Citrus Sinensis ID: 032619

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------
Protein Sequence
MYCLLLSLMQHMSPRWYIRNFDYHEARMIHLSYHDGEHYNGVRLKEDSCIGSARPIIIKADADISAASIQSKTVTSKLKGAAGIINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQGTEEYSVKKQ
Secondary Structure (PSIPRED)
cEEEEEEEEEcccccEEEEcccccccEEEEEEEccccccccEEEccccccccccHHHHHHcccHHHHHHcccccccccccccccccHHHHHHHHHccccccHHHHHHHHHHHcccHHHHHHHHHHHccccccccccc
Secondary Structure Prediction (SSPRO)
ccEEEEEEEEccccEEEEEEcccccccEEEEEEccccccccEEccccccccccccEEEEccccccccHHcccccccccccccccccHHHHHHHHHccccccHHHHHHHHHHccccHHHHHHHHHHHHccHHccHccc
Coil and Loop (DISEMBL)
MYCLLLSLMqhmsprwyirnfdYHEARMIHLsyhdgehyngvrlkedscigsarpiiikadadisaasiqSKTVTSKLKGAAGIINAGSIKLVMagsgcensEKVEEVLLQVGGDVDAAIEFLIAeqgteeysvkkq
Flexible Loop (DISEMBL)
MYCLLLSLMQHMSPRWYIRNFDYHEARMIHLSYHDGEHYNGVRLKEDSCIGSARPIIIKADADISAASIQSKtvtsklkgaagiINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLiaeqgteeysvkkq
Low Complexity Region (SEG)
MYCLLLSLMQHMSPRWYIRNFDYHEARMIHLSYHDGEHYNGVRLKEDSCIGSARPiiikadadisaasiQSKTVTSKLKGAAGIINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQGTEEYSVKKQ
Disordered region (IsUnstruct)
*YCLLLSLMQHMSPRWYIRNFDYHEARMIHLSYHDGEHYNGVRLKEDSCIGSARPIIIKADADISAASIQSKTVTSKLKGAAGIINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAE***********
Disordered Region (DISOPRED)
*YCLLLSLMQHMSPRWYIRNFDYHEARMIHLSYHDGEHYNGVRL********************************************SIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLI*************
Disordered Region (DISEMBL)
MYCLLLSLMQHMSPRWYIRNFDYHEARMIHLSYHDGEHYNGVRLKEDSCIGSARPIIIKADADISAASIQSKTVTSKLKGAAGIINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQG*********
Disordered Region (DISPRO)
MYCLLLSLMQHMSPRWYIRNFDYHEARMIHLSYHDGEHYNGVRLKEDSCIGSARPIIIKADAD*********************INAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQGT********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MYCLLLSLMQHMSPRWYIRNFDYHEARMIHLSYHDGEHYNGVRLKEDSCIGSARPIIIKADADISAASIQSKTVTSKLKGAAGIINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQGTEEYSVKKQ
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

No hits with e-value below 0.001 by BLAST

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	137
356565555	382	PREDICTED: OTU domain-containing protein	0.941	0.337	0.679	2e-45
296082384	385	unnamed protein product [Vitis vinifera]	0.919	0.327	0.703	7e-45
225438775	467	PREDICTED: OTU domain-containing protein	0.919	0.269	0.703	9e-45
224081718	349	predicted protein [Populus trichocarpa]	0.948	0.372	0.648	2e-43
255565284	371	OTU domain-containing protein, putative	0.934	0.345	0.653	1e-42
23306370	375	putative protein [Arabidopsis thaliana]	0.912	0.333	0.645	4e-42
30698282	375	SEC-C motif-containing protein / OTU-lik	0.912	0.333	0.645	6e-42
42573818	374	SEC-C motif-containing protein / OTU-lik	0.912	0.334	0.645	6e-42
10177604	382	unnamed protein product [Arabidopsis tha	0.912	0.327	0.645	7e-42
356514204	383	PREDICTED: uncharacterized protein LOC10	0.883	0.315	0.682	1e-40

>gi|356565555|ref|XP_003551005.1| PREDICTED: OTU domain-containing protein 3-like [Glycine max]

 Score =  187 bits (474), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 89/131 (67%), Positives = 104/131 (79%), Gaps = 2/131 (1%)

Query: 6   LSLMQHMSPRWYIRNFDYHEARMIHLSYHDGEHYNGVRLKEDSCIGSARPIIIKADADIS 65
           + + ++MSPRWYIRNFD    RMIHLSYHDGEHYN VRLK+D C G+ARPI+I+ADAD+S
Sbjct: 124 ICIHRNMSPRWYIRNFDNRGVRMIHLSYHDGEHYNSVRLKDDPCDGAARPIVIEADADLS 183

Query: 66  AASIQSKTVTSKLKGAAG--IINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFL 123
             S Q+K V +K  G AG      GSIKLVMAG+GCEN+EKVE++L QV GDVDAAIEFL
Sbjct: 184 VPSHQTKVVGNKFHGRAGWEAFQPGSIKLVMAGTGCENAEKVEQILEQVNGDVDAAIEFL 243

Query: 124 IAEQGTEEYSV 134
           IAEQGTEE S 
Sbjct: 244 IAEQGTEECSA 254

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296082384|emb|CBI21389.3| unnamed protein product [Vitis vinifera]

 Score =  185 bits (469), Expect = 7e-45,   Method: Compositional matrix adjust.
 Identities = 90/128 (70%), Positives = 105/128 (82%), Gaps = 2/128 (1%)

Query: 6   LSLMQHMSPRWYIRNFDYHEARMIHLSYHDGEHYNGVRLKEDSCIGSARPIIIKADADIS 65
           + + +HMSPRWYI+NF+   ARMIHLSYHDGEHYN VRLKED C G ARPIIIKAD D+S
Sbjct: 124 ICIHRHMSPRWYIQNFNASGARMIHLSYHDGEHYNSVRLKEDPCDGPARPIIIKADTDLS 183

Query: 66  AASIQSKTVTSKLKGAAG--IINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFL 123
            AS Q K  +SK K  AG  II+AGSIKLVM GSGCEN+EKVE+VL+++ GDVDAAIE+L
Sbjct: 184 VASHQVKGASSKSKSGAGRNIIDAGSIKLVMVGSGCENAEKVEQVLVELSGDVDAAIEYL 243

Query: 124 IAEQGTEE 131
           IAE+ TEE
Sbjct: 244 IAERETEE 251

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225438775|ref|XP_002278347.1| PREDICTED: OTU domain-containing protein 3-like [Vitis vinifera]

 Score =  184 bits (467), Expect = 9e-45,   Method: Compositional matrix adjust.
 Identities = 90/128 (70%), Positives = 105/128 (82%), Gaps = 2/128 (1%)

Query: 6   LSLMQHMSPRWYIRNFDYHEARMIHLSYHDGEHYNGVRLKEDSCIGSARPIIIKADADIS 65
           + + +HMSPRWYI+NF+   ARMIHLSYHDGEHYN VRLKED C G ARPIIIKAD D+S
Sbjct: 124 ICIHRHMSPRWYIQNFNASGARMIHLSYHDGEHYNSVRLKEDPCDGPARPIIIKADTDLS 183

Query: 66  AASIQSKTVTSKLKGAAG--IINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFL 123
            AS Q K  +SK K  AG  II+AGSIKLVM GSGCEN+EKVE+VL+++ GDVDAAIE+L
Sbjct: 184 VASHQVKGASSKSKSGAGRNIIDAGSIKLVMVGSGCENAEKVEQVLVELSGDVDAAIEYL 243

Query: 124 IAEQGTEE 131
           IAE+ TEE
Sbjct: 244 IAERETEE 251

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224081718|ref|XP_002306480.1| predicted protein [Populus trichocarpa] gi|222855929|gb|EEE93476.1| predicted protein [Populus trichocarpa]

 Score =  180 bits (456), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 85/131 (64%), Positives = 106/131 (80%), Gaps = 1/131 (0%)

Query: 6   LSLMQHMSPRWYIRNFDYHEARMIHLSYHDGEHYNGVRLKEDSCIGSARPIIIKADADIS 65
           + + ++MSPRWYIRNFD H ARM+HLSYHD EHYN VR K+D C G A+PIIIK DAD+S
Sbjct: 123 ICVHRYMSPRWYIRNFDQHGARMVHLSYHDEEHYNSVRSKDDPCNGPAQPIIIKVDADLS 182

Query: 66  AASIQSKTVTSKLKG-AAGIINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLI 124
           A S+Q+K V+S   G A    +AGS+KLVMAGSGCEN+EKV++VLL+V GDVDAAIEFLI
Sbjct: 183 ATSVQAKAVSSTKAGIAKDSFDAGSLKLVMAGSGCENAEKVKQVLLEVDGDVDAAIEFLI 242

Query: 125 AEQGTEEYSVK 135
           AEQ ++ +S +
Sbjct: 243 AEQESDSFSAE 253

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255565284|ref|XP_002523634.1| OTU domain-containing protein, putative [Ricinus communis] gi|223537196|gb|EEF38829.1| OTU domain-containing protein, putative [Ricinus communis]

 Score =  177 bits (449), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 85/130 (65%), Positives = 104/130 (80%), Gaps = 2/130 (1%)

Query: 6   LSLMQHMSPRWYIRNFDYHEARMIHLSYHDGEHYNGVRLKEDSCIGSARPIIIKADADIS 65
           + + Q+MSPRWYIRNFD   A M+HLSYHD EHYN VRLKED+CIG ARPIIIKADAD+S
Sbjct: 124 ICIHQYMSPRWYIRNFDERGACMVHLSYHDEEHYNSVRLKEDTCIGPARPIIIKADADLS 183

Query: 66  AASIQSKTVTSKLKGAAG--IINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFL 123
           A + Q+KT  SK KG A    I+  SIK+V+AGSGC++++KVE+VLLQV GDVDAAIEFL
Sbjct: 184 ATTCQAKTAASKSKGGAAKNSIDPSSIKVVIAGSGCQDAQKVEQVLLQVDGDVDAAIEFL 243

Query: 124 IAEQGTEEYS 133
            AE+  ++ S
Sbjct: 244 RAEREADDSS 253

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|23306370|gb|AAN17412.1| putative protein [Arabidopsis thaliana] gi|25084238|gb|AAN72203.1| putative protein [Arabidopsis thaliana]

 Score =  176 bits (445), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 82/127 (64%), Positives = 101/127 (79%), Gaps = 2/127 (1%)

Query: 6   LSLMQHMSPRWYIRNFDYHEARMIHLSYHDGEHYNGVRLKEDSCIGSARPIIIKADADIS 65
           + + ++MSPRWYIRNF+    RMIHLSYHDGEHYN VR KED+C G ARP++I+ADA +S
Sbjct: 122 ICIHRNMSPRWYIRNFEDTRTRMIHLSYHDGEHYNSVRSKEDACGGPARPVVIEADAKVS 181

Query: 66  AASIQSKTVTSKLKGAAGI--INAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFL 123
           AAS Q+K   SK K  A    +NAG+IK+VM+GS C+N+EK E+VLLQV GDVDAAIEFL
Sbjct: 182 AASKQAKATESKSKNKADKCHVNAGAIKVVMSGSCCDNTEKAEQVLLQVNGDVDAAIEFL 241

Query: 124 IAEQGTE 130
           IA+QG E
Sbjct: 242 IADQGME 248

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30698282|ref|NP_201518.2| SEC-C motif-containing protein / OTU-like cysteine protease family protein [Arabidopsis thaliana] gi|332010926|gb|AED98309.1| SEC-C motif-containing protein / OTU-like cysteine protease family protein [Arabidopsis thaliana] gi|407078848|gb|AFS88955.1| OTU-containing deubiquitinating enzyme OTU7 isoform i [Arabidopsis thaliana]

 Score =  175 bits (443), Expect = 6e-42,   Method: Compositional matrix adjust.
 Identities = 82/127 (64%), Positives = 101/127 (79%), Gaps = 2/127 (1%)

Query: 6   LSLMQHMSPRWYIRNFDYHEARMIHLSYHDGEHYNGVRLKEDSCIGSARPIIIKADADIS 65
           + + ++MSPRWYIRNF+    RMIHLSYHDGEHYN VR KED+C G ARP++I+ADA +S
Sbjct: 122 ICIHRNMSPRWYIRNFEDTRTRMIHLSYHDGEHYNSVRSKEDACGGPARPVVIEADAKVS 181

Query: 66  AASIQSKTVTSKLKGAAGI--INAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFL 123
           AAS Q+K   SK K  A    +NAG+IK+VM+GS C+N+EK E+VLLQV GDVDAAIEFL
Sbjct: 182 AASKQAKATESKSKNKADKCHVNAGAIKVVMSGSCCDNTEKAEQVLLQVNGDVDAAIEFL 241

Query: 124 IAEQGTE 130
           IA+QG E
Sbjct: 242 IADQGME 248

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|42573818|ref|NP_975005.1| SEC-C motif-containing protein / OTU-like cysteine protease family protein [Arabidopsis thaliana] gi|332010927|gb|AED98310.1| SEC-C motif-containing protein / OTU-like cysteine protease family protein [Arabidopsis thaliana]

 Score =  175 bits (443), Expect = 6e-42,   Method: Compositional matrix adjust.
 Identities = 82/127 (64%), Positives = 101/127 (79%), Gaps = 2/127 (1%)

Query: 6   LSLMQHMSPRWYIRNFDYHEARMIHLSYHDGEHYNGVRLKEDSCIGSARPIIIKADADIS 65
           + + ++MSPRWYIRNF+    RMIHLSYHDGEHYN VR KED+C G ARP++I+ADA +S
Sbjct: 121 ICIHRNMSPRWYIRNFEDTRTRMIHLSYHDGEHYNSVRSKEDACGGPARPVVIEADAKVS 180

Query: 66  AASIQSKTVTSKLKGAAGI--INAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFL 123
           AAS Q+K   SK K  A    +NAG+IK+VM+GS C+N+EK E+VLLQV GDVDAAIEFL
Sbjct: 181 AASKQAKATESKSKNKADKCHVNAGAIKVVMSGSCCDNTEKAEQVLLQVNGDVDAAIEFL 240

Query: 124 IAEQGTE 130
           IA+QG E
Sbjct: 241 IADQGME 247

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|10177604|dbj|BAB10951.1| unnamed protein product [Arabidopsis thaliana]

 Score =  175 bits (443), Expect = 7e-42,   Method: Compositional matrix adjust.
 Identities = 82/127 (64%), Positives = 101/127 (79%), Gaps = 2/127 (1%)

Query: 6   LSLMQHMSPRWYIRNFDYHEARMIHLSYHDGEHYNGVRLKEDSCIGSARPIIIKADADIS 65
           + + ++MSPRWYIRNF+    RMIHLSYHDGEHYN VR KED+C G ARP++I+ADA +S
Sbjct: 129 ICIHRNMSPRWYIRNFEDTRTRMIHLSYHDGEHYNSVRSKEDACGGPARPVVIEADAKVS 188

Query: 66  AASIQSKTVTSKLKGAAGI--INAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFL 123
           AAS Q+K   SK K  A    +NAG+IK+VM+GS C+N+EK E+VLLQV GDVDAAIEFL
Sbjct: 189 AASKQAKATESKSKNKADKCHVNAGAIKVVMSGSCCDNTEKAEQVLLQVNGDVDAAIEFL 248

Query: 124 IAEQGTE 130
           IA+QG E
Sbjct: 249 IADQGME 255

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356514204|ref|XP_003525796.1| PREDICTED: uncharacterized protein LOC100782446 [Glycine max]

 Score =  171 bits (432), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 84/123 (68%), Positives = 95/123 (77%), Gaps = 2/123 (1%)

Query: 13  SPRWYIRNFDYHEARMIHLSYHDGEHYNGVRLKEDSCIGSARPIIIKADADISAASIQSK 72
           SPRWYIRNF     RMIHLSYHDGEHYN VRLK+D   G ARPI+IKADAD+S  S Q+K
Sbjct: 149 SPRWYIRNFGDRGIRMIHLSYHDGEHYNSVRLKDDPFDGPARPIVIKADADLSVPSHQTK 208

Query: 73  TVTSKLKGAAG--IINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQGTE 130
            V +K  G AG      GSI++VMAG+GCEN+EKVE++L QV GDVDAAIEFLIAEQ TE
Sbjct: 209 VVDNKPHGRAGREAFQPGSIRMVMAGTGCENAEKVEQILEQVNGDVDAAIEFLIAEQRTE 268

Query: 131 EYS 133
           E S
Sbjct: 269 ECS 271

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	137
TAIR|locus:2155588	375	AT5G67170 [Arabidopsis thalian	0.912	0.333	0.582	2.8e-34
DICTYBASE|DDB_G0267906	438	DDB_G0267906 "OTU domain conta	0.306	0.095	0.465	5.1e-08

TAIR|locus:2155588 AT5G67170 [Arabidopsis thaliana (taxid:3702)]

 Score = 372 (136.0 bits), Expect = 2.8e-34, P = 2.8e-34
 Identities = 74/127 (58%), Positives = 89/127 (70%)

Query:     6 LSLMQHMSPRWYIRNFDYHEARMIHLSYHDGEHYNGVRLKEDSCIGSARPXXXXXXXXXX 65
             + + ++MSPRWYIRNF+    RMIHLSYHDGEHYN VR KED+C G ARP          
Sbjct:   122 ICIHRNMSPRWYIRNFEDTRTRMIHLSYHDGEHYNSVRSKEDACGGPARPVVIEADAKVS 181

Query:    66 XXXXQSKTVTSKLKGAAGI--INAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFL 123
                 Q+K   SK K  A    +NAG+IK+VM+GS C+N+EK E+VLLQV GDVDAAIEFL
Sbjct:   182 AASKQAKATESKSKNKADKCHVNAGAIKVVMSGSCCDNTEKAEQVLLQVNGDVDAAIEFL 241

Query:   124 IAEQGTE 130
             IA+QG E
Sbjct:   242 IADQGME 248

GO:0005634 "nucleus" evidence=ISM

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0008234 "cysteine-type peptidase activity" evidence=ISS

DICTYBASE|DDB_G0267906 DDB_G0267906 "OTU domain containin protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 96 (38.9 bits), Expect = 5.1e-08, Sum P(2) = 5.1e-08
 Identities = 20/43 (46%), Positives = 27/43 (62%)

Query:     2 YCLLLSLMQHMSPRWYIRN-FDYHEARMIHLSYHDGEHYNGVR 43
             Y + +++ Q   PRW I N F   + + IHLSYH+ EHYN VR
Sbjct:   147 YNVNITIHQMDQPRWEIVNHFPPEKNKTIHLSYHNDEHYNSVR 189

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

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Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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

Your Input: fgenesh4_pg.C_LG_V000542 hypothetical protein (349 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

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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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	137
PF02845	42	CUE: CUE domain; InterPro: IPR003892 This domain m	97.66
PF00627	37	UBA: UBA/TS-N domain; InterPro: IPR000449 UBA doma	97.65
PF14555	43	UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A	97.44
KOG2606	302	consensus OTU (ovarian tumor)-like cysteine protea	97.4
TIGR00264	116	alpha-NAC-related protein. This hypothetical prote	97.31
PRK06369	115	nac nascent polypeptide-associated complex protein	97.24
cd00194	38	UBA Ubiquitin Associated domain. The UBA domain is	97.09
smart00546	43	CUE Domain that may be involved in binding ubiquit	97.07
smart00165	37	UBA Ubiquitin associated domain. Present in Rad23,	96.48
COG1308	122	EGD2 Transcription factor homologous to NACalpha-B	95.8
TIGR00116	290	tsf translation elongation factor Ts. This protein	93.7
PF06972	60	DUF1296: Protein of unknown function (DUF1296); In	93.69
PRK12332	198	tsf elongation factor Ts; Reviewed	93.66
PRK09377	290	tsf elongation factor Ts; Provisional	93.5
CHL00098	200	tsf elongation factor Ts	92.78
PF03474	39	DMA: DMRTA motif; InterPro: IPR005173 This region	92.44
COG0264	296	Tsf Translation elongation factor Ts [Translation,	90.13
PF08938	79	HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This	84.1
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	83.37
PF02954	42	HTH_8: Bacterial regulatory protein, Fis family; I	82.81
PF05861	358	PhnI: Bacterial phosphonate metabolism protein (Ph	80.05

>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs)

Probab=97.66  E-value=0.00018  Score=43.69  Aligned_cols=40  Identities=28%  Similarity=0.282  Sum_probs=34.7

Q ss_pred             hHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHh
Q 032619           88 GSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQ  127 (137)
Q Consensus        88 ~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~  127 (137)
                      +.++.+..-.+=.+.+.|+.+|++++||+|.||+.||+++
T Consensus         3 ~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~LL~~~   42 (42)
T PF02845_consen    3 EMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDALLEMS   42 (42)
T ss_dssp             HHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcCC
Confidence            4677778888888999999999999999999999999864

CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.

>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []

Probab=97.65  E-value=0.00011  Score=43.53  Aligned_cols=35  Identities=26%  Similarity=0.497  Sum_probs=30.1

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHH
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFL  123 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~L  123 (137)
                      ++.+++++.- |+. .+.++++|+.++||+|.|+++|
T Consensus         3 ~~~v~~L~~m-Gf~-~~~~~~AL~~~~~nve~A~~~L   37 (37)
T PF00627_consen    3 EEKVQQLMEM-GFS-REQAREALRACNGNVERAVDWL   37 (37)
T ss_dssp             HHHHHHHHHH-TS--HHHHHHHHHHTTTSHHHHHHHH
T ss_pred             HHHHHHHHHc-CCC-HHHHHHHHHHcCCCHHHHHHhC
Confidence            5678888888 755 7799999999999999999987

The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....

>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A

Probab=97.44  E-value=0.00029  Score=43.10  Aligned_cols=40  Identities=18%  Similarity=0.209  Sum_probs=33.2

Q ss_pred             hHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhc
Q 032619           88 GSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQG  128 (137)
Q Consensus        88 ~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~~  128 (137)
                      +.|...|.-||| +.+..++.|+.+++|++.||..-++...
T Consensus         2 e~i~~F~~iTg~-~~~~A~~~L~~~~wdle~Av~~y~~~~~   41 (43)
T PF14555_consen    2 EKIAQFMSITGA-DEDVAIQYLEANNWDLEAAVNAYFDDGE   41 (43)
T ss_dssp             HHHHHHHHHH-S-SHHHHHHHHHHTTT-HHHHHHHHHHSS-
T ss_pred             HHHHHHHHHHCc-CHHHHHHHHHHcCCCHHHHHHHHHhCCC
Confidence            578999999999 6799999999999999999998877543

>KOG2606 consensus OTU (ovarian tumor)-like cysteine protease [Signal transduction mechanisms; Posttranslational modification, protein turnover, chaperones]

Probab=97.40  E-value=7e-05  Score=63.33  Aligned_cols=44  Identities=25%  Similarity=0.357  Sum_probs=33.2

Q ss_pred             CcceeEEEEeCCCcceEEeeccCCCceEEEEE-----ecCCCcccccccC
Q 032619            1 MYCLLLSLMQHMSPRWYIRNFDYHEARMIHLS-----YHDGEHYNGVRLK   45 (137)
Q Consensus         1 ~~~~~i~Ihq~~~p~w~I~~~~~~~~~~lhla-----Yh~geHYnSVR~~   45 (137)
                      +|+++|.|+|.+.|+-.+.- +.+.-+.|-|.     |.+|||||||-..
T Consensus       250 vL~~PI~Vy~~~~p~~~~ge-ey~kd~pL~lvY~rH~y~LGeHYNS~~~~  298 (302)
T KOG2606|consen  250 VLQVPIEVYQADGPILEYGE-EYGKDKPLILVYHRHAYGLGEHYNSVTPL  298 (302)
T ss_pred             hhccCeEEeecCCCceeech-hhCCCCCeeeehHHhHHHHHhhhcccccc
Confidence            48999999999999777663 33233667787     5579999998653

>TIGR00264 alpha-NAC-related protein

Probab=97.31  E-value=0.00044  Score=51.49  Aligned_cols=40  Identities=33%  Similarity=0.411  Sum_probs=36.1

Q ss_pred             CCChhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHH
Q 032619           84 IINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLI  124 (137)
Q Consensus        84 ~~~~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll  124 (137)
                      .++++.|+.||..|||+ .+..+++|++|+||+-.||.+|-
T Consensus        76 ~i~~eDI~lV~eq~gvs-~e~A~~AL~~~~gDl~~AI~~L~  115 (116)
T TIGR00264        76 EITEDDIELVMKQCNVS-KEEARRALEECGGDLAEAIMKLE  115 (116)
T ss_pred             CCCHHHHHHHHHHhCcC-HHHHHHHHHHcCCCHHHHHHHhh
Confidence            36678899999999998 78899999999999999999873

This hypothetical protein is found so far only in the Archaea. Its C-terminal domain of about 40 amino acids is homologous to the C-termini of the nascent polypeptide-associated complex alpha chain (alpha-NAC) and its yeast ortholog Egd2p and to the huntingtin-interacting protein HYPK. It shows weaker similarity, possibly through shared structural constraints rather than through homology, with the amino-terminal domain of elongation factor Ts. Alpha-NAC plays a role in preventing nascent polypeptides from binding inappropriately to membrane-targeting apparatus during translation, but is also active as a transcription regulator.

>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed

Probab=97.24  E-value=0.00058  Score=50.75  Aligned_cols=40  Identities=30%  Similarity=0.375  Sum_probs=36.5

Q ss_pred             CCChhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHH
Q 032619           84 IINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLI  124 (137)
Q Consensus        84 ~~~~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll  124 (137)
                      .++++.|+.||..|||+ .+..+++|++++||+-.||.+|-
T Consensus        74 ~i~~edI~lv~~q~gvs-~~~A~~AL~~~~gDl~~AI~~L~  113 (115)
T PRK06369         74 EIPEEDIELVAEQTGVS-EEEARKALEEANGDLAEAILKLS  113 (115)
T ss_pred             CCCHHHHHHHHHHHCcC-HHHHHHHHHHcCCcHHHHHHHHh
Confidence            46688899999999998 78899999999999999999885

>cd00194 UBA Ubiquitin Associated domain

Probab=97.09  E-value=0.0018  Score=37.89  Aligned_cols=34  Identities=21%  Similarity=0.469  Sum_probs=28.3

Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHH
Q 032619           89 SIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLI  124 (137)
Q Consensus        89 ~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll  124 (137)
                      .++.++. .|.. .+.++++|..++||++.|+++|+
T Consensus         4 ~v~~L~~-mGf~-~~~~~~AL~~~~~d~~~A~~~L~   37 (38)
T cd00194           4 KLEQLLE-MGFS-REEARKALRATNNNVERAVEWLL   37 (38)
T ss_pred             HHHHHHH-cCCC-HHHHHHHHHHhCCCHHHHHHHHh
Confidence            4555444 6765 99999999999999999999987

The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.

>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs)

Probab=97.07  E-value=0.0015  Score=39.64  Aligned_cols=39  Identities=21%  Similarity=0.209  Sum_probs=33.8

Q ss_pred             hHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHH
Q 032619           88 GSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAE  126 (137)
Q Consensus        88 ~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~  126 (137)
                      ..++.++.-..=-+...|+.+|+.++||+|.||+.||.+
T Consensus         4 ~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~LL~~   42 (43)
T smart00546        4 EALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNLLEG   42 (43)
T ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence            356677777777889999999999999999999999965

CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)

>smart00165 UBA Ubiquitin associated domain

Probab=96.48  E-value=0.0072  Score=35.14  Aligned_cols=34  Identities=26%  Similarity=0.457  Sum_probs=27.0

Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHH
Q 032619           89 SIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLI  124 (137)
Q Consensus        89 ~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll  124 (137)
                      .+++++. .| .+.+.++++|..++||++.|+++|+
T Consensus         4 ~v~~L~~-mG-f~~~~a~~aL~~~~~d~~~A~~~L~   37 (37)
T smart00165        4 KIDQLLE-MG-FSREEALKALRAANGNVERAAEYLL   37 (37)
T ss_pred             HHHHHHH-cC-CCHHHHHHHHHHhCCCHHHHHHHHC
Confidence            3444443 45 6688999999999999999999985

Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.

>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]

Probab=95.80  E-value=0.021  Score=42.91  Aligned_cols=41  Identities=37%  Similarity=0.466  Sum_probs=36.5

Q ss_pred             CCCChhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHH
Q 032619           83 GIINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLI  124 (137)
Q Consensus        83 ~~~~~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll  124 (137)
                      ..++++.|+.||..||.+ .+.++.+|++++||+-.||..|.
T Consensus        81 ~~i~eeDIkLV~eQa~Vs-reeA~kAL~e~~GDlaeAIm~L~  121 (122)
T COG1308          81 SDISEEDIKLVMEQAGVS-REEAIKALEEAGGDLAEAIMKLT  121 (122)
T ss_pred             CCCCHHHHHHHHHHhCCC-HHHHHHHHHHcCCcHHHHHHHhc
Confidence            346688999999999998 88888999999999999998874

>TIGR00116 tsf translation elongation factor Ts

Probab=93.70  E-value=0.12  Score=43.63  Aligned_cols=41  Identities=24%  Similarity=0.316  Sum_probs=36.3

Q ss_pred             CChhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHH
Q 032619           85 INAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAE  126 (137)
Q Consensus        85 ~~~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~  126 (137)
                      ++...|++.-..||.. ..-.+++|.+++||+|.||++|...
T Consensus         3 isa~~IK~LRe~Tgag-m~dCKkAL~e~~gDiekAi~~LRkk   43 (290)
T TIGR00116         3 ITAQLVKELRERTGAG-MMDCKKALTEANGDFEKAIKNLRES   43 (290)
T ss_pred             CCHHHHHHHHHHHCCC-HHHHHHHHHHcCCCHHHHHHHHHHh
Confidence            3456799999999998 8889999999999999999999864

This protein is found in Bacteria, mitochondria, and chloroplasts.

>PF06972 DUF1296: Protein of unknown function (DUF1296); InterPro: IPR009719 This family represents a conserved region approximately 60 residues long within a number of plant proteins of unknown function

Probab=93.69  E-value=0.17  Score=33.70  Aligned_cols=39  Identities=18%  Similarity=0.400  Sum_probs=32.9

Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHh
Q 032619           89 SIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQ  127 (137)
Q Consensus        89 ~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~  127 (137)
                      .|+-+-.-+||..-+-|..+|.+|+.|.+.|+..||..+
T Consensus         8 ~VQ~iKEiv~~hse~eIya~L~ecnMDpnea~qrLL~qD   46 (60)
T PF06972_consen    8 TVQSIKEIVGCHSEEEIYAMLKECNMDPNEAVQRLLSQD   46 (60)
T ss_pred             HHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHHHhcC
Confidence            466666688996677899999999999999999999743

>PRK12332 tsf elongation factor Ts; Reviewed

Probab=93.66  E-value=0.14  Score=40.94  Aligned_cols=41  Identities=27%  Similarity=0.396  Sum_probs=36.1

Q ss_pred             CChhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHH
Q 032619           85 INAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAE  126 (137)
Q Consensus        85 ~~~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~  126 (137)
                      ++...|++.-..||.. ....+++|.+++||+|.||++|..-
T Consensus         3 i~a~~ik~LR~~tga~-~~~ck~AL~~~~gd~~~A~~~lr~~   43 (198)
T PRK12332          3 ITAKLVKELREKTGAG-MMDCKKALEEANGDMEKAIEWLREK   43 (198)
T ss_pred             CCHHHHHHHHHHHCCC-HHHHHHHHHHcCCCHHHHHHHHHHh
Confidence            3456899999999976 8889999999999999999999863

>PRK09377 tsf elongation factor Ts; Provisional

Probab=93.50  E-value=0.14  Score=43.24  Aligned_cols=41  Identities=27%  Similarity=0.429  Sum_probs=36.1

Q ss_pred             CChhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHH
Q 032619           85 INAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAE  126 (137)
Q Consensus        85 ~~~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~  126 (137)
                      ++...|++.-..||.. ..-.+++|++++||+|.||++|...
T Consensus         4 is~~~IK~LR~~Tgag-m~dCKkAL~e~~gD~ekAi~~Lrk~   44 (290)
T PRK09377          4 ITAALVKELRERTGAG-MMDCKKALTEADGDIEKAIEWLRKK   44 (290)
T ss_pred             cCHHHHHHHHHHHCCC-HHHHHHHHHHcCCCHHHHHHHHHHh
Confidence            3456899999999977 8889999999999999999999863

>CHL00098 tsf elongation factor Ts

Probab=92.78  E-value=0.21  Score=40.20  Aligned_cols=38  Identities=21%  Similarity=0.296  Sum_probs=33.8

Q ss_pred             hHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHH
Q 032619           88 GSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAE  126 (137)
Q Consensus        88 ~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~  126 (137)
                      ..|++.-..||.. ..-.+++|..++||+|.||++|..-
T Consensus         3 ~~ik~LR~~Tgag-~~dck~AL~e~~gd~~~A~~~Lr~~   40 (200)
T CHL00098          3 ELVKELRDKTGAG-MMDCKKALQEANGDFEKALESLRQK   40 (200)
T ss_pred             HHHHHHHHHHCCC-HHHHHHHHHHcCCCHHHHHHHHHHh
Confidence            4688888899976 8889999999999999999999864

>PF03474 DMA: DMRTA motif; InterPro: IPR005173 This region is found to the C terminus of the DM DNA-binding domain IPR001275 from INTERPRO []

Probab=92.44  E-value=0.16  Score=31.16  Aligned_cols=25  Identities=32%  Similarity=0.462  Sum_probs=21.1

Q ss_pred             CCHHHHHHHHHHhCCCHHHHHHHHH
Q 032619          100 ENSEKVEEVLLQVGGDVDAAIEFLI  124 (137)
Q Consensus       100 ~D~~lIre~L~~~~gdvdaAI~~Ll  124 (137)
                      .....+.-+|+.|+||+-.|||.++
T Consensus        15 ~kr~~Le~iL~~C~GDvv~AIE~~l   39 (39)
T PF03474_consen   15 QKRSVLELILQRCNGDVVQAIEQFL   39 (39)
T ss_pred             CChHHHHHHHHHcCCcHHHHHHHhC
Confidence            4566777899999999999999874

DM-domain proteins with this motif are known as DMRTA proteins. The function of this region is unknown.

>COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]

Probab=90.13  E-value=0.61  Score=39.80  Aligned_cols=40  Identities=28%  Similarity=0.422  Sum_probs=35.2

Q ss_pred             CChhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 032619           85 INAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIA  125 (137)
Q Consensus        85 ~~~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~  125 (137)
                      +....|++.-..||-. .....++|..++||+|.||++|..
T Consensus         4 ita~~VKeLRe~TgAG-MmdCKkAL~E~~Gd~EkAie~LR~   43 (296)
T COG0264           4 ITAALVKELREKTGAG-MMDCKKALEEANGDIEKAIEWLRE   43 (296)
T ss_pred             ccHHHHHHHHHHhCCc-HHHHHHHHHHcCCCHHHHHHHHHH
Confidence            3456799999999987 888899999999999999999986

>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins

Probab=84.10  E-value=0.75  Score=31.38  Aligned_cols=40  Identities=20%  Similarity=0.311  Sum_probs=27.8

Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhcc
Q 032619           89 SIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQGT  129 (137)
Q Consensus        89 ~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~~~  129 (137)
                      .|+.++..+-- .-..|+++|-.+.+||+.|+.+|+.....
T Consensus        34 ~vr~~Lg~~~~-~e~~i~eal~~~~fDvekAl~~Ll~~~~~   73 (79)
T PF08938_consen   34 QVREVLGDYVP-PEEQIKEALWHYYFDVEKALDYLLSKFKK   73 (79)
T ss_dssp             CHHHHCCCCC---CCHHHHHHHHTTT-CCHHHHHHHHCCHS
T ss_pred             HHHHHHcccCC-CHHHHHHHHHHHcCCHHHHHHHHHHhccC
Confidence            35555543322 56678899999999999999999976543

; PDB: 1UFZ_A 3IZQ_1.

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=83.37  E-value=2.2  Score=37.37  Aligned_cols=38  Identities=29%  Similarity=0.403  Sum_probs=33.4

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHH
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAE  126 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~  126 (137)
                      +..|+.+|.= | ++.+.|+.+|++.=+|.|.||+||+.-
T Consensus       157 e~~I~~i~eM-G-f~R~qV~~ALRAafNNPdRAVEYL~tG  194 (378)
T TIGR00601       157 ETTIEEIMEM-G-YEREEVERALRAAFNNPDRAVEYLLTG  194 (378)
T ss_pred             HHHHHHHHHh-C-CCHHHHHHHHHHHhCCHHHHHHHHHhC
Confidence            5688888874 4 799999999999999999999999863

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).

>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]

Probab=82.81  E-value=2  Score=25.68  Aligned_cols=22  Identities=27%  Similarity=0.525  Sum_probs=18.4

Q ss_pred             HHHHHHHHHHhCCCHHHHHHHH
Q 032619          102 SEKVEEVLLQVGGDVDAAIEFL  123 (137)
Q Consensus       102 ~~lIre~L~~~~gdvdaAI~~L  123 (137)
                      .+.|+++|+.++||+-.|...|
T Consensus         7 ~~~i~~aL~~~~gn~~~aA~~L   28 (42)
T PF02954_consen    7 KQLIRQALERCGGNVSKAARLL   28 (42)
T ss_dssp             HHHHHHHHHHTTT-HHHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHH
Confidence            5789999999999999887765

It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....

>PF05861 PhnI: Bacterial phosphonate metabolism protein (PhnI); InterPro: IPR008773 This family consists of several proteobacterial phosphonate metabolism protein (PhnI) sequences

Probab=80.05  E-value=3.5  Score=36.11  Aligned_cols=43  Identities=26%  Similarity=0.172  Sum_probs=39.5

Q ss_pred             hHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhccc
Q 032619           88 GSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQGTE  130 (137)
Q Consensus        88 ~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~~~~  130 (137)
                      -+|..||..-|.+|.++..-+|.+..||+--||..|.+-+.+-
T Consensus        43 lavdrVMsEgsLYdp~LAAlAiKQa~GD~~EAiFLLRAyRtTl   85 (358)
T PF05861_consen   43 LAVDRVMSEGSLYDPELAALAIKQARGDLIEAIFLLRAYRTTL   85 (358)
T ss_pred             HHHHHHhccccccCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc
Confidence            3688899999999999999999999999999999999987664

Bacteria that use phosphonates as a phosphorus source must be able to break the stable carbon-phosphorus bond. In Escherichia coli phosphonates are broken down by a C-P lyase that has a broad substrate specificity. The genes for phosphonate uptake and degradation in E. coli are organised in an operon of 14 genes, named phnC to phnP. Three gene products (PhnC, PhnD and PhnE) comprise a binding protein-dependent phosphonate transporter, which also transports phosphate, phosphite, and certain phosphate esters such as phosphoserine; two gene products (PhnF and PhnO) may have a role in gene regulation; and nine gene products (PhnG, PhnH, PhnI, PhnJ, PhnK, PhnL, PhnM, PhnN, and PhnP) probably comprise a membrane-associated C-P lyase enzyme complex [].; GO: 0015716 phosphonate transport

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	137
3pfy_A	185	OTU domain-containing protein 5; structural genomi	2e-05
3phu_A	219	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	1e-04
3phx_A	185	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	2e-04

>3pfy_A OTU domain-containing protein 5; structural genomics, structural genomics consortium, SGC, PE C65 otubain, hydrolase; HET: MSE PG4; 1.70A {Homo sapiens} PDB: 3tmp_A* 3tmo_A* Length = 185

 Score = 41.3 bits (96), Expect = 2e-05
 Identities = 10/35 (28%), Positives = 13/35 (37%)

Query: 14  PRWYIRNFDYHEARMIHLSYHDGEHYNGVRLKEDS 48
           P         +E   I +SYH   HYN V     +
Sbjct: 151 PINTFHGIHQNEDEPIRVSYHRNIHYNSVVNPNKA 185

>3phu_A RNA-directed RNA polymerase L; OTU domain, DE-ubiquitinase, DE-isgylase, hydrolase; 2.20A {Crimean-congo hemorrhagic fever VIRUSIBAR10200} Length = 219

 Score = 39.0 bits (90), Expect = 1e-04
 Identities = 4/67 (5%), Positives = 18/67 (26%), Gaps = 3/67 (4%)

Query: 10  QHMSPRWYIRNFDYHE---ARMIHLSYHDGEHYNGVRLKEDSCIGSARPIIIKADADISA 66
              +         + +      ++L +    H++ +R+       +   + +        
Sbjct: 122 TVAASDEVEAGIKFGDGDVFTAVNLLHSGQTHFDALRILPQFETDTREALSLMDRVIAVD 181

Query: 67  ASIQSKT 73
               S +
Sbjct: 182 QLTSSSS 188

>3phx_A RNA-directed RNA polymerase L; OTU domain, DE-ubiquitinase, DE-isgylase, hydrolase-protein complex; 1.60A {Crimean-congo hemorrhagic fever virus} PDB: 3phw_A 3pt2_A 3pse_A 3prp_A 3prm_A Length = 185

 Score = 38.9 bits (90), Expect = 2e-04
 Identities = 3/41 (7%), Positives = 13/41 (31%), Gaps = 3/41 (7%)

Query: 10  QHMSPRWYIRNFDYHE---ARMIHLSYHDGEHYNGVRLKED 47
              +         + +      ++L +    H++ +R+   
Sbjct: 122 TVAASDEVEAGIKFGDGDVFTAVNLLHSGQTHFDALRILPQ 162

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	137
3phu_A	219	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	98.93
3phx_A	185	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	98.87
3pfy_A	185	OTU domain-containing protein 5; structural genomi	98.67
3by4_A	212	OTU1, ubiquitin thioesterase OTU1; ubiquitin hydro	98.28
1wgl_A	59	TOLL-interacting protein; CUE domain, structural g	97.86
2dhy_A	67	CUE domain-containing protein 1; structural genomi	97.7
1tff_A	234	Ubiquitin thiolesterase protein OTUB2; hydrolase;	97.69
2cp9_A	64	EF-TS, EF-TSMT, elongation factor TS, mitochondria	97.57
1wj7_A	104	Hypothetical protein (RSGI RUH-015); UBA domain, u	97.55
2bwb_A	46	Ubiquitin-like protein DSK2; UBA, signaling protei	97.34
1otr_A	49	Protein CUE2; protein-protein complex, cell cycle;	97.18
1wr1_B	58	Ubiquitin-like protein DSK2; UBA domain, UBA-ubiqu	97.16
2dah_A	54	Ubiquilin-3; UBA domain, structural genomics, NPPS	97.08
1wji_A	63	Tudor domain containing protein 3; UBA domain, str	97.08
1p3q_Q	54	VPS9P, vacuolar protein sorting-associated protein	97.03
1z96_A	40	DNA-damage, UBA-domain protein MUD1; ubiquitin, th	97.0
1tr8_A	102	Conserved protein (MTH177); chaperones, nascent po	96.97
2dak_A	63	Ubiquitin carboxyl-terminal hydrolase 5; isopeptid	96.95
1vej_A	74	Riken cDNA 4931431F19; UBA domain, three helix bun	96.95
2dna_A	67	Unnamed protein product; ubiquitin associated doma	96.92
2knz_A	53	Ubiquilin-4; cytoplasm, endoplasmic reticulum, nuc	96.92
2g3q_A	43	Protein YBL047C; endocytosis, solution structure,	96.89
1vg5_A	73	RSGI RUH-014, rhomboid family protein; UBA domain,	96.88
3e21_A	45	HFAF1, FAS-associated factor 1; UBA, alternative s	96.74
1ify_A	49	HHR23A, UV excision repair protein RAD23 homolog A	96.66
2jy5_A	52	Ubiquilin-1; UBA, alternative splicing, cytoplasm,	96.58
2cp8_A	54	NEXT to BRCA1 gene 1 protein; UBA domain, structur	96.56
2dam_A	67	ETEA protein; KIAA0887, UBA-like domain, structura	96.47
2cwb_A	108	Chimera of immunoglobulin G binding protein G and	96.26
1whc_A	64	RSGI RUH-027, UBA/UBX 33.3 kDa protein; UBA domain	96.1
1v92_A	46	NSFL1 cofactor P47; 3-helix bundle, recombination;	95.97
1wiv_A	73	UBP14, ubiquitin-specific protease 14; ubiquitin a	95.91
1veg_A	83	NEDD8 ultimate buster-1; ubiquitin associated doma	95.83
2ekk_A	47	UBA domain from E3 ubiquitin-protein ligase HUWE1;	95.78
2dag_A	74	Ubiquitin carboxyl-terminal hydrolase 5; isopeptid	95.77
2dal_A	62	Protein KIAA0794; FAS associted factor 1, UBA-like	95.71
2dai_A	83	Ubadc1, ubiquitin associated domain containing 1;	95.47
2cpw_A	64	CBL-interacting protein STS-1 variant; ubiquitin a	95.25
1dv0_A	47	DNA repair protein HHR23A; helical bundle, DNA bin	95.1
2crn_A	64	Ubash3A protein; compact three-helix bundle, struc	94.89
4ae4_A	118	Ubiquitin-associated protein 1; protein transport,	94.47
1wgn_A	63	UBAP1, ubiquitin associated protein; ubiquitin ass	94.15
2dkl_A	85	Trinucleotide repeat containing 6C protein; TNRC6C	94.14
2lbc_A	126	Ubiquitin carboxyl-terminal hydrolase 13; tandem U	93.97
1vdl_A	80	Ubiquitin carboxyl-terminal hydrolase 25; UBA doma	93.59
2dzl_A	66	Protein FAM100B; UBA-like domain, structural genom	93.46
1aip_C	196	EF-TS, elongation factor TS; nucleotide exchange,	93.12
1xb2_B	291	EF-TS, elongation factor TS, mitochondrial, EF-TSM	92.8
2lva_A	129	Ubiquitin carboxyl-terminal hydrolase 28; UIM, ubi	91.86
1vek_A	84	UBP14, ubiquitin-specific protease 14, putative; U	92.68
2ooa_A	52	E3 ubiquitin-protein ligase CBL-B; alpha-helical d	92.35
2d9s_A	53	CBL E3 ubiquitin protein ligase; UBA domain, dimer	91.73
2qsf_X	171	RAD23, UV excision repair protein RAD23; alpha-bet	90.37
3k9o_A	201	Ubiquitin-conjugating enzyme E2 K; E2-25K, complex	89.71
2lbc_A	126	Ubiquitin carboxyl-terminal hydrolase 13; tandem U	89.64
2oo9_A	46	E3 ubiquitin-protein ligase CBL; alpha-helical dom	88.16
2di0_A	71	Activating signal cointegrator 1 complex subunit 2	87.28
4dhi_B	284	Ubiquitin thioesterase otubain-like; ubiquitin E2	86.61
2juj_A	56	E3 ubiquitin-protein ligase CBL; alpha helix, UBA	86.0
4ae4_A	118	Ubiquitin-associated protein 1; protein transport,	84.0
3e46_A	253	Ubiquitin-conjugating enzyme E2-25 kDa; huntington	81.75
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	81.73
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	81.14

>3phu_A RNA-directed RNA polymerase L; OTU domain, DE-ubiquitinase, DE-isgylase, hydrolase; 2.20A {Crimean-congo hemorrhagic fever VIRUSIBAR10200}

Probab=98.93  E-value=4e-10  Score=89.90  Aligned_cols=58  Identities=9%  Similarity=0.063  Sum_probs=46.8

Q ss_pred             CcceeEEEEeCCCc--ceEEeec-cCCCceEEEEEecCCCcccccccCCCCCCCCCceeee
Q 032619            1 MYCLLLSLMQHMSP--RWYIRNF-DYHEARMIHLSYHDGEHYNGVRLKEDSCIGSARPIII   58 (137)
Q Consensus         1 ~~~~~i~Ihq~~~p--~w~I~~~-~~~~~~~lhlaYh~geHYnSVR~~~d~~~~p~~p~~i   58 (137)
                      +|+++|+|+|.+.+  .+.+..| +....+.|+|+|++|+||||||.+.|++.+|+.|+.|
T Consensus       113 ~~~v~I~V~~~d~~g~~~~i~~fge~~~~~~I~L~Y~g~~HYdSL~~~~d~~~~~~~~~~l  173 (219)
T 3phu_A          113 EMGITIIIWTVAASDEVEAGIKFGDGDVFTAVNLLHSGQTHFDALRILPQFETDTREALSL  173 (219)
T ss_dssp             HTTCCEEEEEESSSSBEEEEEEESSCCTTTSEEEEEETTTEEEEEEECTTTCCSCCCCCCH
T ss_pred             HhCCCEEEEEecCCCCceeEEEecCCCCCCeEEEEECCCcCchhheECCCCCCCCCcchhH
Confidence            48999999998776  3333334 3334689999999999999999999999999999864

>3phx_A RNA-directed RNA polymerase L; OTU domain, DE-ubiquitinase, DE-isgylase, hydrolase-protein complex; 1.60A {Crimean-congo hemorrhagic fever virus} PDB: 3phw_A 3pt2_A 3pse_A 3prp_A 3prm_A

Probab=98.87  E-value=6.9e-10  Score=86.15  Aligned_cols=58  Identities=9%  Similarity=0.073  Sum_probs=37.5

Q ss_pred             CcceeEEEEeCCCcc--eEEeec-cCCCceEEEEEecCCCcccccccCCCCCCCCCceeee
Q 032619            1 MYCLLLSLMQHMSPR--WYIRNF-DYHEARMIHLSYHDGEHYNGVRLKEDSCIGSARPIII   58 (137)
Q Consensus         1 ~~~~~i~Ihq~~~p~--w~I~~~-~~~~~~~lhlaYh~geHYnSVR~~~d~~~~p~~p~~i   58 (137)
                      +|+++|+|+|.+.+.  +.|..| +....++|+|+|++|+||||||.+.|+++.++.|+.|
T Consensus       113 ~~~v~I~V~~~d~~~~~~~i~~f~~~~~~~~I~L~Y~g~~HYdsl~~~~~~~~~~~~~~~~  173 (185)
T 3phx_A          113 EMGITIIIWTVAASDEVEAGIKFGDGDVFTAVNLLHSGQTHFDALRILPQFETDTREALSL  173 (185)
T ss_dssp             HHCCCEEEEEC--CCBCCEEEEESSCCTTTSEEEEEETTTEEEEEEECGGGC---------
T ss_pred             HHCCcEEEEEecCCCCceEEEEcCCCCCCCEEEEEECCCcCchhceECCCCCCCCcccccH
Confidence            489999999987664  333334 3333689999999999999999999999988877754

>3pfy_A OTU domain-containing protein 5; structural genomics, structural genomics consortium, SGC, PE C65 otubain, hydrolase; HET: MSE PG4; 1.70A {Homo sapiens} PDB: 3tmp_A* 3tmo_A*

Probab=98.67  E-value=7.8e-09  Score=80.45  Aligned_cols=45  Identities=27%  Similarity=0.332  Sum_probs=35.7

Q ss_pred             CcceeEEEEeCCCcce-EEeeccCCCceEEEEEecCCCcccccccC
Q 032619            1 MYCLLLSLMQHMSPRW-YIRNFDYHEARMIHLSYHDGEHYNGVRLK   45 (137)
Q Consensus         1 ~~~~~i~Ihq~~~p~w-~I~~~~~~~~~~lhlaYh~geHYnSVR~~   45 (137)
                      +|+++|+|+|.+.+++ .+.+.+....+.|+|+||.++||||||.-
T Consensus       137 ~~~v~I~V~~~~~~~i~i~~g~~~~~~~~I~L~Y~~~~HYnSv~~p  182 (185)
T 3pfy_A          137 MYNRPVEVYQYSTEPINTFHGIHQNEDEPIRVSYHRNIHYNSVVNP  182 (185)
T ss_dssp             HHTSCEEEESSCSSCSEEECTTSCCTTSCEEEEEETTTEEEEEECC
T ss_pred             hhCCcEEEEECCCCCeEEecCccCCCCCEEEEEECCCCCcccccCC
Confidence            4899999999887544 44444444568999999999999999873

>3by4_A OTU1, ubiquitin thioesterase OTU1; ubiquitin hydrolase, deubiquitinase, cell cycle, hydrolase; 1.55A {Saccharomyces cerevisiae} PDB: 3c0r_A

Probab=98.28  E-value=5e-07  Score=71.18  Aligned_cols=41  Identities=12%  Similarity=0.201  Sum_probs=32.1

Q ss_pred             CcceeEEEEeCC-CcceEEeeccCCCceEEEEEecCCCccccccc
Q 032619            1 MYCLLLSLMQHM-SPRWYIRNFDYHEARMIHLSYHDGEHYNGVRL   44 (137)
Q Consensus         1 ~~~~~i~Ihq~~-~p~w~I~~~~~~~~~~lhlaYh~geHYnSVR~   44 (137)
                      +|+++|+|+|.+ .|.+.|.. +. ..+.|+|+|| |+|||||+.
T Consensus        98 ~~~~~I~V~~~~~~~~~~~~~-~~-~~~~I~L~Y~-g~HYdsl~~  139 (212)
T 3by4_A           98 ALAVAIYVVDIDAVKIEKFNE-DK-FDNYILILFN-GIHYDSLTM  139 (212)
T ss_dssp             HHTCEEEEEETTTTEEEEEST-TT-CSEEEEEEEC-SSCEEEEEE
T ss_pred             HHCCCEEEEECCCCCeEEeCC-CC-CCCeEEEEEc-CCcceEEec
Confidence            489999999976 45455432 22 4688999999 899999999

>1wgl_A TOLL-interacting protein; CUE domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, immune system; NMR {Homo sapiens} SCOP: a.5.2.4

Probab=97.86  E-value=3.4e-05  Score=49.94  Aligned_cols=48  Identities=21%  Similarity=0.149  Sum_probs=41.8

Q ss_pred             CCCChhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhccc
Q 032619           83 GIINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQGTE  130 (137)
Q Consensus        83 ~~~~~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~~~~  130 (137)
                      ....+..++....-..--|.+.|+.+|++++||+|+||+.||.+....
T Consensus         6 ~~~~ee~l~~L~emFP~ld~~~I~~vL~a~~gdvd~aI~~LL~m~~~~   53 (59)
T 1wgl_A            6 SGCSEEDLKAIQDMFPNMDQEVIRSVLEAQRGNKDAAINSLLQMGEEP   53 (59)
T ss_dssp             SSSCHHHHHHHHHHCSSSCHHHHHHHHTTTTTCHHHHHHHHHHSSCCC
T ss_pred             CCCCHHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcCcCCC
Confidence            344567888888888889999999999999999999999999988654

>2dhy_A CUE domain-containing protein 1; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.70  E-value=7.6e-05  Score=49.54  Aligned_cols=45  Identities=20%  Similarity=0.120  Sum_probs=40.3

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhcccc
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQGTEE  131 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~~~~~  131 (137)
                      +..++.+..-..=-|.+.|+.+|++++||+|+||+.||.+.....
T Consensus        19 ~~~v~~L~~MFP~lD~~vI~~vL~a~~G~vd~aId~LL~ms~~~~   63 (67)
T 2dhy_A           19 NQAMDDFKTMFPNMDYDIIECVLRANSGAVDATIDQLLQMNLESG   63 (67)
T ss_dssp             HHHHHHHHHHCSSSCHHHHHHHHHHHTSCHHHHHHHHHHHHHCSS
T ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHhcCCCCC
Confidence            567888888889899999999999999999999999999986554

>1tff_A Ubiquitin thiolesterase protein OTUB2; hydrolase; 2.10A {Homo sapiens} SCOP: d.3.1.11

Probab=97.69  E-value=1.5e-05  Score=63.55  Aligned_cols=44  Identities=16%  Similarity=0.143  Sum_probs=31.1

Q ss_pred             cceeEEEEeCCCcceEEe--eccCCCceEEEEEecCCCcccccccCC
Q 032619            2 YCLLLSLMQHMSPRWYIR--NFDYHEARMIHLSYHDGEHYNGVRLKE   46 (137)
Q Consensus         2 ~~~~i~Ihq~~~p~w~I~--~~~~~~~~~lhlaYh~geHYnSVR~~~   46 (137)
                      ++++|.|+|++++...+.  .++++..++|||.|+.| |||+|....
T Consensus       187 L~v~I~V~~~d~~~~~~~~~~~~~~~~~~I~LlY~pg-HYdily~~~  232 (234)
T 1tff_A          187 LSIALQVEYVDEMDTALNHHVFPEAATPSVYLLYKTS-HYNILYAAD  232 (234)
T ss_dssp             HTCCEEEEECC-------CCCCCCCSSCSEEEEEETT-EEEEEEECC
T ss_pred             hCCCEEEEEcCCCCCccccccCCCCCCCeEEEEECCC-CceecccCC
Confidence            689999999988864443  35556778999999987 999998753

>2cp9_A EF-TS, EF-TSMT, elongation factor TS, mitochondrial; UBA, structural genomics, human, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.2

Probab=97.57  E-value=0.00014  Score=48.01  Aligned_cols=44  Identities=18%  Similarity=0.172  Sum_probs=38.6

Q ss_pred             CCCChhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHh
Q 032619           83 GIINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQ  127 (137)
Q Consensus        83 ~~~~~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~  127 (137)
                      ..+....|+++...||.. +.-.+++|++++||++.||++|..-.
T Consensus         6 ~~it~~~Vk~LRe~TGag-~~dcKkAL~e~~GDi~~Ai~~Lr~kg   49 (64)
T 2cp9_A            6 SGSSKELLMKLRRKTGYS-FVNCKKALETCGGDLKQAEIWLHKEA   49 (64)
T ss_dssp             SCCCCHHHHHHHHHHCCC-HHHHHHHHHHHTSCHHHHHHHHHHHH
T ss_pred             ccCCHHHHHHHHHHhCCC-HHHHHHHHHHcCCCHHHHHHHHHHHh
Confidence            455677899999999987 88899999999999999999997543

>1wj7_A Hypothetical protein (RSGI RUH-015); UBA domain, ubiquitin associated domain, structural genomics, riken structural genomics/proteomics initiative; NMR {Mus musculus} SCOP: a.5.2.1

Probab=97.55  E-value=0.00011  Score=52.75  Aligned_cols=40  Identities=23%  Similarity=0.361  Sum_probs=36.4

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHh
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQ  127 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~  127 (137)
                      ++.|+.||.-|||+ .+.++.+|.+|+||++.||.+|+.-.
T Consensus        40 eekVk~L~EmtG~s-eeeAr~AL~~~ngDl~~AI~~Lleg~   79 (104)
T 1wj7_A           40 EEKVKQLIDITGKN-QDECVIALHDCNGDVNRAINVLLEGN   79 (104)
T ss_dssp             HHHHHHHHHHTCCC-HHHHHHHHHHHTSCHHHHHHHHHTCS
T ss_pred             HHHHHHHHHhhCCC-HHHHHHHHHHcCCCHHHHHHHHHhCC
Confidence            46899999999998 78899999999999999999999654

>2bwb_A Ubiquitin-like protein DSK2; UBA, signaling protein; 2.3A {Saccharomyces cerevisiae} SCOP: a.5.2.1 PDB: 2bwe_A

Probab=97.34  E-value=0.00045  Score=42.32  Aligned_cols=37  Identities=19%  Similarity=0.327  Sum_probs=31.2

Q ss_pred             hHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 032619           88 GSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIA  125 (137)
Q Consensus        88 ~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~  125 (137)
                      ..++.++ .-|.+|.+.++++|..++||++.||++|+.
T Consensus         9 ~~i~~L~-~MGF~d~~~~~~AL~~~~gnv~~Ave~L~~   45 (46)
T 2bwb_A            9 HQLRQLN-DMGFFDFDRNVAALRRSGGSVQGALDSLLN   45 (46)
T ss_dssp             HHHHHHH-HTTCCCHHHHHHHHHHHTTCHHHHHHHHHC
T ss_pred             HHHHHHH-HcCCCcHHHHHHHHHHhCCCHHHHHHHHHc
Confidence            3555555 459899999999999999999999999983

>1otr_A Protein CUE2; protein-protein complex, cell cycle; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.4

Probab=97.18  E-value=0.00092  Score=41.79  Aligned_cols=41  Identities=22%  Similarity=0.332  Sum_probs=35.3

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHh
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQ  127 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~  127 (137)
                      ++.++..+.-..=.+...|+.+|..++||+|.||..||.+.
T Consensus         5 e~~v~~L~EMFP~~~~~~ik~~L~~~~Gd~d~Ai~~LL~~~   45 (49)
T 1otr_A            5 ESKLSILMDMFPAISKSKLQVHLLENNNDLDLTIGLLLKEN   45 (49)
T ss_dssp             HHHHHHHHHHCSSSCHHHHHHHHHHTTTCSHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHhcc
Confidence            34567777777777899999999999999999999999994

>1wr1_B Ubiquitin-like protein DSK2; UBA domain, UBA-ubiquitin complex, signaling protein; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.1

Probab=97.16  E-value=0.00078  Score=43.30  Aligned_cols=37  Identities=19%  Similarity=0.323  Sum_probs=31.6

Q ss_pred             hHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 032619           88 GSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIA  125 (137)
Q Consensus        88 ~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~  125 (137)
                      ..+++++. -|.+|.+.++++|..++||++.||++|+.
T Consensus        19 ~qi~~L~~-MGF~d~~~~~~AL~~~~gnve~Ave~L~~   55 (58)
T 1wr1_B           19 HQLRQLND-MGFFDFDRNVAALRRSGGSVQGALDSLLN   55 (58)
T ss_dssp             HHHHHHHH-HTCCCHHHHHHHHHHHTSCHHHHHHHHHH
T ss_pred             HHHHHHHH-cCCCcHHHHHHHHHHhCCCHHHHHHHHHh
Confidence            35655554 58899999999999999999999999986

>2dah_A Ubiquilin-3; UBA domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=97.08  E-value=0.00081  Score=42.52  Aligned_cols=40  Identities=33%  Similarity=0.396  Sum_probs=33.1

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHh
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQ  127 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~  127 (137)
                      +..+++.+ .-|.+|.+.++++|..++|||+.||++|+...
T Consensus        10 ~~~l~~L~-~MGF~d~~~n~~AL~~~~Gdv~~Ave~L~~~~   49 (54)
T 2dah_A           10 QVQLEQLR-SMGFLNREANLQALIATGGDVDAAVEKLRQSS   49 (54)
T ss_dssp             HHHHHHHH-HHTCCCHHHHHHHHHHHTSCHHHHHHHHHHHS
T ss_pred             HHHHHHHH-HcCCCcHHHHHHHHHHcCCCHHHHHHHHHhCC
Confidence            33565555 45999999999999999999999999999754

>1wji_A Tudor domain containing protein 3; UBA domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=97.08  E-value=0.0017  Score=42.23  Aligned_cols=45  Identities=18%  Similarity=0.374  Sum_probs=36.7

Q ss_pred             CCChhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhccc
Q 032619           84 IINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQGTE  130 (137)
Q Consensus        84 ~~~~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~~~~  130 (137)
                      .+++.+|+.++. -| .+.+.++++|..++||++.|+++|+.-....
T Consensus         7 ~~~~~~I~~L~~-MG-F~~~~a~~AL~~~~~nve~A~e~L~~~~~~~   51 (63)
T 1wji_A            7 GVDEKALKHITE-MG-FSKEASRQALMDNGNNLEAALNVLLTSNKQK   51 (63)
T ss_dssp             SSCHHHHHHHHT-TT-CCHHHHHHHHHHTTSCHHHHHHHHHHHSSCC
T ss_pred             CCCHHHHHHHHH-cC-CCHHHHHHHHHHhCCCHHHHHHHHHHCCCCc
Confidence            466778888775 56 4688899999999999999999999865433

>1p3q_Q VPS9P, vacuolar protein sorting-associated protein VPS9; trafficking, post translational modification, mono- ubiquitination; 1.70A {Saccharomyces cerevisiae} SCOP: a.5.2.4 PDB: 1mn3_A

Probab=97.03  E-value=0.00022  Score=45.62  Aligned_cols=41  Identities=7%  Similarity=0.153  Sum_probs=27.9

Q ss_pred             hHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhc
Q 032619           88 GSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQG  128 (137)
Q Consensus        88 ~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~~  128 (137)
                      ..++.+..=.+=-|.+.|+.+|+.++|++|+||++||++.+
T Consensus        14 ~~~~~L~~MFP~lD~evI~~Vl~a~~G~~~~~IdaLLqms~   54 (54)
T 1p3q_Q           14 DTLNTLQNMFPDMDPSLIEDVCIAAASRIGPCVDALLSLSE   54 (54)
T ss_dssp             HHHHHHHHHSTTSCHHHHHHHHHHSCC--CGGGC-------
T ss_pred             HHHHHHHHHcccCCHHHHHHHHHHcCCCHHHHHHHHHhhcC
Confidence            45666777777789999999999999999999999999863

>1z96_A DNA-damage, UBA-domain protein MUD1; ubiquitin, three-helix bundle, protein transport; 1.80A {Schizosaccharomyces pombe} SCOP: a.5.2.1

Probab=97.00  E-value=0.0011  Score=38.31  Aligned_cols=36  Identities=25%  Similarity=0.424  Sum_probs=30.5

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHH
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLI  124 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll  124 (137)
                      ++.|+++|.- |. +.+.++++|..++||++.|+++|+
T Consensus         5 ~~~i~~L~~m-Gf-~~~~a~~AL~~~~~n~e~A~~~L~   40 (40)
T 1z96_A            5 NSKIAQLVSM-GF-DPLEAAQALDAANGDLDVAASFLL   40 (40)
T ss_dssp             HHHHHHHHHT-TC-CHHHHHHHHHHTTTCHHHHHHHHC
T ss_pred             HHHHHHHHHc-CC-CHHHHHHHHHHcCCCHHHHHHHHC
Confidence            4578888876 65 578899999999999999999984

>1tr8_A Conserved protein (MTH177); chaperones, nascent polypeptide-associated complex, ribosome domain, ubiquitin, chaperone; 2.27A {Methanothermobacter marburgensis}

Probab=96.97  E-value=0.00069  Score=48.12  Aligned_cols=39  Identities=36%  Similarity=0.501  Sum_probs=35.0

Q ss_pred             CCChhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHH
Q 032619           84 IINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFL  123 (137)
Q Consensus        84 ~~~~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~L  123 (137)
                      .+++..|..||..+||+ .+..+++|++++||+-.||.+|
T Consensus        63 ~i~~edi~lv~~q~~vs-~~~A~~aL~~~~gDiv~Ai~~L  101 (102)
T 1tr8_A           63 EIPEDDIELVMNQTGAS-REDATRALQETGGDLAEAIMRL  101 (102)
T ss_dssp             CCCHHHHHHHHHHHCCC-HHHHHHHHHHTTTCHHHHHHHC
T ss_pred             CCCHHHHHHHHHHhCCC-HHHHHHHHHHcCCCHHHHHHHh
Confidence            46677899999999998 7888899999999999999876

>2dak_A Ubiquitin carboxyl-terminal hydrolase 5; isopeptidase T, ubiquitin specific protease 5, USP 5, UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.95  E-value=0.0016  Score=41.98  Aligned_cols=46  Identities=7%  Similarity=0.233  Sum_probs=38.0

Q ss_pred             CCCCCChhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhc
Q 032619           81 AAGIINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQG  128 (137)
Q Consensus        81 ~~~~~~~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~~  128 (137)
                      ++..+++..++++|. -|. +.+.++.+|+.++||++.|+++|+.-..
T Consensus         4 ~~~~~~~~~v~~L~~-MGF-~~~~a~~AL~~t~~nve~A~e~L~~~~~   49 (63)
T 2dak_A            4 GSSGPPEDCVTTIVS-MGF-SRDQALKALRATNNSLERAVDWIFSHID   49 (63)
T ss_dssp             CSCCCCHHHHHHHHH-HTC-CHHHHHHHHHHTTSCSHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHH-cCC-CHHHHHHHHHHcCCCHHHHHHHHHhCCC
Confidence            345677888888887 575 5899999999999999999999998543

>1vej_A Riken cDNA 4931431F19; UBA domain, three helix bundle, ubiquitin associated domain, structural genomics; NMR {Mus musculus} SCOP: a.5.2.1

Probab=96.95  E-value=0.0014  Score=44.19  Aligned_cols=39  Identities=28%  Similarity=0.439  Sum_probs=33.1

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHH
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAE  126 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~  126 (137)
                      +..+++++. -|..|.+.++++|+..+||++.||++|+.-
T Consensus        30 e~qi~qL~e-MGF~dr~~~~~AL~~t~Gnve~Ave~L~~~   68 (74)
T 1vej_A           30 QQELEELKA-LGFANRDANLQALVATDGDIHAAIEMLLGA   68 (74)
T ss_dssp             HHHHHHHHH-HTCCCHHHHHHHHHHTTSCHHHHHHHHHTC
T ss_pred             HHHHHHHHH-cCCCcHHHHHHHHHHhCCCHHHHHHHHHhC
Confidence            446666664 588999999999999999999999999964

>2dna_A Unnamed protein product; ubiquitin associated domain, DSK2 protein, proteasome, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.5.2.1

Probab=96.92  E-value=0.001  Score=44.16  Aligned_cols=34  Identities=32%  Similarity=0.369  Sum_probs=30.2

Q ss_pred             hcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhc
Q 032619           95 AGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQG  128 (137)
Q Consensus        95 ~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~~  128 (137)
                      ..-|-+|.+.+.++|+.++|||+.||++|+.-..
T Consensus        27 ~~MGF~d~~an~~AL~at~Gnve~Ave~L~~~~~   60 (67)
T 2dna_A           27 QAMGFVNYNANLQALIATDGDTNAAIYKLKSSQG   60 (67)
T ss_dssp             HHHTCCCHHHHHHHHHHTTSCHHHHHHHHHHCCS
T ss_pred             HHcCCCcHHHHHHHHHHcCCCHHHHHHHHHhCCC
Confidence            3568899999999999999999999999998644

>2knz_A Ubiquilin-4; cytoplasm, endoplasmic reticulum, nucleus, phosphoprotein, protein binding; NMR {Mus musculus}

Probab=96.92  E-value=0.0013  Score=41.11  Aligned_cols=37  Identities=32%  Similarity=0.491  Sum_probs=31.4

Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHH
Q 032619           89 SIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAE  126 (137)
Q Consensus        89 ~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~  126 (137)
                      .++..+ .-|..|.+.++.+|..++||++.||++|+.-
T Consensus        14 ~l~~L~-~MGF~~~~~~~~AL~~t~gnve~Ave~L~~~   50 (53)
T 2knz_A           14 QLEQLN-SMGFINREANLQALIATGGDINAAIERLLGS   50 (53)
T ss_dssp             HHHHHH-TTTCCCHHHHHHHHHHHTSCHHHHHHHHHHC
T ss_pred             HHHHHH-HcCCCCHHHHHHHHHHhCCCHHHHHHHHHHc
Confidence            455544 4688899999999999999999999999863

>2g3q_A Protein YBL047C; endocytosis, solution structure, UBA domain, endocytosis/signaling protein complex; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.1

Probab=96.89  E-value=0.0023  Score=37.99  Aligned_cols=37  Identities=22%  Similarity=0.320  Sum_probs=30.6

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIA  125 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~  125 (137)
                      +..|++.+. -| .+.+.++++|..++||++.|+++|+.
T Consensus         5 e~~i~~L~~-MG-F~~~~a~~AL~~~~~n~e~A~~~L~~   41 (43)
T 2g3q_A            5 SLAVEELSG-MG-FTEEEAHNALEKCNWDLEAATNFLLD   41 (43)
T ss_dssp             HHHHHHHHT-TT-SCHHHHHHHHHHHTSCHHHHHHHHHT
T ss_pred             HHHHHHHHH-cC-CCHHHHHHHHHHhCcCHHHHHHHHHc
Confidence            446777665 56 56899999999999999999999984

>1vg5_A RSGI RUH-014, rhomboid family protein; UBA domain, cDNA, structural genomics, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} SCOP: a.5.2.1

Probab=96.88  E-value=0.0024  Score=42.84  Aligned_cols=40  Identities=25%  Similarity=0.397  Sum_probs=34.0

Q ss_pred             CChhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHH
Q 032619           85 INAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAE  126 (137)
Q Consensus        85 ~~~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~  126 (137)
                      ..++.|+++|. -| .+.+.++.+|+.++||++.|+++|+.-
T Consensus        28 ~~ee~I~~L~e-MG-F~r~~a~~AL~~~~~nve~Ave~Ll~~   67 (73)
T 1vg5_A           28 ASEEQIQKLVA-MG-FDRTQVEVALAAADDDLTVAVEILMSQ   67 (73)
T ss_dssp             CCHHHHHHHHT-TT-CCHHHHHHHHHHHTSCHHHHHHHHHTC
T ss_pred             ccHHHHHHHHH-cC-CCHHHHHHHHHHhCCCHHHHHHHHHHC
Confidence            34668888776 57 679999999999999999999999963

>3e21_A HFAF1, FAS-associated factor 1; UBA, alternative splicing, apoptosis, nucleus, phosphoprotein; 1.73A {Homo sapiens}

Probab=96.74  E-value=0.0018  Score=39.82  Aligned_cols=36  Identities=28%  Similarity=0.135  Sum_probs=33.2

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHH
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEF  122 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~  122 (137)
                      ++.+...++-||+.|.+..++.|+.++.|+++|+..
T Consensus         6 de~ia~F~~iTG~~d~~~A~~~Lea~nWDLe~Av~~   41 (45)
T 3e21_A            6 EMILADFQACTGIENIDEAITLLEQNNWDLVAAING   41 (45)
T ss_dssp             HHHHHHHHHHHCCCCHHHHHHHHHHTTTCHHHHHTT
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHcCCcHHHHHHH
Confidence            568999999999999999999999999999999853

>1ify_A HHR23A, UV excision repair protein RAD23 homolog A; ubiquitin associated domain, UBA domain, ubiquitin proteosome pathway, DNA binding protein; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=96.66  E-value=0.0029  Score=38.93  Aligned_cols=37  Identities=22%  Similarity=0.346  Sum_probs=30.9

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIA  125 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~  125 (137)
                      ++.|+.+|. -|. +.+.++.+|+.++||++.|+++|+.
T Consensus         9 ~~~i~~L~~-MGF-~~~~a~~AL~~~~~n~e~A~e~L~~   45 (49)
T 1ify_A            9 ETMLTEIMS-MGY-ERERVVAALRASYNNPHRAVEYLLT   45 (49)
T ss_dssp             HHHHHHHHH-TTC-CHHHHHHHHHTTTSCSHHHHHHHHH
T ss_pred             HHHHHHHHH-cCC-CHHHHHHHHHHhCCCHHHHHHHHHh
Confidence            456666654 464 7999999999999999999999986

>2jy5_A Ubiquilin-1; UBA, alternative splicing, cytoplasm, nucleus, phosphoprotein, proteasome, signaling protein; NMR {Homo sapiens} PDB: 2jy6_B

Probab=96.58  E-value=0.0022  Score=40.01  Aligned_cols=38  Identities=32%  Similarity=0.473  Sum_probs=32.0

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIA  125 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~  125 (137)
                      +..+++++ .-|.+|.+.++++|..++||++.||++|+.
T Consensus        13 ~~~l~~L~-~MGF~~~~~~~~AL~~t~gn~e~A~e~L~~   50 (52)
T 2jy5_A           13 QQQLEQLS-AMGFLNREANLQALIATGGDINAAIERLLG   50 (52)
T ss_dssp             HHHHHHHH-HTTCCCHHHHHHHHHHHTTCHHHHHHHHTT
T ss_pred             HHHHHHHH-HcCCCCHHHHHHHHHHhCCCHHHHHHHHHh
Confidence            34566655 468889999999999999999999999974

>2cp8_A NEXT to BRCA1 gene 1 protein; UBA domain, structural genomics, human, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=96.56  E-value=0.0025  Score=40.67  Aligned_cols=38  Identities=11%  Similarity=0.063  Sum_probs=33.9

Q ss_pred             HHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhccc
Q 032619           93 VMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQGTE  130 (137)
Q Consensus        93 Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~~~~  130 (137)
                      ....-|-.|.++-.++|..++||+++||+.|++....+
T Consensus        15 ~L~eMGF~D~~~N~~aL~~~~gnv~~aI~~Ll~~~~~~   52 (54)
T 2cp8_A           15 HLFEMGFCDRQLNLRLLKKHNYNILQVVTELLQLSGPS   52 (54)
T ss_dssp             HHHHHTCCCHHHHHHHHTTTTTCHHHHHHHHHHHSSSC
T ss_pred             HHHHcCCCcHHHHHHHHHHcCCCHHHHHHHHHhccCCC
Confidence            45567999999999999999999999999999987665

>2dam_A ETEA protein; KIAA0887, UBA-like domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=96.47  E-value=0.0043  Score=40.63  Aligned_cols=42  Identities=19%  Similarity=0.206  Sum_probs=37.9

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhc
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQG  128 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~~  128 (137)
                      .+.+.+.|.-|||.|....++.|+.+++|++.||...+....
T Consensus        19 ~e~i~qF~~ITg~~d~~~A~~~Le~~~WnLe~Av~~ff~~~~   60 (67)
T 2dam_A           19 TEKLLQFQDLTGIESMDQCRHTLEQHNWNIEAAVQDRLNEQE   60 (67)
T ss_dssp             HHHHHHHHHHHCCSCHHHHHHHHHHHTSCHHHHHHHHHHSSC
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHHHHhCCC
Confidence            458999999999889999999999999999999998887543

>2cwb_A Chimera of immunoglobulin G binding protein G and ubiquitin-like protein SB132; helical bundle, protein binding; NMR {Streptococcus SP} PDB: 2den_A

Probab=96.26  E-value=0.0052  Score=44.09  Aligned_cols=37  Identities=27%  Similarity=0.493  Sum_probs=31.5

Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHH
Q 032619           89 SIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAE  126 (137)
Q Consensus        89 ~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~  126 (137)
                      .+++ +..-|-.|.++++++|..++||++.||++|+.-
T Consensus        69 qL~q-L~eMGF~d~~~ni~AL~~t~Gdve~AVe~L~~~  105 (108)
T 2cwb_A           69 QLQQ-LRDMGIQDDELSLRALQATGGDIQAALELIFAG  105 (108)
T ss_dssp             HHHH-HHTTTCCCHHHHHHHHHHHTSCHHHHHHHHHHT
T ss_pred             HHHH-HHHcCCCCHHHHHHHHHHhCCCHHHHHHHHHhc
Confidence            4433 456788999999999999999999999999964

>1whc_A RSGI RUH-027, UBA/UBX 33.3 kDa protein; UBA domain, structural genomics, riken structural genomics/proteomics initiative, unknown function; NMR {Mus musculus} SCOP: a.5.2.1

Probab=96.10  E-value=0.014  Score=37.67  Aligned_cols=43  Identities=14%  Similarity=0.312  Sum_probs=34.9

Q ss_pred             CCChhHHHHHHhcCCCCCHHHHHHHHHHh-CCCHHHHHHHHHHHhc
Q 032619           84 IINAGSIKLVMAGSGCENSEKVEEVLLQV-GGDVDAAIEFLIAEQG  128 (137)
Q Consensus        84 ~~~~~~v~~Vm~~TGc~D~~lIre~L~~~-~gdvdaAI~~Ll~~~~  128 (137)
                      .+++..|+++|. -|.. ...++.+|..+ ++|++.|+++|+.-..
T Consensus         7 ~~~~~~v~~L~~-MGF~-~~~a~~AL~~t~~~nve~A~ewLl~~~~   50 (64)
T 1whc_A            7 GAELTALESLIE-MGFP-RGRAEKALALTGNQGIEAAMDWLMEHED   50 (64)
T ss_dssp             CCCCCHHHHHHT-TTCC-HHHHHHHHHHHTSCCHHHHHHHHHHHTT
T ss_pred             CCCHHHHHHHHH-cCCC-HHHHHHHHHHhcCCCHHHHHHHHHhCCC
Confidence            455678888876 5654 79999999999 6999999999998543

>1v92_A NSFL1 cofactor P47; 3-helix bundle, recombination; NMR {Rattus norvegicus} SCOP: a.5.2.3

Probab=95.97  E-value=0.014  Score=34.63  Aligned_cols=38  Identities=16%  Similarity=0.271  Sum_probs=33.5

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIA  125 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~  125 (137)
                      .+.+.+.|.-||| +....++.|+.+++|++.||.....
T Consensus         6 ~~~i~~F~~iTg~-~~~~A~~~L~~~~wdle~Ai~~ff~   43 (46)
T 1v92_A            6 QDALREFVAVTGA-EEDRARFFLESAGWDLQIALASFYE   43 (46)
T ss_dssp             HHHHHHHHHHTCC-CHHHHHHHHHHTTSCSHHHHHHHHH
T ss_pred             HHHHHHHHHHhCc-CHHHHHHHHHHcCCCHHHHHHHHHc
Confidence            3579999999999 5899999999999999999987654

>1wiv_A UBP14, ubiquitin-specific protease 14; ubiquitin associated domain, UBA domain, three helix bundle, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.5.2.1

Probab=95.91  E-value=0.017  Score=38.31  Aligned_cols=40  Identities=20%  Similarity=0.457  Sum_probs=33.4

Q ss_pred             CChhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHH
Q 032619           85 INAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAE  126 (137)
Q Consensus        85 ~~~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~  126 (137)
                      +++..|+.++. -| .+...++++|..++||++.|+++|+.-
T Consensus        28 ~~~~~v~~L~~-MG-F~~~~a~~AL~~t~~nve~Ave~L~~~   67 (73)
T 1wiv_A           28 IDQSSVDTLLS-FG-FAEDVARKALKASGGDIEKATDWVFNN   67 (73)
T ss_dssp             SCHHHHHHHHH-HT-CCHHHHHHHHHHTTSCHHHHHHHHHHS
T ss_pred             CCHHHHHHHHH-cC-CCHHHHHHHHHHhCCCHHHHHHHHHhC
Confidence            45677877775 46 469999999999999999999999973

>1veg_A NEDD8 ultimate buster-1; ubiquitin associated domain, UBA domain, three helix bundle, structural genomics; NMR {Mus musculus} SCOP: a.5.2.1

Probab=95.83  E-value=0.019  Score=39.34  Aligned_cols=41  Identities=24%  Similarity=0.229  Sum_probs=34.5

Q ss_pred             CCChhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHH
Q 032619           84 IINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAE  126 (137)
Q Consensus        84 ~~~~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~  126 (137)
                      ..+++.|+++|.- | .+...++.+|+.++||++.|+++|+.-
T Consensus        27 ~~~ee~I~~Lv~M-G-F~~~~A~~AL~~t~gdve~A~e~L~sh   67 (83)
T 1veg_A           27 SPSQESINQLVYM-G-FDTVVAEAALRVFGGNVQLAAQTLAHH   67 (83)
T ss_dssp             CCCHHHHHHHHHH-S-CCHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHc-C-CCHHHHHHHHHHcCCCHHHHHHHHHhC
Confidence            3457788888763 6 579999999999999999999999983

>2ekk_A UBA domain from E3 ubiquitin-protein ligase HUWE1; ubiquitin associated domain, compact three helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=95.78  E-value=0.015  Score=35.06  Aligned_cols=40  Identities=25%  Similarity=0.435  Sum_probs=32.1

Q ss_pred             CCCChhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 032619           83 GIINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIA  125 (137)
Q Consensus        83 ~~~~~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~  125 (137)
                      ...++..++++|. -|. +.+.++.+|..+ ||++.|+++|+.
T Consensus         6 ~~~~~~~v~~L~~-MGF-~~~~a~~AL~~~-~n~e~A~~~L~~   45 (47)
T 2ekk_A            6 SGVNQQQLQQLMD-MGF-TREHAMEALLNT-STMEQATEYLLT   45 (47)
T ss_dssp             CSSCHHHHHHHHH-HHC-CHHHHHHHHHHS-CSHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHH-cCC-CHHHHHHHHHHc-CCHHHHHHHHHc
Confidence            3456778888776 465 469999999999 599999999984

>2dag_A Ubiquitin carboxyl-terminal hydrolase 5; isopeptidase T, ubiquitin specific protease 5 (USP 5), UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=95.77  E-value=0.024  Score=37.66  Aligned_cols=43  Identities=12%  Similarity=0.284  Sum_probs=35.7

Q ss_pred             CCChhHHHHHHhcCCCCCHHHHHHHHHHhCC-CHHHHHHHHHHHhc
Q 032619           84 IINAGSIKLVMAGSGCENSEKVEEVLLQVGG-DVDAAIEFLIAEQG  128 (137)
Q Consensus        84 ~~~~~~v~~Vm~~TGc~D~~lIre~L~~~~g-dvdaAI~~Ll~~~~  128 (137)
                      .+++..++++|. -|. +.+.++++|..++| |++.|+++|+.-..
T Consensus         7 ~~~e~~v~~L~~-MGF-~~~~a~~AL~~t~n~~ve~A~ewL~~~~~   50 (74)
T 2dag_A            7 GLDESVIIQLVE-MGF-PMDACRKAVYYTGNSGAEAAMNWVMSHMD   50 (74)
T ss_dssp             SSCHHHHHHHHH-HSC-CHHHHHHHHHHHTSCCHHHHHHHHHHHTT
T ss_pred             CCCHHHHHHHHH-cCC-CHHHHHHHHHHhCCCCHHHHHHHHHhCCC
Confidence            456778888887 565 58999999999997 89999999998554

>2dal_A Protein KIAA0794; FAS associted factor 1, UBA-like domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=95.71  E-value=0.02  Score=36.74  Aligned_cols=41  Identities=15%  Similarity=0.287  Sum_probs=36.1

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhc
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQG  128 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~~  128 (137)
                      .+.|.+.|.-|||. ....++.|+.+++|++.||...+....
T Consensus        16 ~e~i~qF~~iTg~~-~~~A~~~Le~~~WnLe~Av~~ff~~~~   56 (62)
T 2dal_A           16 KGLIQQFTTITGAS-ESVGKHMLEACNNNLEMAVTMFLDGGG   56 (62)
T ss_dssp             HHHHHHHHHHTCCC-HHHHHHHHHTTTSCHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHhCCC-HHHHHHHHHHcCCCHHHHHHHHHcCCC
Confidence            46899999999997 888999999999999999998876543

>2dai_A Ubadc1, ubiquitin associated domain containing 1; UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=95.47  E-value=0.027  Score=38.33  Aligned_cols=44  Identities=16%  Similarity=0.256  Sum_probs=36.4

Q ss_pred             CCCChhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhc
Q 032619           83 GIINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQG  128 (137)
Q Consensus        83 ~~~~~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~~  128 (137)
                      ..+++..++++|. -|. +...++++|..++||++.|+++|+.-..
T Consensus        26 ~~~~e~~i~~L~~-MGF-~~~~a~~AL~~t~~nve~A~ewL~~~~~   69 (83)
T 2dai_A           26 ERVDEAALRQLTE-MGF-PENRATKALQLNHMSVPQAMEWLIEHAE   69 (83)
T ss_dssp             SSCCHHHHHHHHH-HTC-CHHHHHHHHHHTTSCHHHHHHHHHHGGG
T ss_pred             CCCCHHHHHHHHH-cCC-CHHHHHHHHHHhCCCHHHHHHHHHHCCC
Confidence            3467788888886 565 5799999999999999999999997543

>2cpw_A CBL-interacting protein STS-1 variant; ubiquitin associated domain, UBA, compact three helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=95.25  E-value=0.026  Score=36.48  Aligned_cols=40  Identities=18%  Similarity=0.473  Sum_probs=33.1

Q ss_pred             CChhHHHHHHhcCCCCCHHHHHHHHHHhCC-CHHHHHHHHHHH
Q 032619           85 INAGSIKLVMAGSGCENSEKVEEVLLQVGG-DVDAAIEFLIAE  126 (137)
Q Consensus        85 ~~~~~v~~Vm~~TGc~D~~lIre~L~~~~g-dvdaAI~~Ll~~  126 (137)
                      .++..|+++|. -|. +.+.++++|..++| |++.|+++|+.-
T Consensus        18 ~~e~~i~~L~~-MGF-~~~~a~~AL~~t~~~nve~A~ewL~~~   58 (64)
T 2cpw_A           18 KHGSALDVLLS-MGF-PRARAQKALASTGGRSVQTACDWLFSH   58 (64)
T ss_dssp             SCCCHHHHHHH-HTC-CHHHHHHHHHHTTTSCHHHHHHHHHSC
T ss_pred             CCHHHHHHHHH-cCC-CHHHHHHHHHHcCCCCHHHHHHHHHhC
Confidence            45667888776 465 57999999999998 999999999863

>1dv0_A DNA repair protein HHR23A; helical bundle, DNA binding protein; HET: DNA; NMR {Homo sapiens} SCOP: a.5.2.1 PDB: 1f4i_A

Probab=95.10  E-value=0.01  Score=36.22  Aligned_cols=38  Identities=18%  Similarity=0.234  Sum_probs=29.9

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHH
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAE  126 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~  126 (137)
                      +++|+.++. -| .+..+++++|.+|++|++.|..+|+.-
T Consensus         5 ~eaI~rL~~-mG-F~~~~a~~Al~a~~~n~e~A~~~Lf~~   42 (47)
T 1dv0_A            5 KEAIERLKA-LG-FPESLVIQAYFACEKNENLAANFLLSQ   42 (47)
T ss_dssp             HHHHTTTTT-TT-CCHHHHHHHHTTTTSCHHHHHHHTTSC
T ss_pred             HHHHHHHHH-cC-CCHHHHHHHHHHcCCCHHHHHHHHHhC
Confidence            445655543 24 678999999999999999999999853

>2crn_A Ubash3A protein; compact three-helix bundle, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=94.89  E-value=0.067  Score=34.57  Aligned_cols=43  Identities=14%  Similarity=0.158  Sum_probs=34.7

Q ss_pred             CCChhHHHHHHhcCCCCCHHHHHHHHHHhCC-CHHHHHHHHHHHhc
Q 032619           84 IINAGSIKLVMAGSGCENSEKVEEVLLQVGG-DVDAAIEFLIAEQG  128 (137)
Q Consensus        84 ~~~~~~v~~Vm~~TGc~D~~lIre~L~~~~g-dvdaAI~~Ll~~~~  128 (137)
                      ..++..+++.+. -| .+.+.++++|..+++ |++.|+++|+.-..
T Consensus         7 ~~~e~~v~~L~~-MG-F~~~~a~~AL~~t~n~~~e~A~~wL~~h~~   50 (64)
T 2crn_A            7 GSSPSLLEPLLA-MG-FPVHTALKALAATGRKTAEEALAWLHDHCN   50 (64)
T ss_dssp             CCSCSSHHHHHH-TS-CCHHHHHHHHHHHTSCCHHHHHHHHHHHSS
T ss_pred             CCCHHHHHHHHH-cC-CCHHHHHHHHHHhCCCCHHHHHHHHHhCCC
Confidence            345667877776 56 457999999999987 99999999998654

>4ae4_A Ubiquitin-associated protein 1; protein transport, endosomal sorting, tetherin, VPU, HIV-1, monoubiquitin; HET: NHE; 1.65A {Homo sapiens} PDB: 4ae4_B*

Probab=94.47  E-value=0.04  Score=39.67  Aligned_cols=30  Identities=37%  Similarity=0.438  Sum_probs=26.5

Q ss_pred             CCCCCHHHHHHHHHHhCCCHHHHHHHHHHHh
Q 032619           97 SGCENSEKVEEVLLQVGGDVDAAIEFLIAEQ  127 (137)
Q Consensus        97 TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~  127 (137)
                      -| .+.++|+++|..++||+|.|+++|+.-.
T Consensus        86 MG-F~~~~a~~AL~~~~nd~erAlewL~~~~  115 (118)
T 4ae4_A           86 MG-FELKDIKEVLLLHNNDQDNALEDLMARA  115 (118)
T ss_dssp             TT-CCHHHHHHHHHHTTTCHHHHHHHHHHHC
T ss_pred             cC-CCHHHHHHHHHHcCCCHHHHHHHHHHhc
Confidence            35 5799999999999999999999998754

>1wgn_A UBAP1, ubiquitin associated protein; ubiquitin associated protein 1 (UBAP1), UBA domain, structural genomics; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=94.15  E-value=0.059  Score=35.26  Aligned_cols=38  Identities=18%  Similarity=0.377  Sum_probs=29.8

Q ss_pred             hHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHh
Q 032619           88 GSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQ  127 (137)
Q Consensus        88 ~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~  127 (137)
                      ..|..++ +-| ...+.++.+|++++||||.|+|+|+.-.
T Consensus        21 e~V~~Lv-sMG-Fs~~qA~kALKat~~NvErAaDWLFSH~   58 (63)
T 1wgn_A           21 QCVETVV-NMG-YSYECVLRAMKKKGENIEQILDYLFAHS   58 (63)
T ss_dssp             HHHHHHH-HHH-CCHHHHHHHHHHHCSCHHHHHHHHHHHS
T ss_pred             HHHHHHH-HcC-CCHHHHHHHHHHcCCCHHHHHHHHHhCC
Confidence            3455555 345 5588899999999999999999998754

>2dkl_A Trinucleotide repeat containing 6C protein; TNRC6C, KIAA1582 protein, UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=94.14  E-value=0.074  Score=36.30  Aligned_cols=39  Identities=26%  Similarity=0.307  Sum_probs=32.7

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHh
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQ  127 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~  127 (137)
                      +.+|++++. -|. +.+.++++|..+++|++.|+++|+.-.
T Consensus        22 ~~~I~qL~~-MGF-~~~~a~~AL~~~n~n~e~A~ewL~~h~   60 (85)
T 2dkl_A           22 SRLIKQLTD-MGF-PREPAEEALKSNNMNLDQAMSALLEKK   60 (85)
T ss_dssp             HHHHHHHHH-HTC-CHHHHHHHHHHTTSCHHHHHHHHHTTS
T ss_pred             HHHHHHHHH-cCC-CHHHHHHHHHHcCCCHHHHHHHHHHCc
Confidence            667777776 575 589999999999999999999999743

>2lbc_A Ubiquitin carboxyl-terminal hydrolase 13; tandem UBA of USP13; NMR {Homo sapiens}

Probab=93.97  E-value=0.09  Score=37.54  Aligned_cols=41  Identities=7%  Similarity=0.291  Sum_probs=34.5

Q ss_pred             CChhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHh
Q 032619           85 INAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQ  127 (137)
Q Consensus        85 ~~~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~  127 (137)
                      .++..|+.++. -|+. ...++++|..++||++.|+++|+.-.
T Consensus        77 ~~e~~v~~L~~-MGF~-~~~a~~AL~~~~~~~e~A~e~L~~~~  117 (126)
T 2lbc_A           77 PPEEIVAIITS-MGFQ-RNQAIQALRATNNNLERALDWIFSHP  117 (126)
T ss_dssp             CCHHHHHHHHH-HTSC-HHHHHHHHHHHTSCHHHHHHHHHTCC
T ss_pred             cCHHHHHHHHH-cCCC-HHHHHHHHHHcCCCHHHHHHHHHhCC
Confidence            45778888876 5765 89999999999999999999998643

>1vdl_A Ubiquitin carboxyl-terminal hydrolase 25; UBA domain, mouse cDNA, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: a.5.2.1

Probab=93.59  E-value=0.073  Score=36.15  Aligned_cols=41  Identities=17%  Similarity=0.375  Sum_probs=35.3

Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhcc
Q 032619           89 SIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQGT  129 (137)
Q Consensus        89 ~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~~~  129 (137)
                      ...+.-.-||..|.+...++|.+-+||+..||.+|-..+-.
T Consensus        27 lLnQLrEITGiqD~~~L~~ALkas~Gdl~~AV~~LT~~~~~   67 (80)
T 1vdl_A           27 FLNQLREITGINDAQILQQALKDSNGNLELAVAFLTAKNAK   67 (80)
T ss_dssp             HHHHHHHHSCCCCHHHHHHHHHHHTSCHHHHHHHHHTTSCC
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHhccCCHHHHHHHHhccccc
Confidence            45666668999999999999999999999999999876543

>2dzl_A Protein FAM100B; UBA-like domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=93.46  E-value=0.086  Score=34.30  Aligned_cols=40  Identities=15%  Similarity=0.335  Sum_probs=34.5

Q ss_pred             hHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhc
Q 032619           88 GSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQG  128 (137)
Q Consensus        88 ~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~~  128 (137)
                      +.|.+.|.-|||. ....++.|+.+++|++.||........
T Consensus        19 ~~i~qF~~iTg~~-~~~A~~~Le~~~WdLe~Al~~ff~~~~   58 (66)
T 2dzl_A           19 VMINQFVLAAGCA-ADQAKQLLQAAHWQFETALSTFFQETN   58 (66)
T ss_dssp             HHHHHHHHHHCCC-HHHHHHHHHTTTTCHHHHHHHHHTCSC
T ss_pred             HHHHHHHHHcCCC-HHHHHHHHHHcCCCHHHHHHHHHcCCC
Confidence            5799999999995 667899999999999999998876543

>1aip_C EF-TS, elongation factor TS; nucleotide exchange, GTP-binding, complex of two elongation factors; 3.00A {Thermus thermophilus} SCOP: a.5.2.2 d.43.1.1

Probab=93.12  E-value=0.11  Score=40.60  Aligned_cols=37  Identities=24%  Similarity=0.303  Sum_probs=33.4

Q ss_pred             hHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 032619           88 GSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIA  125 (137)
Q Consensus        88 ~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~  125 (137)
                      ..|++.-..||.. ..-.+.+|.+++||+|.||++|..
T Consensus         5 ~~VKeLRe~TGag-mmdCKkAL~e~~GD~ekAie~LR~   41 (196)
T 1aip_C            5 ELIKKLREATGAG-MMDVKRALEDAGWDEEKAVQLLRE   41 (196)
T ss_dssp             HHHHHHHHHHCCC-HHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCC-HHHHHHHHHHcCCCHHHHHHHHHH
Confidence            4688888999987 888899999999999999999975

>1xb2_B EF-TS, elongation factor TS, mitochondrial, EF-TSMT; protein-protein complex, translation; HET: MSE; 2.20A {Bos taurus} SCOP: a.5.2.2 d.43.1.1 d.43.1.1

Probab=92.80  E-value=0.12  Score=42.41  Aligned_cols=38  Identities=18%  Similarity=0.231  Sum_probs=34.4

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIA  125 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~  125 (137)
                      ...|++.-..||.. ..-.+++|.+++||+|.||++|..
T Consensus         5 a~~VKeLRe~TGag-mmdCKKAL~e~~GD~ekAie~LR~   42 (291)
T 1xb2_B            5 KELLMKLRRKTGYS-FINCKKALETCGGDLKQAESWLHK   42 (291)
T ss_dssp             HHHHHHHHHHHCCC-HHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCC-HHHHHHHHHHcCCCHHHHHHHHHH
Confidence            34788888999987 888999999999999999999986

>2lva_A Ubiquitin carboxyl-terminal hydrolase 28; UIM, ubiquitin interacting motif, UBA domain, NESG, northeas structural genomics consortium, SGC; NMR {Homo sapiens}

Probab=91.86  E-value=0.021  Score=42.12  Aligned_cols=39  Identities=21%  Similarity=0.340  Sum_probs=33.3

Q ss_pred             HHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhc
Q 032619           90 IKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQG  128 (137)
Q Consensus        90 v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~~  128 (137)
                      +.+.-.-||-.|.+.+.++|.+++||+..||.+|-..+.
T Consensus        22 LNQLrEITGIqD~~~L~~ALkAsnGdl~qAV~~LT~~~~   60 (129)
T 2lva_A           22 LNQLREITGIQDPSFLHEALKASNGDITQAVSLLTDERV   60 (129)
Confidence            444445799999999999999999999999999987643

>1vek_A UBP14, ubiquitin-specific protease 14, putative; UBA domain, three helix bundle, ubiquitin associated domain, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.5.2.1

Probab=92.68  E-value=0.24  Score=33.55  Aligned_cols=43  Identities=12%  Similarity=0.319  Sum_probs=34.7

Q ss_pred             CCChhHHHHHHhcCCCCCHHHHHHHHHHhC-CCHHHHHHHHHHHhc
Q 032619           84 IINAGSIKLVMAGSGCENSEKVEEVLLQVG-GDVDAAIEFLIAEQG  128 (137)
Q Consensus        84 ~~~~~~v~~Vm~~TGc~D~~lIre~L~~~~-gdvdaAI~~Ll~~~~  128 (137)
                      .+++..|+++|. -|.. ...++++|...+ +|++.|+++|+.-..
T Consensus        27 ~~~e~~v~~L~~-MGF~-~~~a~~AL~~t~n~n~e~A~ewL~~h~~   70 (84)
T 1vek_A           27 VANEEIVAQLVS-MGFS-QLHCQKAAINTSNAGVEEAMNWLLSHMD   70 (84)
T ss_dssp             CCCHHHHHHHHH-HTCC-HHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             CCCHHHHHHHHH-cCCC-HHHHHHHHHHHcCCCHHHHHHHHHhCCC
Confidence            456778888886 5654 789999999886 799999999998554

>2ooa_A E3 ubiquitin-protein ligase CBL-B; alpha-helical domain; 1.56A {Homo sapiens} PDB: 2oob_A 2jnh_A 2do6_A

Probab=92.35  E-value=0.38  Score=30.32  Aligned_cols=37  Identities=22%  Similarity=0.147  Sum_probs=30.9

Q ss_pred             hHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHH
Q 032619           88 GSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAE  126 (137)
Q Consensus        88 ~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~  126 (137)
                      +.|++.|.  =..|.+.+.++|...+||+|.|...|+..
T Consensus        13 ~~Ia~Lm~--mGFsr~~ai~AL~~a~nnve~AaniLlef   49 (52)
T 2ooa_A           13 AKIAKLMG--EGYAFEEVKRALEIAQNNVEVARSILREF   49 (52)
T ss_dssp             HHHHHHHH--TTCCHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHH--cCCCHHHHHHHHHHhCCCHHHHHHHHHHh
Confidence            56777665  24679999999999999999999999875

>2d9s_A CBL E3 ubiquitin protein ligase; UBA domain, dimer, protein binding, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=91.73  E-value=0.25  Score=31.27  Aligned_cols=39  Identities=13%  Similarity=0.206  Sum_probs=31.5

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHh
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQ  127 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~  127 (137)
                      ++.|+..|.  =.+|.+.+.++|...+||+|.|...|+..-
T Consensus        10 e~~I~~L~~--lGF~r~~ai~AL~~a~nnve~Aa~iL~ef~   48 (53)
T 2d9s_A           10 SSEIERLMS--QGYSYQDIQKALVIAHNNIEMAKNILREFS   48 (53)
T ss_dssp             HHHHHHHHH--HTCCHHHHHHHHHHTTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHH--cCCCHHHHHHHHHHhcCCHHHHHHHHHHhc
Confidence            445666665  246799999999999999999999998654

>3k9o_A Ubiquitin-conjugating enzyme E2 K; E2-25K, complex structure, ATP-binding, isopeptide BO ligase, nucleotide-binding, UBL conjugation pathway; 1.80A {Homo sapiens} PDB: 3k9p_A 1yla_A 2o25_A

Probab=89.71  E-value=0.57  Score=35.78  Aligned_cols=37  Identities=24%  Similarity=0.187  Sum_probs=29.9

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIA  125 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~  125 (137)
                      ++.|++.+.-  ..|...++++|..+++|++.|+++|+.
T Consensus       164 eekV~~l~~M--Gf~~~~a~~AL~~~~wd~~~A~e~L~~  200 (201)
T 3k9o_A          164 TKKIENLCAM--GFDRNAVIVALSSKSWDVETATELLLS  200 (201)
T ss_dssp             HHHHHHHHTT--TCCHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHc--CCCHHHHHHHHHHcCCCHHHHHHHHhc
Confidence            4566665542  457899999999999999999999985

>2lbc_A Ubiquitin carboxyl-terminal hydrolase 13; tandem UBA of USP13; NMR {Homo sapiens}

Probab=89.64  E-value=0.67  Score=32.88  Aligned_cols=42  Identities=17%  Similarity=0.313  Sum_probs=32.5

Q ss_pred             CChhHHHHHHhcCCCCCHHHHHHHHHHhCC-CHHHHHHHHHHHhc
Q 032619           85 INAGSIKLVMAGSGCENSEKVEEVLLQVGG-DVDAAIEFLIAEQG  128 (137)
Q Consensus        85 ~~~~~v~~Vm~~TGc~D~~lIre~L~~~~g-dvdaAI~~Ll~~~~  128 (137)
                      +++..+++.+. -|-. ...++++|..+++ |++.|+++|+.-..
T Consensus         2 ~d~~~l~~L~~-MGF~-~~~a~~AL~~t~n~~~e~A~~wL~~~~~   44 (126)
T 2lbc_A            2 IDESSVMQLAE-MGFP-LEACRKAVYFTGNMGAEVAFNWIIVHME   44 (126)
T ss_dssp             CCTHHHHHHHT-TSSC-CHHHHHHHHHHTSCCHHHHHHHHHHGGG
T ss_pred             CCHHHHHHHHH-cCCC-HHHHHHHHHHcCCCCHHHHHHHHHHhcc
Confidence            44556666665 5554 7999999999975 99999999998554

>2oo9_A E3 ubiquitin-protein ligase CBL; alpha-helical domain, homodimer; 2.10A {Homo sapiens}

Probab=88.16  E-value=1.5  Score=26.88  Aligned_cols=36  Identities=14%  Similarity=0.204  Sum_probs=28.9

Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHH
Q 032619           89 SIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAE  126 (137)
Q Consensus        89 ~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~  126 (137)
                      .|...|.  =.+|.+.++++|.-.++||+.|-..|+..
T Consensus         7 ~I~~L~s--~Gf~~~~~~rAL~ia~Nnie~A~nIL~ef   42 (46)
T 2oo9_A            7 EIENLMS--QGYSYQDIQKALVIAQNNIEMAKNILREF   42 (46)
T ss_dssp             HHHHHHH--TTBCHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHH--cCCCHHHHHHHHHHhhccHHHHHHHHHHh
Confidence            3444443  45789999999999999999999999854

>2di0_A Activating signal cointegrator 1 complex subunit 2; ASCC2, CUE domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.4

Probab=87.28  E-value=1.4  Score=29.26  Aligned_cols=42  Identities=14%  Similarity=-0.065  Sum_probs=33.6

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhc
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQG  128 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~~  128 (137)
                      +..|..|..-..=.-..-|+.+|..+++|+|.+|.+||..+-
T Consensus        14 ~s~I~qV~DLfPdLG~gfi~~~L~~y~~nvE~vin~LLE~~L   55 (71)
T 2di0_A           14 DSLISQVKDLLPDLGEGFILACLEYYHYDPEQVINNILEERL   55 (71)
T ss_dssp             HHHHHHHHHHCCSSCHHHHHHHHHHTTTCHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHcccCCHHHHHHHHHHhCCCHHHHHHHHHccCC
Confidence            345666666666666788999999999999999999998653

>4dhi_B Ubiquitin thioesterase otubain-like; ubiquitin E2 enzyme fold, ubiquitination, hydrolase-ligase C; 1.80A {Caenorhabditis elegans} PDB: 4dhj_A 4dhz_A

Probab=86.61  E-value=0.21  Score=40.99  Aligned_cols=43  Identities=19%  Similarity=0.070  Sum_probs=29.9

Q ss_pred             cceeEEEEeCCC-cceEEee---ccCCC---ceEEEEEecCCCcccccccC
Q 032619            2 YCLLLSLMQHMS-PRWYIRN---FDYHE---ARMIHLSYHDGEHYNGVRLK   45 (137)
Q Consensus         2 ~~~~i~Ihq~~~-p~w~I~~---~~~~~---~~~lhlaYh~geHYnSVR~~   45 (137)
                      |+++|.|+++++ |-+.+..   |+.+.   .+.|+|-|+.| ||+=+-..
T Consensus       225 L~v~I~V~ylDrs~g~~v~~h~~fp~~~~~~~p~I~LLYrpg-HYDILY~~  274 (284)
T 4dhi_B          225 AGTRVRIEYMDRTAAPNGGWHYDIPSDDQQIAPEITLLYRPG-HYDVIYKK  274 (284)
T ss_dssp             TTCCEEEEESSGGGCTTSSSEEEESCCCSCCCCSEEEEEETT-EEEEEEEC
T ss_pred             hCCcEEEEEecCCCCCCCcccccCCCCCCCCCCEEEEeecCC-CccccccC
Confidence            689999999875 3343221   33333   37999999997 99977653

>2juj_A E3 ubiquitin-protein ligase CBL; alpha helix, UBA domain, calcium, cytoplasm, metal- binding, phosphorylation, proto-oncogene, SH2 domain; NMR {Homo sapiens}

Probab=86.00  E-value=1.7  Score=27.60  Aligned_cols=38  Identities=13%  Similarity=0.184  Sum_probs=30.7

Q ss_pred             hHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHh
Q 032619           88 GSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQ  127 (137)
Q Consensus        88 ~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~  127 (137)
                      +.|...|.  =.+|.+.++++|...++||+.|-..|+..-
T Consensus         9 ~~Ia~L~s--mGfsr~da~~AL~ia~Ndv~~AtNiLlEf~   46 (56)
T 2juj_A            9 SEIENLMS--QGYSYQDIQKALVIAQNNIEMAKNILREFV   46 (56)
T ss_dssp             HHHHHHHT--TTCCHHHHHHHHHHTTTCSHHHHHHHHHSC
T ss_pred             HHHHHHHH--cCCCHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            34555544  457899999999999999999999998754

>4ae4_A Ubiquitin-associated protein 1; protein transport, endosomal sorting, tetherin, VPU, HIV-1, monoubiquitin; HET: NHE; 1.65A {Homo sapiens} PDB: 4ae4_B*

Probab=84.00  E-value=1.2  Score=31.81  Aligned_cols=28  Identities=18%  Similarity=0.362  Sum_probs=25.2

Q ss_pred             CCHHHHHHHHHHhCCCHHHHHHHHHHHh
Q 032619          100 ENSEKVEEVLLQVGGDVDAAIEFLIAEQ  127 (137)
Q Consensus       100 ~D~~lIre~L~~~~gdvdaAI~~Ll~~~  127 (137)
                      +....++.+|..+++|+++|+++|++-+
T Consensus        20 Fp~~~~~kAl~~~g~~~e~amewL~~h~   47 (118)
T 4ae4_A           20 YSYECVLRAMKAAGANIEQILDYLFAHG   47 (118)
T ss_dssp             CCHHHHHHHHHHHCSCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHCcCHHHHHHHHHHhc
Confidence            4689999999999999999999999865

>3e46_A Ubiquitin-conjugating enzyme E2-25 kDa; huntington interacting, ligase, alternative splicing, cytoplasm, UBL conjugation, UBL conjugation pathway; 1.86A {Homo sapiens} SCOP: a.5.2.1 d.20.1.1 PDB: 3f92_A*

Probab=81.75  E-value=2.4  Score=33.87  Aligned_cols=37  Identities=24%  Similarity=0.223  Sum_probs=29.9

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIA  125 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~  125 (137)
                      ++.|++.+.-  ..+.+.++++|..+++|.+.|+++|+.
T Consensus       216 ~~~v~~l~~m--gf~~~~~~~al~~~nWd~~~A~e~L~~  252 (253)
T 3e46_A          216 TKKIENLCAA--GFDRNAVIVALSSKSWDVETATELLLS  252 (253)
T ss_dssp             HHHHHHHHHT--TCCHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHc--CCCHHHHHHHHHHcCCCHHHHHHHHhc
Confidence            3456665553  457899999999999999999999985

>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=81.73  E-value=0.7  Score=38.87  Aligned_cols=39  Identities=15%  Similarity=0.141  Sum_probs=32.2

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHh
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQ  127 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~  127 (137)
                      .++|+.++.-  +.+..+++++|..|++|++.|+++|+.-.
T Consensus       326 ~eaI~rL~~m--GF~~~~a~~al~a~~~n~e~A~~~L~~~~  364 (368)
T 1oqy_A          326 KEAIERLKAL--GFPESLVIQAYFACEKNENLAANFLLSQN  364 (368)
T ss_dssp             HHHHHHHHHH--TCCSHHHHHHTSSSSSCSSHHHHHHHHHH
T ss_pred             HHHHHHHHHc--CCCHHHHHHHHHHcCCCHHHHHHHHhhCc
Confidence            4567776653  46799999999999999999999999753

>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=81.14  E-value=0.72  Score=38.77  Aligned_cols=37  Identities=22%  Similarity=0.326  Sum_probs=31.6

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIA  125 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~  125 (137)
                      +..|+.+|. -| ++.+.|+.+|+..+||+|.|++||+.
T Consensus       169 ~~~i~~l~~-MG-f~~~~~~~AL~a~~nn~~~A~e~L~~  205 (368)
T 1oqy_A          169 ETMLTEIMS-MG-YERERVVAALRASYNNPHRAVEYLLT  205 (368)
T ss_dssp             HHHHHHHHT-TT-CCSHHHHHHHHHSCSSTTHHHHTTTT
T ss_pred             HHHHHHHHH-cC-CCHHHHHHHHHHcCCCHHHHHHHHHh
Confidence            567888775 44 77999999999999999999999974

---

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	137
d2dnaa1	50	a.5.2.1 (A:12-61) Ubiquilin-like protein Ubqlnl {M	0.002

>d2dnaa1 a.5.2.1 (A:12-61) Ubiquilin-like protein Ubqlnl {Mouse (Mus musculus) [TaxId: 10090]} Length = 50

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquilin-like protein Ubqlnl
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 31.9 bits (73), Expect = 0.002
 Identities = 11/31 (35%), Positives = 15/31 (48%)

Query: 98  GCENSEKVEEVLLQVGGDVDAAIEFLIAEQG 128
           G  N     + L+   GD +AAI  L + QG
Sbjct: 19  GFVNYNANLQALIATDGDTNAAIYKLKSSQG 49

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	137
d1wgla_	59	Toll-interacting protein {Human (Homo sapiens) [Ta	97.52
d1mn3a_	54	Vacuolar protein sorting-associated protein vps9 {	97.37
d2bwba1	44	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	97.25
d2daha1	41	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	97.22
d1wj7a1	91	Ubiquitin-associated protein 2-like Ubap2l {Mouse	97.19
d2dnaa1	50	Ubiquilin-like protein Ubqlnl {Mouse (Mus musculus	97.18
d1veja1	61	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	97.02
d1efub3	54	Elongation factor Ts (EF-Ts), N-terminal domain {E	97.01
d1vg5a_	73	Rhomboid family protein At3g58460 {Thale cress (Ar	96.9
d1oqya1	41	DNA repair protein Hhr23a {Human (Homo sapiens) [T	96.81
d1wiva_	73	Ubiquitin isopeptidase T {Thale cress (Arabidopsis	96.77
d1xb2b1	56	Elongation factor Ts (EF-Ts), N-terminal domain {C	96.73
d1v92a_	46	NSFL1 (p97 ATPase) cofactor p47, UBA-like domain {	96.7
d1wjia_	63	Tudor domain containing protein 3, TDRD3 {Human (H	96.56
d1wgna_	63	Ubiquitin-associated protein 1, UBAP1 {Human (Homo	96.26
d1aipc1	52	Elongation factor Ts (EF-Ts), N-terminal domain {T	96.22
d1tffa_	228	Ubiquitin thiolesterase protein OTUB2 (Otubain-2)	95.86
d1whca_	64	UBA/UBX 33.3 kDa protein {Mouse (Mus musculus) [Ta	95.7
d2g3qa1	43	Endocytic protein Ede1, YBL047C {Saccharomyces cer	95.04
d2cpwa1	51	Cbl-interacting protein p70, STS1 {Human (Homo sap	93.78
d1vdla_	80	Ubiquitin carboxyl-terminal hydrolase 25 {Mouse (M	92.68
d2crna1	51	Suppressor of T-cell receptor signaling 2 (STS-2)	85.63
d1umqa_	60	Photosynthetic apparatus regulatory protein PprA (	82.01
d1veka_	84	Ubiquitin isopeptidase T {Thale cress (Arabidopsis	80.56

>d1wgla_ a.5.2.4 (A:) Toll-interacting protein {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: CUE domain
domain: Toll-interacting protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.52  E-value=5.4e-05  Score=47.70  Aligned_cols=43  Identities=23%  Similarity=0.203  Sum_probs=38.1

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhcc
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQGT  129 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~~~  129 (137)
                      +..++.+..-..=-|.+.|+.+|++++||+|.||+.||+|...
T Consensus        10 Ee~i~~LkeMFP~~D~~vI~~VL~a~~G~vd~aid~LL~Msd~   52 (59)
T d1wgla_          10 EEDLKAIQDMFPNMDQEVIRSVLEAQRGNKDAAINSLLQMGEE   52 (59)
T ss_dssp             HHHHHHHHHHCSSSCHHHHHHHHTTTTTCHHHHHHHHHHSSCC
T ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHhcCCC
Confidence            4567777888888899999999999999999999999999754

>d1mn3a_ a.5.2.4 (A:) Vacuolar protein sorting-associated protein vps9 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: CUE domain
domain: Vacuolar protein sorting-associated protein vps9
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.37  E-value=0.0001  Score=45.58  Aligned_cols=39  Identities=8%  Similarity=0.160  Sum_probs=34.5

Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHh
Q 032619           89 SIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQ  127 (137)
Q Consensus        89 ~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~  127 (137)
                      +++....-..--|.+.|+-+|+.++||+|+||+.||+|.
T Consensus        15 ~~~~Lk~MFP~~D~~VI~~VL~a~~G~vd~aidaLL~Ms   53 (54)
T d1mn3a_          15 TLNTLQNMFPDMDPSLIEDVCIAKKSRIEPCVDALLSLS   53 (54)
T ss_dssp             HHHHHHHHCTTSCHHHHHHHHSCSSCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHhcc
Confidence            566666677778999999999999999999999999985

>d2bwba1 a.5.2.1 (A:328-371) DSK2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: DSK2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.25  E-value=0.00021  Score=42.50  Aligned_cols=34  Identities=21%  Similarity=0.321  Sum_probs=30.7

Q ss_pred             HHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 032619           92 LVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIA  125 (137)
Q Consensus        92 ~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~  125 (137)
                      ..+..-|-+|.++..++|...+|||++||+.||.
T Consensus        10 ~qL~~MGF~d~~~Ni~AL~~t~GdV~~Aie~Ll~   43 (44)
T d2bwba1          10 RQLNDMGFFDFDRNVAALRRSGGSVQGALDSLLN   43 (44)
T ss_dssp             HHHHHTTCCCHHHHHHHHHHHTTCHHHHHHHHHC
T ss_pred             HHHHHcCCCcHHHHHHHHHHcCCCHHHHHHHHhC
Confidence            4467789999999999999999999999999984

>d2daha1 a.5.2.1 (A:8-48) Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquilin-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.22  E-value=0.00019  Score=42.03  Aligned_cols=33  Identities=39%  Similarity=0.491  Sum_probs=29.8

Q ss_pred             HHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 032619           93 VMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIA  125 (137)
Q Consensus        93 Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~  125 (137)
                      .+..-|-+|.++..++|...+|||++||+.|+.
T Consensus         8 ~L~~MGF~d~~~Ni~AL~~t~Gdv~~Aie~Ll~   40 (41)
T d2daha1           8 QLRSMGFLNREANLQALIATGGDVDAAVEKLRQ   40 (41)
T ss_dssp             HHHHHTCCCHHHHHHHHHHHTSCHHHHHHHHHH
T ss_pred             HHHHcCCCCHHHHHHHHHHcCCCHHHHHHHHHh
Confidence            455679999999999999999999999999985

>d1wj7a1 a.5.2.1 (A:8-98) Ubiquitin-associated protein 2-like Ubap2l {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin-associated protein 2-like Ubap2l
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.19  E-value=0.00025  Score=48.02  Aligned_cols=40  Identities=23%  Similarity=0.361  Sum_probs=34.5

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHh
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQ  127 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~  127 (137)
                      ...|++||.-|||+ .+-+.=+|-+|+||++.||.+||...
T Consensus        33 ~~kVkql~e~T~rs-ede~~~ALhDcn~D~~~AIn~lLEg~   72 (91)
T d1wj7a1          33 EEKVKQLIDITGKN-QDECVIALHDCNGDVNRAINVLLEGN   72 (91)
T ss_dssp             HHHHHHHHHHTCCC-HHHHHHHHHHHTSCHHHHHHHHHTCS
T ss_pred             HHHHHHHHHHhCCC-HHHHHHHHhcCCccHHHHHHHHHhcC
Confidence            46899999999999 55566699999999999999999543

>d2dnaa1 a.5.2.1 (A:12-61) Ubiquilin-like protein Ubqlnl {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquilin-like protein Ubqlnl
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.18  E-value=0.00021  Score=43.56  Aligned_cols=36  Identities=28%  Similarity=0.288  Sum_probs=31.8

Q ss_pred             HHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHh
Q 032619           92 LVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQ  127 (137)
Q Consensus        92 ~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~  127 (137)
                      ..+..-|-+|.++..++|..++|||++||++|+.-.
T Consensus        13 ~qL~~MGF~d~~~Ni~AL~~t~GdV~~Aie~Ll~~~   48 (50)
T d2dnaa1          13 ECLQAMGFVNYNANLQALIATDGDTNAAIYKLKSSQ   48 (50)
T ss_dssp             HHHHHHTCCCHHHHHHHHHHTTSCHHHHHHHHHHCC
T ss_pred             HHHHHcCCCCHHHHHHHHHHcCCCHHHHHHHHHhcC
Confidence            446677999999999999999999999999998743

>d1veja1 a.5.2.1 (A:8-68) 4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: 4931431F19Rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.02  E-value=0.00026  Score=44.72  Aligned_cols=36  Identities=28%  Similarity=0.386  Sum_probs=32.0

Q ss_pred             HHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 032619           90 IKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIA  125 (137)
Q Consensus        90 v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~  125 (137)
                      --..+..-|-+|.++..++|+..+|||++||++||+
T Consensus        25 QL~qL~eMGF~d~~~Nl~AL~~t~Gdv~~Aie~Ll~   60 (61)
T d1veja1          25 ELEELKALGFANRDANLQALVATDGDIHAAIEMLLG   60 (61)
T ss_dssp             HHHHHHHHTCCCHHHHHHHHHHTTSCHHHHHHHHHT
T ss_pred             HHHHHHHcCCCCHHHHHHHHHHcCCCHHHHHHHHhc
Confidence            445567789999999999999999999999999985

>d1efub3 a.5.2.2 (B:1-54) Elongation factor Ts (EF-Ts), N-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: TS-N domain
domain: Elongation factor Ts (EF-Ts), N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=97.01  E-value=0.00051  Score=42.36  Aligned_cols=40  Identities=25%  Similarity=0.359  Sum_probs=36.0

Q ss_pred             CChhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 032619           85 INAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIA  125 (137)
Q Consensus        85 ~~~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~  125 (137)
                      ++...|++.-..||+. +...+++|++++||+|.||++|..
T Consensus         3 is~~~iK~LR~~Tgag-~~dCKkAL~e~~gD~ekA~e~Lr~   42 (54)
T d1efub3           3 ITASLVKELRERTGAG-MMDCKKALTEANGDIELAIENMRK   42 (54)
T ss_dssp             CCHHHHHHHHHHHCCC-HHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHhCCC-HHHHHHHHHHcCCCHHHHHHHHHH
Confidence            4566899999999998 889999999999999999999964

>d1vg5a_ a.5.2.1 (A:) Rhomboid family protein At3g58460 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Rhomboid family protein At3g58460
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=96.90  E-value=0.001  Score=42.88  Aligned_cols=43  Identities=26%  Similarity=0.440  Sum_probs=34.7

Q ss_pred             CCChhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhc
Q 032619           84 IINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQG  128 (137)
Q Consensus        84 ~~~~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~~  128 (137)
                      .++++.|+.+|. -|- +.+.++++|+.++||+|.|++|||.-+.
T Consensus        27 ~~~ee~i~~L~~-MGF-~~~~a~~AL~~~~~n~e~A~~~Ll~~~~   69 (73)
T d1vg5a_          27 AASEEQIQKLVA-MGF-DRTQVEVALAAADDDLTVAVEILMSQSG   69 (73)
T ss_dssp             CCCHHHHHHHHT-TTC-CHHHHHHHHHHHTSCHHHHHHHHHTCSC
T ss_pred             CcCHHHHHHHHH-hCC-CHHHHHHHHHHhCCCHHHHHHHHHhCCC
Confidence            345667777665 554 7999999999999999999999997543

>d1oqya1 a.5.2.1 (A:160-200) DNA repair protein Hhr23a {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: DNA repair protein Hhr23a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.81  E-value=0.00031  Score=40.91  Aligned_cols=36  Identities=22%  Similarity=0.329  Sum_probs=29.9

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHH
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLI  124 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll  124 (137)
                      +.+|+.+|. -| .+.+.++++|..++||+|.|++||+
T Consensus         5 e~~i~~L~~-MG-F~~~~a~~AL~~~~~N~e~A~~~Ll   40 (41)
T d1oqya1           5 ETMLTEIMS-MG-YERERVVAALRASYNNPHRAVEYLL   40 (41)
T ss_dssp             HHHHHHHHT-TT-CCSHHHHHHHHHSCSSTTHHHHTTT
T ss_pred             HHHHHHHHH-cC-CCHHHHHHHHHHhCCCHHHHHHHHh
Confidence            346666665 45 6799999999999999999999997

>d1wiva_ a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin isopeptidase T
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=96.77  E-value=0.0013  Score=42.29  Aligned_cols=42  Identities=19%  Similarity=0.407  Sum_probs=35.2

Q ss_pred             CCChhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHh
Q 032619           84 IINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQ  127 (137)
Q Consensus        84 ~~~~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~  127 (137)
                      ..++..|+.+|. -| .+.+.++++|+.+++|++.||+|||.-.
T Consensus        27 ~~d~~~i~~L~~-MG-F~~~~a~~AL~~~~~n~e~Av~~Lls~~   68 (73)
T d1wiva_          27 DIDQSSVDTLLS-FG-FAEDVARKALKASGGDIEKATDWVFNNS   68 (73)
T ss_dssp             SSCHHHHHHHHH-HT-CCHHHHHHHHHHTTSCHHHHHHHHHHSC
T ss_pred             CCCHHHHHHHHh-cC-CCHHHHHHHHHHcCCCHHHHHHHHHcCC
Confidence            455778888874 56 5789999999999999999999999754

>d1xb2b1 a.5.2.2 (B:56-111) Elongation factor Ts (EF-Ts), N-terminal domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: TS-N domain
domain: Elongation factor Ts (EF-Ts), N-terminal domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=96.73  E-value=0.0011  Score=41.12  Aligned_cols=39  Identities=18%  Similarity=0.239  Sum_probs=34.7

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHH
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAE  126 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~  126 (137)
                      .+.|++.-..||.. +.-.+++|++++||+|.||++|..-
T Consensus         5 ~~lvk~LRe~Tga~-~~dcKkAL~e~~gD~ekA~e~Lrkk   43 (56)
T d1xb2b1           5 KELLMKLRRKTGYS-FINCKKALETCGGDLKQAESWLHKQ   43 (56)
T ss_dssp             HHHHHHHHHHHCCC-HHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCC-HHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            35788888999998 8889999999999999999999853

>d1v92a_ a.5.2.3 (A:) NSFL1 (p97 ATPase) cofactor p47, UBA-like domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: TAP-C domain-like
domain: NSFL1 (p97 ATPase) cofactor p47, UBA-like domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.70  E-value=0.0014  Score=38.72  Aligned_cols=38  Identities=16%  Similarity=0.271  Sum_probs=33.8

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIA  125 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~  125 (137)
                      .+.|.+.|.-||| +.+..++.|+.+++|++.||..-+.
T Consensus         6 ~~lI~qF~~iTg~-~~~~A~~~Le~~~w~Le~Ai~~yfe   43 (46)
T d1v92a_           6 QDALREFVAVTGA-EEDRARFFLESAGWDLQIALASFYE   43 (46)
T ss_dssp             HHHHHHHHHHTCC-CHHHHHHHHHHTTSCSHHHHHHHHH
T ss_pred             HHHHHHHHHHHCc-CHHHHHHHHHHcCCcHHHHHHHHHh
Confidence            4589999999999 5889999999999999999987654

>d1wjia_ a.5.2.1 (A:) Tudor domain containing protein 3, TDRD3 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Tudor domain containing protein 3, TDRD3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.56  E-value=0.0038  Score=38.86  Aligned_cols=46  Identities=17%  Similarity=0.354  Sum_probs=37.4

Q ss_pred             CCCChhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhccc
Q 032619           83 GIINAGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQGTE  130 (137)
Q Consensus        83 ~~~~~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~~~~  130 (137)
                      ..+++..|+++|.- | .+...++++|..+++|++.|+++|+.-....
T Consensus         6 ~~~d~~~v~~L~~M-G-F~~~~a~~AL~~~~~~~e~A~~wL~~~~~~~   51 (63)
T d1wjia_           6 SGVDEKALKHITEM-G-FSKEASRQALMDNGNNLEAALNVLLTSNKQK   51 (63)
T ss_dssp             CSSCHHHHHHHHTT-T-CCHHHHHHHHHHTTSCHHHHHHHHHHHSSCC
T ss_pred             CccCHHHHHHHHHc-C-CCHHHHHHHHHHhCCCHHHHHHHHHHCCCCC
Confidence            45667788887763 4 6799999999999999999999999865433

>d1wgna_ a.5.2.1 (A:) Ubiquitin-associated protein 1, UBAP1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin-associated protein 1, UBAP1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.26  E-value=0.0022  Score=40.21  Aligned_cols=39  Identities=18%  Similarity=0.356  Sum_probs=31.4

Q ss_pred             hhHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHh
Q 032619           87 AGSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQ  127 (137)
Q Consensus        87 ~~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~  127 (137)
                      +..|+.+|. -| .+.+.++++|+.+++|++.|+++||.-.
T Consensus        20 e~~v~~L~~-MG-F~~~~a~~AL~~~~~n~e~A~~~Lls~~   58 (63)
T d1wgna_          20 RQCVETVVN-MG-YSYECVLRAMKKKGENIEQILDYLFAHS   58 (63)
T ss_dssp             HHHHHHHHH-HH-CCHHHHHHHHHHHCSCHHHHHHHHHHHS
T ss_pred             HHHHHHHHH-cC-CCHHHHHHHHHHcCCCHHHHHHHHHhCC
Confidence            556666654 34 3689999999999999999999999754

>d1aipc1 a.5.2.2 (C:2-53) Elongation factor Ts (EF-Ts), N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: TS-N domain
domain: Elongation factor Ts (EF-Ts), N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=96.22  E-value=0.003  Score=38.45  Aligned_cols=37  Identities=24%  Similarity=0.303  Sum_probs=32.3

Q ss_pred             hHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 032619           88 GSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIA  125 (137)
Q Consensus        88 ~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~  125 (137)
                      +.|++.-..||-. +...+++|++++||+|.|+++|..
T Consensus         4 elvK~LR~~Tga~-~~dcKkAL~e~~gD~ekA~e~Lr~   40 (52)
T d1aipc1           4 ELIKKLREATGAG-MMDVKRALEDAGWDEEKAVQLLRE   40 (52)
T ss_dssp             HHHHHHHHHHCCC-HHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCC-HHHHHHHHHHcCCCHHHHHHHHHH
Confidence            3677788888876 888999999999999999999964

>d1tffa_ d.3.1.11 (A:) Ubiquitin thiolesterase protein OTUB2 (Otubain-2) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Ubiquitin thiolesterase protein OTUB2 (Otubain-2)
domain: Ubiquitin thiolesterase protein OTUB2 (Otubain-2)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.86  E-value=0.0021  Score=48.42  Aligned_cols=44  Identities=16%  Similarity=0.169  Sum_probs=29.7

Q ss_pred             cceeEEEEeCCCcceEEee--ccCCCceEEEEEecCCCcccccccCC
Q 032619            2 YCLLLSLMQHMSPRWYIRN--FDYHEARMIHLSYHDGEHYNGVRLKE   46 (137)
Q Consensus         2 ~~~~i~Ihq~~~p~w~I~~--~~~~~~~~lhlaYh~geHYnSVR~~~   46 (137)
                      |+++|.|.+++++...+..  ++....+.|||.|+.| |||.|-..+
T Consensus       181 l~v~I~V~~~d~~~~~~~~~~~~~~~~~~I~Lly~pg-HYdiLY~~~  226 (228)
T d1tffa_         181 LSIALQVEYVDEMDTALNHHVFPEAATPSVYLLYKTS-HYNILYAAD  226 (228)
T ss_dssp             HTCCEEEEECC-------CCCCCCCSSCSEEEEEETT-EEEEEEECC
T ss_pred             hCCCEEEEEecCCCCccccccCCCCCCCEEEEEeCCC-CcccCccCC
Confidence            7899999999887666653  3445668999999887 999987643

>d1whca_ a.5.2.1 (A:) UBA/UBX 33.3 kDa protein {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: UBA/UBX 33.3 kDa protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.70  E-value=0.013  Score=36.51  Aligned_cols=44  Identities=16%  Similarity=0.365  Sum_probs=36.2

Q ss_pred             CCCChhHHHHHHhcCCCCCHHHHHHHHHHhCC-CHHHHHHHHHHHhc
Q 032619           83 GIINAGSIKLVMAGSGCENSEKVEEVLLQVGG-DVDAAIEFLIAEQG  128 (137)
Q Consensus        83 ~~~~~~~v~~Vm~~TGc~D~~lIre~L~~~~g-dvdaAI~~Ll~~~~  128 (137)
                      ...|+..+++++. -|+. .+.++++|..+++ ++++|+++|+.-..
T Consensus         6 s~~d~~~l~~L~~-MGF~-~~~a~~AL~~t~n~~~e~A~~Wl~~h~~   50 (64)
T d1whca_           6 SGAELTALESLIE-MGFP-RGRAEKALALTGNQGIEAAMDWLMEHED   50 (64)
T ss_dssp             CCCCCCHHHHHHT-TTCC-HHHHHHHHHHHTSCCHHHHHHHHHHHTT
T ss_pred             CccCHHHHHHHHH-cCCC-HHHHHHHHHHhCCCCHHHHHHHHHHCCC
Confidence            4566778888885 6755 8999999999976 89999999998554

>d2g3qa1 a.5.2.1 (A:1339-1381) Endocytic protein Ede1, YBL047C {Saccharomyces cerevisiae [TaxId: 4932]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Endocytic protein Ede1, YBL047C
species: Saccharomyces cerevisiae [TaxId: 4932]

Probab=95.04  E-value=0.029  Score=32.70  Aligned_cols=36  Identities=22%  Similarity=0.319  Sum_probs=28.7

Q ss_pred             hHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 032619           88 GSIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIA  125 (137)
Q Consensus        88 ~~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~  125 (137)
                      .+|++++. -| .+.+..+++|+++++|.++|.-+||.
T Consensus         6 ~ai~eL~~-MG-F~e~~A~~AL~k~~wnleaAtN~LLd   41 (43)
T d2g3qa1           6 LAVEELSG-MG-FTEEEAHNALEKCNWDLEAATNFLLD   41 (43)
T ss_dssp             HHHHHHHT-TT-SCHHHHHHHHHHHTSCHHHHHHHHHT
T ss_pred             HHHHHHHh-cC-CCHHHHHHHHHHcCCCHHHHHHHHHh
Confidence            45666543 33 46888999999999999999999985

>d2cpwa1 a.5.2.1 (A:8-58) Cbl-interacting protein p70, STS1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Cbl-interacting protein p70, STS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.78  E-value=0.068  Score=31.82  Aligned_cols=40  Identities=20%  Similarity=0.478  Sum_probs=31.0

Q ss_pred             CCChhHHHHHHhcCCCCCHHHHHHHHHHhCC-CHHHHHHHHHH
Q 032619           84 IINAGSIKLVMAGSGCENSEKVEEVLLQVGG-DVDAAIEFLIA  125 (137)
Q Consensus        84 ~~~~~~v~~Vm~~TGc~D~~lIre~L~~~~g-dvdaAI~~Ll~  125 (137)
                      ..++..++..+. -| .+.+..+.+|...++ |+++|+++||.
T Consensus        10 ~~~~~~l~~L~~-MG-F~~~~a~~AL~~t~n~~ve~A~~WLl~   50 (51)
T d2cpwa1          10 IKHGSALDVLLS-MG-FPRARAQKALASTGGRSVQTACDWLFS   50 (51)
T ss_dssp             SSCCCHHHHHHH-HT-CCHHHHHHHHHHTTTSCHHHHHHHHHS
T ss_pred             CCCHHHHHHHHH-cC-CCHHHHHHHHHHHCCCCHHHHHHHHHc
Confidence            344556777664 45 568999999999887 99999999984

>d1vdla_ a.5.2.1 (A:) Ubiquitin carboxyl-terminal hydrolase 25 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin carboxyl-terminal hydrolase 25
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.68  E-value=0.064  Score=34.76  Aligned_cols=40  Identities=18%  Similarity=0.384  Sum_probs=34.7

Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhc
Q 032619           89 SIKLVMAGSGCENSEKVEEVLLQVGGDVDAAIEFLIAEQG  128 (137)
Q Consensus        89 ~v~~Vm~~TGc~D~~lIre~L~~~~gdvdaAI~~Ll~~~~  128 (137)
                      ...+.-.-||-.|.+..-++|.+.+||+..||.+|-..+-
T Consensus        27 lLNQLrEITGIqD~q~L~~ALkas~Gdl~~AV~~LT~~~~   66 (80)
T d1vdla_          27 FLNQLREITGINDAQILQQALKDSNGNLELAVAFLTAKNA   66 (80)
T ss_dssp             HHHHHHHHSCCCCHHHHHHHHHHHTSCHHHHHHHHHTTSC
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHhcCCCHHHHHHHHhcCCC
Confidence            4556666899999999999999999999999999977653

>d2crna1 a.5.2.1 (A:8-58) Suppressor of T-cell receptor signaling 2 (STS-2) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Suppressor of T-cell receptor signaling 2 (STS-2)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.63  E-value=0.57  Score=27.40  Aligned_cols=38  Identities=13%  Similarity=0.202  Sum_probs=27.6

Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHHhC-CCHHHHHHHHHHHhc
Q 032619           89 SIKLVMAGSGCENSEKVEEVLLQVG-GDVDAAIEFLIAEQG  128 (137)
Q Consensus        89 ~v~~Vm~~TGc~D~~lIre~L~~~~-gdvdaAI~~Ll~~~~  128 (137)
                      .++..+ .-| .+....+.+|...+ +|+++|+++|++=..
T Consensus         5 ~v~~L~-~MG-F~~~~a~~Al~~t~n~~ve~A~~Wl~~h~~   43 (51)
T d2crna1           5 LLEPLL-AMG-FPVHTALKALAATGRKTAEEALAWLHDHCN   43 (51)
T ss_dssp             SHHHHH-HTS-CCHHHHHHHHHHHTSCCHHHHHHHHHHHSS
T ss_pred             HHHHHH-HcC-CCHHHHHHHHHHHCCCCHHHHHHHHHHcCC
Confidence            344444 234 45888899998875 599999999997543

>d1umqa_ a.4.1.12 (A:) Photosynthetic apparatus regulatory protein PprA (RegA), DNA-binding domain {Rhodobacter sphaeroides [TaxId: 1063]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: FIS-like
domain: Photosynthetic apparatus regulatory protein PprA (RegA), DNA-binding domain
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=82.01  E-value=0.64  Score=27.70  Aligned_cols=22  Identities=14%  Similarity=0.178  Sum_probs=19.7

Q ss_pred             HHHHHHHHHHhCCCHHHHHHHH
Q 032619          102 SEKVEEVLLQVGGDVDAAIEFL  123 (137)
Q Consensus       102 ~~lIre~L~~~~gdvdaAI~~L  123 (137)
                      .+.|.++|+.++||+-.|...|
T Consensus        22 r~~I~~aL~~~~gn~~~aA~~L   43 (60)
T d1umqa_          22 WEHIQRIYEMCDRNVSETARRL   43 (60)
T ss_dssp             HHHHHHHHHHTTSCHHHHHHHH
T ss_pred             HHHHHHHHHHhcCcHHHHHHHH
Confidence            5789999999999999998766

>d1veka_ a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin isopeptidase T
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=80.56  E-value=1  Score=28.80  Aligned_cols=44  Identities=11%  Similarity=0.317  Sum_probs=33.4

Q ss_pred             CCChhHHHHHHhcCCCCCHHHHHHHHHHh-CCCHHHHHHHHHHHhcc
Q 032619           84 IINAGSIKLVMAGSGCENSEKVEEVLLQV-GGDVDAAIEFLIAEQGT  129 (137)
Q Consensus        84 ~~~~~~v~~Vm~~TGc~D~~lIre~L~~~-~gdvdaAI~~Ll~~~~~  129 (137)
                      ..++..++.++. -|- +...++++|... ++|+++|+++|+.=..-
T Consensus        27 ~~d~~~v~~L~~-MGF-~~~~a~~AL~~t~n~~~e~A~~Wl~~h~~d   71 (84)
T d1veka_          27 VANEEIVAQLVS-MGF-SQLHCQKAAINTSNAGVEEAMNWLLSHMDD   71 (84)
T ss_dssp             CCCHHHHHHHHH-HTC-CHHHHHHHHHHTTTCCHHHHHHHHHHHTTC
T ss_pred             CCCHHHHHHHHH-cCC-CHHHHHHHHHHHcCCCHHHHHHHHHHcCCC
Confidence            456778887774 454 588888888885 57999999999985543