Identities=35%  Similarity=0.651  Sum_probs=71.5

Q ss_pred             CCCCCCCC-CCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCce
Q 034095           12 QEEDKKPV-DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAF   90 (104)
Q Consensus        12 ~~~~~kp~-~~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdi   90 (104)
                      .++++||+ +++.+|+|||+ ++|++++|+||++|||+|||++||++.|++++++||+|||+||.+++||++|+|||||+
T Consensus        44 ~~~d~KP~~dp~e~InLKVk-~dG~eV~FKIKrtTpL~KLmeAYcERqGL~~~sIRFLFDGqRI~~ddTPeDLdMEDGDt  122 (207)
T 3tix_A           44 AKPEVKPEVKPETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLTFLYDGIEIQADQTPEDLDMEDNDI  122 (207)
T ss_dssp             -----------CCEEEEEEE-CSSCEEEEEEETTSCTHHHHHHHHHHTTCCGGGSCEEETTEECCSSCCTTTTTCCTTEE
T ss_pred             CCCCCCCCCCCCCcEEEEEe-cCCCEEEEEEccCChHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCHHHcCCCCCCE
Confidence            46788888 56889999997 59999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeeeec
Q 034095           91 CSCKYG   96 (104)
Q Consensus        91 i~~~~~   96 (104)
                      |||.+-
T Consensus       123 IDV~le  128 (207)
T 3tix_A          123 IEAHRE  128 (207)
T ss_dssp             EEECCC
T ss_pred             EEEEEe
Confidence            999863

>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=99.95  E-value=9.9e-28  Score=163.53  Aligned_cols=75  Identities=37%  Similarity=0.696  Sum_probs=72.5

Q ss_pred             CCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           20 DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        20 ~~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      +++.+|+|+|++ +|.+++|+|+++|+|++||++||++.|++++++||+|||++|.+++||++|+|||||+|||.+
T Consensus        27 ~~~~~I~IkV~~-~g~~i~fkIk~tt~l~kL~~ay~ek~gi~~~~~rF~FdG~rl~~~~Tp~dl~medgD~Idv~~  101 (106)
T 2eke_C           27 KPETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHR  101 (106)
T ss_dssp             CCCSEEEEEEEC-SSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEE
T ss_pred             CCCCeEEEEEec-CCcEEEEEeCCCCHHHHHHHHHHHHhCCCcccEEEEECCeEcCCCCCHHHcCCCCCCEEEEEe
Confidence            457899999999 999999999999999999999999999999999999999999999999999999999999976

>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=99.95  E-value=7.3e-28  Score=159.72  Aligned_cols=75  Identities=43%  Similarity=0.653  Sum_probs=72.2

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeeec
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYG   96 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~   96 (104)
                      +.+|+|+|++++|+++.|+|+++|+|++||++||++.|++++++||+|||++|.+++||++|+|||||+|||..-
T Consensus         3 ~~~i~ikVk~~~g~~v~~~vk~~t~l~kl~~~y~~~~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~   77 (91)
T 2io0_B            3 NDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQ   77 (91)
T ss_dssp             -CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHTTCCSTTEEEEETTEECCTTCCTTTTTCCTTEEEEEEEC
T ss_pred             CCeEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEe
Confidence            568999999999999999999999999999999999999999999999999999999999999999999999864

>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=6.7e-28  Score=155.46  Aligned_cols=74  Identities=23%  Similarity=0.421  Sum_probs=71.2

Q ss_pred             CCCcEEEEEEccCCC-EEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           21 QSAHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        21 ~~~~I~lkV~~~~g~-~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      ++.+|+|+|++++|. +++|+|+++++|++||++||++.|++++++||+|||++|.+++||++|+|||||+|||.
T Consensus         4 ~~~~i~ikV~~~~g~~~i~~~i~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~~l~medgD~Idv~   78 (79)
T 3a4r_A            4 GSQELRLRVQGKEKHQMLEISLSPDSPLKVLMSHYEEAMGLSGHKLSFFFDGTKLSGKELPADLGLESGDLIEVW   78 (79)
T ss_dssp             CCCCEEEEEECSSTTCEEEEEECTTSCHHHHHHHHHHHHTCTTCCCEEEETTEECCSCCCHHHHTCCTTCEEEEE
T ss_pred             CCCEEEEEEEeCCCCEEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEe
Confidence            367899999999996 89999999999999999999999999999999999999999999999999999999994

>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=99.94  E-value=6.3e-27  Score=155.75  Aligned_cols=77  Identities=42%  Similarity=0.633  Sum_probs=72.2

Q ss_pred             CCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeeec
Q 034095           20 DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYG   96 (104)
Q Consensus        20 ~~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~   96 (104)
                      +++.+|+|+|++++|++++|+|+++++|++||++||++.|++++.+||+|||++|.+++||++|+|||||+|||..-
T Consensus         3 ~~~~~i~ikVk~~~g~~i~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~   79 (94)
T 2io1_B            3 HMNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQ   79 (94)
T ss_dssp             ---CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTCEEEEEEC
T ss_pred             CCCCeEEEEEECCCCCEEEEEECCCCHHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEe
Confidence            34679999999999999999999999999999999999999999999999999999999999999999999999773

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

Probab=99.94  E-value=1.6e-28  Score=185.47  Aligned_cols=80  Identities=38%  Similarity=0.699  Sum_probs=0.0

Q ss_pred             CCCCC-CCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeee
Q 034095           15 DKKPV-DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSC   93 (104)
Q Consensus        15 ~~kp~-~~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~   93 (104)
                      ++||+ .++++|+||| +++|++++|+||++|||+|||++||++.|++++++||+|||+||++++||++|+|||||+|||
T Consensus        11 ~~~~~~~p~e~InLKV-~qdGseV~FKIKrtTpL~KLM~AYcERqGLs~~siRFLFDGqRI~dddTPadL~MEDGDtIDV   89 (227)
T 3v7o_A           11 EVKPEVKPETHINLKV-SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEA   89 (227)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccCCCCCCCCeEEEEE-eCCCCEEEEEEccCChHHHHHHHHHHHhCCCccceEEEECCEecCCCCCHHHcCCCCCCEEEE
Confidence            34444 2368999999 889999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ee
Q 034095           94 KY   95 (104)
Q Consensus        94 ~~   95 (104)
                      ..
T Consensus        90 ~l   91 (227)
T 3v7o_A           90 HR   91 (227)
T ss_dssp             --
T ss_pred             Ee
Confidence            75

>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=99.92  E-value=1.2e-25  Score=167.09  Aligned_cols=83  Identities=36%  Similarity=0.683  Sum_probs=72.9

Q ss_pred             CCCCC-CCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeee
Q 034095           15 DKKPV-DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSC   93 (104)
Q Consensus        15 ~~kp~-~~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~   93 (104)
                      ++||+ .++++|+|||++ ++++++|+|+++|||+|||++||+++|++++++||+|||++|++++||++|.|||||+|||
T Consensus        11 ~~~~~~~~~~~i~ikv~~-~~~~v~~~i~~~~~l~kl~~~y~~~~g~~~~~~~f~fdG~~i~~~~Tpk~L~~ed~d~I~~   89 (209)
T 3uf8_A           11 EVKPEVKPETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEA   89 (209)
T ss_dssp             -------CCSEEEEEEEC-SSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGCEEEETTEECCTTCCTTTTTCCTTEEEEE
T ss_pred             cccceeCCCCcEEEEEEc-CCCEEEEEEeeCCHHHHHHHHHHHhhCCChheEEEEECCEeccCCCChHHhhhcccccchh
Confidence            34444 347899999998 8899999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeccc
Q 034095           94 KYGRL   98 (104)
Q Consensus        94 ~~~~~   98 (104)
                      .+-..
T Consensus        90 ~~eq~   94 (209)
T 3uf8_A           90 HREQI   94 (209)
T ss_dssp             ECSCT
T ss_pred             hcccc
Confidence            86443

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

Probab=99.90  E-value=1.5e-25  Score=179.24  Aligned_cols=74  Identities=38%  Similarity=0.703  Sum_probs=0.0

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           21 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        21 ~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      ++.+|+|||++ +|++++|+||++|||+|||++||++.|++++++||+|||+||++++||++|+|||||+|||..
T Consensus        18 ~~~~I~LKV~~-~g~~v~FkIk~~t~l~kLm~aY~~r~G~~~~~~rFlFdG~rI~~~~TP~~L~MEDgD~Idv~~   91 (360)
T 3ix6_A           18 PETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHR   91 (360)
T ss_dssp             ---------------------------------------------------------------------------
T ss_pred             CCCeEEEEEec-CCcEEEEEEecCChHHHHHHHHHHHhCCCcceEEEEECCeECCCCCChHHcCCCccchhhhhh
Confidence            36799999998 689999999999999999999999999999999999999999999999999999999999975

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

Probab=99.90  E-value=1.7e-25  Score=177.33  Aligned_cols=83  Identities=35%  Similarity=0.661  Sum_probs=0.0

Q ss_pred             CCCCCCC-CCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCcee
Q 034095           13 EEDKKPV-DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFC   91 (104)
Q Consensus        13 ~~~~kp~-~~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii   91 (104)
                      +++.+|+ +++++|+|||++ ++++++|+||++|||+|||++||+++|++.+++||+|||+||++++||++|+|||||+|
T Consensus        18 ~~~~~~~~~~~~~i~lkv~~-~~~~~~~~i~~~~~~~~l~~~y~~~~g~~~~~~~f~f~G~~i~~~~Tp~~l~med~d~i   96 (389)
T 4da1_A           18 KPEVKPEVKPETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQAPEDLDMEDNDII   96 (389)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCCCCCCCCCCCcEEEEEec-CCcEEEEEECCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEe
Confidence            4555565 356899999998 88899999999999999999999999999999999999999999999999999999999


Q ss_pred             eeeec
Q 034095           92 SCKYG   96 (104)
Q Consensus        92 ~~~~~   96 (104)
                      ||..-
T Consensus        97 ~~~~~  101 (389)
T 4da1_A           97 EAHRE  101 (389)
T ss_dssp             -----
T ss_pred             eeeec
Confidence            99753

>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=99.89  E-value=6e-23  Score=134.07  Aligned_cols=73  Identities=18%  Similarity=0.276  Sum_probs=69.7

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccc-eEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN-SIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        23 ~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~-~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      ..|++-+++.....+.|+|++++++++||++||.+.|++++ ++||+|||.||.+++||++|+|+|||.|||.+
T Consensus         8 ~~~~~~~~~~~~~dl~f~I~~~t~v~kLi~ayc~~~~I~~~~~IrllFDGdRLdp~~tp~DlemeD~D~IDvmL   81 (82)
T 3goe_A            8 KLITLLLRSSKSEDLRLSIPVDFTVKDLIKRYCTEVKISFHERIRLEFEGEWLDPNDQVQSTELEDEDQVSVVL   81 (82)
T ss_dssp             CEEEEEEEESSSCCEEEEEETTSBHHHHHHHHHHHHTCCCCTTCEEEETTEECCTTSBGGGSSCCTTCEEEEEC
T ss_pred             HHHHHhhhccCCCCeEEEecCCCCHHHHHHHHHHHcCCCcCceEEEEEcCcccCccCChhhhCCcCCceeeeee
Confidence            46899999888888999999999999999999999999999 99999999999999999999999999999986

>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=99.72  E-value=3.3e-17  Score=108.00  Aligned_cols=92  Identities=37%  Similarity=0.562  Sum_probs=72.1

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCc
Q 034095            1 MSATGGGGGGGQEEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTP   80 (104)
Q Consensus         1 m~~~~~~~~~~~~~~~kp~~~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP   80 (104)
                      ||+++ ..++.  ++.++.+++..|+|+|++.+|..+.|.|.+++++..|+++|+++.|++++..||+|+|++|.+++|+
T Consensus         1 ~~~~~-~~~~~--~~~~~~~~~~~m~I~Vk~~~g~~~~l~v~~~~tv~~lK~~i~~~~gip~~~qrLif~Gk~L~d~~tl   77 (97)
T 1wyw_B            1 MSDQE-AKPST--EDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTP   77 (97)
T ss_dssp             ---------------------CCEEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCH
T ss_pred             CCccc-cCccc--cccCCCCCCCcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCChhhEEEEECCeEcCCCCCH
Confidence            77653 23322  2222334578899999999999999999999999999999999999999999999999999999999


Q ss_pred             cccCCcCCceeeeee
Q 034095           81 DEVILLFCAFCSCKY   95 (104)
Q Consensus        81 ~~L~Medgdii~~~~   95 (104)
                      ++++|++|+.|++.+
T Consensus        78 ~dy~i~~g~~I~l~~   92 (97)
T 1wyw_B           78 KELGMEEEDVIEVYQ   92 (97)
T ss_dssp             HHHTCCTTCEEEEEE
T ss_pred             HHCCCCCCCEEEEEE
Confidence            999999999999976

>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=99.66  E-value=6.9e-16  Score=96.89  Aligned_cols=73  Identities=41%  Similarity=0.671  Sum_probs=70.4

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        23 ~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .+|+|+|++.+|..+.|+|.+++++..|+++|+++.|++++..||+|+|+++.+++||++++|++||.|++.+
T Consensus         2 ~~m~i~vk~~~g~~~~~~v~~~~tv~~lk~~i~~~~gi~~~~qrL~~~G~~L~d~~tl~~~~i~~~~~i~l~~   74 (79)
T 2uyz_B            2 EYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQ   74 (79)
T ss_dssp             CEEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCHHHHTCCTTEEEEEEE
T ss_pred             CeEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHHCCCcccEEEEECCEEeCCCCCHHHcCCCCCCEEEEEE
Confidence            3689999999999999999999999999999999999999999999999999999999999999999999976

>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=99.12  E-value=5.9e-10  Score=70.37  Aligned_cols=75  Identities=13%  Similarity=0.292  Sum_probs=70.7

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           21 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        21 ~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      +...+.|.|+..+|..+.+.|.+++....|.+..+++.|++++..|++|+|..+.++.|..++++++|+.|.+.+
T Consensus         9 ~~~~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~i~l~~   83 (88)
T 3dbh_I            9 SGGSMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVL   83 (88)
T ss_dssp             CCCCEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTSBGGGGTCCTTCEEEECC
T ss_pred             CCCcEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcCHHHEEEEECCeECCCCCcHHHcCCCCCCEEEEEE
Confidence            356789999999999999999999999999999999999999999999999999999999999999999998865

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

Probab=99.12  E-value=3.4e-10  Score=74.03  Aligned_cols=79  Identities=13%  Similarity=0.193  Sum_probs=69.1

Q ss_pred             CCCCCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           17 KPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        17 kp~~~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .|...+..+.|.|+..+|..+.+.|.+++....|.+..+++.+++++..|++|+|+.+.++.|.+++++++|+.|.+.+
T Consensus        15 ~~~~~~~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~i~l~~   93 (98)
T 4hcn_B           15 NLYFQGRPMQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL   93 (98)
T ss_dssp             -------CCEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTCBSGGGTCCTTEEEEEEC
T ss_pred             CCCCCCCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEECCEECCCCCcHHHCCCCCCCEEEEEE
Confidence            3444567889999999999999999999999999999999999999999999999999999999999999999999765

>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=99.07  E-value=7.8e-10  Score=69.25  Aligned_cols=72  Identities=14%  Similarity=0.261  Sum_probs=68.0

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        24 ~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .+.|.|+..+|..+.+.+.+++....|.+..+++.+++++..|++|+|+.+.++.|.+++++++|+.|.|.+
T Consensus         3 ~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~ip~~~qrL~~~g~~L~d~~tL~~~~i~~~~~i~l~~   74 (85)
T 3n3k_B            3 HMRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIHNHSALYLLL   74 (85)
T ss_dssp             -CEEEEECGGGCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETBEECCTTCBTTTTTCCTTCEEEEEE
T ss_pred             eEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCeECCCCCCHHHCCCCCCCEEEEEE
Confidence            578889988999999999999999999999999999999999999999999999999999999999999876

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

Probab=99.04  E-value=2.7e-09  Score=68.48  Aligned_cols=75  Identities=11%  Similarity=0.213  Sum_probs=70.7

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           21 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        21 ~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      +...+.|.|+..+|..+.+.|.+++....|.+..+++.|++++..|++|+|..+.++.|..++++.+|+.|.+.+
T Consensus        14 ~~~~m~i~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~   88 (91)
T 3v6c_B           14 PRGSMQIFVNTLTGTHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL   88 (91)
T ss_dssp             CCCSEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTCBTGGGTCCTTCEEEEEC
T ss_pred             CCCeEEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCCChhhEEEEECCeECCCcCcHHHCCCCCCCEEEEEE
Confidence            356899999999999999999999999999999999999999999999999999999999999999999998764

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

Probab=99.04  E-value=3.5e-09  Score=65.89  Aligned_cols=73  Identities=12%  Similarity=0.185  Sum_probs=69.2

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        23 ~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      ..+.|.|+..+|..+.+.|.+++....|.+..+++.|++++..|++|+|+.+.++.|.+++++++|+.|.+.+
T Consensus         3 ~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~l~l~~   75 (79)
T 3phx_B            3 EPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNL   75 (79)
T ss_dssp             CCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEE
T ss_pred             CCEEEEEEeCCCCEEEEEECCcChHHHHHHHHHhhcCCCHHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEE
Confidence            3688999999999999999999999999999999999999999999999999999999999999999998864

>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=99.03  E-value=2.3e-09  Score=66.92  Aligned_cols=72  Identities=14%  Similarity=0.255  Sum_probs=69.0

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        24 ~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .+.|.|+..+|..+.+.+.+++....|.+..+++.+++++..|++|+|..+.++.|.+++++.+|+.|.+.+
T Consensus         3 ~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~i~~~~qrL~~~g~~L~d~~tL~~~~i~~~~~l~l~~   74 (85)
T 3mtn_B            3 HMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKWSTLFLLL   74 (85)
T ss_dssp             CEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTGGGTCCTTCEEEEEC
T ss_pred             eEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcChHHEEEEECCEECCCCCCHHHcCCCCCCEEEEEE
Confidence            578999999999999999999999999999999999999999999999999999999999999999999876

>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=99.03  E-value=2.6e-09  Score=65.13  Aligned_cols=70  Identities=14%  Similarity=0.297  Sum_probs=66.3

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .|.|+..+|..+.+.+.++++...|.+..+++.|++++..|++|+|+.+.++.|-+++++.+|+.|.+.+
T Consensus         2 ~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~~i~~~~q~L~~~g~~L~d~~tL~~~~i~~g~~i~l~~   71 (76)
T 1ndd_A            2 LIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVL   71 (76)
T ss_dssp             EEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEE
T ss_pred             EEEEECCCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEE
Confidence            5788888899999999999999999999999999999999999999999999999999999999998875

>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=99.02  E-value=2.9e-09  Score=64.89  Aligned_cols=70  Identities=13%  Similarity=0.227  Sum_probs=65.9

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .|.|+..+|..+.+.+.++++...|.+..++..|++++..+++|+|+.+.++.|.+++++.+|+.|.+.+
T Consensus         2 ~i~vk~~~g~~~~i~v~~~~tv~~lK~~i~~~~~i~~~~q~L~~~g~~L~d~~tL~~~~i~~g~~i~l~~   71 (76)
T 3a9j_A            2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQRESTLHLVL   71 (76)
T ss_dssp             EEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTGGGTCCTTCEEEEEE
T ss_pred             EEEEEcCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEE
Confidence            5778888898899999999999999999999999999999999999999999999999999999998875

>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=99.01  E-value=2.7e-09  Score=67.36  Aligned_cols=74  Identities=18%  Similarity=0.109  Sum_probs=69.4

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      +..+.|.|+..+|..+.+.+.++++...|.+..+++.+++++..|++|+|+.+.++.|.+++++.+|+.|.+.+
T Consensus         5 ~~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~qrL~~~Gk~L~d~~tL~~~~i~~g~~i~l~~   78 (87)
T 1wh3_A            5 SSGIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYGIQDSDTLILSK   78 (87)
T ss_dssp             SSSEEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTCCCTTTEEEEETTEECCSSSBHHHHTCCTTEEEEEEE
T ss_pred             CCCEEEEEEcCCCCEEEEEeCCCChHHHHHHHHHHHhCCChHHEEEEECCEEccCCCCHHHCCCCCCCEEEEEE
Confidence            35789999998898889999999999999999999999999999999999999999999999999999998765

>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=99.00  E-value=1.8e-09  Score=71.71  Aligned_cols=76  Identities=13%  Similarity=0.200  Sum_probs=70.6

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeeec
Q 034095           21 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYG   96 (104)
Q Consensus        21 ~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~   96 (104)
                      ....+.|.|+..+|..+.+.|..++....|....+++.|++++..|++|.|+.+.++.|-.++++.+|+.|.|..-
T Consensus        20 ~~~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~g~ti~lv~~   95 (106)
T 1ttn_A           20 SGYECQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELKIPKDYVVQVIVS   95 (106)
T ss_dssp             -CCSEEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTCCCSTTCEEEETTEECCTTSHHHHCCCSSSCEEEEECC
T ss_pred             CCCeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHHCcCcccEEEEECCEECCCCCcHHHcCCCCCCEEEEEEe
Confidence            3567999999988988999999999999999999999999999999999999999999999999999999988753

>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=98.96  E-value=9e-09  Score=68.94  Aligned_cols=74  Identities=12%  Similarity=0.208  Sum_probs=70.2

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      ...+.|.|+..+|..+.+.|.+++....|....+++.|++++..|++|.|+.+..+.|..++++.+|+.|.+.+
T Consensus        33 ~~~m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~gI~~gs~I~l~~  106 (111)
T 3vdz_A           33 LLAMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL  106 (111)
T ss_dssp             GGCEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTTTTTCCTTCEEEEEE
T ss_pred             CccEEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEE
Confidence            34799999999999999999999999999999999999999999999999999999999999999999999875

>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=98.96  E-value=5.5e-09  Score=67.16  Aligned_cols=71  Identities=13%  Similarity=0.235  Sum_probs=67.0

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      +.|.|+..+|..+.+.|.+++....|.+..+++.|++++..|++|+|..+.++.|.+++++.+|+.|.+.+
T Consensus         2 m~i~vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~i~l~~   72 (96)
T 3k9o_B            2 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL   72 (96)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEE
T ss_pred             cEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCCChhHEEEEECCEECCCCCcHHHcCCCCCCEEEEEE
Confidence            46778888899999999999999999999999999999999999999999999999999999999999876

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

Probab=98.96  E-value=7.5e-09  Score=64.15  Aligned_cols=74  Identities=16%  Similarity=0.222  Sum_probs=68.9

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      +..+.|.|+..+|..+.+.+.+++....|.+..+++.|++++..|++|+|+.+.++.|-+++++.+|+.|.+.+
T Consensus         5 ~~~m~i~vk~~~g~~~~~~v~~~~tV~~LK~~i~~~~~i~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~   78 (81)
T 2dzi_A            5 SSGMQLTVKALQGRECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADGKRLSDYSIGPNSKLNLVV   78 (81)
T ss_dssp             SSSEEEEEEETTSCEEEEEECSSCBHHHHHHHHHHHTCCCTTTCEEEETTEECCTTSBGGGGTCCSSBCCEEEC
T ss_pred             CCcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHEEEEECCeECCCCCcHHHcCCCCCCEEEEEE
Confidence            45688999888898889999999999999999999999999999999999999999999999999999998764

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

Probab=98.95  E-value=3.2e-08  Score=67.93  Aligned_cols=73  Identities=14%  Similarity=0.179  Sum_probs=68.3

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      ...++|.|+.. |..+.+.|..++....|.+..+++.|++.+..|++|.|+.|.++.|-.++++.+|+.|.|..
T Consensus        30 ~~~m~I~Vk~~-g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~dygI~~gstI~lv~  102 (125)
T 1j8c_A           30 PKIIKVTVKTP-KEKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVI  102 (125)
T ss_dssp             CCCEEEEEECS-SCEEEEEECTTCCHHHHHHHHHHHHCSCSSSEEEEETTEEESTTSCGGGTTCSSSEEEEEEE
T ss_pred             CCcEEEEEEeC-CeEEEEEECCCCcHHHHHHHHHHHHCcCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEEe
Confidence            45799999988 88889999999999999999999999999999999999999999999999999999998765

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

Probab=98.91  E-value=1.4e-08  Score=62.31  Aligned_cols=70  Identities=10%  Similarity=0.183  Sum_probs=65.7

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      +.|.|+. +|....+.+.+++....|.+..++..|++++..|++|+|+.+.++.|-+++++.+|+.|.+..
T Consensus         5 m~i~vk~-~g~~~~~~v~~~~tV~~LK~~i~~~~~i~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~   74 (77)
T 2bwf_A            5 LNIHIKS-GQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVK   74 (77)
T ss_dssp             EEEEEEE-TTEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEE
T ss_pred             EEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCCHHHcCCCCCCEEEEEE
Confidence            7788888 888889999999999999999999999999999999999999999999999999999998764

>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=98.91  E-value=2.2e-08  Score=63.69  Aligned_cols=74  Identities=14%  Similarity=0.161  Sum_probs=69.2

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeeec
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYG   96 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~   96 (104)
                      +..+.|.|+..+|..+.+.|.+++....|....+++.|++++..|++|.|+.+.++.|-.++++ +|+.|.+.+-
T Consensus         3 ~~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~d~~tL~~~~i-~g~~i~l~~~   76 (90)
T 4dwf_A            3 PDSLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLVER   76 (90)
T ss_dssp             CCEEEEEEEETTCCEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTC-TTEEEEEEEC
T ss_pred             CcEEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCeECCCCCCHHHcCC-CCcEEEEEec
Confidence            4578999999999999999999999999999999999999999999999999999999999999 8999987654

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

Probab=98.90  E-value=1.2e-08  Score=66.22  Aligned_cols=70  Identities=13%  Similarity=0.227  Sum_probs=65.8

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .|.|+..+|..+.+.+.++++...|.+..+++.|++++..|++|+|+.+.++.|.+++++.+|+.|.+.+
T Consensus         2 ~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~gi~~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~   71 (98)
T 1yx5_B            2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL   71 (98)
T ss_dssp             EEEEEETTSCEEEEECCTTCBHHHHHHHHHHHTCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEE
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEE
Confidence            5778888888889999999999999999999999999999999999999999999999999999998765

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

Probab=98.89  E-value=1.8e-08  Score=67.32  Aligned_cols=74  Identities=12%  Similarity=0.208  Sum_probs=69.8

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      ...+.|.|+..+|..+.+.+.+++....|.+..+++.|++++..|++|+|+.+.++.|.+++++.+|+.|.+.+
T Consensus        33 ~~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~gI~~gs~I~l~~  106 (111)
T 2ojr_A           33 LLAMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL  106 (111)
T ss_dssp             SSCEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCCCTTTEEEEETTEECCSSCBTTTTTCCTTCEEEEEE
T ss_pred             CCeEEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHHHCcCcccEEEEECCEECCCCCcHHHcCCCCCCEEEEEE
Confidence            35799999998999999999999999999999999999999999999999999999999999999999998865

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

Probab=98.86  E-value=9.8e-09  Score=65.71  Aligned_cols=72  Identities=13%  Similarity=0.188  Sum_probs=68.0

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        24 ~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .+.|.|+..+|..+.+.+.++++...|.+..+++.|++++..|++|+|..+.++.|.+++++.+|+.|.+.+
T Consensus         4 ~m~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~~I~~g~~i~l~~   75 (88)
T 2hj8_A            4 PLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNL   75 (88)
T ss_dssp             EEEEEEEETTSCEEEEEEESSSBHHHHHHHHHHHTCSCTTTEEEESSSSCCCTTSBHHHHHCSTTCEEEEEE
T ss_pred             cEEEEEECCCCCEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEECCEECCCCCcHHHcCCCCCCEEEEEE
Confidence            578899988899999999999999999999999999999999999999999999999999999999998765

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

Probab=98.84  E-value=2e-08  Score=64.37  Aligned_cols=72  Identities=14%  Similarity=0.216  Sum_probs=66.7

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        24 ~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      -+.|.|...+|..+.+.+.++++...|.+..+++.|++++..|++|+|..+.++.|.+++++.+|+.|.+.+
T Consensus         9 ~~~i~v~~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~   80 (88)
T 1sif_A            9 GLQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL   80 (88)
T ss_dssp             -CEEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBSGGGTCCTTCEEEEEC
T ss_pred             ceEEEEEeCCCCEEEEEECCCChHHHHHHHHHHHHCcChhhEEEEECCEECCCCCcHHHcCCCCCCEEEEEE
Confidence            356788888999999999999999999999999999999999999999999999999999999999998764

>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=98.84  E-value=3.9e-08  Score=60.81  Aligned_cols=72  Identities=14%  Similarity=0.180  Sum_probs=66.5

Q ss_pred             cEEEEEEccCCCEE-EEE-EeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           24 HINLKVKGQDGNEV-FFR-IKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        24 ~I~lkV~~~~g~~v-~Fk-IK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .+.|.|+..+|..+ .+. +.++++...|.+..+++.|++++..|++|+|..+.++.|-+++++.+|+.|.+.+
T Consensus         2 ~m~i~Vk~~~g~~~~~l~~v~~~~tv~~lK~~i~~~~gip~~~qrL~~~g~~L~d~~tL~~~~i~~g~~i~l~~   75 (78)
T 2faz_A            2 SMWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQLLV   75 (78)
T ss_dssp             CEEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTTTTTCCTTCEEEEEE
T ss_pred             cEEEEEEECCCCEEEEEeccCCCCCHHHHHHHHHHHHCcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEE
Confidence            46788888888886 888 9999999999999999999999999999999999999999999999999998765

>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=98.82  E-value=6.6e-08  Score=63.82  Aligned_cols=74  Identities=12%  Similarity=0.177  Sum_probs=67.9

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           21 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        21 ~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      ++..+.|.|+...+. ..+.|..++....|.+..+++.|++.+..|++|+|+.|.++.|-.++++.+|+.|.|.+
T Consensus        14 ~~~~m~I~Vk~~~g~-~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~gi~~g~~i~l~~   87 (106)
T 1wx7_A           14 DPHLIKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVI   87 (106)
T ss_dssp             CSSEEEEEEECSSCE-EEEEEETTCCHHHHHHHHHHHHTCCTTTEEEEETTEECCTTSCHHHHTCCTTEEEEEEE
T ss_pred             CCceEEEEEEeCCCc-EEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHcCCCCCCEEEEEE
Confidence            356789999988775 68999999999999999999999999999999999999999999999999999998865

>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=98.81  E-value=1.8e-08  Score=65.05  Aligned_cols=73  Identities=14%  Similarity=0.190  Sum_probs=68.2

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      +..|+|.|+.. |..+.+.|.++++...|.+..+++.+++++..|++|.|+.+.++.|.+++++.+|+.|.+.+
T Consensus        15 ~~~m~i~Vk~~-g~~~~~~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~   87 (96)
T 1wx8_A           15 SRIIRVSVKTP-QDCHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQRGILDGSTVHVVV   87 (96)
T ss_dssp             SCEEEEEEECS-SSEEEEEEETTCCHHHHHHHHHHHTCSCTTTBCCEETTEECCTTSCHHHHTCCTTEEEECCB
T ss_pred             CCcEEEEEEEC-CeEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEECCCcCCHHHCCCCCCCEEEEEE
Confidence            45789999887 88889999999999999999999999999999999999999999999999999999998764

>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=98.77  E-value=8e-08  Score=60.86  Aligned_cols=74  Identities=14%  Similarity=0.166  Sum_probs=68.4

Q ss_pred             CCcEEEEEEccCC-CEEEE-EEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           22 SAHINLKVKGQDG-NEVFF-RIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        22 ~~~I~lkV~~~~g-~~v~F-kIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      ...+.|.|+..+| ..+.+ .+.++++...|.+..+++.|++++..|++|+|+.+.++.|-+++++.+|+.|.+.+
T Consensus         5 ~~~m~i~Vk~~~g~~~~~l~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~   80 (89)
T 1wy8_A            5 SSGMWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDYDVGLNDIIQLLV   80 (89)
T ss_dssp             SSCEEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCCTTTEEEEETTEECCSSSBHHHHTCCTTCEEEEEE
T ss_pred             CCcEEEEEEECCCCceEEEEecCCCCCHHHHHHHHHHHHCcChhhEEEEECCeECCCCCCHHHCCCCCCCEEEEEE
Confidence            4568899998888 68899 59999999999999999999999999999999999999999999999999998765

>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=98.77  E-value=4.2e-08  Score=62.81  Aligned_cols=70  Identities=14%  Similarity=0.297  Sum_probs=65.9

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .|.|+..+|..+.+.|.+++....|.+..+++.|++++..|++|+|..+.++.|-+++++++|+.|.+.+
T Consensus         2 ~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~l~l~~   71 (88)
T 4fbj_B            2 LIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVL   71 (88)
T ss_dssp             EEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTTTTTCCTTCEEEEEC
T ss_pred             EEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcChhHEEEEECCeECCCCCcHHHcCCCCCCEEEEEE
Confidence            5777888899999999999999999999999999999999999999999999999999999999998865

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

Probab=98.77  E-value=1.1e-07  Score=62.69  Aligned_cols=74  Identities=11%  Similarity=0.167  Sum_probs=68.4

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeeec
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYG   96 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~   96 (104)
                      ...+.|.|+.. |..+.+.|.++++...|.+..+++.|++++..|++|.|+.+.++.|-+++++.+|+.|.|..-
T Consensus        23 ~~~m~I~Vk~~-g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~gI~~g~~I~l~~~   96 (101)
T 2klc_A           23 PKIMKVTVKTP-KEKEEFAVPENSSVQQFKEEISKRFKSHTDQLVLIFAGKILKDQDTLSQHGIHDGLTVHLVIK   96 (101)
T ss_dssp             CCCEEEEEECS-SCEEEEEECSCCCHHHHHHHHHHHHTCCGGGEEEEETTEEECTTCCTGGGTCCTTCEEEEEEC
T ss_pred             CCeEEEEEEeC-CcEEEEEECCCCCHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHcCCCCCCEEEEEEc
Confidence            46788888887 788899999999999999999999999999999999999999999999999999999988653

>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=98.75  E-value=1.5e-07  Score=58.84  Aligned_cols=75  Identities=9%  Similarity=0.146  Sum_probs=68.4

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHH---cCCccceEEEEECCEecCCCCCccccCCcCCceeeeeecc
Q 034095           23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDR---QSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYGR   97 (104)
Q Consensus        23 ~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~---~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~~   97 (104)
                      ..+.|.|+..+|..+.+.+.+++....|.+..+++   .|++++..|++|.|+.+.++.|-+++++.+|+.|.+..-+
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            46788888888999999999999999999999998   7899999999999999999999999999999999887643

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

Probab=98.74  E-value=3.5e-08  Score=63.98  Aligned_cols=71  Identities=11%  Similarity=0.101  Sum_probs=64.7

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        23 ~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      ..+.|.|+.  |..+.+.|.++++...|.+..+++.|++++..|++|+|+.+.++.|.+++++.+|+.|.+.+
T Consensus        18 ~~m~I~Vk~--g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~y~I~~gstI~lv~   88 (93)
T 2l7r_A           18 GSMQLFVRA--QELHTFEVTGQETVAQIKAHVASLEGIAPEDQVVLLAGAPLEDEATLGQCGVEALTTLEVAG   88 (93)
T ss_dssp             --CEEEEES--SSEEEEECCSSCBHHHHHHHHHHHHTCCGGGCEEEETTEECCTTSBHHHHTCCSSCEEEEEC
T ss_pred             CcEEEEEEC--CCEEEEEeCCCCcHHHHHHHHHHHhCcChhHEEEEECCEECCCCCcHHHCCCCCCCEEEEEE
Confidence            357777877  78889999999999999999999999999999999999999999999999999999998864

>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=98.74  E-value=9e-08  Score=63.02  Aligned_cols=74  Identities=12%  Similarity=0.174  Sum_probs=67.9

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           21 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        21 ~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .+..+.|.|+..+|. ..+.|.++++...|.+..+++.|++++..|++|.|+.+.++.|-+++++.+|+.|.+.+
T Consensus        19 ~~~~m~I~Vk~~~g~-~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~   92 (100)
T 1yqb_A           19 SPHLIKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVI   92 (100)
T ss_dssp             CTTEEEEEEECSSCE-EEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBHHHHTCCTTCEEEEEE
T ss_pred             CCCeEEEEEEcCCCc-EEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHCCCCCCCEEEEEE
Confidence            356789999988875 68999999999999999999999999999999999999999999999999999998754

>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=98.72  E-value=1.5e-07  Score=64.10  Aligned_cols=72  Identities=13%  Similarity=0.226  Sum_probs=67.4

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        24 ~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .+.|.|...+|..+.+.+.++++...|.+..+++.|++++..|++|+|+.+.++.|.+++++.+|+.|.+.+
T Consensus        76 ~~~i~Vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~qrL~~~g~~L~d~~tL~~~~i~~~~~i~l~~  147 (152)
T 3b08_A           76 GMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL  147 (152)
T ss_dssp             CEEEEEEESSSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEE
T ss_pred             ccceeeeecCCCEEEEEeCCCCcHHHHHHHHHHHhCcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEE
Confidence            467788888899999999999999999999999999999999999999999999999999999999998765

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

Probab=98.72  E-value=2e-07  Score=59.00  Aligned_cols=72  Identities=14%  Similarity=0.182  Sum_probs=67.4

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      +..+.|.|+..+|....+.+.+++....|.+..+++.|++++..|++|.|+.+.++.|-.++++ +|+.|.+.
T Consensus        15 ~~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i-~g~~i~lv   86 (88)
T 4eew_A           15 PDSLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLV   86 (88)
T ss_dssp             CCEEEEEEEETTSCEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTC-TTEEEEEE
T ss_pred             CCeEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEECCCCCcHHHcCC-CCcEEEEE
Confidence            4578999999999999999999999999999999999999999999999999999999999999 89988764

>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=98.71  E-value=1.9e-07  Score=62.03  Aligned_cols=74  Identities=14%  Similarity=0.101  Sum_probs=70.7

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      +.-|.|.|.+..|..+.+.+.+++....|.+.-+++.|++++..|+.|.|+.+.++.|-+++++.||+-|...|
T Consensus        19 ~~mIqI~Vk~~~Gkk~~v~v~p~DTI~~LK~~I~~k~Gip~~qQrLif~Gk~LkD~~TL~dY~I~dgstLhL~~   92 (93)
T 3plu_A           19 SHMIEVVVNDRLGKKVRVKCLGEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLEDYEVHDQTNLELYY   92 (93)
T ss_dssp             -CEEEEEEECTTSCEEEEEEETTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEE
T ss_pred             CceEEEEEECCCCCEEEEEECCcCHHHHHHHHHHHHhCCCHHHEEEEeCCEEccCcCCHHHcCCCCCCEEEEEe
Confidence            56899999999999999999999999999999999999999999999999999999999999999999999877

>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=98.70  E-value=2.5e-07  Score=62.00  Aligned_cols=84  Identities=8%  Similarity=0.013  Sum_probs=74.7

Q ss_pred             CCCCCCCCCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceee
Q 034095           13 EEDKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCS   92 (104)
Q Consensus        13 ~~~~kp~~~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~   92 (104)
                      ......+....-|.|.|.+..|..+.+.|.+++....|.+.-+++.|++++..|++|.|+.+.++.|-.+.++.+|+.|.
T Consensus        17 ~~~~~~~~~~~mm~I~VKtl~Gk~i~lev~p~dTV~~lK~~Ia~k~Gip~~qQrLi~~Gk~L~D~~TL~dygI~~gstlh   96 (100)
T 1uh6_A           17 LVPRGSEGAATMIEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDYEIHDGMNLE   96 (100)
T ss_dssp             SCCCCCSSCCCEEEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCSSCBHHHHTCCTTEEEE
T ss_pred             cccccCCCCCCeEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCHHHEEEEECCEECCCCCCHHHcCCCCCCEEE
Confidence            33333334455699999999899999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeec
Q 034095           93 CKYG   96 (104)
Q Consensus        93 ~~~~   96 (104)
                      +-|.
T Consensus        97 L~~~  100 (100)
T 1uh6_A           97 LYYQ  100 (100)
T ss_dssp             EECC
T ss_pred             EEeC
Confidence            8874

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

Probab=98.69  E-value=1.4e-07  Score=66.64  Aligned_cols=78  Identities=14%  Similarity=0.255  Sum_probs=69.9

Q ss_pred             CCCCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           18 PVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        18 p~~~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      |......+.|.|+..+|..+.+.|.++++...|....+++.|++++..|++|.|..+.++.|..++++.+|+.|.+..
T Consensus        14 ~~~~~~~m~i~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~QrL~~~g~~L~d~~tL~~~~i~~~~~l~l~~   91 (172)
T 3u30_A           14 LVPRGSHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL   91 (172)
T ss_dssp             -----CCEEEEEEETTTEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTGGGTCCTTCEEEEEE
T ss_pred             CCCCCCcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCccccccCCHhHcCCcccceeeeee
Confidence            444567899999999999999999999999999999999999999999999999999999999999999999998875

>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=98.69  E-value=2e-07  Score=60.35  Aligned_cols=73  Identities=11%  Similarity=0.139  Sum_probs=66.6

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHH---cCCccceEEEEECCEecCCCCCccccCCcCCceeeeeeccc
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDR---QSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYGRL   98 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~---~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~~~   98 (104)
                      .|.|+..+|..+.+.|.+++....|.+..+++   .|++++..|++|.|+.+.++.|-+++++.+|+.|.|..-+.
T Consensus         2 ~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~g~~i~l~~~~~   77 (95)
T 1uel_A            2 QVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKNFVVVMVTKP   77 (95)
T ss_dssp             EEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECCTTSBGGGGTCCSSSEEEEEESSC
T ss_pred             EEEEEeCCCCEEEEEECCCCHHHHHHHHHHhhcccCCCChhhEEEEECCEECCCcCcHHHCCCCCCCEEEEEEeCC
Confidence            57777778889999999999999999999999   78999999999999999999999999999999998876543

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

Probab=98.63  E-value=1.1e-07  Score=63.07  Aligned_cols=73  Identities=16%  Similarity=0.182  Sum_probs=67.2

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeeecc
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYGR   97 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~~   97 (104)
                      +.|.|+..+|..+.+.|.+++....|.+..+++.|++++..|++|.|+.+.++.|-.++++.+|+.|.+.+..
T Consensus         2 m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~~i~~g~~i~lv~~~   74 (106)
T 3m62_B            2 VSLTFKNFKKEKVPLDLEPSNTILETKTKLAQSISCEESQIKLIYSGKVLQDSKTVSECGLKDGDQVVFMVSQ   74 (106)
T ss_dssp             -CEEEECTTCCEEEECCCTTSBHHHHHHHHHHTTTSCGGGCEEEETTEECCTTSBTTTTTCCTTCEEEEECCC
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCChhhEEEEECCEECCCcCCHHHcCCCCCCEEEEEEcC
Confidence            4577888889999999999999999999999999999999999999999999999999999999999988653

>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=98.58  E-value=2.7e-07  Score=59.47  Aligned_cols=72  Identities=18%  Similarity=0.284  Sum_probs=65.7

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCC-CCccccCCcCCceeeeeec
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGE-QTPDEVILLFCAFCSCKYG   96 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~-~TP~~L~Medgdii~~~~~   96 (104)
                      ...|.|.|+..+|..+.+.|.+++....|.+..+++.   ++..|++|.|+.+.++ .|.+++++.+|+.|.|...
T Consensus         5 ~~~m~i~Vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~---~~~qrLi~~Gk~L~D~~~tL~~y~i~~g~~i~l~~~   77 (95)
T 1wia_A            5 SSGINVRLKFLNDTEELAVARPEDTVGTLKSKYFPGQ---ESQMKLIYQGRLLQDPARTLSSLNITNNCVIHCHRS   77 (95)
T ss_dssp             CCSEEEEEEETTTEEEEEEECSSSBHHHHHHHHSSST---TTTCEEEETTEECCCSSCBTTTTTCCTTEEEEEECC
T ss_pred             CCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHhhC---cCcEEEEECCEEccCCcCCHHHcCCCCCCEEEEEEC
Confidence            4568999998889888999999999999999999887   8899999999999998 9999999999999988764

>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=98.56  E-value=8.2e-07  Score=61.56  Aligned_cols=74  Identities=12%  Similarity=0.185  Sum_probs=68.9

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      +..+.|.|...+|..+.+.+.+++....|.+..+++.|++++..|++|+|+.+.++.|.+++++.+|+.|.+..
T Consensus        79 ~~~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~y~i~~g~~l~l~~  152 (159)
T 3rt3_B           79 DEPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNL  152 (159)
T ss_dssp             CCCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEE
T ss_pred             CCcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCHHHEEEEECCeecCCCCCHHHcCCCCCCEEEEEE
Confidence            34578888888999999999999999999999999999999999999999999999999999999999998764

>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=97.96  E-value=8.4e-09  Score=63.46  Aligned_cols=70  Identities=14%  Similarity=0.144  Sum_probs=64.1

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .|.|+..+|..+.+.+.++++...|.+..++..|++++..+++|+|..+.++.|.+++++.+|+.|.+.+
T Consensus         2 ~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~   71 (76)
T 3b1l_X            2 IVFVRFNSSYGFPVEVDSDTSILQLKEVVAKQQGVPADQLRVIFAGKELPNHLTVQNCDLEQQSIVHIVQ   71 (76)
Confidence            4667777888888999999999999999999999999999999999999999999999999999998754

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

Probab=98.54  E-value=6.3e-08  Score=63.96  Aligned_cols=75  Identities=9%  Similarity=0.170  Sum_probs=66.3

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeeec
Q 034095           21 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYG   96 (104)
Q Consensus        21 ~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~   96 (104)
                      ++..|+|.|.. .|..+.+.|.+++....|.+..+++.|++++..|++|.|+.+.++.|-+++++++|+.|.+...
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            34568888887 7888889999999999999999999999999999999999999999999999999999988753

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

Probab=98.54  E-value=1.2e-06  Score=60.47  Aligned_cols=76  Identities=16%  Similarity=0.142  Sum_probs=69.7

Q ss_pred             CcEEEEEE-ccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeeeccc
Q 034095           23 AHINLKVK-GQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYGRL   98 (104)
Q Consensus        23 ~~I~lkV~-~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~~~   98 (104)
                      ..|+|||+ ...+..+.+.+..++.++.|.+..++..+++.+.+|++|.|+-+.+++|-.+++..+|..|-+-+-..
T Consensus        14 ~~itvkv~l~~~~~k~tv~v~~d~TV~dLKe~ls~~~~iP~e~qrLIy~GKiLKD~eTL~~~gIk~g~TIhLvi~s~   90 (118)
T 2daf_A           14 SLATVKVVLIPVGQEIVIPFKVDTILKYLKDHFSHLLGIPHSVLQIRYSGKILKNNETLVQHGVKPQEIVQVEIFST   90 (118)
T ss_dssp             SCEEEEEEETTTCCEEEEEECSSSCSHHHHHHHHHHHTCCTTTEEEEETTEEECSSCCHHHHSCCSSCEEEEEEEES
T ss_pred             ccEEEEEEEcCCCcEEEEEeCCCCcHHHHHHHHHhhhCCChHHEEEEECCeEcCCcchHHHcCCCCCCEEEEEEecC
Confidence            45899987 77788899999999999999999999999999999999999999999999999999999998766543

>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=98.53  E-value=6.2e-07  Score=60.95  Aligned_cols=70  Identities=13%  Similarity=0.227  Sum_probs=65.4

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .|.|...+|..+.+.+.++++...|.+..+++.|++++..+++|.|..+.++.|.+++++.+|+.|.+..
T Consensus         2 ~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gip~~~q~L~~~g~~L~d~~tL~~~~i~~~~~l~l~~   71 (152)
T 3b08_A            2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL   71 (152)
T ss_dssp             EEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEE
T ss_pred             EEEEEeCCCCEEEEEECCCCCHHHHHHHHHHHHCcChHHeEEEECCeECcCcccHHHhccCCCCeeEEEe
Confidence            5677777888889999999999999999999999999999999999999999999999999999998765

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

Probab=98.50  E-value=9.9e-07  Score=59.29  Aligned_cols=71  Identities=10%  Similarity=0.203  Sum_probs=66.0

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      ..|.|...+|..+.+.+.+++....|.+..+++.|++++..|++|+|..+.++.|-+++++.+|+.|.+..
T Consensus        10 ~~i~vk~l~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~   80 (114)
T 2kdi_A           10 FQIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDYNIQRESTLHLVL   80 (114)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTTTTTCCSSCEEEEEE
T ss_pred             EEEEEEeCCCcEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEE
Confidence            46777788899999999999999999999999999999999999999999999999999999999998754

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

Probab=98.50  E-value=1e-06  Score=56.21  Aligned_cols=73  Identities=14%  Similarity=0.210  Sum_probs=68.3

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEe-cCCCCCccccCCcCCceeeeee
Q 034095           23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRR-LRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        23 ~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~r-I~~~~TP~~L~Medgdii~~~~   95 (104)
                      .+.+|.|..-.|..+.+.+.++++...|.+..+++.|++++..|++|.|+. +.++.|-+++++.+|+.|.+..
T Consensus         9 ~~~~i~vk~l~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~lL~D~~tL~~y~I~~gs~i~lv~   82 (84)
T 2kk8_A            9 SHMKFLVENLNGSSFELEVDYRDTLLVVKQKIERSQHIPVSKQTLIVDGIVILREDLTVEQCQIVPTSDIQLEV   82 (84)
T ss_dssp             CCEEEEEEETTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCCSSSBHHHHTCCTTSCEEEEE
T ss_pred             CceEEEEEecCCcEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCEEecCCcCCHHHcCCCCCCEEEEEE
Confidence            467888988899999999999999999999999999999999999999999 9999999999999999998754

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

Probab=98.45  E-value=2.1e-06  Score=55.80  Aligned_cols=73  Identities=11%  Similarity=0.138  Sum_probs=66.7

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCC-CCccccCCcCCceeeeee
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGE-QTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~-~TP~~L~Medgdii~~~~   95 (104)
                      ...+.|.|+...+ ...+.|.+++....|.+..+++.|++++..|++|.|+.+.++ .|-+++++.+|+.|.+..
T Consensus        13 ~~~~~I~Vk~~~~-~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~~tL~~ygI~~gstl~lv~   86 (94)
T 2kan_A           13 VRKIHVTVKFPSK-QFTVEVDRTETVSSLKDKIHIVENTPIKRMQLYYSGIELADDYRNLNEYGITEFSEIVVFL   86 (94)
T ss_dssp             SCCEEEEEECSSC-EEEEEECTTCBHHHHHHHHHHHSSSCTTTEEEEETTEEECCTTSBHHHHTCCTTEEEEEEE
T ss_pred             CCCEEEEEEcCCc-EEEEEECCCCcHHHHHHHHHHHHCcCHHHEEEEECCEECCCCcccHHHCCCCCCCEEEEEE
Confidence            4568889988777 778999999999999999999999999999999999999988 999999999999988754

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

Probab=98.42  E-value=1.5e-06  Score=62.13  Aligned_cols=70  Identities=13%  Similarity=0.233  Sum_probs=66.0

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .|.|+..+|..+.+.+.+++....|.+..+++.|++++..|++|.|+.+.++.|-.++++.+|+.|.+.+
T Consensus         2 qI~Vk~~~Gk~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~y~I~~gstI~Lvl   71 (169)
T 3l0w_B            2 QIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL   71 (169)
T ss_dssp             EEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCTTTEEEEETTEECCTTSBGGGGTCCTTCEEEEEE
T ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHHCcCHHHEEEEECCccccCcCcHHHcCCCCCCEEEEEE
Confidence            5777888899999999999999999999999999999999999999999999999999999999998765

>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=98.39  E-value=2e-06  Score=57.48  Aligned_cols=74  Identities=9%  Similarity=0.156  Sum_probs=66.5

Q ss_pred             CCcEEEEEEccC----------CCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCcee
Q 034095           22 SAHINLKVKGQD----------GNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFC   91 (104)
Q Consensus        22 ~~~I~lkV~~~~----------g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii   91 (104)
                      +..|+|.|+..+          |..+.+.|.++++...|.+..++..|++++..|++|.|..+.++.|-+++++.+|+.|
T Consensus        23 ~~~i~l~V~~p~~~~~~~~~L~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrL~~~Gk~L~D~~tL~~y~i~~g~~i  102 (115)
T 1we7_A           23 KGPVSIKVQVPNMQDKTEWKLNGQGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMASGAVI  102 (115)
T ss_dssp             CSCEEEEEEECCCSSSCSSCCSSEEEEEEECSCSBTHHHHHHHHHHSSCCTTTEEEEETTEEECTTSBHHHHTCCSSCEE
T ss_pred             CCCEEEEEEcCCCccccccccCCeEEEEEECCCCCHHHHHHHHHHHHCCChHHEEEEECCEECCCCCCHHHCCCCCCCEE
Confidence            357888888653          5678899999999999999999999999999999999999999999999999999999


Q ss_pred             eeee
Q 034095           92 SCKY   95 (104)
Q Consensus        92 ~~~~   95 (104)
                      .+.+
T Consensus       103 ~lv~  106 (115)
T 1we7_A          103 HLAL  106 (115)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            8765

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

Probab=98.37  E-value=2e-06  Score=63.14  Aligned_cols=72  Identities=13%  Similarity=0.193  Sum_probs=68.8

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        24 ~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .+.|.|+..+|..+.+.|.+++....|.+..+++.|++++..|++|.|+.+.++.|.+++++++|+.|.+..
T Consensus       105 eMqI~VKtl~Gkt~~l~V~~s~TV~~LK~kI~~~~gIp~~~QrLi~~Gk~L~D~~tL~dygI~~gstI~Lvl  176 (189)
T 3q3f_A          105 GGQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL  176 (189)
T ss_dssp             CEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTCBGGGGTCCTTCEEEECC
T ss_pred             ceeeeeecCCCCEEEEEeCCCCcHHHHHHHHHhccCCCHHHEEEEECCEECCCCCCHHHCCCCCCCEEEEEE
Confidence            489999999999999999999999999999999999999999999999999999999999999999999764

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

Probab=98.37  E-value=3.7e-06  Score=55.64  Aligned_cols=74  Identities=11%  Similarity=0.191  Sum_probs=64.8

Q ss_pred             CCcEEEEEEccCCCEEEE--EEeCCchHHHHHHHH-HHHcCCccceEEEEECCEecCCCCCccccCC-cCCceeeeee
Q 034095           22 SAHINLKVKGQDGNEVFF--RIKRSTQLKKLMNAY-CDRQSVELNSIAFLFDGRRLRGEQTPDEVIL-LFCAFCSCKY   95 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~F--kIK~tt~L~kLm~aY-~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~M-edgdii~~~~   95 (104)
                      ...+.|.|+...|....+  .+.+++....|.+.. ++..|++++..|++|.|+.+..+.|-+++++ .+|+.|-+.+
T Consensus        17 ~~~m~I~VKtl~g~~~~i~v~v~~~~TV~~lK~~I~~~~~gip~~~QrLi~~Gk~L~D~~tL~dy~I~~~g~ti~lmv   94 (98)
T 4a20_A           17 NAAVHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTITVMI   94 (98)
T ss_dssp             -CCEEEEEEECSSSCEEEEEEECTTCBHHHHHHHHHHTTSCSCGGGEEEEETTEEECTTCBGGGSCCBTTBCEEEEEE
T ss_pred             CCCEEEEEEcCCCCEEEEEEecCCCChHHHHHHHHHHHhcCCChhhEEEEECCEECcCcCCHHHcCcCCCCCEEEEEE
Confidence            456888888888876555  455999999999998 7778999999999999999999999999999 9999998875

>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=98.32  E-value=6.6e-08  Score=66.04  Aligned_cols=70  Identities=13%  Similarity=0.233  Sum_probs=0.0

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .|.|...+|..+.+.|.++++...|....+++.|++++..+++|+|..+.++.|.+++++++|+.|.+.+
T Consensus         2 ~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~~I~~gsti~l~~   71 (128)
T 3u5e_m            2 QIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL   71 (128)
T ss_dssp             ----------------------------------------------------------------------
T ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCcChHHEEEEECCEECCCCCchhhhccCCCCEEEEEE
Confidence            4667777888889999999999999999999999999999999999999999999999999999998764

>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=98.32  E-value=2.2e-06  Score=56.90  Aligned_cols=74  Identities=9%  Similarity=0.060  Sum_probs=68.5

Q ss_pred             CCcEEEEEEcc---CCCEEEEEEeC-CchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           22 SAHINLKVKGQ---DGNEVFFRIKR-STQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        22 ~~~I~lkV~~~---~g~~v~FkIK~-tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      +..|+|.|+..   +|..+.+.+.+ +++...|.+..++..|++++..|++|.|..+.++.|-+++++.+|+.|.+.+
T Consensus        25 ~~~i~i~Vk~~~~~~g~~~~l~v~~l~~TV~~LK~~I~~~~gip~~~QrL~~~Gk~L~D~~tL~~y~I~~g~~l~l~~  102 (111)
T 1we6_A           25 PGPATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAHYNVGAGEILTLSL  102 (111)
T ss_dssp             CSCEEEEECCTTCSSSCCEEEEESCSSSBHHHHHHHHHHHTTCCTTTSEEECSSSBCCTTSBTTTTTCSSSCEEEEEC
T ss_pred             CCcEEEEEEecccCCCcEEEEEecCCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCcHHHCCCCCCCEEEEEE
Confidence            45799999987   78888999998 9999999999999999999999999999999999999999999999998764

>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=98.25  E-value=4.3e-06  Score=55.30  Aligned_cols=74  Identities=19%  Similarity=0.165  Sum_probs=62.3

Q ss_pred             cEEEEEEccCC---CEEEEEE--------eC-CchHHHHHHHHHHHc--CCccce-EEEEECCEecCCCCCccccCCcCC
Q 034095           24 HINLKVKGQDG---NEVFFRI--------KR-STQLKKLMNAYCDRQ--SVELNS-IAFLFDGRRLRGEQTPDEVILLFC   88 (104)
Q Consensus        24 ~I~lkV~~~~g---~~v~FkI--------K~-tt~L~kLm~aY~~~~--g~~~~~-lrF~fdG~rI~~~~TP~~L~Medg   88 (104)
                      .|+|.|+..++   ....+.+        .+ ++....|.+..+++.  |++++. .|++|.|+.+.++.|-.++++.+|
T Consensus        12 ~~~i~Vk~~~~~~~~~~~l~v~~~~~~~v~~~~~TV~~LK~~i~~~~~~gip~~~~qrLi~~Gk~L~D~~tL~~y~i~~g   91 (107)
T 1x1m_A           12 DWHLAVKLADQPLAPKSILQLPETELGEYSLGGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQTLDFYGIQPG   91 (107)
T ss_dssp             SCCEEEEETTCTTSCCEEECCCCCSSCSSCCCCCBHHHHHHHHHHHCTTTCCCSSSEEEEETTEECCTTCBHHHHTCCTT
T ss_pred             ceEEEEEeCCCCCccEEEEEecCccccccCcccCCHHHHHHHHHHHhccCCChhhcEEEEECCeECCCCCcHHHcCCCCC
Confidence            35666666566   5666774        44 499999999999999  999999 999999999999999999999999


Q ss_pred             ceeeeeecc
Q 034095           89 AFCSCKYGR   97 (104)
Q Consensus        89 dii~~~~~~   97 (104)
                      +.|.+....
T Consensus        92 ~~i~lv~~~  100 (107)
T 1x1m_A           92 STVHVLRKS  100 (107)
T ss_dssp             CEEEEEESS
T ss_pred             CEEEEEeCC
Confidence            999886543

>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=98.24  E-value=6.3e-06  Score=52.82  Aligned_cols=73  Identities=11%  Similarity=0.063  Sum_probs=64.3

Q ss_pred             CcEEEEEEccCCC--EEEEEEeCCchHHHHHHHHHHHc--CCccceEEEEECCEecCCCCCcccc--CCcCCceeeeee
Q 034095           23 AHINLKVKGQDGN--EVFFRIKRSTQLKKLMNAYCDRQ--SVELNSIAFLFDGRRLRGEQTPDEV--ILLFCAFCSCKY   95 (104)
Q Consensus        23 ~~I~lkV~~~~g~--~v~FkIK~tt~L~kLm~aY~~~~--g~~~~~lrF~fdG~rI~~~~TP~~L--~Medgdii~~~~   95 (104)
                      ..|+|.|+..++.  .+.+.+.+++....|.+.-++..  +++++..|++|.|+.+.++.|-+++  ++.+|..|.+..
T Consensus         6 ~~m~i~Vk~~~~~~~~~~v~v~~~~TV~~lK~~I~~~~~~~i~~~~QrLi~~Gk~L~D~~tL~~~~~~i~~~~~i~lv~   84 (93)
T 1wgd_A            6 SGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDLLPKQEKRHVLHLVC   84 (93)
T ss_dssp             CCCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECCSSSCHHHHSCSSSCSEEEEEEC
T ss_pred             cEEEEEEEeCCCCeEEEEEecCCCCcHHHHHHHHHHHhcCCCChHHeEEEECCEECcCcCCHHHHhcCCCCCCEEEEEe
Confidence            4578888887777  45666669999999999999998  9999999999999999999999999  999999998764

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

Probab=98.21  E-value=9.3e-06  Score=51.62  Aligned_cols=64  Identities=14%  Similarity=0.063  Sum_probs=59.6

Q ss_pred             cCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           32 QDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        32 ~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      -.|..+.+.+.+++....|.+..++..|++++..|++|+|+.+.++.|-+++++.+|+.|.|..
T Consensus        19 ~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~l~l~~   82 (85)
T 2kd0_A           19 FGGKSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVETSTLKQSDVGSGAKLMLMA   82 (85)
T ss_dssp             ETTEEEEEEECTTSBHHHHHHHHHHHHCCCTTTCEEEETTEECCTTCBTTTTTCCTTEEEEEEC
T ss_pred             ECCEEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCeECCCcCCHHHCCCCCCCEEEEEE
Confidence            3677788999999999999999999999999999999999999999999999999999998764

>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=98.18  E-value=2.1e-07  Score=66.07  Aligned_cols=70  Identities=13%  Similarity=0.233  Sum_probs=0.0

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .|.|...+|..+.+.|.+++....|....+++.|++++..|++|.|..|.++.|.+++++++|+.|.+.+
T Consensus         2 qI~VK~l~G~~~~l~V~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~dygI~~gstL~Lvl   71 (152)
T 3u5c_f            2 QIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL   71 (152)
T ss_dssp             ----------------------------------------------------------------------
T ss_pred             EEEEEeCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEEccccCcHHHcCCCCCCEEEEEe
Confidence            4667777888889999999999999999999999999999999999999999999999999999998764

>1v86_A DNA segment, CHR 7, wayne state university 128, expressed; ubiquitin fold, structural genomics, D7WSU128E protein; HET: DNA; NMR {Mus musculus} SCOP: d.15.1.1

Probab=98.17  E-value=5.4e-06  Score=53.85  Aligned_cols=77  Identities=9%  Similarity=-0.019  Sum_probs=66.1

Q ss_pred             CCCCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeeec
Q 034095           18 PVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYG   96 (104)
Q Consensus        18 p~~~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~   96 (104)
                      +......|+|+|+. .+..+.+.+.+++.+..|.+.-++..|++++..|++|.|..+ .+.|-.++++.+|+.|.+.-.
T Consensus        11 ~~~~~~~~~i~Vk~-~g~~~~i~v~~~~TV~~LK~~I~~~tgip~~~QrL~~~Gk~L-dd~tL~~~~i~~g~~i~lv~~   87 (95)
T 1v86_A           11 GGVGKELVDLKIIW-NKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGLVP-EDKTLREIKVTSGAKIMVVGS   87 (95)
T ss_dssp             CCCCCCCEEEEEEE-TTEEEEEEECTTSBHHHHHHHHHHHHCSCSTTCCCBSSSBCC-SSSBHHHHCCCTTEEEEECCS
T ss_pred             CCCCCceEEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCeeC-CcCcHHHCCCCCCCEEEEEec
Confidence            33345678888884 577778999999999999999999999999999999999999 566999999999999887643

>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=98.16  E-value=1.3e-05  Score=53.51  Aligned_cols=72  Identities=10%  Similarity=0.044  Sum_probs=63.9

Q ss_pred             cEEEEEEccC----CCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           24 HINLKVKGQD----GNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        24 ~I~lkV~~~~----g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      -.+|.|...+    +..+.+.|.++.....|.+.-+++.|++++..|++|.|+.+.++.|-++.++.+|..|-|+.
T Consensus        15 ~ati~V~~~~~~~~~~~~~lev~~~~TV~~lK~kI~~k~gip~~qQrLI~~GKiL~D~~TL~~y~I~~gsti~vl~   90 (100)
T 1wju_A           15 IATIEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEEQGVAHNVKAMVLE   90 (100)
T ss_dssp             EEEEEEECCTTTCCSSSEEEEEESSSBHHHHHHHHHHHTTCCSTTCEEEETTEECCTTSBHHHHTCCSSEEEEEEC
T ss_pred             eEEEEEEecCCCCCCcEEEEEeCCcCHHHHHHHHHHHHHCcCHHHeEEEeCCeECCCCCcHHHcCCCCCCEEEEEE
Confidence            3455555555    67889999999999999999999999999999999999999999999999999999996664

>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=98.15  E-value=1.4e-05  Score=52.24  Aligned_cols=73  Identities=7%  Similarity=-0.047  Sum_probs=62.5

Q ss_pred             CcEEEEEEccCC----CEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCC-CCccccCCcCCceeeeee
Q 034095           23 AHINLKVKGQDG----NEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGE-QTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        23 ~~I~lkV~~~~g----~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~-~TP~~L~Medgdii~~~~   95 (104)
                      ..+.|.|....+    ..+.+.|..++....|.+.-+++.|++++..|++|.|+.+.++ .|-+++++.+|+.|.|..
T Consensus         6 ~~m~I~Vk~~~~~~~~~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~gk~L~D~~~tL~~ygI~~g~~l~l~~   83 (102)
T 1v5o_A            6 SGMLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVLLQ   83 (102)
T ss_dssp             CCEEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTCCCGGGBCEEETTEEECCSSSBHHHHTCCTTEEEEECB
T ss_pred             CeEEEEEEECCCCcCceEEEEEcCCCCCHHHHHHHHHHHHCcChHHeEEEECCEECCCCcccHHHCCCCCCCEEEEEE
Confidence            346666665433    5778999999999999999999999999999999999999877 699999999999988764

>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=98.09  E-value=3.3e-05  Score=49.20  Aligned_cols=72  Identities=10%  Similarity=0.083  Sum_probs=63.5

Q ss_pred             CcEEEEEEccCCCEEEEEEeCC-----chHHHHHHHHHHHcCCccceEEEEECCEecCC-CCCccccCCcCCceeeeee
Q 034095           23 AHINLKVKGQDGNEVFFRIKRS-----TQLKKLMNAYCDRQSVELNSIAFLFDGRRLRG-EQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        23 ~~I~lkV~~~~g~~v~FkIK~t-----t~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~-~~TP~~L~Medgdii~~~~   95 (104)
                      ..|+|.|.. .+....+.+..+     +....|.+.-++..|++++..|++|.|..+.+ +.|-.++++.+|+.|-+..
T Consensus         6 ~~~~v~Vk~-~~~~~~i~v~~~~~~~~~TV~~LK~~i~~~~gip~~~qrL~~~Gk~L~D~~~~L~~~~i~~g~~i~l~~   83 (92)
T 1wxv_A            6 SGLTVTVTH-SNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLIG   83 (92)
T ss_dssp             SSEEEEEEC-SSSEEEEEECCCSSSSSCBHHHHHHHHHHHTCCCTTTCEEEETTEEECCSSSBHHHHTCCSSEEEEEES
T ss_pred             CeEEEEEEE-CCEEEEEEECCCcCcccCcHHHHHHHHHHHHCcCHHHEEEEECCeecCCCcccHHHCCCCCCCEEEEEe
Confidence            468899987 477778899985     99999999999999999999999999999998 4589999999999988754

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

Probab=98.07  E-value=1e-05  Score=52.35  Aligned_cols=77  Identities=12%  Similarity=0.182  Sum_probs=66.6

Q ss_pred             EEEEEEccCCCEEEEEEe--CCchHHHHHHHH-HHHcCCccceEEEEECCEecCCCCCccccCC-cCCceeeeeeccccc
Q 034095           25 INLKVKGQDGNEVFFRIK--RSTQLKKLMNAY-CDRQSVELNSIAFLFDGRRLRGEQTPDEVIL-LFCAFCSCKYGRLNT  100 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK--~tt~L~kLm~aY-~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~M-edgdii~~~~~~~~~  100 (104)
                      +.|.|++..|....+.|.  +++....|.+.- +++.|++++..|++|.|+.+.++.|-+++++ .+|..|.|. |+-|+
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 VHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTITVM-IKPNL   80 (87)
T ss_dssp             CEEEEEECSSSCEECCEECCTTCBHHHHHHHHHHTTSCSSSTTEEEEETTEECCTTCBHHHHCCCGGGCEEEEE-ECCCC
T ss_pred             EEEEEEcCCCCEEEEEEcCCCCCcHHHHHHHHHHHhcCCChHHEEEEECCEECcCcCCHHHcCCCCCCCEEEEE-cCCCc
Confidence            467788888887777766  999999999998 8899999999999999999999999999999 788888765 55566


Q ss_pred             Cc
Q 034095          101 GH  102 (104)
Q Consensus       101 ~~  102 (104)
                      -|
T Consensus        81 ~~   82 (87)
T 2lxa_A           81 EH   82 (87)
T ss_dssp             CC
T ss_pred             cc
Confidence            54

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

Probab=98.07  E-value=2.6e-05  Score=54.81  Aligned_cols=72  Identities=13%  Similarity=0.226  Sum_probs=66.2

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        24 ~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .+.|.|...+|..+.+.|.++.....|.+.-+++.|++++..|++|+|+.+.++.|-.++++.+|+.|.+..
T Consensus        96 g~~i~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~q~L~~~g~~L~D~~tL~~y~i~~g~tl~l~~  167 (172)
T 3u30_A           96 GMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL  167 (172)
T ss_dssp             CEEEEEEESSCCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTSBSGGGTCCTTCEEEECC
T ss_pred             cccceeecccCcceeEEecCCCCHHHHHHHHHHHhCCCceeEEEEECCccCCCCCcHHHhCCCCCCEEEEEE
Confidence            456667778899999999999999999999999999999999999999999999999999999999998753

>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=98.05  E-value=2.9e-05  Score=53.64  Aligned_cols=72  Identities=17%  Similarity=0.061  Sum_probs=66.7

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEE-E-CCEecCCCCCccccCCcCCceeeeeec
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFL-F-DGRRLRGEQTPDEVILLFCAFCSCKYG   96 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~-f-dG~rI~~~~TP~~L~Medgdii~~~~~   96 (104)
                      +.|.|...+|..+.+.+.++++...|.+.-++..|++++.-|++ | .|..+.++.|-+++++.+|+.|.+..-
T Consensus         3 m~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~QrL~~~~~g~~L~d~~tL~~y~i~~~~~l~l~~~   76 (159)
T 3rt3_B            3 WDLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVD   76 (159)
T ss_dssp             CEEEEEETTSCEEEEECCTTCCHHHHHHHHHHHHCCCGGGEEEEEETTCCBCCTTSCGGGGTCCTTCEEEEEEC
T ss_pred             eEEEEEECCCCEEEEEeCCCCcHHHHHHHHHHHhCCCHHHEEEEEcCCCCCCCCCCCHHHcCCCCCCEEEEEcc
Confidence            56777777899999999999999999999999999999999999 9 799999999999999999999998764

>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=97.99  E-value=3.5e-05  Score=50.16  Aligned_cols=73  Identities=8%  Similarity=-0.004  Sum_probs=64.5

Q ss_pred             CCcEEEEEEccCCCEE-EEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeeec
Q 034095           22 SAHINLKVKGQDGNEV-FFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYG   96 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v-~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~   96 (104)
                      ...|+|+|+. .|..+ .+.+..++.+..|...-++..|++++..|++|.|..+.++ |-+++++.+|+.|-+...
T Consensus         5 ~~~m~i~Vk~-~g~~~~~l~v~~~~TV~~lK~~I~~~tgip~~~QkLi~~Gk~L~D~-tL~~~~I~~g~~i~l~~~   78 (96)
T 1wgg_A            5 SSGYSVTVKW-GKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD-DWGNIKMKNGMTVLMMGS   78 (96)
T ss_dssp             CCEEEEEEEE-TTEEEEEEEEESSSCHHHHHHHHHHHTCCCTTTSCCEETTEECCSS-CCCSCCCCSSCEEECCCC
T ss_pred             CcEEEEEEEE-CCEEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCcCCCCC-CHHHCCCCCCCEEEEEec
Confidence            3468888885 56676 5999999999999999999999999999999999999988 999999999999977643

>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=97.96  E-value=2.3e-05  Score=50.13  Aligned_cols=73  Identities=12%  Similarity=0.030  Sum_probs=63.5

Q ss_pred             CcEEEEEEccCCCEEEE-EEeCCchHHHHHHHHHHHcCCccceEEEE---ECCEecCCCCCccccCCcCCceeeeeec
Q 034095           23 AHINLKVKGQDGNEVFF-RIKRSTQLKKLMNAYCDRQSVELNSIAFL---FDGRRLRGEQTPDEVILLFCAFCSCKYG   96 (104)
Q Consensus        23 ~~I~lkV~~~~g~~v~F-kIK~tt~L~kLm~aY~~~~g~~~~~lrF~---fdG~rI~~~~TP~~L~Medgdii~~~~~   96 (104)
                      ..|+|.|.. .|..+.+ .+..+++...|.+.-+++.|++++..|++   |.|..+.++.|-+++++.+|+.|-+...
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            346666665 5767778 88999999999999999999999999999   9999999999999999999999877543

>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=97.94  E-value=0.00015  Score=49.40  Aligned_cols=78  Identities=19%  Similarity=0.235  Sum_probs=65.8

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHH------HcCC--ccceEEEEECCEecCCCCCccccCCcCCceeee
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCD------RQSV--ELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSC   93 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~------~~g~--~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~   93 (104)
                      .+.|.|+|+.-.|..+.|.|.+++....|.+..++      +-++  +++..|++|.|+.|.++.|-+++++..++.+-+
T Consensus        14 ~~~m~I~vKtl~G~t~~lev~~s~TV~~lK~kI~~~~p~dwke~~p~p~~qqrLIy~GK~LeD~~TL~~y~I~~~~~~tl   93 (116)
T 1wgh_A           14 ADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTTVM   93 (116)
T ss_dssp             SSSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTCCSSCEEEE
T ss_pred             CCeEEEEEEeCCCCEEEEEECCcCHHHHHHHHHHHhcccccccCCCCChHHEEEEECCcCCCCCCcHHHcCCCCCCceEE
Confidence            45799999998899999999999999999999998      4453  689999999999999999999999988876443


Q ss_pred             -eecccc
Q 034095           94 -KYGRLN   99 (104)
Q Consensus        94 -~~~~~~   99 (104)
                       |.-|+.
T Consensus        94 hLvlr~~  100 (116)
T 1wgh_A           94 HLVARET  100 (116)
T ss_dssp             EEEECSS
T ss_pred             EEEccCC
Confidence             334443

>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=97.92  E-value=3.1e-05  Score=51.96  Aligned_cols=74  Identities=12%  Similarity=0.073  Sum_probs=64.7

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCcc---------------ceEEEEECCEecC-CCCCccccCC
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL---------------NSIAFLFDGRRLR-GEQTPDEVIL   85 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~---------------~~lrF~fdG~rI~-~~~TP~~L~M   85 (104)
                      ...++|.|..-+|..+.+.|.+++....|.++-.++.++++               ..+++.|.|+.|. ++.|-+++++
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            44588999999999999999999999999999999988765               5789999999997 5689999999


Q ss_pred             cCCceeeeee
Q 034095           86 LFCAFCSCKY   95 (104)
Q Consensus        86 edgdii~~~~   95 (104)
                      .+|+.|-+..
T Consensus        85 ~~g~~l~lv~   94 (105)
T 1v2y_A           85 RNRDEVSFIK   94 (105)
T ss_dssp             CSSEEEEEEE
T ss_pred             CCCCEEEEEe
Confidence            9999986543

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

Probab=97.89  E-value=6.1e-05  Score=51.87  Aligned_cols=70  Identities=20%  Similarity=0.272  Sum_probs=63.2

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHH------HcCC--ccceEEEEECCEecCCCCCccccCCcCCcee
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCD------RQSV--ELNSIAFLFDGRRLRGEQTPDEVILLFCAFC   91 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~------~~g~--~~~~lrF~fdG~rI~~~~TP~~L~Medgdii   91 (104)
                      ...|.|+|+..+|....|.|.+++....|.+..++      +-++  +++..|++|.|+.+.++.|-+++++..|+++
T Consensus        15 ~~~m~I~vktl~G~~~~lev~~s~TV~~lK~~I~~~~p~dwke~ip~~~~~qrLIy~GK~LeD~~TL~~y~I~~~~~~   92 (125)
T 2gow_A           15 ADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTT   92 (125)
T ss_dssp             TTCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHSSCCCSCCCCTTCCGGGEEEESSSSEEESSCBTGGGCCCTTSEE
T ss_pred             CCeEEEEEEeCCCCEEEEEeCCccHHHHHHHHHHHHCCcccccCCCCChHHEEEEECCcCCCCCCcHHHcCCCCCCce
Confidence            45799999988999999999999999999999998      5566  5899999999999999999999999999863

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

Probab=97.88  E-value=8.8e-05  Score=58.02  Aligned_cols=74  Identities=12%  Similarity=0.234  Sum_probs=68.9

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      ...+.|.|+..+|..+.+.|.+++....|.+.-+++.|++++..|++|.|+.+.++.|-+++++.+|+.|.+..
T Consensus       231 ~~~MqI~VKtl~Gk~~~leV~~s~TV~dLK~kI~~~~GIp~~~QRLi~~Gk~L~D~~TLsdygI~~gstL~Lvl  304 (307)
T 3ai5_A          231 TGSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL  304 (307)
T ss_dssp             CCCEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTGGGTCCTTCEEEEEC
T ss_pred             CCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEeCCeecCCCCCHHHcCCCCCCEEEEEE
Confidence            46788899988898999999999999999999999999999999999999999999999999999999998753

>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=97.85  E-value=2.8e-05  Score=62.04  Aligned_cols=78  Identities=10%  Similarity=0.167  Sum_probs=68.9

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHH---HcCCccceEEEEECCEecCCCCCccccCCcCCceeeeeecccc
Q 034095           23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCD---RQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYGRLN   99 (104)
Q Consensus        23 ~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~---~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~~~~   99 (104)
                      ..+.|.|+..+|..+.+.|..++....|.+..++   +.|++.+..|++|.|+.|.++.|-.++++.+|++|-++.-|+.
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            3466777777888889999999999999999998   4569999999999999999999999999999999988887765


Q ss_pred             c
Q 034095          100 T  100 (104)
Q Consensus       100 ~  100 (104)
                      .
T Consensus        86 ~   86 (368)
T 1oqy_A           86 A   86 (368)
T ss_dssp             S
T ss_pred             C
Confidence            3

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

Probab=97.83  E-value=6.3e-05  Score=49.64  Aligned_cols=72  Identities=11%  Similarity=0.081  Sum_probs=61.6

Q ss_pred             CCcEEEEEEccCCC--EEEEEEeCCchHHHHHHHHHHHc-CCc-cceEEEEECCEecCCCCCcccc--CCcCCceeee
Q 034095           22 SAHINLKVKGQDGN--EVFFRIKRSTQLKKLMNAYCDRQ-SVE-LNSIAFLFDGRRLRGEQTPDEV--ILLFCAFCSC   93 (104)
Q Consensus        22 ~~~I~lkV~~~~g~--~v~FkIK~tt~L~kLm~aY~~~~-g~~-~~~lrF~fdG~rI~~~~TP~~L--~Medgdii~~   93 (104)
                      ...|.|.|+..++.  .+.+.+.+++....|.+.-+++. |.+ ++..|++|.|+.+.++.|-+++  ++.+|..|.+
T Consensus        21 ~~~m~I~VK~~~g~~~~i~l~v~~~~TV~~LK~~I~~~~~g~pp~~~QrLIy~Gk~L~D~~tL~~y~~~I~~~~tihL   98 (99)
T 2kdb_A           21 GHPVTLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYPSKPLTKDQRLVYSGRLLPDHLQLKDILRKQDEYHMVHL   98 (99)
T ss_dssp             --CEEEEEECTTSSSCCEEEEECTTSBHHHHHHHHHHHSTTCCCTTTCCEEETTEEECTTSBTHHHHTTTCSEEEEEE
T ss_pred             CCeEEEEEEcCCCCEEEEEEEcCCCCHHHHHHHHHHHHhcCCCChhhEEEEECCEECCCCCCHHHHhcCCCCCCEEEe
Confidence            45689999987776  67888999999999999999875 554 5999999999999999999999  9999998865

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

Probab=97.82  E-value=0.00021  Score=48.03  Aligned_cols=72  Identities=7%  Similarity=0.002  Sum_probs=62.1

Q ss_pred             cEEEEEEccCC--CEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCC-cCCceeeeee
Q 034095           24 HINLKVKGQDG--NEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVIL-LFCAFCSCKY   95 (104)
Q Consensus        24 ~I~lkV~~~~g--~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~M-edgdii~~~~   95 (104)
                      .+.|.|.+..+  ..+.+.|.+++....|.+...++.|++++.-|++|.|+-+.++.|-+++++ ++|+.+-.++
T Consensus        24 ~l~v~v~d~~s~~~~i~l~V~ps~TV~~LK~~I~~k~Gipp~~QRli~ggkll~D~~TL~~ygI~~~G~t~hL~l   98 (105)
T 4dbg_A           24 RLWVSVEDAQMHTVTIWLTVRPDMTVASLKDMVFLDYGFPPVLQQWVIGQRLARDQETLHSHGVRQNGDSAYLYL   98 (105)
T ss_dssp             EEEEEEEESSSCCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEEECTTCBTGGGTCCSTTCEEEEEE
T ss_pred             EEEEEEEccCCCCceEEEEECCcChHHHHHHHHHHHhCCCHHHEEEeccCeEccCcCcHHHcCCCCCCCEEEEEE
Confidence            44455556553  577999999999999999999999999999999999998889999999999 6999998765

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

Probab=97.81  E-value=3.5e-05  Score=50.97  Aligned_cols=73  Identities=12%  Similarity=0.155  Sum_probs=65.2

Q ss_pred             CcEEEEEEccCCCEEEEEEe-CCchHHHHHHHHHHHcCCccceEEEEECCE-----------e----cCCCCCccccCCc
Q 034095           23 AHINLKVKGQDGNEVFFRIK-RSTQLKKLMNAYCDRQSVELNSIAFLFDGR-----------R----LRGEQTPDEVILL   86 (104)
Q Consensus        23 ~~I~lkV~~~~g~~v~FkIK-~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~-----------r----I~~~~TP~~L~Me   86 (104)
                      ..+.|+|++.+|.. .+.|. +++.+..|.+.-+++.++++...++.|.|.           .    +.++.|-.++++.
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            44889999999966 68898 999999999999999999999999999988           4    3678899999999


Q ss_pred             CCceeeeeec
Q 034095           87 FCAFCSCKYG   96 (104)
Q Consensus        87 dgdii~~~~~   96 (104)
                      +|+.|-+.+.
T Consensus        85 ~G~~L~l~~~   94 (107)
T 1wf9_A           85 HGSMVYLAYE   94 (107)
T ss_dssp             TTCEEECCCS
T ss_pred             CCCEEEEEeC
Confidence            9999988775

>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=97.79  E-value=0.00015  Score=50.23  Aligned_cols=68  Identities=12%  Similarity=0.215  Sum_probs=60.2

Q ss_pred             CcEEEEEEccCCCEE-EEEEeCCchHHHHHHHHHH-----HcCCcc--ceEEEEECCEecCCCCCccccCCcCCce
Q 034095           23 AHINLKVKGQDGNEV-FFRIKRSTQLKKLMNAYCD-----RQSVEL--NSIAFLFDGRRLRGEQTPDEVILLFCAF   90 (104)
Q Consensus        23 ~~I~lkV~~~~g~~v-~FkIK~tt~L~kLm~aY~~-----~~g~~~--~~lrF~fdG~rI~~~~TP~~L~Medgdi   90 (104)
                      +.+.|+|+..+|..+ .+.+.+++....|.+.-++     +-++++  +..|++|.|+.+.++.|-+++.+.+|++
T Consensus        15 ~~~~i~~kt~~G~~i~~l~v~psdTV~~lK~kI~~~~p~dkegiP~~~~qQrLIy~GK~LeD~~TLsdy~I~~~~~   90 (126)
T 1se9_A           15 NQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVSNL   90 (126)
T ss_dssp             CCEEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCTTSC
T ss_pred             ccEEEEEEECCCCEEEeeecCccCHHHHHHHHHHhhcccccccCCCChhhEEEEECCeECcCCCcHHHcCCCcCCc
Confidence            588999999999988 6999999999999988854     445665  8999999999999999999999999986

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

Probab=97.76  E-value=0.00025  Score=46.34  Aligned_cols=72  Identities=6%  Similarity=-0.051  Sum_probs=62.9

Q ss_pred             CCcEEEEEEccCCC--EEEEEEeCCchHHHHHHHHHHHcCCccceEEEEEC--CE---ec-CCCCCccccCCcCCceeee
Q 034095           22 SAHINLKVKGQDGN--EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD--GR---RL-RGEQTPDEVILLFCAFCSC   93 (104)
Q Consensus        22 ~~~I~lkV~~~~g~--~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fd--G~---rI-~~~~TP~~L~Medgdii~~   93 (104)
                      +..|+|.|....+.  .+.+++.++.....|.+.-.++.|+|++.-|++|.  |.   .+ .++.|-.++++++|+.|-|
T Consensus        13 ~~~v~l~It~s~~~~~~~~~~v~~~~TV~~LK~kI~~~~GiP~~~QrL~~~~~g~~~~~L~~D~~tL~~Y~i~~gstihl   92 (95)
T 2kjr_A           13 SDFIKVNVSNSHNDAVAFEVKLAKDLTVAQLKTKLEILTGGCAGTMKVQVFKGDTCVSTMDNNDAQLGYYANSDGLRLHV   92 (95)
T ss_dssp             CCEEEEEEEESSCSCEEEEEEEETTCBHHHHHHHHHHHHCSCTTTEEEEEEETTEEEEECCCTTSBHHHHCCSSSCEEEE
T ss_pred             CCeEEEEEEECCCCceEEEEEeCccCHHHHHHHHHHHHHCcCHHHeEEEEecCCcccceeCCCCCCHhHCCcCCCCEEEE
Confidence            57899999876654  67899999999999999999999999999999996  55   44 7788999999999998865

>2kzr_A Ubiquitin thioesterase OTU1; structural genomics, northeast structural genomics consortiu PSI-2, protein structure initiative, hydrolase; NMR {Mus musculus}

Probab=97.60  E-value=5.7e-05  Score=47.82  Aligned_cols=70  Identities=13%  Similarity=0.190  Sum_probs=59.7

Q ss_pred             EEEEEccCCCEEEEE-EeCCchHHHHHHHHHHHcCCccceEEEEEC--CEecC---CCCCccccCCcCCceeeeeec
Q 034095           26 NLKVKGQDGNEVFFR-IKRSTQLKKLMNAYCDRQSVELNSIAFLFD--GRRLR---GEQTPDEVILLFCAFCSCKYG   96 (104)
Q Consensus        26 ~lkV~~~~g~~v~Fk-IK~tt~L~kLm~aY~~~~g~~~~~lrF~fd--G~rI~---~~~TP~~L~Medgdii~~~~~   96 (104)
                      .|+|+..+|..+ +. +..++.+..|....+++.|++++..|++|.  ++.+.   ++.|-+++++.+|+.|-|...
T Consensus         2 ~i~vr~~~G~~~-v~~l~~~~Tv~~Lk~~I~~~~gi~~~~qrL~~~~p~k~l~l~~~~~tL~~~gl~~g~~l~v~~~   77 (86)
T 2kzr_A            2 RVRCKAKGGTHL-LQGLSSRTRLRELQGQIAAITGIAPGSQRILVGYPPECLDLSDRDITLGDLPIQSGDMLIVEED   77 (86)
T ss_dssp             CEEEEETTEEEE-ECSCCTTCBHHHHHHHHHHHTCCCTTTCCCEESSCCCCCCCCCSSCBTTTSSCCTTCEEECCCC
T ss_pred             EEEEEcCCCCEE-eeecCCCCCHHHHHHHHHHHhCCCccceEEEeCCCCcccccCCCCCCHHHcCCCCCCEEEEEeC
Confidence            578888888664 66 889999999999999999999888888886  46664   578999999999999988765

>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=97.50  E-value=0.00048  Score=44.31  Aligned_cols=73  Identities=5%  Similarity=-0.116  Sum_probs=62.5

Q ss_pred             CcEEEEEEccCCC-EEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECC---Ee----cCCCCCccccCCcCCceeeee
Q 034095           23 AHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDG---RR----LRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        23 ~~I~lkV~~~~g~-~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG---~r----I~~~~TP~~L~Medgdii~~~   94 (104)
                      ..|+|.|...... ...+++.+++....|...-+++.|++++..|++|.|   ..    +.++.|-.++++++|+.|.|.
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            3588999876553 468899999999999999999999999999999976   43    367889999999999999876


Q ss_pred             e
Q 034095           95 Y   95 (104)
Q Consensus        95 ~   95 (104)
                      -
T Consensus        86 d   86 (95)
T 1v6e_A           86 D   86 (95)
T ss_dssp             C
T ss_pred             E
Confidence            4

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

Probab=97.50  E-value=0.00047  Score=45.27  Aligned_cols=74  Identities=7%  Similarity=-0.023  Sum_probs=62.7

Q ss_pred             CCCcEEEEEEccCC--CEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCE---e----cCCCCCccccCCcCCcee
Q 034095           21 QSAHINLKVKGQDG--NEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGR---R----LRGEQTPDEVILLFCAFC   91 (104)
Q Consensus        21 ~~~~I~lkV~~~~g--~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~---r----I~~~~TP~~L~Medgdii   91 (104)
                      ++..|+|.|.....  ..+.++|.++.....|.+.-.++.|+|++.-|++|.|.   .    ..++.|-.++++++|+.|
T Consensus        11 ~~~~v~l~It~s~~~~~~~e~~v~~~~TV~~LK~kIe~~~Gip~~~QrLi~~g~~g~~~~~L~~D~~tL~~Y~I~~g~~I   90 (97)
T 2kj6_A           11 GDDSVHLHITHANLKSFSADARFSPQMSVEAVKEKLWKKCGTSVNSMALELYDDSGSKVAVLSDDSRPLGFFSPFDGFRL   90 (97)
T ss_dssp             CCCCEEEEEEETTSSCCCEEEEECTTCCHHHHHHHHHHHHCCCTTSEEEEEECSSSCBCCCSSGGGSCHHHHCCCSCCEE
T ss_pred             CCceEEEEEEECCCCceEEEEEeCCCChHHHHHHHHHHHHCcCHHHeEEEEecCCCcccceecCCcCCHHHCCCCCCCEE
Confidence            46688899987444  35789999999999999999999999999999999873   3    367789999999999998


Q ss_pred             eee
Q 034095           92 SCK   94 (104)
Q Consensus        92 ~~~   94 (104)
                      -|.
T Consensus        91 hlv   93 (97)
T 2kj6_A           91 HII   93 (97)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            653

>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=97.48  E-value=0.00096  Score=44.95  Aligned_cols=74  Identities=8%  Similarity=-0.015  Sum_probs=63.3

Q ss_pred             CcEEEEEEccCCC-EEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECC---Ee---c-CCCCCccccCCcCCceeeee
Q 034095           23 AHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDG---RR---L-RGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        23 ~~I~lkV~~~~g~-~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG---~r---I-~~~~TP~~L~Medgdii~~~   94 (104)
                      ..|+|.|....+. .+.+++.++.+...|...-+++.|++++..|+.|.|   ..   + .++.|-.++++++|..|-|.
T Consensus         5 ~~v~l~V~~~~~~~~~e~~v~~~~TV~~lK~ki~~~~Gip~~~qrL~~~g~~~~~~~~l~~D~~tL~~y~i~~g~~ihvv   84 (122)
T 1t0y_A            5 EVYDLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRIHAV   84 (122)
T ss_dssp             CEEEEEEEESSCCSCEEEEEETTSBHHHHHHHHHHHHCCCTTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSEEEEEE
T ss_pred             CEEEEEEEECCCCccEEEEeCCCCcHHHHHHHHHHHhCCCHHHeEEEEecCCCccccccCCCcCCHHHCCCCCCCEEEEE
Confidence            4689999876553 468899999999999999999999999999999976   43   3 67889999999999999877


Q ss_pred             ec
Q 034095           95 YG   96 (104)
Q Consensus        95 ~~   96 (104)
                      -.
T Consensus        85 d~   86 (122)
T 1t0y_A           85 DV   86 (122)
T ss_dssp             EC
T ss_pred             eC
Confidence            53

>2dzj_A Synaptic glycoprotein SC2; ubiquitin-like fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.45  E-value=0.00025  Score=45.57  Aligned_cols=71  Identities=13%  Similarity=0.237  Sum_probs=61.6

Q ss_pred             cEEEEEEccCCCEE--EE-EEeCCchHHHHHHHHHHH-cCCccceEEEEEC--CEecCCCCCccccCCcCCceeeee
Q 034095           24 HINLKVKGQDGNEV--FF-RIKRSTQLKKLMNAYCDR-QSVELNSIAFLFD--GRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        24 ~I~lkV~~~~g~~v--~F-kIK~tt~L~kLm~aY~~~-~g~~~~~lrF~fd--G~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      .+.|.|....|...  .+ .|.+++....|.+..++. .|++++..|+.|.  |..+.++.|-+++++.+|..|-|+
T Consensus        10 ~M~I~Vk~~~g~~~~~~l~~v~~~~TV~~lK~~I~~~~~~i~~~~QrL~~~~~Gk~L~D~~tL~~y~i~~~stl~~K   86 (88)
T 2dzj_A           10 HYEVEILDAKTREKLCFLDKVEPHATIAEIKNLFTKTHPQWYPARQSLRLDPKGKSLKDEDVLQKLPVGTTATLYFR   86 (88)
T ss_dssp             CEEEEEEESSSCCCCEEEEEECSSCBHHHHHHHHHHHCSSSCTTTCCEESSTTSCCCCTTCBTTTSSCCSEEEEEEC
T ss_pred             EEEEEEECCCCCEEeeEEeEcCCCCcHHHHHHHHHHHhcCCChHHeEEEecCCCcCcCCCCCHHHcCCCCCCEEEEE
Confidence            57888888877664  46 899999999999999995 7899999999876  999999999999999999987664

>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=97.42  E-value=0.001  Score=45.52  Aligned_cols=70  Identities=14%  Similarity=0.076  Sum_probs=61.3

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCc-------CCceeeeee
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILL-------FCAFCSCKY   95 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Me-------dgdii~~~~   95 (104)
                      |.|+|+.. ...+.+.|.+++....|...-+++.|++++.-|++|+|+.+.++.|-.++++.       ++..|.+..
T Consensus         3 mfl~ir~~-ktti~lev~~sdTV~~lK~kI~~~egIP~~qQrLi~~Gk~LeD~~TLsdy~I~~~~a~~q~~stL~L~l   79 (118)
T 2fnj_B            3 VFLMIRRH-KTTIFTDAKESSTVFELKRIVEGILKRPPEEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAF   79 (118)
T ss_dssp             EEEEEEEB-TEEEEEEEETTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBHHHHTCCTTTSBTTBCEEEEEEE
T ss_pred             EEEEEecC-CEEEEEEeCCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCCCHHHcCcccccccCCCCCEEEEEe
Confidence            56777663 24578899999999999999999999999999999999999999999999999       677776654

>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=97.33  E-value=0.002  Score=44.13  Aligned_cols=70  Identities=14%  Similarity=0.076  Sum_probs=61.8

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcC-------Cceeeeee
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLF-------CAFCSCKY   95 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Med-------gdii~~~~   95 (104)
                      +-|+|+. .+..+.+.+++++....|.....++.|++++.-|++|+|+.+.++.|-++.++.+       ++.|-..+
T Consensus         3 vFl~Ikr-~ktTI~ldve~sdTV~~lK~kI~~~~giPp~qQrLI~~Gk~LeD~kTL~dy~I~~~ta~~q~~atl~Lvl   79 (118)
T 4ajy_B            3 VFLMIRR-HKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAF   79 (118)
T ss_dssp             EEEEEEE-BTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTTTTTCCGGGSBTTBCEEEEEEE
T ss_pred             eEEEEec-CCEEEEEEcCCCChHHHHHHHHHHHHCCCHHHeEEEeCCeECCCcCCHHHcCCCcCcccCCCCCEEEEEE
Confidence            4466655 4567888999999999999999999999999999999999999999999999999       88876654

>1wjn_A Tubulin-folding protein TBCE; ubiquitin-like domain, progressive motor neuropathy, structural genomics; NMR {Mus musculus} SCOP: d.15.1.1

Probab=97.29  E-value=0.0019  Score=41.51  Aligned_cols=76  Identities=12%  Similarity=0.119  Sum_probs=63.0

Q ss_pred             CCcEEEEEEc---cCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECC-----Ee--c-CCCCCccccCCcCCce
Q 034095           22 SAHINLKVKG---QDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDG-----RR--L-RGEQTPDEVILLFCAF   90 (104)
Q Consensus        22 ~~~I~lkV~~---~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG-----~r--I-~~~~TP~~L~Medgdi   90 (104)
                      ...|+|.|..   .++..+..++.++.....|...-++..|+++...|+.|.+     ..  + .++.|-.+++++||+.
T Consensus         7 ~~~v~l~I~~~~~~~~~~~e~~l~~~~TV~~LK~~i~~~~gip~~~q~L~~~~~~~~~~~~~L~~d~~~L~~y~i~~G~~   86 (97)
T 1wjn_A            7 GQLLTLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSKMPGREIELENDLQPLQFYSVENGDC   86 (97)
T ss_dssp             SCEEEEEEEESSCSSSCCEEEEEETTSBHHHHHHHHHTTTTCCTTTCEEEEECTTSCSCEEECCCSSSBSGGGTCCTTCE
T ss_pred             CccEEEEEEecCCCCCcEEEEECCCCCCHHHHHHHHHHHHCCChhHeEEEEEcCCCCceeeccCCCcccHhhcCCCCCCE
Confidence            4578888875   3677888999999999999999999999999999999863     12  3 4577789999999999


Q ss_pred             eeeeecc
Q 034095           91 CSCKYGR   97 (104)
Q Consensus        91 i~~~~~~   97 (104)
                      |-|..-.
T Consensus        87 I~V~d~~   93 (97)
T 1wjn_A           87 LLVRWSG   93 (97)
T ss_dssp             EEEECCS
T ss_pred             EEEEecC
Confidence            9887643

>2al3_A TUG long isoform; TUG UBL1 insulin, endocytosis/exocytosis complex; NMR {Mus musculus} SCOP: d.15.1.2

Probab=97.03  E-value=0.0024  Score=41.98  Aligned_cols=69  Identities=17%  Similarity=0.118  Sum_probs=61.3

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeee
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSC   93 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~   93 (104)
                      ..|.|...+++...++|.+++.|..+.+.-|+++|++.+...+.|++..|.-+..-.-.++-+|.-...
T Consensus        10 m~v~Vl~~n~rr~~VKvtp~t~L~~VL~eaC~K~gl~~~~~~Lkh~~k~lDLSlpfRlsgLpnnAkLEL   78 (90)
T 2al3_A           10 SAVSVLAPNGRRHTVKVTPSTVLLQVLEDTCRRQDFNPSEYDLKFQRTVLDLSLQWRFANLPNNAKLEM   78 (90)
T ss_dssp             CCEEEECTTSCEEEECCCTTSBHHHHHHHHHHHTTCCGGGCEEEETTEEESSSCBHHHHCCCSSCEEEE
T ss_pred             cEEEEEcCCCcEEEEEECCCCCHHHHHHHHHHHhCCChhhCeEEeCCEeccccceeEecCCCCCCEEEE
Confidence            378899999999999999999999999999999999999999999999998887777777777765543

>2pjh_A Protein NPL4, nuclear protein localization protein 4 homolog; UFD1, NPL4, AAA, protein binding, transport protein; NMR {Mus musculus}

Probab=96.53  E-value=0.0011  Score=41.99  Aligned_cols=68  Identities=7%  Similarity=0.126  Sum_probs=54.1

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEe-----cCCCCCccccCCcCCceeee
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRR-----LRGEQTPDEVILLFCAFCSC   93 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~r-----I~~~~TP~~L~Medgdii~~   93 (104)
                      +.|+|++.+|.. ++.+.+++.+..|.+.-++..+++.+...+++.-.+     ..++.|-++|++..||.|-|
T Consensus         5 m~lRvrs~~G~~-Ri~v~~~~t~~~L~~~I~~~~~i~~~~~~l~~~~~p~~~l~~~~~~~l~~lgl~hGd~l~l   77 (80)
T 2pjh_A            5 IIIRVQSPDGVK-RITATKRETAATFLKKVAKEFGFQNNGFSVYINRNKTGEITASSSKSLHLLKIKHGDLLFL   77 (80)
T ss_dssp             CCCEEECSSEEE-ECCCCSSCCHHHHHHHHHHHTCCCTTTCCCCCSCCGGGGSSSCCCCTTTTTCCCTTCCEEC
T ss_pred             EEEEEECCCCCE-EEEcCCcChHHHHHHHHHHHcCCCCCcceEEecCCCCCcccCCCCCCHHHcCCCCCCEEEE
Confidence            678999999954 556789999999999999999988766555554333     33788899999999998865

>4b6w_A Tubulin-specific chaperone; CAP-Gly, ubiquitin-like; HET: MSE; 2.35A {Trypanosoma brucei brucei strain 927}

Probab=96.50  E-value=0.013  Score=37.34  Aligned_cols=70  Identities=1%  Similarity=-0.082  Sum_probs=58.2

Q ss_pred             EEEEEEcc-CC-CEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEE-------CCEecCCCCCccccCCcCCceeeee
Q 034095           25 INLKVKGQ-DG-NEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF-------DGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        25 I~lkV~~~-~g-~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~f-------dG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      |+|.|... .+ .....++.++.....|.+.-.++.|+|++.-|++|       -|..+.++.|-.++++++|..|-|.
T Consensus         3 V~v~iths~~~~~~~E~r~~~s~TI~~lK~ki~~~~Gip~~~QrLi~~~~~~~~~g~~l~d~~tL~~Y~i~~g~~ihlv   81 (86)
T 4b6w_A            3 VKVSLTHSASRMRVPEKRYGLAQTIESIKENVFTHFATPPEYMQLQLIDDRGITIEKNMANDKQLGYYQCRDEFVIHVV   81 (86)
T ss_dssp             EEEEEEETTCSCCEEEEEEETTSBHHHHHHHHHTTSCCCGGGEEEEEECTTSCEEESSCCTTSBGGGGTCCTTCEEEEE
T ss_pred             EEEEEEEcCCCCeEEEEEcCccCcHHHHHHHHHHHHCCCHHHEEEEEecCCCCceeeEcCCCCCHHHCCCCCCCEEEEE
Confidence            55666532 23 33478899999999999999999999999999997       4778889999999999999998764

>3shq_A UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila melanogaster}

Probab=96.36  E-value=0.0074  Score=46.95  Aligned_cols=74  Identities=14%  Similarity=0.114  Sum_probs=63.1

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEE---ECCEecCCCCCccccCCcCCceeeeeecc
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFL---FDGRRLRGEQTPDEVILLFCAFCSCKYGR   97 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~---fdG~rI~~~~TP~~L~Medgdii~~~~~~   97 (104)
                      ...|+|+|.. .|....+.|.++++...|.+.-++..|+++..-|++   |.|..+.++.|-.++++.+|..|-+ +|.
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-SGKEYPVDLTDQDTVEVLRHEIFRKTQVRPERQKLLNLKYKGKTAADNVKISALELKPNFKLMM-VGS   79 (320)
T ss_dssp             -CEEEEEEEE-TTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGCEETTCBSSSSBCCTTSBTTSSCCC--CEEEE-ECC
T ss_pred             CceEEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEeecccCCcccCccccHHHcCCCCCCEEEE-Ecc
Confidence            3468888886 677888999999999999999999999999999999   8999999999999999999998854 443

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

Probab=96.31  E-value=0.00063  Score=49.96  Aligned_cols=65  Identities=11%  Similarity=0.162  Sum_probs=0.0

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .|.|...+|..+.+.|.+++....|...-++..|++++..|++|+|..|.++.|-.     ++..|.+.+
T Consensus         2 qI~VKtL~GktitLeV~~sdTV~~LK~kI~~keGIP~~qQRLIf~GK~LeD~~TLs-----~~STLhLvl   66 (189)
T 2xzm_9            2 QVQVKTLEGETKIYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAPNTELVT-----DDVTYYLSL   66 (189)
T ss_dssp             ----------------------------------------------------------------------
T ss_pred             EEEEEcCCCCEEEEEECCcChHHHHHHHHHHHhCcChhHEEEEecCeECCCCCccc-----CCCEEEEEE
Confidence            35566667888899999999999999999999999999999999999998877655     888887654

>2bps_A YUKD protein; ubiquitin-like protein, ubiquitin; 2.7A {Bacillus subtilis}

Probab=95.99  E-value=0.02  Score=36.74  Aligned_cols=72  Identities=15%  Similarity=0.173  Sum_probs=60.2

Q ss_pred             CcEEEEEE--ccCCCEEEEEEeCCchHHHHHHHHHHHcCCcc-----ceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           23 AHINLKVK--GQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL-----NSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        23 ~~I~lkV~--~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~-----~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      .+|+|.+-  ...+..+-++|...-++++|.+.-.+..+++.     ..+|..=-|.-+.++++-++.++.|||++-||
T Consensus         3 ~yI~ITidl~~y~~~~~DLRIP~~~tvK~Li~~l~ea~~l~~~~~~~~~irv~NK~~~L~~~~~L~d~~ItnGD~Leil   81 (81)
T 2bps_A            3 SYIDITIDLKHYNGSVFDLRLSDYHPVKKVIDIAWQAQSVSMPPREGHWIRVVNKDKVFSGECKLSDCGITNGDRLEIL   81 (81)
T ss_dssp             CEEEEEEECTTTTCCEEEEEEETTSBTTHHHHHHHHHSCCCSCCCTTCEEEEGGGTEEEETTSBTGGGTCCTTCEEEEC
T ss_pred             cEEEEEEEeeccCCceEEEECCCchhHHHHHHHHHHHhCCCcCCCCCCEEEEecCCEEEcCCCEEeeCCcCCCCEEEEC
Confidence            46777776  46788899999999999999999999988765     34444446899999999999999999999875

>2dzm_A FAS-associated factor 1; ubiquitin-like domain, HFAF1, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=94.92  E-value=0.11  Score=34.00  Aligned_cols=74  Identities=7%  Similarity=0.041  Sum_probs=60.4

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEE--CCEecCCCCCccccCCcCCceeeeeecccc
Q 034095           24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF--DGRRLRGEQTPDEVILLFCAFCSCKYGRLN   99 (104)
Q Consensus        24 ~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~f--dG~rI~~~~TP~~L~Medgdii~~~~~~~~   99 (104)
                      -+.++|.- .|..+.+.+.++++...|...-+++.|+++..-|++|  .|. +.++.|-.++++..|..|-+..=.++
T Consensus         9 m~~~~vk~-~Gk~~~v~v~~~~TV~~LK~~I~~~tgIpp~~QkLi~~~~gk-L~D~~tLs~~~I~~gstL~lvl~~~~   84 (100)
T 2dzm_A            9 MLDFRVEY-RDRNVDVVLEDTCTVGEIKQILENELQIPVSKMLLKGWKTGD-VEDSTVLKSLHLPKNNSLYVLTPDLP   84 (100)
T ss_dssp             EEEEEEEC-SSCEEEEEEETTSBHHHHHHHHHHHHCCCTTTCCEECCSSSC-CCTTSBHHHHCCCSEEEEEECCSSSC
T ss_pred             eEEEEEEe-CCeEEEEEECCCCcHHHHHHHHHHHHCCChhHeEEEccCCCC-CCCcCCHHHcCCCCCCEEEEEecCCC
Confidence            35555555 6778889999999999999999999999999988886  455 88888999999999988877554443

>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=94.72  E-value=0.34  Score=30.08  Aligned_cols=71  Identities=14%  Similarity=0.116  Sum_probs=56.2

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEEC--CEec---CCCCCccccCCcCCceeee
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD--GRRL---RGEQTPDEVILLFCAFCSC   93 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fd--G~rI---~~~~TP~~L~Medgdii~~   93 (104)
                      ....+|.|+-.+|..+.-+...+++++.|++.-.. .+.+...++|.-.  .+.+   ..+.|-+++++..++.+-|
T Consensus         5 ~~~~~i~iRlpdG~r~~~~F~~~~tl~~v~~fv~~-~~~~~~~f~L~t~fPrk~l~~~d~~~TL~e~gL~p~a~L~v   80 (84)
T 3qx1_A            5 EPVSKLRIRTPSGEFLERRFLASNKLQIVFDFVAS-KGFPWDEYKLLSTFPRRDVTQLDPNKSLLEVKLFPQETLFL   80 (84)
T ss_dssp             CCEEEEEEECTTSCEEEEEEETTSBHHHHHHHHHH-TTCCTTTEEEECSSSCCBGGGSCTTSBTTTTTCCSEEEEEE
T ss_pred             CCeEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHH-cCCCCCCeEEEeCCCCCCCcCCCCCCCHHHCCCCCCCEEEE
Confidence            34678899999999998899999999999985444 6777788888843  5556   3578999999998887765

>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=94.37  E-value=0.64  Score=30.40  Aligned_cols=72  Identities=10%  Similarity=0.120  Sum_probs=56.1

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEEC--CEecC--CCCCccccCCcCCceeeee
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD--GRRLR--GEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fd--G~rI~--~~~TP~~L~Medgdii~~~   94 (104)
                      ...++|.|+-.+|..+.=+...+.+++.|++.-. ..+.....++|.-.  .+.+.  .++|-++++|....++-|.
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            4689999999999999888899999999987544 45656667777643  44454  4789999999999888664

>2kvr_A Ubiquitin carboxyl-terminal hydrolase 7; USP7, ubiquitin-like domain, UBL, ubiquitin specific protease, HOST-virus interaction, nucleus, protease; NMR {Homo sapiens}

Probab=93.12  E-value=0.089  Score=36.07  Aligned_cols=37  Identities=11%  Similarity=0.253  Sum_probs=33.7

Q ss_pred             EEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEe
Q 034095           37 VFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRR   73 (104)
Q Consensus        37 v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~r   73 (104)
                      ..|||.++++|..|.+..++..|++.+.+|||+=-.|
T Consensus        58 ~~~rv~k~~~~~~~~~~va~~lg~~~~~~RlW~~~~R   94 (130)
T 2kvr_A           58 TVFKVLKNSSLAEFVQSLSQTMGFPQDQIRLWPMQAR   94 (130)
T ss_dssp             EEEECCTTSBHHHHHHHHHHHHCCCGGGCEEEECCCC
T ss_pred             ceEEEeccCcHHHHHHHHHHHhCCCcccEEEEEeecC
Confidence            4799999999999999999999999999999985444

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

Probab=93.10  E-value=0.69  Score=27.82  Aligned_cols=60  Identities=10%  Similarity=0.251  Sum_probs=46.6

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      ++|+|-++.+++ .+.+...+.+..|.+..    +++...+.+..||+-+..++     -+.+||.|.++
T Consensus         5 m~i~vNg~~~~~-~~~~~~~~tv~~Ll~~l----~~~~~~v~vavN~~~v~~~~-----~L~~gD~V~ii   64 (70)
T 1ryj_A            5 MKFTVITDDGKK-ILESGAPRRIKDVLGEL----EIPIETVVVKKNGQIVIDEE-----EIFDGDIIEVI   64 (70)
T ss_dssp             EEEEEEETTEEE-EEEESSCCBHHHHHHHT----TCCTTTEEEEETTEECCTTS-----BCCTTCEEEEE
T ss_pred             EEEEEeCccCce-eEECCCCCcHHHHHHHh----CCCCCCEEEEECCEECCCcc-----cCCCCCEEEEE
Confidence            677776655433 56777778888888754    67788889999999998665     79999999886

>4efo_A Serine/threonine-protein kinase TBK1; ubiquitin like domain, transferase; 1.77A {Homo sapiens}

Probab=92.50  E-value=0.82  Score=29.85  Aligned_cols=51  Identities=12%  Similarity=0.158  Sum_probs=43.1

Q ss_pred             EEEEEEccC-CCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecC
Q 034095           25 INLKVKGQD-GNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLR   75 (104)
Q Consensus        25 I~lkV~~~~-g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~   75 (104)
                      .-|.|-+-+ +..+.|-|.++.++..+.++-+++.|+++..=+++|.|+.+.
T Consensus        13 kvvHVf~~~~a~~h~v~I~~~etv~~~ke~V~eqTgIp~~~Q~LL~eg~~l~   64 (94)
T 4efo_A           13 MVIHVFSLQQMTAHKIYIHSYNTATIFHELVYKQTKIISSNQELIYEGRRLV   64 (94)
T ss_dssp             EEEEEEETTTTEEEEEEEETTCBHHHHHHHHHHHHCCCGGGEEEEETTEEEC
T ss_pred             eeEEEEEcccceEEEEEeccchHHHHHHHHHHHHhCCCHHHHHHHhCCCccc
Confidence            345565544 555699999999999999999999999999999999997765

>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=92.45  E-value=0.49  Score=30.94  Aligned_cols=65  Identities=12%  Similarity=0.174  Sum_probs=49.6

Q ss_pred             CCcEEEEEEccCCCE-EEEEEeCCchHHHHHHHHHHHcCCccceEEEEEC---CEecCCCCCccccCCcC
Q 034095           22 SAHINLKVKGQDGNE-VFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD---GRRLRGEQTPDEVILLF   87 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~-v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fd---G~rI~~~~TP~~L~Med   87 (104)
                      ...+.|-|-- -+++ ...+|.+..||+.|+-+-|++..+++..+.|+=|   ++.+.-+.+-.+|+|.+
T Consensus         8 E~TvRLvVNy-~~tQKtVvRVSP~vpL~ellp~IC~Kcefdp~~~~Ll~d~~~~e~LdLskSLndlgirE   76 (91)
T 2daj_A            8 EKTVRVVINF-KKTQKTIVRVSPHASLQELAPIICSKCEFDPLHTLLLKDYQSQEPLDLTKSLNDLGLRE   76 (91)
T ss_dssp             CSCEEEEEEE-TTTEEEEEEECSSSCTTTHHHHHHHHTTCCTTSEEEESCSSCCCBCCTTSCHHHHTCSE
T ss_pred             ccEEEEEEee-cCcceeEEEeCCCCcHHHHHHHHhhcccCChhhEEEecCCCCCcccchhcchhhhhhhh
Confidence            3456665543 4444 4889999999999999999999999999999875   45555566677777765

>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=92.23  E-value=0.64  Score=34.17  Aligned_cols=71  Identities=8%  Similarity=0.040  Sum_probs=54.9

Q ss_pred             cEEEEEEccC--CCEEEEEEeCCchHHHHHHHHHHHcCCccc-eEEEEE-C----CEecCC-CCCccccCCcCCceeeee
Q 034095           24 HINLKVKGQD--GNEVFFRIKRSTQLKKLMNAYCDRQSVELN-SIAFLF-D----GRRLRG-EQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        24 ~I~lkV~~~~--g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~-~lrF~f-d----G~rI~~-~~TP~~L~Medgdii~~~   94 (104)
                      .+.|++....  .+.+.+.+.+...++.|++.-|+..+++.+ .+|++. +    ...+.. +.|..++.+.+|+.|-+-
T Consensus       139 P~~l~l~~~~~~~~~~~~~~Sk~~ti~~l~~~~~~~~~i~~~~~~RLW~~~~~~~~~~L~~~~~tl~d~~L~~~Q~illE  218 (231)
T 3jyu_A          139 LLELKLCENSDPTNVLSCHFSKADTIATIEKEMRKLFNIPAERETRLWNKYMSNTYEQLSKLDNTIQDAGLYQGQVLVIE  218 (231)
T ss_dssp             CEEEEEEETTEEEEEEEEEECTTCBHHHHHHHHHHHTTCCTTSCEEEEECSSSSSCEECCCTTSBTTTTTCCTTEEEEEE
T ss_pred             cceEEEEecCCCCceEEEEecccCcHHHHHHHHHHHhCCCCCCeEEEEEecCCCCHhhhcCCCCCHHHhCCCCCCEEEEE
Confidence            3445554322  234568889999999999999999999997 799998 2    456764 689999999999987653

>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=92.19  E-value=1.5  Score=28.73  Aligned_cols=73  Identities=10%  Similarity=0.016  Sum_probs=56.9

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEEC--CEecC---CCCCccccCCcCCceeeee
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD--GRRLR---GEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fd--G~rI~---~~~TP~~L~Medgdii~~~   94 (104)
                      ....+|.|+-.+|..+.-+...+.+++.|++.-....+.+...+.|.-.  -+.+.   .++|-++++|-....+-|.
T Consensus        11 ~~~t~IqIRlpdG~rl~~rF~~~~tl~~v~~fV~~~~~~~~~~f~L~t~fPrk~l~~~d~~~TL~elgL~psa~L~v~   88 (109)
T 2dzk_A           11 STIARIQFRLPDGSSFTNQFPSDAPLEEARQFAAQTVGNTYGNFSLATMFPRREFTREDYKRRLLDLELAPSASVVLL   88 (109)
T ss_dssp             SCCEEEEEECSSSCEEEEEECTTSBHHHHHHHHHHHHTTSSCSCEEECSSSCCBCCTTTTTSBTGGGTCSSEEEEEEE
T ss_pred             CCcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHhccCCCCCceEEEcCCCCcCCcccccCCCHHHCCCCCceEEEEE
Confidence            3467889999999999889999999999999877666666667777653  33344   3679999999998877665

>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=92.10  E-value=1.5  Score=29.38  Aligned_cols=71  Identities=15%  Similarity=0.127  Sum_probs=55.8

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEEC--CEecC---CCCCccccCCcCCceeee
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD--GRRLR---GEQTPDEVILLFCAFCSC   93 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fd--G~rI~---~~~TP~~L~Medgdii~~   93 (104)
                      ...++|.|+-.+|..+.-+...+.+|+.|++.-... +.+...+.|+-.  .+.+.   .+.|-.+++|-..+.+-|
T Consensus        41 ~~~t~IqIRlPdG~rl~~rF~~~~tl~~V~~fV~~~-~~~~~~F~L~t~fPrk~l~~~d~~~TL~e~gL~psa~Liv  116 (124)
T 1wj4_A           41 GPKAQLMLRYPDGKREQITLPEQAKLLALVKHVQSK-GYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFV  116 (124)
T ss_dssp             SCEEEEEEECTTSCEEEEEEETTSCHHHHHHHHHHH-HCCTTTEEEECSSSCCEETSSCSSSCTTTTTCCSSBCCEE
T ss_pred             CCcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHhc-CCCCCCeEEecCCCCcCCccCCCCCCHHHCCCCCceEEEE
Confidence            467899999999999988999999999999876554 666677777743  55562   478999999988766544

>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=91.79  E-value=0.54  Score=30.12  Aligned_cols=46  Identities=11%  Similarity=0.196  Sum_probs=41.5

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEEC
Q 034095           23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD   70 (104)
Q Consensus        23 ~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fd   70 (104)
                      ..++|||.-+  -.|.++|.+..++..|.+.-+++.+++.+.+++.|-
T Consensus         4 ~~~~VKV~~~--~tvairvp~~~~y~~L~~~l~~kL~l~~~~~~LsYk   49 (83)
T 1oey_A            4 MAYTLKVHYK--YTVVMKTQPGLPYSQVRDMVSKKLELRLEHTKLSYR   49 (83)
T ss_dssp             SCEEEEEESS--SEEEEEECTTCCHHHHHHHHHHHTTCCGGGCCEEEC
T ss_pred             CcEEEEEEEE--EEEEEECCCCCCHHHHHHHHHHHhCCCcceeEEEee
Confidence            4589999987  578999999999999999999999999999999884

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

Probab=91.49  E-value=0.67  Score=27.95  Aligned_cols=51  Identities=20%  Similarity=0.229  Sum_probs=38.7

Q ss_pred             EEEeCCchHHHHHHHHHHHcCCcc--ceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           39 FRIKRSTQLKKLMNAYCDRQSVEL--NSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        39 FkIK~tt~L~kLm~aY~~~~g~~~--~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      +.+ ..+.+..|.+.-+.+.++..  ..+.+..||+.|...+||    +.+||.|.++
T Consensus        16 ~e~-~~~tv~~ll~~L~~~~~l~~~l~~~~vavN~~~v~~~~~~----l~~gDeV~i~   68 (74)
T 3rpf_C           16 FFI-KANDLKELRAILQEKEGLKEWLGVCAIALNDHLIDNLNTP----LKDGDVISLL   68 (74)
T ss_dssp             EEE-ECSSHHHHHHHHHTCTTTTTTTTTCEEEESSSEECCTTCC----CCTTCEEEEE
T ss_pred             Eee-CCCcHHHHHHHHHHCcCHHHHhhccEEEECCEEcCCCCcC----CCCCCEEEEE
Confidence            445 56789999998887644432  678999999998755554    8999999876

>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=90.90  E-value=1.5  Score=28.50  Aligned_cols=80  Identities=16%  Similarity=0.170  Sum_probs=60.2

Q ss_pred             CCcEEEEEEccCC---CEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEE-CCEecCCCCCccccCCcCCceeeeeecc
Q 034095           22 SAHINLKVKGQDG---NEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF-DGRRLRGEQTPDEVILLFCAFCSCKYGR   97 (104)
Q Consensus        22 ~~~I~lkV~~~~g---~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~f-dG~rI~~~~TP~~L~Medgdii~~~~~~   97 (104)
                      ..+++.|+.-...   -...+.|-..+||..+.+.-|+...+++.+--.+- ||.-|++.||+-..-|..|--.- ||-|
T Consensus         8 ~~kVtFkItltSdpklpfkvlsVPE~~PftAVlkfaaEeF~vp~~TsAiiT~dGiGInP~QtAGnvFlKhGseLr-lIPR   86 (92)
T 1j0g_A            8 MSKVSFKITLTSDPRLPYKVLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELR-IIPR   86 (92)
T ss_dssp             SCEEEEEEEETTSTTCCEEEEEEETTSBHHHHHHHHHHHTTCCSSSEEEECTTSCCCCCSSBHHHHHHHTCSEEE-EEEC
T ss_pred             CceEEEEEEEccCCCCCceEEecCccCchHHHHHHHHHHcCCCccceEEEecCCcccChhhccchhhhhcCceeE-eccc
Confidence            3577888764332   33477889999999999999999999887765555 79999999999988888776554 3444


Q ss_pred             cccCc
Q 034095           98 LNTGH  102 (104)
Q Consensus        98 ~~~~~  102 (104)
                      -..|.
T Consensus        87 DRVG~   91 (92)
T 1j0g_A           87 DRVGS   91 (92)
T ss_dssp             CSSCC
T ss_pred             ccccC
Confidence            44443

>2ylm_A Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70A {Homo sapiens}

Probab=88.71  E-value=0.78  Score=37.68  Aligned_cols=70  Identities=16%  Similarity=0.257  Sum_probs=56.1

Q ss_pred             cEEEEEEccCCCEE----EEEEeCCchHHHHHHHHHHHcCCccceEEEEEC------CEecC-CCCCcccc--CCcCCce
Q 034095           24 HINLKVKGQDGNEV----FFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD------GRRLR-GEQTPDEV--ILLFCAF   90 (104)
Q Consensus        24 ~I~lkV~~~~g~~v----~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fd------G~rI~-~~~TP~~L--~Medgdi   90 (104)
                      -|-||.-|.....+    ++-|++++++..|...-++++|++.++=--+|+      -+.|. .+.|-.+.  ++.+|||
T Consensus       132 LlFlK~yDp~~q~L~~~G~~~v~~~~kv~~l~~~i~~~~g~p~dt~l~lyEEi~~~~ie~l~~~~~t~~~~~~eL~~GdI  211 (530)
T 2ylm_A          132 MLFLKMYDPKTRSLNYCGHIYTPISCKIRDLLPVMCDRAGFIQDTSLILYEEVKPNLTERIQDYDVSLDKALDELMDGDI  211 (530)
T ss_dssp             EEEEEEEETTTTEEEEEEEEEEETTCBGGGTHHHHHHHHTCCTTCCEEEEEEEETTEEEECCCSSSBHHHHSTTCCTTEE
T ss_pred             EEEEEeeCCCCCEEEEEEEEEECCCCCHHHHHHHHHHHcCCCCCCceEEEEecCCCceeEcccccccHHHHHhcccCCCE
Confidence            45555557767676    578999999999999999999999976555554      45677 78999999  9999999


Q ss_pred             eee
Q 034095           91 CSC   93 (104)
Q Consensus        91 i~~   93 (104)
                      |-+
T Consensus       212 I~f  214 (530)
T 2ylm_A          212 IVF  214 (530)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            854

>4a3p_A Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {Homo sapiens} PDB: 4a3o_A 3pv1_A 3ppa_A* 3t9l_A 3lmn_A

Probab=88.06  E-value=1.2  Score=32.32  Aligned_cols=60  Identities=12%  Similarity=0.000  Sum_probs=49.3

Q ss_pred             CEEEEEEeCCchHHHHHHHHHHHcCCccc-eEEEEE-C----CEecCC-CCCccccCCcCCceeeee
Q 034095           35 NEVFFRIKRSTQLKKLMNAYCDRQSVELN-SIAFLF-D----GRRLRG-EQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        35 ~~v~FkIK~tt~L~kLm~aY~~~~g~~~~-~lrF~f-d----G~rI~~-~~TP~~L~Medgdii~~~   94 (104)
                      ..+.+.+.+...++.|.+.-|+..+++.+ .+|++. .    ...|.. ++|..++.+.+|+-|-+-
T Consensus       140 ~~~~~~~Sk~~ti~~l~~~~~~~~~i~~~~~~RlW~~~~~~~~~~L~~~~~tl~~~~l~~~Q~illE  206 (217)
T 4a3p_A          140 NVVTRRFSKADTIDTIEKEIRKIFSIPDEKETRLWNKYMSNTFEPLNKPDSTIQDAGLYQGQVLVIE  206 (217)
T ss_dssp             EEEEEEECTTSBHHHHHHHHHHHTTCCTTSCEEEEEEEETTEEEECCCTTSBHHHHTCCTTCEEEEE
T ss_pred             cceEEEEcccchHHHHHHHHHHHhCCCCCCceEEEEecCCCCeeecCCCCCCHHHhCCCCCCEEEEE
Confidence            34578889999999999999999999986 799985 2    345555 579999999999987654

>2ylm_A Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70A {Homo sapiens}

Probab=86.70  E-value=0.79  Score=37.63  Aligned_cols=37  Identities=11%  Similarity=0.253  Sum_probs=33.3

Q ss_pred             EEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEe
Q 034095           37 VFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRR   73 (104)
Q Consensus        37 v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~r   73 (104)
                      ..|||.+++++..|.+..|+..|++.+.+|||.=-.|
T Consensus        38 ~~~rv~k~~~~~~l~~~va~~lg~~~~~~RlW~~~~R   74 (530)
T 2ylm_A           38 TVFKVLKNSSLAEFVQSLSQTMGFPQDQIRLWPMQAR   74 (530)
T ss_dssp             EEEEEETTSBHHHHHHHHHHHHTSCGGGEEEEEEEEC
T ss_pred             ceEEEcCcCCHHHHHHHHHHHhCcCcccEEEEEEEcC
Confidence            4799999999999999999999999999999984333

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

Probab=84.41  E-value=2.3  Score=24.92  Aligned_cols=55  Identities=9%  Similarity=0.030  Sum_probs=39.3

Q ss_pred             CCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           33 DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        33 ~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      +|..  +.+...+.+..|.+..    +++...+.+..||+-+...+ -.+--+.+||.|.++
T Consensus         6 Ng~~--~~~~~~~tv~~ll~~l----~~~~~~v~vavN~~~v~~~~-~~~~~L~~gD~v~i~   60 (66)
T 1f0z_A            6 NDQA--MQCAAGQTVHELLEQL----DQRQAGAALAINQQIVPREQ-WAQHIVQDGDQILLF   60 (66)
T ss_dssp             SSCE--ECCCTTCCHHHHHHHH----TCCCSSEEEEETTEEECHHH-HTTCCCCTTEEECEE
T ss_pred             CCEE--EEcCCCCcHHHHHHHc----CCCCCCEEEEECCEECCchh-cCCcCCCCCCEEEEE
Confidence            5555  3456667888888764    67788899999999997421 112358999999876

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

Probab=84.11  E-value=1.7  Score=27.71  Aligned_cols=62  Identities=16%  Similarity=0.213  Sum_probs=43.0

Q ss_pred             CcEEEEEEccCCCEEEEEEeCC-chHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           23 AHINLKVKGQDGNEVFFRIKRS-TQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        23 ~~I~lkV~~~~g~~v~FkIK~t-t~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      ..++|.|   +|..  +.+... +.+..|.+..    +++...+.+..||+.|..++ -.+--+.|||.|.++
T Consensus        19 ~~M~I~v---NGe~--~el~~~~~Tv~dLL~~L----~~~~~~vaVavNg~iV~~~~-~~~~~L~dGD~Vei~   81 (87)
T 1tyg_B           19 GRHMLQL---NGKD--VKWKKDTGTIQDLLASY----QLENKIVIVERNKEIIGKER-YHEVELCDRDVIEIV   81 (87)
T ss_dssp             ---CEEE---TTEE--ECCSSSCCBHHHHHHHT----TCTTSCCEEEETTEEECGGG-TTTSBCCSSSEEEEE
T ss_pred             cceEEEE---CCEE--EECCCCCCcHHHHHHHh----CCCCCCEEEEECCEECChhh-cCCcCCCCCCEEEEE
Confidence            3456666   5654  455666 7888888754    67788899999999997532 223459999999986

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

Probab=83.60  E-value=5.6  Score=24.25  Aligned_cols=55  Identities=11%  Similarity=0.055  Sum_probs=41.4

Q ss_pred             CEEEEEEeCCchHHHHHHHHHHHcC-Cc----------cceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           35 NEVFFRIKRSTQLKKLMNAYCDRQS-VE----------LNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        35 ~~v~FkIK~tt~L~kLm~aY~~~~g-~~----------~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      .+..+.+...+.++.|.+.-+.+.. +.          ...+.+..||+.+.. +|    -+.|||.|.++
T Consensus        18 ~~~~~~~~~~~Tv~~ll~~L~~~~p~~~~~~l~~~g~l~~~~~v~VN~~~v~~-~~----~l~~gDeV~i~   83 (89)
T 3po0_A           18 RTVRVDVDGDATVGDALDALVGAHPALESRVFGDDGELYDHINVLRNGEAAAL-GE----ATAAGDELALF   83 (89)
T ss_dssp             SEEEEECCTTCBHHHHHHHHHHHCGGGHHHHBCTTSCBCTTSEEEETTEECCT-TS----BCCTTCEEEEE
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHCcHHHHHHhccCCcccccEEEEECCEECCC-Cc----ccCCCCEEEEE
Confidence            5667777777899999998887753 21          124889999999974 44    49999999876

>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=82.28  E-value=7.7  Score=25.86  Aligned_cols=70  Identities=17%  Similarity=0.282  Sum_probs=52.6

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHc-CCccceEEEEE--CCEecCC-CCCccccCCcCCceee
Q 034095           23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQ-SVELNSIAFLF--DGRRLRG-EQTPDEVILLFCAFCS   92 (104)
Q Consensus        23 ~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~-g~~~~~lrF~f--dG~rI~~-~~TP~~L~Medgdii~   92 (104)
                      ...+|.|+-.||..+.-+...+.+++.|++.-.... +.+...+.|+-  =.+.+.+ ++|-++++|....+|-
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            456778888899999999999999999998765543 34456677664  3555553 7899999999876653

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

Probab=80.59  E-value=4.2  Score=24.81  Aligned_cols=59  Identities=14%  Similarity=0.231  Sum_probs=44.2

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        24 ~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      +|+|++-..  ....+.+...++++.|.+    +.|+++..+-+..||+-+..++     -+ +||.|.++
T Consensus         2 ~v~Vkl~g~--~~~~~ev~~g~Tv~dLL~----~Lgl~~~~VvV~vNG~~v~~d~-----~l-~GD~VeIv   60 (74)
T 2l32_A            2 NVTVEVVGE--ETSEVAVDDDGTYADLVR----AVDLSPHEVTVLVDGRPVPEDQ-----SV-EVDRVKVL   60 (74)
T ss_dssp             EEEEECSSS--SEEEEECSTTCSHHHHHH----TTCCCSSCCCEECCCCCCCTTS-----SS-CCCCEEEC
T ss_pred             EEEEEEeCc--cceeEEcCCCCcHHHHHH----HcCCCcceEEEEECCEECCHHH-----CC-CCCEEEEE
Confidence            366666533  344678888888888775    5899999999999999887766     23 49998876

---

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	104
d1wm3a_	72	d.15.1.1 (A:) SUMO-2 {Human (Homo sapiens) [TaxId:	2e-27
d2uyzb1	77	d.15.1.1 (B:20-96) SUMO-1 (smt3 homologue) {Human	2e-24
d1euvb_	79	d.15.1.1 (B:) SUMO-1 (smt3 homologue) {Baker's yea	4e-20

>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 = 93.3 bits (232), Expect = 2e-27
 Identities = 32/59 (54%), Positives = 40/59 (67%)

Query: 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDE 82
          HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F FDG+ +    TP +
Sbjct: 1  HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQ 59

>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 = 85.9 bits (213), Expect = 2e-24
 Identities = 30/59 (50%), Positives = 42/59 (71%)

Query: 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDE 82
          +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FLF+G+R+    TP E
Sbjct: 2  YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKE 60

>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 = 75.2 bits (185), Expect = 4e-20
 Identities = 28/61 (45%), Positives = 45/61 (73%), Gaps = 1/61 (1%)

Query: 22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPD 81
            HINLKV     +E+FF+IK++T L++LM A+  RQ  E++S+ FL+DG R++ +QTP+
Sbjct: 2  ETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPE 60

Query: 82 E 82
          +
Sbjct: 61 D 61

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	104
d1wm3a_	72	SUMO-2 {Human (Homo sapiens) [TaxId: 9606]}	99.96
d2uyzb1	77	SUMO-1 (smt3 homologue) {Human (Homo sapiens) [Tax	99.95
d1euvb_	79	SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomy	99.92
d1j8ca_	103	Ubiquitin-like N-terminal domain of PLIC-2 {Human	99.06
d1uh6a_	100	Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculu	98.94
d1ttna1	80	Dendritic cell-derived ubiquitin-like protein {Hum	98.88
d1z2ma2	76	Interferon-induced 15 kDa protein {Human (Homo sap	98.85
d1m94a_	73	Ubiquitin-like modifier protein hub1 {Baker's yeas	98.84
d1bt0a_	73	Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxI	98.79
d1oqya4	77	Ubiquitin-like domain of Rad23 homolog A (Hhr23a)	98.78
d1ogwa_	76	Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}	98.78
d1wx8a1	83	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	98.76
d1wh3a_	87	2'-5'-oligoadenylate synthetase-like protein, OASL	98.74
d1yqba1	84	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	98.72
d2zeqa1	78	Ubiquitin-like domain of parkin {Mouse (Mus muscul	98.64
d2faza1	76	Ubiquitin-like PHD and RING finger domain-containi	98.59
d2bwfa1	73	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	98.57
d1uela_	95	Ubiquitin-like domain of Rad23 homolog B (Hhr23B)	98.51
d1z2ma1	76	Interferon-induced 15 kDa protein {Human (Homo sap	98.49
d1wgha_	116	Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculu	98.49
d1zkha1	86	Splicing factor 3 subunit 1, C-terminal domain {Hu	98.47
d1wy8a1	76	Ubiquitin-like PHD and RING finger domain-containi	98.44
d1v5oa_	102	1700011n24rik protein {Mouse (Mus musculus) [TaxId	98.4
d1wjua_	100	NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens	98.37
d1wx9a1	73	Large proline-rich protein BAT3 {Human (Homo sapie	98.37
d1wgga_	96	Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (M	98.3
d1we6a_	111	Splicing factor 3 subunit 1, C-terminal domain {Th	98.19
d1se9a_	101	Hypothetical protein At3g01050 {Thale cress (Arabi	98.14
d1wiaa_	95	Ubiquitin-like protein bab25500 (2010008E23Rik) {M	98.1
d1v86a_	95	hypothetical D7wsu128e protein {Mouse (Mus musculu	98.09
d1v2ya_	105	Ubiquitin-like protein 3300001g02rik {Mouse (Mus m	97.99
d1wjna_	97	Tubulin-folding protein TbcE {Mouse (Mus musculus)	97.91
d1wxva1	81	Bag-family molecular chaperone regulator-1 {Human	97.85
d1v5ta_	90	8430435i17rik protein {Mouse (Mus musculus) [TaxId	97.8
d2c9wb1	103	Elongin B {Human (Homo sapiens) [TaxId: 9606]}	97.63
d1wgda_	93	Homocysteine-responsive endoplasmic reticulum-resi	97.46
d2al3a1	76	Tether containing UBX domain for GLUT4 (Tug) {Mous	97.1
d1v6ea_	95	Ubiquitin-like domain of tubulin folding cofactor	96.8
d1x1ma1	94	Ubiquitin-like protein 7 {Mouse (Mus musculus) [Ta	96.69
d1t0ya_	90	Ubiquitin-like domain of tubulin folding cofactor	96.57
d2cr5a1	96	UBX domain-containing protein 6 (Reproduction 8) {	96.37
d1i42a_	89	p47 {Rat (Rattus norvegicus) [TaxId: 10116]}	94.65
d1wf9a1	94	NPL4-like protein 1 {Thale cress (Arabidopsis thal	92.99
d1j0ga_	92	Hypothetical protein 1810045k17 {Mouse (Mus muscul	92.51
d2npta1	105	Mitogen activated protein kinase kinase 5, Map2k5	92.42
d1h8ca_	82	Fas-associated factor 1, Faf1 {Human (Homo sapiens	91.41
d1vjka_	88	Molybdopterin synthase subunit MoaD {Pyrococcus fu	91.09
d1ef1a3	84	Moesin {Human (Homo sapiens) [TaxId: 9606]}	89.22
d1ip9a_	85	Bud emergence mediator Bemp1 {Baker's yeast (Sacch	88.72
d1y8xb1	92	UBA3 {Human (Homo sapiens) [TaxId: 9606]}	86.36
d1h4ra3	84	Merlin {Human (Homo sapiens) [TaxId: 9606]}	84.72
d1wgya_	104	Rap guanine nucleotide exchange factor 5, RapGEF5	83.96
d1wxma1	73	A-Raf proto-oncogene serine/threonine-protein kina	80.73
d1wgra_	100	Growth factor receptor-bound protein 7, GRB-7 {Hum	80.39

>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=5.7e-30  Score=161.58  Aligned_cols=71  Identities=45%  Similarity=0.699  Sum_probs=69.7

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        24 ~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      +|+|+|++++|++++|+||++++|++||++||++.+++++.++|+|||++|.+++||++|+|||||+|||.
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            69999999999999999999999999999999999999999999999999999999999999999999995

>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=99.95  E-value=1e-27  Score=152.23  Aligned_cols=75  Identities=40%  Similarity=0.657  Sum_probs=72.5

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeeecc
Q 034095           23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYGR   97 (104)
Q Consensus        23 ~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~~   97 (104)
                      ++|+|+|++++|+++.|+|++++||++||++||++.|++++.+||+|||.+|.+++||++|+|||||+|||.+..
T Consensus         1 e~I~ikv~~~dg~~v~f~v~~~t~l~kl~~~y~~~~~~~~~~~~f~fdG~~l~~~~T~~~l~~edgD~Idv~~~q   75 (77)
T d2uyzb1           1 EYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQ   75 (77)
T ss_dssp             CEEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCHHHHTCCTTEEEEEEECC
T ss_pred             CEEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCChhHEEEEECCEECCCCCCHHHcCCCCCCEEEEEEec
Confidence            479999999999999999999999999999999999999999999999999999999999999999999998743

>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=99.92  E-value=7.4e-25  Score=139.29  Aligned_cols=74  Identities=38%  Similarity=0.701  Sum_probs=70.7

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeeec
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYG   96 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~   96 (104)
                      +.+|+|+|.+ +|++++|+|+++++|++||++||++.|++++.++|+|+|++|.+++||++|+|+|||+|+|.+-
T Consensus         2 ~~~I~ikv~~-~~~~~~f~v~~~~~~~~l~~~~~~~~~i~~~~~~l~f~G~~l~~~~T~~~~~i~dgd~I~v~~~   75 (79)
T d1euvb_           2 ETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHRE   75 (79)
T ss_dssp             CSEEEEEEES-SSCEEEEEEETTSCTHHHHHHHHHHTTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEEC
T ss_pred             CcEEEEEECC-CCeEEEEEECCCCcHHHHHHHHHHHhCCChHhEEEEECCEEeCCCCCHHHCCCCCCCEEEEEEe
Confidence            5799999986 7899999999999999999999999999999999999999999999999999999999999863

>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=99.06  E-value=3.3e-09  Score=68.89  Aligned_cols=73  Identities=14%  Similarity=0.178  Sum_probs=67.2

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      ...|+|+|...++ ...|.|.+++....|.+.-+++.|++.+..|++|.|+.+.++.|-+++++++|++|.+.+
T Consensus        30 ~~~i~V~Vk~~~~-~~~i~V~~~~tV~~LK~~I~~~~gi~~~~qrLi~~Gk~L~D~~tL~~~~I~~g~~I~lvl  102 (103)
T d1j8ca_          30 PKIIKVTVKTPKE-KEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVI  102 (103)
T ss_dssp             CCCEEEEEECSSC-EEEEEECTTCCHHHHHHHHHHHHCSCSSSEEEEETTEEESTTSCGGGTTCSSSEEEEEEE
T ss_pred             CCeEEEEEECCCc-cEEEEECCCChHHHHHHHHHHHHCcCHHHeeeeeeeecccCCCcHHHcCCCCCCEEEEEE
Confidence            4579999998666 468999999999999999999999999999999999999999999999999999998754

>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=98.94  E-value=6.7e-09  Score=67.88  Aligned_cols=75  Identities=9%  Similarity=0.042  Sum_probs=71.3

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           21 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        21 ~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      ...-|.|.|.+..|..+.+.|.++++...|.+.-+++.|++++..|++|.|+.+.++.|-++.++.||+.|...|
T Consensus        25 ~~~~i~V~V~~~~Gk~~~v~V~p~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~dygI~~GstI~L~~   99 (100)
T d1uh6a_          25 AATMIEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDYEIHDGMNLELYY   99 (100)
T ss_dssp             CCCEEEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCSSCBHHHHTCCTTEEEEEEC
T ss_pred             CCceEEEEEECCCCCEEEEEECCcChHHHHHHHHHHHHCCCcceEEEEEEeecccCcCCHHHcCCCCCCEEEEEE
Confidence            356799999999999999999999999999999999999999999999999999999999999999999998765

>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=98.88  E-value=4.7e-09  Score=65.25  Aligned_cols=74  Identities=14%  Similarity=0.203  Sum_probs=69.9

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeeec
Q 034095           23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYG   96 (104)
Q Consensus        23 ~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~   96 (104)
                      ..|.|+|+..+|..+.+.|.+++....|...-+++.|++++..|++|+|+.+.++.|-+++++.+|+.|.+.+-
T Consensus         2 ~e~qi~Vk~~~G~~~~l~V~~~~tV~~lK~~I~~~~~ip~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lvi~   75 (80)
T d1ttna1           2 YECQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELKIPKDYVVQVIVS   75 (80)
T ss_dssp             CSEEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTCCCSTTCEEEETTEECCTTSHHHHCCCSSSCEEEEECC
T ss_pred             CeEEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCcccEEEEECceEcCCCCcHHHcCCCCCCEEEEEec
Confidence            35789999999999999999999999999999999999999999999999999999999999999999998764

>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=98.85  E-value=2.2e-08  Score=61.28  Aligned_cols=72  Identities=13%  Similarity=0.188  Sum_probs=68.3

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        23 ~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      +.|.|.|+..+|..+.+.|.++.+...|....+++.|++++..|++|.|+.+.++.|-+++++++|+.|-+.
T Consensus         2 ~~~qi~Vk~~~G~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~qrL~~~gk~L~d~~tL~~y~I~~~sti~l~   73 (76)
T d1z2ma2           2 EPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMN   73 (76)
T ss_dssp             CCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEE
T ss_pred             CCEEEEEEcCCCCEEEEEECCCCcHHHHHHHHHHHhcCChhHeEEEECCeECCCCCcHHHcCCCCCCEEEEE
Confidence            468899999999999999999999999999999999999999999999999999999999999999999664

>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=98.84  E-value=6.4e-09  Score=63.78  Aligned_cols=71  Identities=13%  Similarity=0.107  Sum_probs=68.1

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      |.|.|.+..|..+.+.|.++++...|.+.-+++.|++++..|++|+|+.+.++.|-++.++.+|+.|...|
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            67888999999999999999999999999999999999999999999999999999999999999998876

>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=98.79  E-value=2.6e-08  Score=60.61  Aligned_cols=70  Identities=13%  Similarity=0.239  Sum_probs=65.9

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .|.|+.-+|..+.+.|.++++...|....+++.|++++..|+.|.|+.+.++.|-+++++++|+.|-+.+
T Consensus         2 ~I~Vk~~~G~~~~l~V~~~~tV~~lK~~i~~~~gi~~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lvl   71 (73)
T d1bt0a_           2 LIKVKTLTGKEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADDKTAKDYNIEGGSVLHLVL   71 (73)
T ss_dssp             EEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEE
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCCChHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEe
Confidence            4677788999999999999999999999999999999999999999999999999999999999998764

>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=98.78  E-value=6.9e-09  Score=63.98  Aligned_cols=72  Identities=10%  Similarity=0.147  Sum_probs=66.5

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcC---CccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQS---VELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        24 ~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g---~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .|+|.|+..+|....+.|.+++....|.+..+++.|   ++++..|++|.|+.+.++.|-+++++.+|++|-|.+
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            367888888999999999999999999999999987   789999999999999999999999999999997753

>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=98.78  E-value=2.8e-08  Score=60.88  Aligned_cols=70  Identities=13%  Similarity=0.227  Sum_probs=65.7

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .|.|+..+|....+.|.+++....|.+..+.+.|++++..|++|.|+.+.++.|-+++++++|+.|.+.+
T Consensus         2 qI~Vk~l~G~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~qrL~~~Gk~L~d~~tL~~y~i~~~s~I~L~~   71 (76)
T d1ogwa_           2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL   71 (76)
T ss_dssp             EEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEE
T ss_pred             EEEEEcCCCCEEEEEECCCCcHHHHHHhhhhhcCCChHHEEeEECCeEcCCCCCHHHcCCCCCCEEEEEE
Confidence            5777888999999999999999999999999999999999999999999999999999999999997654

>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=98.76  E-value=1.3e-08  Score=63.66  Aligned_cols=72  Identities=14%  Similarity=0.197  Sum_probs=66.0

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      +..|.|.|...++ ...|.|.+++....|.+..+++.+++++..|++|.|..+.++.|.+++++++|++|-+.
T Consensus         8 ~~~i~v~Vk~~~~-~~~i~v~~~~tV~~lK~~I~~~~~v~~~~qrL~f~Gk~L~d~~tL~~~gI~~gs~I~lv   79 (83)
T d1wx8a1           8 SRIIRVSVKTPQD-CHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQRGILDGSTVHVV   79 (83)
T ss_dssp             SCEEEEEEECSSS-EEEEEEETTCCHHHHHHHHHHHTCSCTTTBCCEETTEECCTTSCHHHHTCCTTEEEECC
T ss_pred             CCeEEEEEEcCCC-cEEEEECCCChHHHHHHHHHHHhCCChhHEEEEEEhhccccCCcHHHcCCCCCCEEEEE
Confidence            4679999998655 55899999999999999999999999999999999999999999999999999999754

>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=98.74  E-value=4.4e-08  Score=61.58  Aligned_cols=78  Identities=17%  Similarity=0.104  Sum_probs=71.3

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeeecccc
Q 034095           21 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYGRLN   99 (104)
Q Consensus        21 ~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~~~~   99 (104)
                      ....+.|.|+..+|..+.+.|.+++....|....+++.|++++..|++|.|+.+.++.|-.++++++|++|-+.. |+.
T Consensus         4 ~s~~mqI~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~stl~l~~-r~~   81 (87)
T d1wh3a_           4 GSSGIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYGIQDSDTLILSK-KKG   81 (87)
T ss_dssp             CSSSEEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTCCCTTTEEEEETTEECCSSSBHHHHTCCTTEEEEEEE-CSC
T ss_pred             CCCcEEEEEECCCCCEEEEEECCcCcHHHHHHHHHHHHCcChHHeEEEeeceEcCCCCcHHHcCCCCCCEEEEEe-cCC
Confidence            456788999999999999999999999999999999999999999999999999999999999999999997653 443

>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=98.72  E-value=7.6e-08  Score=60.18  Aligned_cols=73  Identities=12%  Similarity=0.177  Sum_probs=67.2

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      +..|.|.|+..++ ...|.|.++.....|...-+++.|++++..|++|.|..+.++.|-+++++++|+.|.+..
T Consensus         5 ~~~i~I~Vkt~~~-~~~~~V~~~~tV~~lK~~i~~~~gi~~~~qrL~~~Gk~L~D~~tL~~y~i~~gsti~lv~   77 (84)
T d1yqba1           5 PHLIKVTVKTPKD-KEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVI   77 (84)
T ss_dssp             TTEEEEEEECSSC-EEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBHHHHTCCTTCEEEEEE
T ss_pred             CCEEEEEEEcCCC-cEEEEECCCCcHHHHHHHHHHHHCcCchhEEEEEeeeeccccCcHHHcCCCCCCEEEEEE
Confidence            4579999998655 568999999999999999999999999999999999999999999999999999998764

>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=98.64  E-value=1.7e-07  Score=57.91  Aligned_cols=70  Identities=16%  Similarity=0.180  Sum_probs=66.3

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      +.|.|+..+|..+.+.|.+++....|.+..+++.|++++..|++|.|+.+.++.|-+++++++|.+|.+.
T Consensus         3 M~I~Vk~~~g~t~~l~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lv   72 (78)
T d2zeqa1           3 MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKRQGVPADQLRVIFAGKELPNHLTVQNCDLEQQSIVHIV   72 (78)
T ss_dssp             EEEEEESSSSSCEEEEECTTCBHHHHHHHHHHHHTCCGGGEEEEETTEEECTTCBGGGSSCCTTCEEEEE
T ss_pred             eEEEEEcCCCCEEEEEEcccccHHHHHHHHHHHHCcChhHeEEEEeeeEcCCCCCHHHcCCCCCCEEEEE
Confidence            4678888889999999999999999999999999999999999999999999999999999999999874

>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=98.59  E-value=2.8e-07  Score=56.79  Aligned_cols=70  Identities=14%  Similarity=0.157  Sum_probs=62.6

Q ss_pred             EEEEEccCCC-EEEE-EEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           26 NLKVKGQDGN-EVFF-RIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        26 ~lkV~~~~g~-~v~F-kIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .|.|+.-+|. ...+ .+.+++....|....+++.|+|++..|++|.|+.+.++.|-+++++++|+.|.+.+
T Consensus         2 ~I~Vktl~Gk~t~~l~~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~y~I~~~sti~lv~   73 (76)
T d2faza1           2 WIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQLLV   73 (76)
T ss_dssp             EEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTTTTTCCTTCEEEEEE
T ss_pred             EEEEEeCCCCcEEEEecCCCCCCHHHHHHHHHHHHCcChHHeEEEEeeEeccCCCcHHHcCCCCCCEEEEEE
Confidence            4677788885 4555 58999999999999999999999999999999999999999999999999998654

>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=98.57  E-value=3.4e-07  Score=55.61  Aligned_cols=70  Identities=10%  Similarity=0.178  Sum_probs=63.3

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      |+|.|... +....+.|.++.....|.+..+++.|++++..|++|.|+.+.++.|-.++++.+|+.|-+.-
T Consensus         2 i~I~Vk~~-~~~~~i~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~I~~g~~i~lV~   71 (73)
T d2bwfa1           2 LNIHIKSG-QDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVK   71 (73)
T ss_dssp             EEEEEEET-TEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEE
T ss_pred             EEEEEEeC-CeEEEEEECCCChHHHHHHHHHHHHCcChHHeEEEECCeEccCCCcHHHCCCCCCCEEEEEe
Confidence            67888874 44578999999999999999999999999999999999999999999999999999997643

>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=98.51  E-value=5.3e-07  Score=57.11  Aligned_cols=72  Identities=11%  Similarity=0.152  Sum_probs=64.9

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcC---CccceEEEEECCEecCCCCCccccCCcCCceeeeeecc
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQS---VELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYGR   97 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g---~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~~   97 (104)
                      .|.|+.-+|..+.+.|.+++....|.+.-+++.|   ++.+..|++|.|+.+.++.|-+++++++|++|-+.+.+
T Consensus         2 ~I~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~~~~i~~~~qrLi~~Gk~L~d~~tL~~y~I~~~s~i~lv~~~   76 (95)
T d1uela_           2 QVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKNFVVVMVTK   76 (95)
T ss_dssp             EEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECCTTSBGGGGTCCSSSEEEEEESS
T ss_pred             EEEEEeCCCCEEEEEECCCccHHHHHHHHHhhhcccCCCccceEEEECCeEccCCCcHHHcCCCCCCEEEEEECC
Confidence            3566677899999999999999999999999876   78899999999999999999999999999999987754

>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=98.49  E-value=5.8e-07  Score=55.09  Aligned_cols=70  Identities=17%  Similarity=0.072  Sum_probs=65.4

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEE--CCEecCCCCCccccCCcCCceeeeee
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF--DGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~f--dG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .|+|+.-+|..+.+.|.+++....|...-+++.|+|++.-|++|  .|+.+.++.|-+++++.+|++|-+.+
T Consensus         2 ~l~Vk~l~G~~~~v~V~~~~tV~~lK~~I~~~~gip~~~QrLi~~~~Gk~L~D~~tL~~y~i~~g~~i~lv~   73 (76)
T d1z2ma1           2 DLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVV   73 (76)
T ss_dssp             EEEEEESSSCEEEEECCSSCCHHHHHHHHHHHHCCCGGGEEEEEETTCCBCCSSSCSGGGTCCTTCEEEEEE
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhccCCccEEEEEcCCCeeccCCCcHHHcCCCCCCEEEEEE
Confidence            57788888999999999999999999999999999999999999  59999999999999999999998764

>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=98.49  E-value=4.3e-07  Score=60.46  Aligned_cols=72  Identities=19%  Similarity=0.236  Sum_probs=66.2

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHH--------HHHcCCccceEEEEECCEecCCCCCccccCCcCCceeee
Q 034095           22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAY--------CDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSC   93 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY--------~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~   93 (104)
                      .+.|+|+|+..+|....|.|.+++....|.+..        +++.+++++..|++|.|+.|.++.|-.++++.+|+.+-+
T Consensus        14 ~~~i~i~v~~l~Gk~~~~~v~p~~TV~~lK~~I~~~~p~~~~e~~~~~~~~qRLiy~Gk~L~D~~tL~~~~i~~g~~~~l   93 (116)
T d1wgha_          14 ADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTTVM   93 (116)
T ss_dssp             SSSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTCCSSCEEEE
T ss_pred             CCeEEEEEEEcCCCEEEEEECCcchHHHHHHHHHhhcccccccccCCChHHeEEEECCEEecCCCCHHHcCCCCCCEEEE
Confidence            568999999999999999999999999999888        466889999999999999999999999999999996544

>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=98.47  E-value=7.2e-07  Score=56.11  Aligned_cols=63  Identities=8%  Similarity=0.118  Sum_probs=59.6

Q ss_pred             CCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           33 DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        33 ~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      +|..+.+.|.+++..+.|.+..+++.|++++..+++|.|..+.++.|-+++++.+|+.|-+..
T Consensus        20 ~G~~~~l~v~~~~tV~~lK~~I~~~~~ip~~~q~Li~~Gk~L~D~~tL~dY~I~~gsti~l~~   82 (86)
T d1zkha1          20 NGQVLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMANGAVIHLAL   82 (86)
T ss_dssp             SSCEEEEEECTTSBHHHHHHHHHHHTCCCTTTEEEEETTEEECTTSBHHHHTCCTTEEEEEEE
T ss_pred             CCeEEEEEECCCChHHHHHHHHHhhhcCChHHEEEEeCCcCcCCCCCHHHcCCCCCCEEEEEE
Confidence            677889999999999999999999999999999999999999999999999999999997643

>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=98.44  E-value=1e-06  Score=54.11  Aligned_cols=70  Identities=13%  Similarity=0.155  Sum_probs=61.6

Q ss_pred             EEEEEccCCC-EEEE-EEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           26 NLKVKGQDGN-EVFF-RIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        26 ~lkV~~~~g~-~v~F-kIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      .|.|+.-+|. ...+ .|.+++....|....+++.|++.+..|++|.|+.+.++.|-++.++++|++|.+.+
T Consensus         2 ~I~Vk~l~G~~t~~~~~v~~~~TV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~s~i~lv~   73 (76)
T d1wy8a1           2 WIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDYDVGLNDIIQLLV   73 (76)
T ss_dssp             EEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCCTTTEEEEETTEECCSSSBHHHHTCCTTCEEEEEE
T ss_pred             EEEEEeCCCCceEEEeccCCCChHHHHHHHHHHHHCCCchhcEEEEEeeEecCCCCHHHcCCCCCCEEEEEE
Confidence            4566666774 4555 69999999999999999999999999999999999999999999999999997653

>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=98.40  E-value=7.4e-07  Score=57.79  Aligned_cols=73  Identities=7%  Similarity=-0.024  Sum_probs=62.7

Q ss_pred             CcEEEEE----EccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecC-CCCCccccCCcCCceeeeee
Q 034095           23 AHINLKV----KGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLR-GEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        23 ~~I~lkV----~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~-~~~TP~~L~Medgdii~~~~   95 (104)
                      .-+.|.|    ++.++..+.+.|.+++.+..|...-+.+.|++++..|++|+|+.|. ++.|-+++++.||++|-+..
T Consensus         6 ~~m~itV~~~~~~~~~~t~~l~V~~~~tV~~LK~~Ie~~~gip~~~Q~Li~~Gk~L~dd~~tL~~~gI~~g~~i~l~~   83 (102)
T d1v5oa_           6 SGMLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVLLQ   83 (102)
T ss_dssp             CCEEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTCCCGGGBCEEETTEEECCSSSBHHHHTCCTTEEEEECB
T ss_pred             CCEEEEEEecccCCCCCEEEEEECCcccHHHHHHHHHHHhCCCcceEEEEeCCeEeecccCCHHHcCCCCCCEEEEEE
Confidence            3445555    4566888899999999999999999999999999999999999996 56799999999999996543

>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=98.37  E-value=1e-06  Score=56.95  Aligned_cols=75  Identities=9%  Similarity=0.053  Sum_probs=66.0

Q ss_pred             cEEEEEE--ccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeeeccc
Q 034095           24 HINLKVK--GQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYGRL   98 (104)
Q Consensus        24 ~I~lkV~--~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~~~   98 (104)
                      .|.|.|.  ...+..+.+.|+.+...+.|.+.-+++.|++++..+++|.|+.|..++|-+++++.+|+.|-|+.-+-
T Consensus        17 ti~V~~~~~~~~g~~~~lev~~~~TV~~LK~~I~~~~gi~~~~qkLi~~Gk~L~d~~tL~~~gI~~~s~i~vi~~~~   93 (100)
T d1wjua_          17 TIEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEEQGVAHNVKAMVLELKQ   93 (100)
T ss_dssp             EEEEECCTTTCCSSSEEEEEESSSBHHHHHHHHHHHTTCCSTTCEEEETTEECCTTSBHHHHTCCSSEEEEEECCCC
T ss_pred             EEEEEEeeccCCCeEEEEEECCCcHHHHHHHHHHHHHCCCCeeEEEEEcccCcCCCcCHHHcCCCCCCEEEEEEcCC
Confidence            4444442  34578889999999999999999999999999999999999999999999999999999998886543

>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=98.37  E-value=5.6e-07  Score=54.70  Aligned_cols=69  Identities=14%  Similarity=0.191  Sum_probs=63.6

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      +.|.|+.-+|....+.|.+++....|...-+++.|++++..|++|.|+.+.++.|-.++++ +|..|-+.
T Consensus         1 m~I~Vk~~~g~~~~l~V~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~tL~dy~i-~~~ti~lv   69 (73)
T d1wx9a1           1 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLV   69 (73)
T ss_dssp             EEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHCCCTTTCCCEETTEECCSSSBHHHHTC-TTEEEBCC
T ss_pred             CEEEEEcCCCCEEEEEECCCChHHHHHHHHHHHhCCChHHEEEEECCeEccCCCCHHHhCC-CCCEEEEE
Confidence            4688888899999999999999999999999999999999999999999999999999999 57877544

>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=98.30  E-value=1.2e-06  Score=55.92  Aligned_cols=73  Identities=8%  Similarity=-0.034  Sum_probs=66.2

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           21 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        21 ~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      ++..|+|+|+.-.+....+.|.++.+...|.+..++..|++++..|++|.|+.+.+ +|-.++++.+|+.|-++
T Consensus         4 ~s~~~~I~VK~~~~~~~~v~v~~~~tV~~lK~~i~~~~gvp~~~QkLi~~Gk~L~d-~tL~~~gi~~g~~i~lv   76 (96)
T d1wgga_           4 GSSGYSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKD-DDWGNIKMKNGMTVLMM   76 (96)
T ss_dssp             CCCEEEEEEEETTEEEEEEEEESSSCHHHHHHHHHHHTCCCTTTSCCEETTEECCS-SCCCSCCCCSSCEEECC
T ss_pred             CCCceEEEEEeCCCCEEEEEECCCCcHHHHHHHhhhhcCccceeeEEeecCcccCC-CcHHHCCCCCCCEEEEE
Confidence            46789999998777666799999999999999999999999999999999999985 58999999999998774

>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=98.19  E-value=2.9e-06  Score=55.84  Aligned_cols=72  Identities=10%  Similarity=0.064  Sum_probs=64.2

Q ss_pred             CcEEEEEEc---cCCCEEEEEEeC-CchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           23 AHINLKVKG---QDGNEVFFRIKR-STQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        23 ~~I~lkV~~---~~g~~v~FkIK~-tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      ..++|+|.-   .+|..+.+.|.+ +++...|....+++.|++++..|++|.|+.+.++.|-+++++++|+.|.+.
T Consensus        26 g~~ti~V~v~~~~~G~~i~l~v~~~sdtV~~lK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~ynI~~gsti~L~  101 (111)
T d1we6a_          26 GPATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAHYNVGAGEILTLS  101 (111)
T ss_dssp             SCEEEEECCTTCSSSCCEEEEESCSSSBHHHHHHHHHHHTTCCTTTSEEECSSSBCCTTSBTTTTTCSSSCEEEEE
T ss_pred             CCEEEEEEcccCCCCeEEEEEecCCccHHHHHHHHHHHHHCCCccceEEEEeeEEccccCCHHHcCCCCCCEEEEE
Confidence            346666653   368899999986 899999999999999999999999999999999999999999999999754

>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=98.14  E-value=1.9e-05  Score=51.32  Aligned_cols=69  Identities=12%  Similarity=0.218  Sum_probs=62.0

Q ss_pred             CCcEEEEEEccCCCEE-EEEEeCCchHHHHHHHHHHH-----cCCc--cceEEEEECCEecCCCCCccccCCcCCce
Q 034095           22 SAHINLKVKGQDGNEV-FFRIKRSTQLKKLMNAYCDR-----QSVE--LNSIAFLFDGRRLRGEQTPDEVILLFCAF   90 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v-~FkIK~tt~L~kLm~aY~~~-----~g~~--~~~lrF~fdG~rI~~~~TP~~L~Medgdi   90 (104)
                      .+.|.|+|+..+|..+ -|.+.++++...|.+.-+++     .|++  ++..|++|.|+.+.+++|-++..+.+|++
T Consensus         5 ~~~i~I~~r~~~G~~i~~~~v~~s~TV~~lK~~I~~~~~~~k~~iP~~~~~qRLIf~Gk~L~D~~tL~dy~i~~g~~   81 (101)
T d1se9a_           5 HNQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVSNL   81 (101)
T ss_dssp             CCCEEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCTTSC
T ss_pred             cceEEEEEEeCCCCeecceecCccCHHHHHHHHHHHhccccccCCCCCcccEEEEECCeEecCCCCHHHcCCCCCCc
Confidence            4678999999999998 59999999999999998765     5665  78999999999999999999999999983

>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=98.10  E-value=1e-05  Score=51.71  Aligned_cols=74  Identities=16%  Similarity=0.245  Sum_probs=64.2

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecC-CCCCccccCCcCCceeeeeecc
Q 034095           21 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLR-GEQTPDEVILLFCAFCSCKYGR   97 (104)
Q Consensus        21 ~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~-~~~TP~~L~Medgdii~~~~~~   97 (104)
                      .+..|+|+|+.-+|.+..+.|.++.....|....   ...+.+..|++|.|+.+. +..|-.+++++||++|-|.+.+
T Consensus         4 ~~s~m~i~vK~l~~~~~~v~v~~~~TV~~lK~~i---~~~~~~~qrLi~~Gk~L~dd~~tL~~y~i~~g~~v~l~~~~   78 (95)
T d1wiaa_           4 GSSGINVRLKFLNDTEELAVARPEDTVGTLKSKY---FPGQESQMKLIYQGRLLQDPARTLSSLNITNNCVIHCHRSP   78 (95)
T ss_dssp             CCCSEEEEEEETTTEEEEEEECSSSBHHHHHHHH---SSSTTTTCEEEETTEECCCSSCBTTTTTCCTTEEEEEECCC
T ss_pred             CCCcEEEEEEcCCCCEEEEEECCcCcHHHHHHHH---hcCCcceeEEEECCEEcccCCCCHHHcCCCCCCEEEEEEcC
Confidence            4568999999999999999999999999998654   356779999999999997 5689999999999999887643

>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=98.09  E-value=5e-06  Score=52.87  Aligned_cols=77  Identities=10%  Similarity=0.069  Sum_probs=67.6

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeeeeccccc
Q 034095           21 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKYGRLNT  100 (104)
Q Consensus        21 ~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~~~~~~  100 (104)
                      ..+.|+|+|.. ++....+.|.++++...|.+.-++..|++++..+++|.|. +.++.|-.++++.+|+.|-++ |+...
T Consensus        14 ~~~~i~v~V~~-~~k~~~i~v~~~~TV~~LK~~I~~~tgvp~~~q~Li~~g~-l~D~~tL~~~~I~~gs~i~lv-gs~~~   90 (95)
T d1v86a_          14 GKELVDLKIIW-NKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGL-VPEDKTLREIKVTSGAKIMVV-GSTIS   90 (95)
T ss_dssp             CCCCEEEEEEE-TTEEEEEEECTTSBHHHHHHHHHHHHCSCSTTCCCBSSSB-CCSSSBHHHHCCCTTEEEEEC-CSSCC
T ss_pred             CccEEEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEeccc-ccCCCcHHHCCCCCCCEEEEE-ecCCC
Confidence            35689999985 7777899999999999999999999999999999999996 899999999999999988664 55433

>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=97.99  E-value=7.4e-06  Score=53.02  Aligned_cols=77  Identities=13%  Similarity=0.108  Sum_probs=65.9

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccc---------------eEEEEECCEecCCC-CCccccC
Q 034095           21 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN---------------SIAFLFDGRRLRGE-QTPDEVI   84 (104)
Q Consensus        21 ~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~---------------~lrF~fdG~rI~~~-~TP~~L~   84 (104)
                      ++.-++|+|...+|....+.|.++.....|...-+++.+++++               .++++|.|+.|.++ .|-.+++
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            4678999999999999999999999999999988888777654               57899999999765 5899999


Q ss_pred             CcCCceeeeeeccc
Q 034095           85 LLFCAFCSCKYGRL   98 (104)
Q Consensus        85 Medgdii~~~~~~~   98 (104)
                      +.||+.|-+. -|+
T Consensus        84 I~~g~~l~lv-~r~   96 (105)
T d1v2ya_          84 IRNRDEVSFI-KKL   96 (105)
T ss_dssp             CCSSEEEEEE-ECS
T ss_pred             CCCCCEEEEE-Eec
Confidence            9999999653 444

>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=97.91  E-value=2.5e-05  Score=49.62  Aligned_cols=74  Identities=9%  Similarity=0.110  Sum_probs=63.3

Q ss_pred             CCcEEEEEEcc---CCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEec-------C-CCCCccccCCcCCce
Q 034095           22 SAHINLKVKGQ---DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRL-------R-GEQTPDEVILLFCAF   90 (104)
Q Consensus        22 ~~~I~lkV~~~---~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI-------~-~~~TP~~L~Medgdi   90 (104)
                      ...|+|+|...   ++..+..++.++.....|...-.+..|++.+..|++|.|.+.       . +++|-.+++++||+.
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            45788888754   456678999999999999999999999999999999987643       3 688999999999999


Q ss_pred             eeeee
Q 034095           91 CSCKY   95 (104)
Q Consensus        91 i~~~~   95 (104)
                      |-|..
T Consensus        87 I~V~~   91 (97)
T d1wjna_          87 LLVRW   91 (97)
T ss_dssp             EEEEC
T ss_pred             EEEEe
Confidence            98864

>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=97.85  E-value=5.6e-05  Score=46.48  Aligned_cols=69  Identities=10%  Similarity=0.094  Sum_probs=57.7

Q ss_pred             EEEEEEccCCCEEEEEE-----eCCchHHHHHHHHHHHcCCccceEEEEECCEecC-CCCCccccCCcCCceeeee
Q 034095           25 INLKVKGQDGNEVFFRI-----KRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLR-GEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkI-----K~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~-~~~TP~~L~Medgdii~~~   94 (104)
                      |+|+|.. .+....+.|     ..++.+..|.+.-++..|++++..+++|+|..+. ++.|-+++++.+|+.|-+.
T Consensus         2 i~i~V~~-~~~~~~i~v~~~~~~~~~Tv~~LK~~I~~~tgvp~~~QkL~~~G~~L~~d~~tL~~~gi~~g~~i~lv   76 (81)
T d1wxva1           2 LTVTVTH-SNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLI   76 (81)
T ss_dssp             EEEEEEC-SSSEEEEEECCCSSSSSCBHHHHHHHHHHHTCCCTTTCEEEETTEEECCSSSBHHHHTCCSSEEEEEE
T ss_pred             EEEEEEE-CCeeEEEEEecCCCCCccHHHHHHHHHHHHHCcCHHHEEeeecCeEeCcCCCChHHCCCCCCCEEEEE
Confidence            6777765 444445555     4688999999999999999999999999999996 5679999999999998654

>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=97.80  E-value=1.8e-05  Score=49.41  Aligned_cols=76  Identities=14%  Similarity=0.080  Sum_probs=63.7

Q ss_pred             CCCcEEEEEEccCCCEEEE-EEeCCchHHHHHHHHHHHcCCccceEEEE---ECCEecCCCCCccccCCcCCceeeeeec
Q 034095           21 QSAHINLKVKGQDGNEVFF-RIKRSTQLKKLMNAYCDRQSVELNSIAFL---FDGRRLRGEQTPDEVILLFCAFCSCKYG   96 (104)
Q Consensus        21 ~~~~I~lkV~~~~g~~v~F-kIK~tt~L~kLm~aY~~~~g~~~~~lrF~---fdG~rI~~~~TP~~L~Medgdii~~~~~   96 (104)
                      .+..|+|.|.. .|....+ .|.++++...|.+.-+++.|++++..|++   |.|..+.++.|-.++++.+|+.|-+ +|
T Consensus         4 ~s~~~~i~Vk~-~~~~~~i~~v~~~~tV~~LK~~i~~~t~vp~~~QkLi~~~~~Gk~L~D~~tL~~~~i~~g~~i~l-v~   81 (90)
T d1v5ta_           4 GSSGLPIIVKW-GGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLGALKLKPNTKIMM-MG   81 (90)
T ss_dssp             CCCSCCEEEEE-TTEEEEECSCCSSSBHHHHHHHHHHHTCCCTTTCEEESCEETTEECCTTSBHHHHTCCTTEEEEE-EC
T ss_pred             CCCcEEEEEEE-CCeEEEEEEeCCCCcHHHHHHHHHHHHcCCHHHhhhhhhccCCcCCCCcCcHHHcCCCCCCEEEE-Ee
Confidence            34566677765 5555555 58999999999999999999999999999   6999999999999999999999875 45


Q ss_pred             cc
Q 034095           97 RL   98 (104)
Q Consensus        97 ~~   98 (104)
                      +-
T Consensus        82 s~   83 (90)
T d1v5ta_          82 TR   83 (90)
T ss_dssp             CC
T ss_pred             eC
Confidence            43

>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=97.63  E-value=0.00011  Score=47.62  Aligned_cols=64  Identities=14%  Similarity=0.070  Sum_probs=57.6

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCc
Q 034095           25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCA   89 (104)
Q Consensus        25 I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgd   89 (104)
                      |.|++.. .+..+.+.|.+++....|....+++.|++.+..|++|.|+.+.++.|-++.++.++.
T Consensus         2 ifv~i~~-~k~Ti~l~v~~~~TV~~lK~~I~~~~gip~~~QrLi~~Gk~L~D~~TL~dYgI~~~~   65 (103)
T d2c9wb1           2 VFLMIRR-HKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECGFTSQT   65 (103)
T ss_dssp             EEEEEEE-BTEEEEEEECTTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBHHHHTCCTTT
T ss_pred             EEEEEeC-CCEEEEEEeCCCCcHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCccc
Confidence            6677776 444678899999999999999999999999999999999999999999999998764

>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=97.46  E-value=0.00028  Score=44.30  Aligned_cols=72  Identities=13%  Similarity=0.109  Sum_probs=57.5

Q ss_pred             CCCcEEEEEEccCC--CEEEEEEeCCchHHHHHHHHHHHcC--CccceEEEEECCEecCCCCCccccCC--cCCceee
Q 034095           21 QSAHINLKVKGQDG--NEVFFRIKRSTQLKKLMNAYCDRQS--VELNSIAFLFDGRRLRGEQTPDEVIL--LFCAFCS   92 (104)
Q Consensus        21 ~~~~I~lkV~~~~g--~~v~FkIK~tt~L~kLm~aY~~~~g--~~~~~lrF~fdG~rI~~~~TP~~L~M--edgdii~   92 (104)
                      ++..|+|.|+..++  ..+.+.+.+++....|.+.-++..+  ++++..|++|.|+.+.++.|-.++..  +++.+|-
T Consensus         4 gs~~i~l~Ik~~~~~~~~~~~~v~~~~TV~~LK~~I~~~~~~~~~~~~qrLIy~Gk~L~D~~~L~d~~~~~~~~~viH   81 (93)
T d1wgda_           4 GSSGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDLLPKQEKRHVLH   81 (93)
T ss_dssp             CSCCCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECCSSSCHHHHSCSSSCSEEEE
T ss_pred             CCCcEEEEEECCCCCceeEEEEcCCCCcHHHHHHHHHHHcCCCCChHHEEEEECCeEccCCCCHHHhCcccCCCCEEE
Confidence            34456677776554  5578888999999999999999965  88999999999999999999999854  3333553

>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=97.10  E-value=0.00066  Score=41.94  Aligned_cols=65  Identities=18%  Similarity=0.139  Sum_probs=59.3

Q ss_pred             EEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCcee
Q 034095           27 LKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFC   91 (104)
Q Consensus        27 lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii   91 (104)
                      |.|.+.+|....+++.+++.|..+.+.-|++.|++++...+.+.+..|.-+..-.-.+|-+|+-.
T Consensus         3 V~Vl~~~~rR~~VKvtP~t~l~~VL~eaC~k~~~~~~~~~Lkh~~k~ldLsl~~R~sgLpnnakL   67 (76)
T d2al3a1           3 VSVLAPNGRRHTVKVTPSTVLLQVLEDTCRRQDFNPSEYDLKFQRTVLDLSLQWRFANLPNNAKL   67 (76)
T ss_dssp             EEEECTTSCEEEECCCTTSBHHHHHHHHHHHTTCCGGGCEEEETTEEESSSCBHHHHCCCSSCEE
T ss_pred             EEEECCCCcEEEEEeCCCcCHHHHHHHHHHHhCCChhHceeeeCCEEcCccceeeecCCCCCCEE
Confidence            67889999999999999999999999999999999999999999999998888777777777643

>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=96.80  E-value=0.0025  Score=39.97  Aligned_cols=74  Identities=7%  Similarity=-0.097  Sum_probs=62.1

Q ss_pred             CCCcEEEEEEcc-CCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCE-------ecCCCCCccccCCcCCceee
Q 034095           21 QSAHINLKVKGQ-DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGR-------RLRGEQTPDEVILLFCAFCS   92 (104)
Q Consensus        21 ~~~~I~lkV~~~-~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~-------rI~~~~TP~~L~Medgdii~   92 (104)
                      ++.-|+|-|.+. +.-....++.++.+...|.+.-....|++++..|++|.|.       ...++.|-.+++++||.+|-
T Consensus         4 gss~v~v~I~s~~~~~~~E~r~~~~~TV~~LK~kle~~tGip~~~qrL~~~~~~~~~~~~l~~d~~~L~~y~i~dg~~ih   83 (95)
T d1v6ea_           4 GSSGVMVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQEDALLGSYPVDDGCRIH   83 (95)
T ss_dssp             CCCCEEEEEEETTSSSCEEEEECTTSBHHHHHHHHHHHTCSCTTTCBCEEECSSSCEEEECCCSSSBTTSSSCCTTCEEE
T ss_pred             CCCcEEEEEEECCCCcEEEEEeCCCCCHHHHHHHHHHHhCcCchhEEEEEeCCCCceeecccCCcCCHHHCCCCCCCEEE
Confidence            456778888874 4444578999999999999999999999999999999776       46678888999999999997


Q ss_pred             ee
Q 034095           93 CK   94 (104)
Q Consensus        93 ~~   94 (104)
                      |.
T Consensus        84 lv   85 (95)
T d1v6ea_          84 VI   85 (95)
T ss_dssp             EB
T ss_pred             EE
Confidence            64

>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=96.69  E-value=0.0031  Score=39.96  Aligned_cols=52  Identities=17%  Similarity=0.171  Sum_probs=44.8

Q ss_pred             CchHHHHHHHHHHHcC--C-ccceEEEEECCEecCCCCCccccCCcCCceeeeee
Q 034095           44 STQLKKLMNAYCDRQS--V-ELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCKY   95 (104)
Q Consensus        44 tt~L~kLm~aY~~~~g--~-~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~~   95 (104)
                      +.....|.+..+++..  . +++..|++|.|+.+.+++|-++.++++|.+|-+..
T Consensus        37 ~~tV~~lK~~i~~~~~~~~P~p~~~rLIy~Gk~L~D~~tL~~y~I~~gstihLV~   91 (94)
T d1x1ma1          37 GYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQTLDFYGIQPGSTVHVLR   91 (94)
T ss_dssp             CCBHHHHHHHHHHHCTTTCCCSSSEEEEETTEECCTTCBHHHHTCCTTCEEEEEE
T ss_pred             ccCHHHHHHHHHHHcccCCCChhheEEEECCeEECCCccHHHcCCCCCCEEEEEE
Confidence            4568899999988864  3 46899999999999999999999999999987653

>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=96.57  E-value=0.008  Score=37.01  Aligned_cols=72  Identities=7%  Similarity=-0.041  Sum_probs=59.1

Q ss_pred             CcEEEEEEcc-CCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECCE-------ecCCCCCccccCCcCCceeeee
Q 034095           23 AHINLKVKGQ-DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGR-------RLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        23 ~~I~lkV~~~-~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~-------rI~~~~TP~~L~Medgdii~~~   94 (104)
                      +.|+|+|... .+..+.-|+.++.+...|...-....|++++..+++|-|.       -..++.|-.+++++||..|-|.
T Consensus         3 ~~~~l~it~~~t~~~~E~r~~~~~TV~~LK~kle~~~Gip~~~q~L~~~~~~~~~~~~l~dd~~~L~~ygi~dG~~Ihvv   82 (90)
T d1t0ya_           3 EVYDLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRIHAV   82 (90)
T ss_dssp             CEEEEEEEESSCCSCEEEEEETTSBHHHHHHHHHHHHCCCTTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSEEEEEE
T ss_pred             cEEEEEEEECCCccEEEEecCCCCCHHHHHHHHHHHHCCChhheEEEEeCCCCCcccccccCCCCHHHCCCCCCCEEEEE
Confidence            4577888763 3444678899999999999999999999999999998664       3446888899999999998763

>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=96.37  E-value=0.013  Score=35.95  Aligned_cols=73  Identities=10%  Similarity=0.121  Sum_probs=57.0

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEECC--EecC--CCCCccccCCcCCceeeee
Q 034095           21 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDG--RRLR--GEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        21 ~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~fdG--~rI~--~~~TP~~L~Medgdii~~~   94 (104)
                      ..+.++|.|+-.+|..+.-+...+++++.|++ |.+..+.....++++...  ..+.  .+.|-+++|+.....+-|.
T Consensus        13 ~~~~~~i~iRlPdG~r~~r~F~~~dtl~~l~~-fv~~~~~~~~~f~l~~~~Pr~~~~~d~~~TL~e~gl~p~~~L~v~   89 (96)
T d2cr5a1          13 AEEVVTVALRCPNGRVLRRRFFKSWNSQVLLD-WMMKVGYHKSLYRLSTSFPRRALEVEGGSSLEDIGITVDTVLNVE   89 (96)
T ss_dssp             CSSEEEEEEECTTSCEEEEEEESSSBTHHHHH-HHHHHTCCTTTEEEECSSSCCBCCCCSSCBHHHHTCSSCEEEEEE
T ss_pred             CCCeEEEEEECCCCCEEEEEECCcccHHHHHH-HHHHhccCcccceeecCCCceecCccCCCcHHHCCCCCCCEEEEe
Confidence            45689999999999999889999999999995 566666677778777653  3332  3678899999888877653

>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=94.65  E-value=0.19  Score=30.26  Aligned_cols=67  Identities=18%  Similarity=0.284  Sum_probs=53.6

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHH-cCCccceEEEEEC--CEec-CCCCCccccCCcCCce
Q 034095           24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDR-QSVELNSIAFLFD--GRRL-RGEQTPDEVILLFCAF   90 (104)
Q Consensus        24 ~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~-~g~~~~~lrF~fd--G~rI-~~~~TP~~L~Medgdi   90 (104)
                      ..+|+|+-.||..+..+...+.+++.|++.-... .+.+...+.|.-.  -+.+ ..++|-+++|+.+..+
T Consensus        14 ~t~I~iRlPdG~~~~~~F~~~~tl~dv~~~v~~~~~~~~~~~f~L~t~~Prr~l~d~~~TL~e~gL~~s~v   84 (89)
T d1i42a_          14 TTNIQIRLADGGRLVQKFNHSHRISDIRLFIVDARPAMAATSFVLMTTFPNKELADENQTLKEANLLNAVI   84 (89)
T ss_dssp             CEEEEEEETTTCCEEEEECSSSCGGGHHHHHHHHCTTTSSCCEEEEETTTTEECCCCSSCSGGGTTCCSEE
T ss_pred             cEEEEEEcCCCCEEEEEECCchhHHHHHHHHHHhCccCCCCCEEEecCCCCcccCCCcCcHHHCCCcCceE
Confidence            4688999999999999999999999999887654 3667778888876  3334 3589999999996544

>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=92.99  E-value=0.11  Score=32.75  Aligned_cols=70  Identities=13%  Similarity=0.162  Sum_probs=53.7

Q ss_pred             EEEEccCCCEEEEEE-eCCchHHHHHHHHHHHcCCccceEEEEEC--------------CEecCCC-CCccccCCcCCce
Q 034095           27 LKVKGQDGNEVFFRI-KRSTQLKKLMNAYCDRQSVELNSIAFLFD--------------GRRLRGE-QTPDEVILLFCAF   90 (104)
Q Consensus        27 lkV~~~~g~~v~FkI-K~tt~L~kLm~aY~~~~g~~~~~lrF~fd--------------G~rI~~~-~TP~~L~Medgdi   90 (104)
                      |+|++.+|.+ ++.| +.+..+..|...-++..++|.+.=++..|              -..+.++ .+-++|++++|-|
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            7899999987 6677 45789999999999999998876555333              1223443 4468999999999


Q ss_pred             eeeeecc
Q 034095           91 CSCKYGR   97 (104)
Q Consensus        91 i~~~~~~   97 (104)
                      |-+.|.-
T Consensus        82 vyL~y~~   88 (94)
T d1wf9a1          82 VYLAYEG   88 (94)
T ss_dssp             EECCCSS
T ss_pred             EEEEeee
Confidence            9998863

>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=92.51  E-value=0.22  Score=30.84  Aligned_cols=81  Identities=17%  Similarity=0.215  Sum_probs=64.1

Q ss_pred             CCcEEEEEEccCC---CEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEE-CCEecCCCCCccccCCcCCceeeeeecc
Q 034095           22 SAHINLKVKGQDG---NEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF-DGRRLRGEQTPDEVILLFCAFCSCKYGR   97 (104)
Q Consensus        22 ~~~I~lkV~~~~g---~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~f-dG~rI~~~~TP~~L~Medgdii~~~~~~   97 (104)
                      ..+++.||.-...   -...+.|-..+||..+.+.-|+...+++.+--.+- ||.-|++.||+-..-|..|--+- ||-|
T Consensus         8 ~~kvtfkitltSdp~lpfkvlsVpE~aPftAVlkfaAEeFkV~~~TSAiITndGvGINP~QtAg~vFlKhGselr-liPR   86 (92)
T d1j0ga_           8 MSKVSFKITLTSDPRLPYKVLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELR-IIPR   86 (92)
T ss_dssp             SCEEEEEEEETTSTTCCEEEEEEETTSBHHHHHHHHHHHTTCCSSSEEEECTTSCCCCCSSBHHHHHHHTCSEEE-EEEC
T ss_pred             cceEEEEEEEccCCCCccEEEecCccCchHHHHHHHHHHcCCCccceeEEecCccccChhhccchhhhhcCceee-eccc
Confidence            4678888874433   23477889999999999999999999887666555 79999999999999998887654 5666


Q ss_pred             cccCcC
Q 034095           98 LNTGHC  103 (104)
Q Consensus        98 ~~~~~~  103 (104)
                      -..|.|
T Consensus        87 DRVG~c   92 (92)
T d1j0ga_          87 DRVGSC   92 (92)
T ss_dssp             CSSCCC
T ss_pred             ccccCC
Confidence            667776

>d2npta1 d.15.2.2 (A:4-108) Mitogen activated protein kinase kinase 5, Map2k5 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: CAD & PB1 domains
family: PB1 domain
domain: Mitogen activated protein kinase kinase 5, Map2k5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.42  E-value=0.26  Score=31.35  Aligned_cols=58  Identities=7%  Similarity=0.026  Sum_probs=45.3

Q ss_pred             CCcEEEEEEccCCCEEEEEEe--CCchHHHHHHHHHHHcCCccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           22 SAHINLKVKGQDGNEVFFRIK--RSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        22 ~~~I~lkV~~~~g~~v~FkIK--~tt~L~kLm~aY~~~~g~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      ++.+-|++..+++..+-+.|.  +.-.|..|.+++++.+.               ...-|.-+.+=||||+|-|.
T Consensus        11 ~q~lVIRI~~~~~~~vDw~V~~~~~l~F~dvL~~i~q~~p---------------~at~taFEYEDEdGDRITVR   70 (105)
T d2npta1          11 NQVLVIRIKIPNSGAVDWTVHSGPQLLFRDVLDVIGQVLP---------------EATTTAFEYEDEDGDRITVR   70 (105)
T ss_dssp             -CCEEEEEEETTTEEEEEEECC--CCCHHHHHHHHHHHST---------------TSCCSEEEEECTTSCEEEEC
T ss_pred             cCceEEEEEcCCCceeeeeecCCceeeHHHHHHHHHHhcc---------------cccccceeeccccCCEeEEc
Confidence            567889999999999999998  47899999999999875               12344455677889999885

>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=91.41  E-value=0.74  Score=26.90  Aligned_cols=70  Identities=14%  Similarity=0.114  Sum_probs=53.7

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEE--CCEecC---CCCCccccCCcCCceeee
Q 034095           23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF--DGRRLR---GEQTPDEVILLFCAFCSC   93 (104)
Q Consensus        23 ~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~f--dG~rI~---~~~TP~~L~Medgdii~~   93 (104)
                      +.++|+|+-.+|..+.-+...+++++.|++.-.. .+.+...+.++-  -...+.   .+.|-+++|+--.+.+-|
T Consensus         4 ~~~~i~iRlPdG~~~~~~F~~~~tl~~v~~~v~~-~~~~~~~~~l~~~~Pr~~l~~~d~~~TL~e~gL~p~~~L~v   78 (82)
T d1h8ca_           4 PVSKLRIRTPSGEFLERRFLASNKLQIVFDFVAS-KGFPWDEYKLLSTFPRRDVTQLDPNKSLLEVKLFPQETLFL   78 (82)
T ss_dssp             CCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHH-HTCCSSSEEEEETTTTEETTTCCTTSBHHHHCCCSEEEEEE
T ss_pred             CcEEEEEECCCCCEEEEEECCCCcHHHHHHHHHh-cCCCCCceEEEecCcccccccccccCCHHHCCCCCCCEEEE
Confidence            4578999999999999999999999999987654 577777777775  345553   356888888876665543

>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=91.09  E-value=0.8  Score=26.71  Aligned_cols=56  Identities=13%  Similarity=0.122  Sum_probs=44.2

Q ss_pred             CCEEEEEEeCCchHHHHHHHHHHHcC-----------CccceEEEEECCEecCCCCCccccCCcCCceeeee
Q 034095           34 GNEVFFRIKRSTQLKKLMNAYCDRQS-----------VELNSIAFLFDGRRLRGEQTPDEVILLFCAFCSCK   94 (104)
Q Consensus        34 g~~v~FkIK~tt~L~kLm~aY~~~~g-----------~~~~~lrF~fdG~rI~~~~TP~~L~Medgdii~~~   94 (104)
                      .++..+.+...+.++.|++.-+++.+           .....+++..||+.+.. +||    +.|||.|.++
T Consensus        18 ~~~~~~~~~~~~Tv~~l~~~L~~~~~~~~~~l~~~~~~~~~~i~iavN~~~~~~-d~~----L~~gDevai~   84 (88)
T d1vjka_          18 VDEEEIELPEGARVRDLIEEIKKRHEKFKEEVFGEGYDEDADVNIAVNGRYVSW-DEE----LKDGDVVGVF   84 (88)
T ss_dssp             SSEEEEEECTTCBHHHHHHHHHHHCGGGGGSCBCSSSCTTSSBEEEETTBCCCT-TCB----CCTTCEEEEE
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHChHHHHHhhhccccccccEEEEEcceEcCC-CcC----cCCCCEEEEe
Confidence            46778899889999999999988753           13367899999999864 454    8999999875

>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=89.22  E-value=0.37  Score=28.95  Aligned_cols=37  Identities=24%  Similarity=0.356  Sum_probs=33.1

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCc
Q 034095           24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVE   61 (104)
Q Consensus        24 ~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~   61 (104)
                      .|+++|.--|+ ++.|.|++.++=+.||+.-|++.++.
T Consensus         1 t~~v~V~~LD~-~~~~~v~~~a~G~~l~~~Vc~~l~L~   37 (84)
T d1ef1a3           1 TISVRVTTMDA-ELEFAIQPNTTGKQLFDQVVKTIGLR   37 (84)
T ss_dssp             CEEEEEEETTE-EEEEEECTTCBHHHHHHHHHHHHTCC
T ss_pred             CEEEEEEEcCC-EEEEEEcCCChHHHHHHHHHHHcCCc
Confidence            37889988887 69999999999999999999999864

>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=88.72  E-value=1  Score=26.81  Aligned_cols=47  Identities=13%  Similarity=0.106  Sum_probs=38.1

Q ss_pred             CCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEE
Q 034095           20 DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF   69 (104)
Q Consensus        20 ~~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~f   69 (104)
                      .+...|+||+.- ++..+.|+|.++..+..|.+.-+++.++  ..+++.|
T Consensus         8 ~~~~~ikVKv~~-~~D~~~~~l~~~it~~dL~~kI~~rf~~--~~~~lkY   54 (85)
T d1ip9a_           8 SGLKTTKIKFYY-KDDIFALMLKGDTTYKELRSKIAPRIDT--DNFKLQT   54 (85)
T ss_dssp             CCCCCEEEEECB-TTCCEEEEECSCCCHHHHHHHHHHHHTS--SCEEEEE
T ss_pred             CCCCCEEEEEEE-CCcEEEEEeCCCCCHHHHHHHHHHHhCC--CceEEEE
Confidence            345678888865 5667799999999999999999999975  4577766

>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=86.36  E-value=0.61  Score=28.96  Aligned_cols=55  Identities=13%  Similarity=0.159  Sum_probs=43.8

Q ss_pred             EEEeCCchHHHHHHHHHHH--cCCccceEEEEECCEecC----------------CCCCccccCCcCCceeee
Q 034095           39 FRIKRSTQLKKLMNAYCDR--QSVELNSIAFLFDGRRLR----------------GEQTPDEVILLFCAFCSC   93 (104)
Q Consensus        39 FkIK~tt~L~kLm~aY~~~--~g~~~~~lrF~fdG~rI~----------------~~~TP~~L~Medgdii~~   93 (104)
                      +.|.++++|+.|.+..|++  ..+..-+++...+|..-.                =..|-.+||++||+.|-|
T Consensus         5 l~~~~~~TL~~li~~L~e~p~~qlk~Psltt~~~g~~ktLYm~~pp~Lee~Tr~NL~k~L~eLgl~dG~ei~V   77 (92)
T d1y8xb1           5 IQFSPSAKLQEVLDYLTNSASLQMKSPAITATLEGKNRTLYMQSVTSIEERTRPNLSKTLKELGLVDGQELAV   77 (92)
T ss_dssp             EECCTTCBHHHHHHHHHHCTTCCCSSCEEEEEETTEEEEEECSSCHHHHHHHHHHHHSBSGGGTCCTTCEEEE
T ss_pred             EEcCCCCcHHHHHHHHhhChHhhccCCceeeecCCCccEEEecCcHHHHHHhhhccccCHHHhCCcCCCEEEE
Confidence            5778999999999999998  567777888888886321                145668899999998866

>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=84.72  E-value=1.3  Score=26.33  Aligned_cols=49  Identities=12%  Similarity=0.222  Sum_probs=38.3

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCcc---ceEEEEECCEe
Q 034095           24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL---NSIAFLFDGRR   73 (104)
Q Consensus        24 ~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~---~~lrF~fdG~r   73 (104)
                      .|+++|.--|+ ++.|.|.+.++=+.||+.-|++.++-.   =.++|.=+|+.
T Consensus         2 ~~~v~V~lLD~-~le~~v~~~a~G~~L~d~Vc~~L~L~E~~YFGL~y~~~~~~   53 (84)
T d1h4ra3           2 TFTVRIVTMDA-EMEFNCEMKWKGKDLFDLVCRTLGLRETWFFGLQYTIKDTV   53 (84)
T ss_dssp             EEEEEEECSSC-EEEEEEETTCBHHHHHHHHHHHHTCCCGGGEEEEEEETTEE
T ss_pred             eEEEEEEEcCC-cEEEEEcCCChHHHHHHHHHHHcCCcccccceEEEecCCce
Confidence            46788888886 589999999999999999999998633   34555545543

>d1wgya_ d.15.1.5 (A:) Rap guanine nucleotide exchange factor 5, RapGEF5 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ras-binding domain, RBD
domain: Rap guanine nucleotide exchange factor 5, RapGEF5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.96  E-value=0.91  Score=28.74  Aligned_cols=55  Identities=15%  Similarity=0.196  Sum_probs=47.5

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceE---EEEECCEecC
Q 034095           21 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSI---AFLFDGRRLR   75 (104)
Q Consensus        21 ~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~l---rF~fdG~rI~   75 (104)
                      ..+.|..+|-..|.+.+..++..++.-+.++.+-|+|++++.+.+   ....+|+|+-
T Consensus         6 s~dei~~~VY~~Dhsy~tlr~~v~~sa~eI~~~vaeKl~~~~e~L~LV~V~SsGEr~~   63 (104)
T d1wgya_           6 SGEEIFCHVYITEHSYVSVKAKVSSIAQEILKVVAEKIQYAEEDLALVAITFSGEKHE   63 (104)
T ss_dssp             CSSCCCEEEECSSSCEEEECCCTTCBSHHHHHHHHHHHTSCGGGEEEEEECSSCCCCB
T ss_pred             CCCeEEEEEEecCCcEEEEEeeccCcHHHHHHHHHHHhCCCCCceEEEEEccCCcEEe
Confidence            357888999999999999999999999999999999999876654   4556899875

>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=80.73  E-value=3.7  Score=23.98  Aligned_cols=56  Identities=7%  Similarity=0.097  Sum_probs=44.7

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEE--CC-EecCCCCCcc
Q 034095           26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF--DG-RRLRGEQTPD   81 (104)
Q Consensus        26 ~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~f--dG-~rI~~~~TP~   81 (104)
                      +++|.=+||+.-...+++...++.+...-|++.|+.+..+..+-  +| +..-..+|+.
T Consensus         2 ~iRv~LPngq~T~V~vrpG~tir~~L~k~l~kRgl~~~~~~V~~~~~g~~~~i~~d~d~   60 (73)
T d1wxma1           2 TVKVYLPNKQRTVVTVRDGMSVYDSLDKALKVRGLNQDCCVVYRLIKGRKTVTAWDTAI   60 (73)
T ss_dssp             EEEEECSSSCEEEEECCSSCBSHHHHHHHHHTTTCCSSSEEEEEESSSCEEEECSSSBS
T ss_pred             eEEEEcCCCCeEEEEecCCCCHHHHHHHHHHHcCCCHHHEEEEEecCCCcceeecCCcc
Confidence            57888899999899999999999999999999999998877654  55 3333344444

>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=80.39  E-value=2.6  Score=25.44  Aligned_cols=65  Identities=14%  Similarity=0.147  Sum_probs=48.4

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHHHcCCccceEEEEE-----C-C--EecCCCCCccccCCc
Q 034095           21 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF-----D-G--RRLRGEQTPDEVILL   86 (104)
Q Consensus        21 ~~~~I~lkV~~~~g~~v~FkIK~tt~L~kLm~aY~~~~g~~~~~lrF~f-----d-G--~rI~~~~TP~~L~Me   86 (104)
                      ...++-|+|-..||+...+.|..++.-+.|.+.-+++.+++... .|..     + |  ++|.+..-|.++-+.
T Consensus         6 ~~~~~vvkv~~~dg~~k~l~V~~~tTa~eV~~~l~~K~~~~~~~-~f~L~E~~~~~~leR~L~d~E~vl~v~~~   78 (100)
T d1wgra_           6 SGRPHVVKVYSEDGACRSVEVAAGATARHVCEMLVQRAHALSDE-TWGLVECHPHLALERGLEDHESVVEVQAA   78 (100)
T ss_dssp             CCSCEEEEEEETTSCEEEEEECTTCCHHHHHHHHHCSSSCCCCC-CCCEEEEETTTTEEEEECSSSCHHHHHTT
T ss_pred             CCCceEEEEEecCCCEEEEEECCCCcHHHHHHHHHHHhCCCCCC-CeEEEEecCCCcceeecCchHhHHHHHHc
Confidence            35667899999999999999999999999999999999875432 3322     3 2  556666666655433