Citrus Sinensis ID: 031040

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------
Protein Sequence
MIKLRSKRFCRRSFKLGGNGNNNGSSSNNVKEAAARGCGGINSSHEIKWELRPGGMLVQKRESGCEGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDPAIKDMKLHGLRGGQPIGTAYRTISV
Secondary Structure (PSIPRED)
ccccccHHHHHccccccccccccccccccccccccccccccccccccccEEEcccEEEEEEcccccccccEEEEEEEccEEEEEEEcccccHHHHHHHHHHHHcccccccEEEEcccccccHHHHHHHccccccEEEEEcccHHHHHHHcccccccccHHHHccccc
Secondary Structure Prediction (SSPRO)
ccEEEccEEEccccccccccccccccccccEEccccccccccccccEEEEEccccEEEEEcccccccccEEEEEEEEccEEEEEEEcccccHHHHHHHHHHcccccHHHcEEEEcccccccHHHHHHcccccccEEEEEEcHHHHHHHHHHHHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
miklrskrfcrrsfklggngnnngsssnnVKEAAArgcgginssheikwelrpggmlvqkresgcegegsITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLfkgkeredneFLHMvgvrdkdkvllledpaikdmklhglrggqpigtayrtisv
Flexible Loop (DISEMBL)
miklrskrfcrrsfklggngnnngsssnNVKEAAARGCGGINSSHEIKWELRPGGMLVQKRESGCEGEGSITirvstvskwhDISIKATSTFGELKMILSMVSGLEPREQRLLFkgkeredneflhmvgvrdkdkvLLLEDPaikdmklhglrggqpigtayrtisv
Low Complexity Region (SEG)
MIKLRSKRFCRRSFKLggngnnngsssnnVKEAAARGCGGINSSHEIKWELRPGGMLVQKRESGCEGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDPAIKDMKLHGLRGGQPIGTAYRTISV
Disordered region (IsUnstruct)
******************************************************************GEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEP**QRLLFKG****DNEFLHMVGVRDKDKVLLLEDPAIKDMKLHGLRG*************
Disordered Region (DISOPRED)
**************************************************LRPGG******************RVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED********************YR****
Disordered Region (DISEMBL)
MIKLRSKRFCRRSFKLGGNGNNNGSSSNNVKEAAARGCGGINSSHEIKWELRPGGMLVQK********GSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDPAIKDMKLHGLRGGQPIGTAYRTISV
Disordered Region (DISPRO)
MIKLRSKRFCRRSFKLG********************CG***SSHEIKWELRPGGMLVQKRESGCEGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDPAIKDMKLHGLRGGQPI*TAYR*IS*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MIKLRSKRFCRRSFKLGGNGNNNGSSSNNVKEAAARGCGGINSSHEIKWELRPGGMLVQKRESGCEGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDPAIKDMKLHGLRGGQPIGTAYRTISV
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	167	2.2.26 [Sep-21-2011]
Q0WPX7	285	BAG family molecular chap	no	no	0.682	0.4	0.426	2e-17
Q9LYP4	303	BAG family molecular chap	no	no	0.760	0.419	0.384	4e-17
Q8RX71	269	BAG family molecular chap	no	no	0.598	0.371	0.405	6e-16
Q0WUQ1	342	BAG family molecular chap	no	no	0.700	0.342	0.368	8e-16

>sp|Q0WPX7|BAG2_ARATH BAG family molecular chaperone regulator 2 OS=Arabidopsis thaliana GN=BAG2 PE=2 SV=1

 Score = 88.2 bits (217), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 49/115 (42%), Positives = 75/115 (65%), Gaps = 1/115 (0%)

Query: 40  GINSSHEIKWELRPGGMLVQKR-ESGCEGEGSITIRVSTVSKWHDISIKATSTFGELKMI 98
           G  +S + + ELRPGGM+VQKR +        I +RV   S  H+ISI + STFGELK I
Sbjct: 7   GTTTSGDGEMELRPGGMVVQKRTDHSSSVPRGIRVRVKYGSVHHEISINSQSTFGELKKI 66

Query: 99  LSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDPAIKDMKLHGLR 153
           LS  +G+  ++ ++++K KER+   FL + GV+D+ K++L+EDP  ++ +L  LR
Sbjct: 67  LSGATGVHHQDMQIIYKDKERDSKMFLDLSGVKDRSKLILIEDPISQEKRLLELR 121

Co-chaperone that regulates diverse cellular pathways, such as programmed cell death and stress responses.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9LYP4|BAG3_ARATH BAG family molecular chaperone regulator 3 OS=Arabidopsis thaliana GN=BAG3 PE=1 SV=1

 Score = 87.4 bits (215), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 50/130 (38%), Positives = 78/130 (60%), Gaps = 3/130 (2%)

Query: 38  CGGINSSHEIKWELRPGGMLVQKR-ESGCEGEGSITIRVSTVSKWHDISIKATSTFGELK 96
            GG  S +E  WE RPGGM+VQ+R +   +      +RV   S +H+I+I + S+FGELK
Sbjct: 13  IGGGTSGNE--WESRPGGMVVQRRTDQNSDVPRVFRVRVKYGSVYHEININSQSSFGELK 70

Query: 97  MILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDPAIKDMKLHGLRGGQ 156
            +LS   GL   + ++L+K KER+   FL + GV+D+ K+++ EDP  ++ +L   R   
Sbjct: 71  KMLSDQVGLHHEDMKVLYKDKERDSKMFLDLCGVKDRSKLVVKEDPISQEKRLLAKRKNA 130

Query: 157 PIGTAYRTIS 166
            I  A ++IS
Sbjct: 131 AIEKASKSIS 140

Co-chaperone that regulates diverse cellular pathways, such as programmed cell death and stress responses.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8RX71|BAG4_ARATH BAG family molecular chaperone regulator 4 OS=Arabidopsis thaliana GN=BAG4 PE=1 SV=1

 Score = 83.6 bits (205), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 47/116 (40%), Positives = 67/116 (57%), Gaps = 16/116 (13%)

Query: 42  NSSHEIKWELRPGGMLVQKRESGCEGE---------------GSITIRVSTVSKWHDISI 86
           NS+ E +WE+RPGGMLVQ+R+     +                +I I VS  S  HD+ I
Sbjct: 4   NSTEESEWEVRPGGMLVQRRDDAASSDHKPLQDPDSASAAFAQTIRITVSHGSSHHDLHI 63

Query: 87  KATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDK-VLLLED 141
            A +TFG++K  L   +GLE  E ++LF+G ER+D E L   GV+D  K V+++ED
Sbjct: 64  SAHATFGDVKKALVQKTGLEASELKILFRGVERDDAEQLQAAGVKDASKLVVVVED 119

Co-chaperone that regulates diverse cellular pathways, such as programmed cell death and stress responses.

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WUQ1|BAG1_ARATH BAG family molecular chaperone regulator 1 OS=Arabidopsis thaliana GN=BAG1 PE=1 SV=1

 Score = 82.8 bits (203), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 45/122 (36%), Positives = 75/122 (61%), Gaps = 5/122 (4%)

Query: 50  ELRPGGMLVQKRESGCEGEGS-----ITIRVSTVSKWHDISIKATSTFGELKMILSMVSG 104
           E+RPGGMLVQKR    +  G      I +R+   + +H+I+I   ++FGELK +L+  +G
Sbjct: 41  EIRPGGMLVQKRNPDLDPVGPPPPPMIRVRIKYGAVYHEINISPQASFGELKKMLTGPTG 100

Query: 105 LEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDPAIKDMKLHGLRGGQPIGTAYRT 164
           +  ++Q+L++K KER+   FL + GV+DK K++L+EDP  ++ +   +R       A + 
Sbjct: 101 IHHQDQKLMYKDKERDSKAFLDVSGVKDKSKMVLIEDPLSQEKRFLEMRKIAKTEKASKA 160

Query: 165 IS 166
           IS
Sbjct: 161 IS 162

Co-chaperone that regulates diverse cellular pathways, such as programmed cell death and stress responses.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	167
255572016	163	protein binding protein, putative [Ricin	0.976	1.0	0.736	3e-58
224060177	164	predicted protein [Populus trichocarpa]	0.982	1.0	0.736	5e-56
357497011	154	hypothetical protein MTR_6g022040 [Medic	0.922	1.0	0.676	7e-52
225452240	147	PREDICTED: uncharacterized protein LOC10	0.874	0.993	0.684	1e-51
358248690	159	uncharacterized protein LOC100815369 [Gl	0.850	0.893	0.697	9e-50
357497007	157	hypothetical protein MTR_6g022020 [Medic	0.940	1.0	0.652	2e-49
388499158	157	unknown [Medicago truncatula]	0.940	1.0	0.646	9e-49
356558793	157	PREDICTED: uncharacterized protein LOC10	0.934	0.993	0.672	8e-46
449450038	167	PREDICTED: BAG family molecular chaperon	0.946	0.946	0.626	6e-45
297807463	161	ubiquitin family protein [Arabidopsis ly	0.898	0.931	0.611	2e-43

>gi|255572016|ref|XP_002526949.1| protein binding protein, putative [Ricinus communis] gi|223533701|gb|EEF35436.1| protein binding protein, putative [Ricinus communis]

 Score =  229 bits (584), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 123/167 (73%), Positives = 140/167 (83%), Gaps = 4/167 (2%)

Query: 1   MIKLRSKRFCRRSFKLGGNGNNNGSSSNNVKEAAARGCGGINSSHEIKWELRPGGMLVQK 60
           MIKLRSKRFCR SFKLGG  NN+   +N+VK +    CG IN+S EIKWELRPGGMLVQK
Sbjct: 1   MIKLRSKRFCRGSFKLGGINNNS---NNSVKGSEKGSCGSINNS-EIKWELRPGGMLVQK 56

Query: 61  RESGCEGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKERE 120
           RE G      IT++VST+S+WHDISI+ATSTFGELKM+LS+V+GLEPREQRLLFKGKERE
Sbjct: 57  RECGDSVGELITVKVSTLSQWHDISIEATSTFGELKMVLSLVTGLEPREQRLLFKGKERE 116

Query: 121 DNEFLHMVGVRDKDKVLLLEDPAIKDMKLHGLRGGQPIGTAYRTISV 167
           D E+LHM+GVRDKDKV LLEDPAIK+ KLH + GGQPIGT  RTISV
Sbjct: 117 DGEYLHMLGVRDKDKVFLLEDPAIKERKLHSMAGGQPIGTPCRTISV 163

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224060177|ref|XP_002300070.1| predicted protein [Populus trichocarpa] gi|222847328|gb|EEE84875.1| predicted protein [Populus trichocarpa]

 Score =  222 bits (565), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 123/167 (73%), Positives = 139/167 (83%), Gaps = 3/167 (1%)

Query: 1   MIKLRSKRFCRRSFKLGGNGNNNGSSSNNVKEAAARGCGGINSSHEIKWELRPGGMLVQK 60
           MIKLRSKRFCR SFKLGGNG   G+++  VK      CGG N+  EIKWELRPGGMLVQK
Sbjct: 1   MIKLRSKRFCRGSFKLGGNGGGGGNTA--VKGNERGSCGGTNNG-EIKWELRPGGMLVQK 57

Query: 61  RESGCEGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKERE 120
           RESG      IT+RVSTVS+WHDISI+ATSTF ELKM+LS+V+ LEP+EQRLLFKGKER+
Sbjct: 58  RESGESVGELITVRVSTVSQWHDISIEATSTFEELKMVLSLVTSLEPKEQRLLFKGKERD 117

Query: 121 DNEFLHMVGVRDKDKVLLLEDPAIKDMKLHGLRGGQPIGTAYRTISV 167
           ++E+LHMVGVRDKDKVLLLEDPAIK+ KLHGL GGQ IGT  RTISV
Sbjct: 118 NSEYLHMVGVRDKDKVLLLEDPAIKERKLHGLAGGQAIGTPCRTISV 164

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357497011|ref|XP_003618794.1| hypothetical protein MTR_6g022040 [Medicago truncatula] gi|355493809|gb|AES75012.1| hypothetical protein MTR_6g022040 [Medicago truncatula]

 Score =  208 bits (529), Expect = 7e-52,   Method: Compositional matrix adjust.
 Identities = 113/167 (67%), Positives = 129/167 (77%), Gaps = 13/167 (7%)

Query: 1   MIKLRSKRFCRRSFKLGGNGNNNGSSSNNVKEAAARGCGGINSSHEIKWELRPGGMLVQK 60
           M+KL+SKRFCR   KLG  GN   +S N V++ +           EIKWELRPGGMLVQK
Sbjct: 1   MMKLKSKRFCRSISKLG-IGNKVVASPNIVEDCS-----------EIKWELRPGGMLVQK 48

Query: 61  RESGCEGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKERE 120
           RES  + E  ITIRVST+SKWHDISI+ATSTFGELKM+LS+V+ LEPREQRLL+KGKER+
Sbjct: 49  RESK-KSEEIITIRVSTLSKWHDISIEATSTFGELKMVLSLVTSLEPREQRLLYKGKERD 107

Query: 121 DNEFLHMVGVRDKDKVLLLEDPAIKDMKLHGLRGGQPIGTAYRTISV 167
           DNEFLHM+GVRDKDKVLLLEDPAIK+MKL GL  GQ I     TI V
Sbjct: 108 DNEFLHMIGVRDKDKVLLLEDPAIKEMKLLGLARGQHIRNPCPTICV 154

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225452240|ref|XP_002271245.1| PREDICTED: uncharacterized protein LOC100259468 [Vitis vinifera] gi|296081329|emb|CBI17711.3| unnamed protein product [Vitis vinifera]

 Score =  207 bits (527), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 115/168 (68%), Positives = 126/168 (75%), Gaps = 22/168 (13%)

Query: 1   MIKLRSKRFCRRSFKLGGNGNNNGSSSNNVKEAAARGCGGINSSHEIKWELRPGGMLVQK 60
           MIKLRSKRFCR + KLG +G  NG                     EIKWELRPGGMLVQK
Sbjct: 1   MIKLRSKRFCRGNSKLG-SGAGNGVKGQE--------------KGEIKWELRPGGMLVQK 45

Query: 61  RESG-CEGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKER 119
           RES    GEG IT+RVS VSKWH+ISI++TSTFGELKMILS+V+GLEPREQRLLFKGKER
Sbjct: 46  RESAESVGEGMITVRVSIVSKWHEISIESTSTFGELKMILSLVTGLEPREQRLLFKGKER 105

Query: 120 EDNEFLHMVGVRDKDKVLLLEDPAIKDMKLHGLRGGQPIGTAYRTISV 167
           ED+E+LHMVGVRDKDKVLLLEDPAIK+MKLH L       T  RTISV
Sbjct: 106 EDSEYLHMVGVRDKDKVLLLEDPAIKEMKLHAL------ATPCRTISV 147

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358248690|ref|NP_001239668.1| uncharacterized protein LOC100815369 [Glycine max] gi|255647856|gb|ACU24387.1| unknown [Glycine max]

 Score =  201 bits (511), Expect = 9e-50,   Method: Compositional matrix adjust.
 Identities = 104/149 (69%), Positives = 117/149 (78%), Gaps = 7/149 (4%)

Query: 20  GNNNGSSSNNVKEAAARGCGGINSSHEIKWELRPGGMLVQKRESG-CEGEGSITIRVSTV 78
           GNN   ++++  E   +  G      EIKWELRPGGMLVQKRES    GEG ITIRVSTV
Sbjct: 17  GNNGSKAASSSPEKDCKSIG------EIKWELRPGGMLVQKRESNQSSGEGVITIRVSTV 70

Query: 79  SKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLL 138
           S+WHDI+I ATSTFGELKMILS+V+ LEPREQRLLF+GKE+EDNEFLHMVGVRDKDKVLL
Sbjct: 71  SQWHDINIDATSTFGELKMILSLVTSLEPREQRLLFRGKEKEDNEFLHMVGVRDKDKVLL 130

Query: 139 LEDPAIKDMKLHGLRGGQPIGTAYRTISV 167
           LEDPAIK+MKL G+  GQPI     TIS 
Sbjct: 131 LEDPAIKEMKLLGMARGQPINNTCCTISA 159

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357497007|ref|XP_003618792.1| hypothetical protein MTR_6g022020 [Medicago truncatula] gi|355493807|gb|AES75010.1| hypothetical protein MTR_6g022020 [Medicago truncatula]

 Score =  199 bits (507), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 109/167 (65%), Positives = 124/167 (74%), Gaps = 10/167 (5%)

Query: 1   MIKLRSKRFCRRSFKLGGNGNNNGSSSNNVKEAAARGCGGINSSHEIKWELRPGGMLVQK 60
           M+KLRSKRFCR   KLG  GN   +S         + C   + + EI+WELRPGGMLVQK
Sbjct: 1   MMKLRSKRFCRSISKLGF-GNKVVAS------PIEKDC---SENSEIEWELRPGGMLVQK 50

Query: 61  RESGCEGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKERE 120
           RE        ITIRVST+SKWHDISI+ TSTFGELKM+LS+V+ LEPREQRLL+KGKER+
Sbjct: 51  REGNKSVGEIITIRVSTMSKWHDISIEETSTFGELKMVLSLVTSLEPREQRLLYKGKERD 110

Query: 121 DNEFLHMVGVRDKDKVLLLEDPAIKDMKLHGLRGGQPIGTAYRTISV 167
           DNEFLHM+GVRDKDKVLLLEDPAIK+MKL GL  GQ I     TI V
Sbjct: 111 DNEFLHMIGVRDKDKVLLLEDPAIKEMKLLGLARGQSINNPCYTIRV 157

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388499158|gb|AFK37645.1| unknown [Medicago truncatula]

 Score =  197 bits (502), Expect = 9e-49,   Method: Compositional matrix adjust.
 Identities = 108/167 (64%), Positives = 123/167 (73%), Gaps = 10/167 (5%)

Query: 1   MIKLRSKRFCRRSFKLGGNGNNNGSSSNNVKEAAARGCGGINSSHEIKWELRPGGMLVQK 60
           M+KLRSKRFCR   KLG  GN   +S         + C   + + EI+WELRPGGMLVQK
Sbjct: 1   MMKLRSKRFCRSISKLGF-GNKVVAS------PIEKDC---SENSEIEWELRPGGMLVQK 50

Query: 61  RESGCEGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKERE 120
           RE        ITIRVST+SKWHDISI+ TSTFGELKM+LS+V+ LEPREQRLL+KGKER+
Sbjct: 51  REGNKSVGEIITIRVSTMSKWHDISIEETSTFGELKMVLSLVTSLEPREQRLLYKGKERD 110

Query: 121 DNEFLHMVGVRDKDKVLLLEDPAIKDMKLHGLRGGQPIGTAYRTISV 167
           DNEFLHM+GVRDKDKVLLLEDPAIK+M L GL  GQ I     TI V
Sbjct: 111 DNEFLHMIGVRDKDKVLLLEDPAIKEMNLLGLARGQSINNPCYTIRV 157

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356558793|ref|XP_003547687.1| PREDICTED: uncharacterized protein LOC100797703 [Glycine max]

 Score =  188 bits (477), Expect = 8e-46,   Method: Compositional matrix adjust.
 Identities = 113/168 (67%), Positives = 123/168 (73%), Gaps = 12/168 (7%)

Query: 1   MIKLRSKRFCRRSFKLGGNGNNNGSSSNNVKEAAARGCGGINSSHEIKWELRPGGMLVQK 60
           MIKLRS RF R S KLG    N G  +    E   R  G      EI+WELRPGGMLVQK
Sbjct: 1   MIKLRSMRFSRSSSKLG----NGGHKATTPTEKDCRSIG------EIQWELRPGGMLVQK 50

Query: 61  RESG-CEGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKER 119
           RES    GEG ITI VSTVS+ H+ISI+ATSTFGELKMILS+ +  EPREQRLLFKGKER
Sbjct: 51  RESNQSAGEGMITIIVSTVSQSHEISIEATSTFGELKMILSLATSFEPREQRLLFKGKER 110

Query: 120 EDNEFLHMVGVRDKDKVLLLEDPAIKDMKLHGLRGGQPIGTAYRTISV 167
           ED+E+LHMVGVRDKDKVLL EDPAIK+ KL GLR  QPI    RTISV
Sbjct: 111 EDDEYLHMVGVRDKDKVLLFEDPAIKEKKLLGLR-NQPINNPSRTISV 157

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449450038|ref|XP_004142771.1| PREDICTED: BAG family molecular chaperone regulator 1-like [Cucumis sativus] gi|449483818|ref|XP_004156701.1| PREDICTED: BAG family molecular chaperone regulator 1-like [Cucumis sativus]

 Score =  185 bits (469), Expect = 6e-45,   Method: Compositional matrix adjust.
 Identities = 104/166 (62%), Positives = 122/166 (73%), Gaps = 8/166 (4%)

Query: 1   MIKLRSKRFCRRS-FKLGGNGNNNGSSSNNVKEAAARGCGGINSS-HEIKWELRPGGMLV 58
           M+KLRSKRFCR S FK G       S +N +K A        +++  EIKWELRPGGMLV
Sbjct: 2   MMKLRSKRFCRSSTFKFGITSFVT-SCNNKIKVADDHHKDSSSAALTEIKWELRPGGMLV 60

Query: 59  QKRE----SGCEGEG-SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLL 113
           Q+RE    S   GE  +ITIRVSTVS++HDIS++ TSTFGELKMILSMV+GLE +EQRLL
Sbjct: 61  QRREIAGQSTLPGEDETITIRVSTVSQFHDISVQPTSTFGELKMILSMVTGLEAKEQRLL 120

Query: 114 FKGKEREDNEFLHMVGVRDKDKVLLLEDPAIKDMKLHGLRGGQPIG 159
           FKGKER+D E+LHMVGV  K KVLLL+DPAIK+ KLH L   QPI 
Sbjct: 121 FKGKERDDCEYLHMVGVGHKHKVLLLQDPAIKERKLHALATTQPIS 166

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297807463|ref|XP_002871615.1| ubiquitin family protein [Arabidopsis lyrata subsp. lyrata] gi|297317452|gb|EFH47874.1| ubiquitin family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  180 bits (456), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 93/152 (61%), Positives = 117/152 (76%), Gaps = 2/152 (1%)

Query: 1   MIKLRSKRFCRRSFKLGGNGNNNGSSSNNVKEAAARGCGGINSSHEIKWELRPGGMLVQK 60
           M+K +SKRF  R F  G   NN G+  +  ++  +      +S++EIKWELRPGGMLVQK
Sbjct: 1   MMKFKSKRFGIR-FGFGKRINNKGTQQDQQQKGVSNNNNSSSSNYEIKWELRPGGMLVQK 59

Query: 61  RESGCEGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKERE 120
           R+    GE  I+IRVST + +HD+SI+ATSTFGELKM+LS+++GLEP++QRLLFKGKERE
Sbjct: 60  RQESI-GEDLISIRVSTFAHFHDLSIEATSTFGELKMVLSLLTGLEPKQQRLLFKGKERE 118

Query: 121 DNEFLHMVGVRDKDKVLLLEDPAIKDMKLHGL 152
           D+E+LHMVGV DKDKVLLLEDPA KD KL  L
Sbjct: 119 DHEYLHMVGVGDKDKVLLLEDPAFKDKKLLDL 150

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	167
TAIR|locus:2145683	163	AT5G14360 "AT5G14360" [Arabido	0.970	0.993	0.541	8.9e-38
TAIR|locus:2168788	165	AT5G40630 "AT5G40630" [Arabido	0.892	0.903	0.478	2.3e-32
TAIR|locus:2182900	303	BAG3 "BCL-2-associated athanog	0.754	0.415	0.387	2.2e-18
TAIR|locus:2173108	342	BAG1 "BCL-2-associated athanog	0.700	0.342	0.377	3.1e-17
TAIR|locus:2074353	269	BAG4 "BCL-2-associated athanog	0.598	0.371	0.405	3.3e-15
WB|WBGene00018659	228	F52C6.2 [Caenorhabditis elegan	0.437	0.320	0.369	1.3e-06
DICTYBASE|DDB_G0286927	80	nedd8l2 "neddylin-like protein	0.473	0.987	0.227	0.00036
UNIPROTKB|G5EHL1	557	MGCH7_ch7g748 "Ubiquitin carbo	0.431	0.129	0.351	0.00053

TAIR|locus:2145683 AT5G14360 "AT5G14360" [Arabidopsis thaliana (taxid:3702)]

 Score = 405 (147.6 bits), Expect = 8.9e-38, P = 8.9e-38
 Identities = 91/168 (54%), Positives = 113/168 (67%)

Query:     1 MIKLRSKRFCRRSFKLXXXXXXXXXXXXXVKEAAARGCGGINSSH-EIKWELRPGGMLVQ 59
             M+K ++KRF  R F                ++         + S+ EIKWELRPGGMLVQ
Sbjct:     1 MMKFKTKRFGIR-FGFGKRINNKGTQQDQQQKGVGNNNNNSSCSNCEIKWELRPGGMLVQ 59

Query:    60 KRESGCEGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKER 119
             KR+    GE  I+IRVST + +HD+SI+ATSTFGELKM+LS+++GLEP++QRL+FKGKER
Sbjct:    60 KRQESI-GEDLISIRVSTFAHFHDLSIEATSTFGELKMVLSLLTGLEPKQQRLVFKGKER 118

Query:   120 EDNEFLHMVGVRDKDKVLLLEDPAIKDMKLHGLRGGQPIGTAYRTISV 167
             ED+E+LHMVGV DKDKVLLLEDP  KD KL  L     I T   TI V
Sbjct:   119 EDHEYLHMVGVGDKDKVLLLEDPGFKDKKLLDLNS---ISTTCPTIIV 163

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2168788 AT5G40630 "AT5G40630" [Arabidopsis thaliana (taxid:3702)]

 Score = 354 (129.7 bits), Expect = 2.3e-32, P = 2.3e-32
 Identities = 77/161 (47%), Positives = 105/161 (65%)

Query:     1 MIKLRSKRFC---------RRSFKLXXXXXXXXXXXXXVKEAAARGCGGINSSHEIKWEL 51
             M KL +KRFC           + K              +  +++      N+++ IKWE+
Sbjct:     1 MGKLMAKRFCIGFGCGRIGTGNNKRSSSSSSSSSSFSSLSSSSSSSSSSCNNNN-IKWEM 59

Query:    52 RPGGMLVQKRESGCEGEGSITIRVSTVSKW-HDISIKATSTFGELKMILSMVSGLEPREQ 110
             RPGGMLVQKR      E  I++RVSTVS+  ++ISI A STFGELKM++++VSG+E +EQ
Sbjct:    60 RPGGMLVQKRSEDSNTEDLISLRVSTVSQLSYEISIDANSTFGELKMMIAIVSGIEAKEQ 119

Query:   111 RLLFKGKEREDNEFLHMVGVRDKDKVLLLEDPAIKDMK-LH 150
             RLLF+GKERED E+LHM+GV D DKV LL+DPA K++K +H
Sbjct:   120 RLLFRGKEREDREYLHMIGVGDGDKVFLLQDPAFKELKHIH 160

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

TAIR|locus:2182900 BAG3 "BCL-2-associated athanogene 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 222 (83.2 bits), Expect = 2.2e-18, P = 2.2e-18
 Identities = 50/129 (38%), Positives = 78/129 (60%)

Query:    39 GGINSSHEIKWELRPGGMLVQKR-ESGCEGEGSITIRVSTVSKWHDISIKATSTFGELKM 97
             GG  S +E  WE RPGGM+VQ+R +   +      +RV   S +H+I+I + S+FGELK 
Sbjct:    14 GGGTSGNE--WESRPGGMVVQRRTDQNSDVPRVFRVRVKYGSVYHEININSQSSFGELKK 71

Query:    98 ILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDPAIKDMKLHGLRGGQP 157
             +LS   GL   + ++L+K KER+   FL + GV+D+ K+++ EDP  ++ +L   R    
Sbjct:    72 MLSDQVGLHHEDMKVLYKDKERDSKMFLDLCGVKDRSKLVVKEDPISQEKRLLAKRKNAA 131

Query:   158 IGTAYRTIS 166
             I  A ++IS
Sbjct:   132 IEKASKSIS 140

GO:0005634 "nucleus" evidence=ISM

GO:0051087 "chaperone binding" evidence=IEA

GO:0006301 "postreplication repair" evidence=RCA

GO:0006816 "calcium ion transport" evidence=RCA

TAIR|locus:2173108 BAG1 "BCL-2-associated athanogene 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 213 (80.0 bits), Expect = 3.1e-17, P = 3.1e-17
 Identities = 46/122 (37%), Positives = 75/122 (61%)

Query:    37 GCGGINSSHEIKWELRPGGMLVQKRESGCEGEGS-----ITIRVSTVSKWHDISIKATST 91
             G GG   S     E+RPGGMLVQKR    +  G      I +R+   + +H+I+I   ++
Sbjct:    28 GGGGGRESGGRDLEIRPGGMLVQKRNPDLDPVGPPPPPMIRVRIKYGAVYHEINISPQAS 87

Query:    92 FGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDPAIKDMKLHG 151
             FGELK +L+  +G+  ++Q+L++K KER+   FL + GV+DK K++L+EDP  ++ +   
Sbjct:    88 FGELKKMLTGPTGIHHQDQKLMYKDKERDSKAFLDVSGVKDKSKMVLIEDPLSQEKRFLE 147

Query:   152 LR 153
             +R
Sbjct:   148 MR 149

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0051087 "chaperone binding" evidence=IEA

GO:0006833 "water transport" evidence=RCA

GO:0009651 "response to salt stress" evidence=RCA

GO:0009750 "response to fructose stimulus" evidence=RCA

GO:0030003 "cellular cation homeostasis" evidence=RCA

GO:0048767 "root hair elongation" evidence=RCA

GO:0070838 "divalent metal ion transport" evidence=RCA

TAIR|locus:2074353 BAG4 "BCL-2-associated athanogene 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 192 (72.6 bits), Expect = 3.3e-15, P = 3.3e-15
 Identities = 47/116 (40%), Positives = 67/116 (57%)

Query:    42 NSSHEIKWELRPGGMLVQKRESGCEGEG---------------SITIRVSTVSKWHDISI 86
             NS+ E +WE+RPGGMLVQ+R+     +                +I I VS  S  HD+ I
Sbjct:     4 NSTEESEWEVRPGGMLVQRRDDAASSDHKPLQDPDSASAAFAQTIRITVSHGSSHHDLHI 63

Query:    87 KATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDK-VLLLED 141
              A +TFG++K  L   +GLE  E ++LF+G ER+D E L   GV+D  K V+++ED
Sbjct:    64 SAHATFGDVKKALVQKTGLEASELKILFRGVERDDAEQLQAAGVKDASKLVVVVED 119

GO:0005634 "nucleus" evidence=ISM

GO:0051087 "chaperone binding" evidence=IEA

GO:0009408 "response to heat" evidence=IEP

GO:0009409 "response to cold" evidence=IEP

GO:0009651 "response to salt stress" evidence=IMP

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=IMP

GO:0005829 "cytosol" evidence=IDA

WB|WBGene00018659 F52C6.2 [Caenorhabditis elegans (taxid:6239)]

 Score = 114 (45.2 bits), Expect = 1.3e-06, P = 1.3e-06
 Identities = 27/73 (36%), Positives = 39/73 (53%)

Query:    59 QKRESGCEGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKE 118
             Q R    +G  ++ ++ ST  K   +SIK T T G LK+ +    G+ P +QRLLFKG E
Sbjct:   144 QIRRVSVDGNFNVFVKNSTGGKTTAVSIKNTDTIGTLKLKVQEKEGIPPNQQRLLFKGSE 203

Query:   119 REDNEFLHMVGVR 131
               D   +   G+R
Sbjct:   204 LMDYRTVAHCGLR 216

GO:0019915 "lipid storage" evidence=IMP

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

GO:0008340 "determination of adult lifespan" evidence=IMP

DICTYBASE|DDB_G0286927 nedd8l2 "neddylin-like protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 88 (36.0 bits), Expect = 0.00036, P = 0.00036
 Identities = 18/79 (22%), Positives = 41/79 (51%)

Query:    70 SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVG 129
             +I ++  +  K  +++   T     +K  + ++ G+ P+EQ+L+F GK  +D   L   G
Sbjct:     2 NINLQFHSTGKRTELNFDETDKIELIKNSIRIMEGINPQEQKLIFDGKVLKDTSTLKSCG 61

Query:   130 VRDKDKVLLLEDPAIKDMK 148
             ++D   + +L + +   +K
Sbjct:    62 IKDGSTISVLFEKSSNFLK 80

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

UNIPROTKB|G5EHL1 MGCH7_ch7g748 "Ubiquitin carboxyl-terminal hydrolase" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 106 (42.4 bits), Expect = 0.00053, P = 0.00053
 Identities = 26/74 (35%), Positives = 43/74 (58%)

Query:    70 SITIRVSTVSKWHDISIKATSTFGEL-KMILSMVSGLEPREQRLLFKGKEREDNEFLHMV 128
             SI I VS   K +D+ +   ST GE+ K  L  ++G+EP  QR+L KG + +D+  +  V
Sbjct:     3 SINITVSHKGKKYDVEVDTEST-GEVFKYQLFSLTGVEPERQRILVKGGQLKDDIVMSSV 61

Query:   129 GVRDKDKVLLLEDP 142
             G++    V+++  P
Sbjct:    62 GLKPGQTVMMMGTP 75


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.320   0.137   0.400    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      167       154   0.00088  105 3  11 22  0.48    31
                                                     30  0.41    34


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  8
  No. of states in DFA:  590 (63 KB)
  Total size of DFA:  141 KB (2087 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  15.35u 0.10s 15.45t   Elapsed:  00:00:00
  Total cpu time:  15.35u 0.10s 15.45t   Elapsed:  00:00:00
  Start:  Fri May 10 08:54:57 2013   End:  Fri May 10 08:54:57 2013

GO:0005575 "cellular_component" evidence=ND

GO:0043581 "mycelium development" evidence=IEP

---

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

Fail to connect to STRING server

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	167
cd01812	71	cd01812, BAG1_N, Ubiquitin-like domain of BAG1	1e-33
cd01769	69	cd01769, UBL, Ubiquitin-like domain of UBL	6e-12
pfam00240	69	pfam00240, ubiquitin, Ubiquitin family	5e-08
cd00196	69	cd00196, UBQ, Ubiquitin-like proteins	9e-07
smart00213	72	smart00213, UBQ, Ubiquitin homologues	6e-05
cd01809	72	cd01809, Scythe_N, Ubiquitin-like domain of Scythe	2e-04
cd01813	74	cd01813, UBP_N, UBP ubiquitin processing protease	0.001

>gnl|CDD|176407 cd01812, BAG1_N, Ubiquitin-like domain of BAG1

 Score =  113 bits (284), Expect = 1e-33
 Identities = 39/71 (54%), Positives = 55/71 (77%)

Query: 71  ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGV 130
           I +RV    + HD+SI + +TFG+LK +L+ V+G+EPR+Q+L+FKGKER+D E L M GV
Sbjct: 1   IRVRVKHGGESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAETLDMSGV 60

Query: 131 RDKDKVLLLED 141
           +D  KV+LLED
Sbjct: 61  KDGSKVMLLED 71

BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP). Length = 71

>gnl|CDD|176364 cd01769, UBL, Ubiquitin-like domain of UBL

 Score = 57.7 bits (140), Expect = 6e-12
 Identities = 16/60 (26%), Positives = 32/60 (53%)

Query: 82  HDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED 141
            ++ +    T  ELK  ++   G+ P +QRL++ GK  +D++ L   G++D   + L+  
Sbjct: 10  FELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKDDKTLSDYGIQDGSTLHLVLR 69

UBLs function by remodeling the surface of their target proteins, changing their target's half-life, enzymatic activity, protein-protein interactions, subcellular localization or other properties. At least 10 different ubiquitin-like modifications exist in mammals, and attachment of different ubls to a target leads to different biological consequences. Ubl-conjugation cascades are initiated by activating enzymes, which also coordinate the ubls with their downstream pathways. Length = 69

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

 Score = 47.2 bits (113), Expect = 5e-08
 Identities = 17/58 (29%), Positives = 29/58 (50%)

Query: 82  HDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLL 139
             + +  + T  ELK  +    G+   +QRL+F GK  ED+  L   G++D   + L+
Sbjct: 8   ITLEVDPSDTVSELKEKIEDKEGIPVDQQRLIFSGKVLEDDTTLSEYGIQDGSTLHLV 65

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

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

 Score = 44.1 bits (104), Expect = 9e-07
 Identities = 19/59 (32%), Positives = 34/59 (57%)

Query: 82  HDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE 140
            ++ + + +T  +LK  L+   GL P +QRLL  GK   D+  L   G++D D+++L+ 
Sbjct: 10  VELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVP 68

Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate. Length = 69

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

 Score = 39.2 bits (92), Expect = 6e-05
 Identities = 20/70 (28%), Positives = 39/70 (55%), Gaps = 1/70 (1%)

Query: 70  SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVG 129
            +T++         + +K + T  ELK  ++ ++G+ P +QRL++KGK  ED+  L   G
Sbjct: 2   ELTVKTLDGKTI-TLEVKPSDTVSELKEKIAELTGIPPEQQRLIYKGKVLEDDRTLADYG 60

Query: 130 VRDKDKVLLL 139
           ++D   + L+
Sbjct: 61  IQDGSTIHLV 70

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

>gnl|CDD|176404 cd01809, Scythe_N, Ubiquitin-like domain of Scythe protein

 Score = 37.6 bits (88), Expect = 2e-04
 Identities = 16/63 (25%), Positives = 32/63 (50%), Gaps = 1/63 (1%)

Query: 70  SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVG 129
            I ++    S+ H  +++   T  +LK  ++   G+   +QRL++ G+  +D+E L    
Sbjct: 2   EIKVKTLD-SQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDETLSEYK 60

Query: 130 VRD 132
           V D
Sbjct: 61  VED 63

Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules. Length = 72

>gnl|CDD|176408 cd01813, UBP_N, UBP ubiquitin processing protease

 Score = 35.6 bits (82), Expect = 0.001
 Identities = 19/72 (26%), Positives = 37/72 (51%), Gaps = 7/72 (9%)

Query: 75  VSTVSKW--HDISIKATS--TFGELKMILSMVSGLEPREQRLL---FKGKEREDNEFLHM 127
           V  + KW   + S+   S  T  +LK  +  ++G+ P  Q+LL    KGK  ED+  +  
Sbjct: 1   VPVIVKWGGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDVKISA 60

Query: 128 VGVRDKDKVLLL 139
           + ++   K++++
Sbjct: 61  LKLKPNTKIMMM 72

The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes. Length = 74

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	167
cd01813	74	UBP_N UBP ubiquitin processing protease. The UBP (	99.82
cd01812	71	BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-ter	99.81
cd01807	74	GDX_N ubiquitin-like domain of GDX. GDX contains a	99.81
cd01793	74	Fubi Fubi ubiquitin-like protein. Fubi is a ubiqui	99.78
cd01791	73	Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also know	99.76
cd01797	78	NIRF_N amino-terminal ubiquitin-like domain of Np9	99.75
cd01805	77	RAD23_N Ubiquitin-like domain of RAD23. RAD23 belo	99.74
cd01798	70	parkin_N amino-terminal ubiquitin-like of parkin p	99.74
cd01804	78	midnolin_N Ubiquitin-like domain of midnolin. midn	99.74
cd01809	72	Scythe_N Ubiquitin-like domain of Scythe protein.	99.74
PTZ00044	76	ubiquitin; Provisional	99.74
cd01794	70	DC_UbP_C dendritic cell derived ubiquitin-like pro	99.73
cd01810	74	ISG15_repeat2 ISG15 ubiquitin-like protein, second	99.73
cd01796	71	DDI1_N DNA damage inducible protein 1 ubiquitin-li	99.72
cd01806	76	Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also kn	99.72
PF00240	69	ubiquitin: Ubiquitin family; InterPro: IPR000626 U	99.72
cd01802	103	AN1_N ubiquitin-like domain of AN1. AN1 (also know	99.71
cd01803	76	Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40	99.71
cd01808	71	hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC	99.71
cd01792	80	ISG15_repeat1 ISG15 ubiquitin-like protein, first	99.69
cd01800	76	SF3a120_C Ubiquitin-like domain of Mammalian splic	99.68
smart00213	64	UBQ Ubiquitin homologues. Ubiquitin-mediated prote	99.64
cd01790	79	Herp_N Homocysteine-responsive endoplasmic reticul	99.64
cd01815	75	BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC	99.54
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	99.52
KOG0010	493	consensus Ubiquitin-like protein [Posttranslationa	99.52
cd01799	75	Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HO	99.51
cd01763	87	Sumo Small ubiquitin-related modifier (SUMO). Smal	99.5
cd01769	69	UBL Ubiquitin-like domain of UBL. UBLs function by	99.49
KOG0005	70	consensus Ubiquitin-like protein [Cell cycle contr	99.43
cd01814	113	NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and AT	99.41
cd01795	107	USP48_C USP ubiquitin-specific protease. The USP (	99.36
KOG0003	128	consensus Ubiquitin/60s ribosomal protein L40 fusi	99.3
cd01789	84	Alp11_N Ubiquitin-like domain of Alp11 tubulin-fol	99.3
PF11976	72	Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; Inter	99.29
KOG0004	156	consensus Ubiquitin/40S ribosomal protein S27a fus	99.28
PF14560	87	Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2K	99.27
KOG0011	340	consensus Nucleotide excision repair factor NEF2,	99.21
KOG4361	344	consensus BCL2-associated athanogene-like proteins	99.15
KOG1872	473	consensus Ubiquitin-specific protease [Posttransla	99.09
KOG4248	1143	consensus Ubiquitin-like protein, regulator of apo	98.88
KOG0001	75	consensus Ubiquitin and ubiquitin-like proteins [P	98.88
cd01788	119	ElonginB Ubiquitin-like domain of Elongin B. Elong	98.86
cd01801	77	Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-	98.85
PLN02560	308	enoyl-CoA reductase	98.84
cd00196	69	UBQ Ubiquitin-like proteins. Ubiquitin homologs; I	98.8
PF13881	111	Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB	98.75
PF11543	80	UN_NPL4: Nuclear pore localisation protein NPL4; I	98.61
KOG0006	446	consensus E3 ubiquitin-protein ligase (Parkin prot	98.51
PF08817	79	YukD: WXG100 protein secretion system (Wss), prote	98.14
KOG4495	110	consensus RNA polymerase II transcription elongati	97.69
KOG3493	73	consensus Ubiquitin-like protein [Posttranslationa	97.62
PF11470	65	TUG-UBL1: GLUT4 regulating protein TUG; InterPro:	97.61
PF10302	97	DUF2407: DUF2407 ubiquitin-like domain; InterPro:	97.59
cd01811	80	OASL_repeat1 2'-5' oligoadenylate synthetase-like	97.53
KOG1769	99	consensus Ubiquitin-like proteins [Posttranslation	97.33
KOG3206	234	consensus Alpha-tubulin folding cofactor B [Posttr	97.04
PF00789	82	UBX: UBX domain; InterPro: IPR001012 The UBX domai	96.76
PF15044	76	CLU_N: Mitochondrial function, CLU-N-term	96.71
smart00666	81	PB1 PB1 domain. Phox and Bem1p domain, present in	96.69
COG5417	81	Uncharacterized small protein [Function unknown]	96.66
KOG0013	231	consensus Uncharacterized conserved protein [Funct	96.64
smart00166	80	UBX Domain present in ubiquitin-regulatory protein	96.13
PF00564	84	PB1: PB1 domain; InterPro: IPR000270 The Phox and	95.97
PRK06437	67	hypothetical protein; Provisional	95.93
cd01767	77	UBX UBX (ubiquitin regulatory X) domain. The UBX (	95.74
cd06406	80	PB1_P67 A PB1 domain is present in p67 proteins wh	95.69
cd06407	82	PB1_NLP A PB1 domain is present in NIN like protei	95.4
cd01770	79	p47_UBX p47-like ubiquitin domain. p47_UBX p47 is	95.35
PRK08364	70	sulfur carrier protein ThiS; Provisional	95.15
KOG1639	297	consensus Steroid reductase required for elongatio	94.97
cd05992	81	PB1 The PB1 domain is a modular domain mediating s	94.92
cd01772	79	SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-subst	94.55
cd01774	85	Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 i	94.34
cd01771	80	Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated fac	94.16
cd00754	80	MoaD Ubiquitin domain of MoaD-like proteins. MoaD	94.04
PF13019	162	Telomere_Sde2: Telomere stability and silencing	94.01
cd01773	82	Faf1_like1_UBX Faf1 ike-1 UBX domain. Faf1_like1 i	93.95
COG5227	103	SMT3 Ubiquitin-like protein (sentrin) [Posttransla	93.9
cd06396	81	PB1_NBR1 The PB1 domain is an essential part of NB	93.77
TIGR02958	452	sec_mycoba_snm4 secretion protein snm4. Members of	93.45
cd06410	97	PB1_UP2 Uncharacterized protein 2. The PB1 domain	93.14
KOG4250	732	consensus TANK binding protein kinase TBK1 [Signal	93.02
KOG4583	391	consensus Membrane-associated ER protein involved	93.01
PLN02799	82	Molybdopterin synthase sulfur carrier subunit	92.4
KOG2982	418	consensus Uncharacterized conserved protein [Funct	92.36
cd06408	86	PB1_NoxR The PB1 domain is present in the Epichloe	92.29
cd06398	91	PB1_Joka2 The PB1 domain is present in the Nicotia	92.12
KOG0012	380	consensus DNA damage inducible protein [Replicatio	91.31
PF14836	88	Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A	91.13
PRK01777	95	hypothetical protein; Validated	90.96
cd00565	65	ThiS ThiaminS ubiquitin-like sulfur carrier protei	90.71
PF14453	57	ThiS-like: ThiS-like ubiquitin	90.56
TIGR01682	80	moaD molybdopterin converting factor, subunit 1, n	90.13
PRK06488	65	sulfur carrier protein ThiS; Validated	90.12
cd06411	78	PB1_p51 The PB1 domain is present in the p51 prote	89.97
PF12754	309	Blt1: Cell-cycle control medial ring component; In	89.15
COG2104	68	ThiS Sulfur transfer protein involved in thiamine	88.2
TIGR01687	88	moaD_arch MoaD family protein, archaeal. Members o	88.16
cd06397	82	PB1_UP1 Uncharacterized protein 1. The PB1 domain	87.63
PRK06083	84	sulfur carrier protein ThiS; Provisional	87.53
TIGR01683	64	thiS thiamine biosynthesis protein ThiS. This mode	87.46
PRK05659	66	sulfur carrier protein ThiS; Validated	87.14
cd01615	78	CIDE_N CIDE_N domain, found at the N-terminus of t	86.26
smart00266	74	CAD Domains present in proteins implicated in post	86.2
PRK05863	65	sulfur carrier protein ThiS; Provisional	85.54
PF02597	77	ThiS: ThiS family; InterPro: IPR003749 ThiS (thiam	84.89
PF02017	78	CIDE-N: CIDE-N domain; InterPro: IPR003508 This do	84.78
cd06409	86	PB1_MUG70 The MUG70 protein is a product of the me	83.8
PRK06944	65	sulfur carrier protein ThiS; Provisional	83.72
cd06539	78	CIDE_N_A CIDE_N domain of CIDE-A proteins. The CID	83.53
PF14451	81	Ub-Mut7C: Mut7-C ubiquitin	83.1
KOG2086	380	consensus Protein tyrosine phosphatase SHP1/Cofact	82.6
PRK07440	70	hypothetical protein; Provisional	81.37
PF11834	69	DUF3354: Domain of unknown function (DUF3354); Int	80.74
cd06404	83	PB1_aPKC PB1 domain is an essential modular domain	80.63

>cd01813 UBP_N UBP ubiquitin processing protease

Probab=99.82  E-value=3.6e-20  Score=130.67  Aligned_cols=71  Identities=21%  Similarity=0.349  Sum_probs=68.2

Q ss_pred             EEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEE---cCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           71 ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLF---KGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        71 I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLif---kGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      |+|.|+|+++.|+|+|++++||++||++|++.||+||++|||+|   +|+.++|+.+|++|+|++|++|+||++
T Consensus         1 ~~i~vk~~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g~~i~lmGs   74 (74)
T cd01813           1 VPVIVKWGGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDVKISALKLKPNTKIMMMGT   74 (74)
T ss_pred             CEEEEEECCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCcCHHHcCCCCCCEEEEEeC
Confidence            68999999999999999999999999999999999999999996   999999999999999999999999863

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

>cd01812 BAG1_N Ubiquitin-like domain of BAG1

Probab=99.81  E-value=1.2e-19  Score=123.80  Aligned_cols=71  Identities=55%  Similarity=0.904  Sum_probs=68.5

Q ss_pred             EEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           71 ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        71 I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      |+|+|+++++.++++|++++||++||++|++.+|+||++|+|+|+|+.|+|+.+|++|||++|++|+|+.+
T Consensus         1 i~i~vk~~g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~l~d~~~L~~~~i~~g~~l~v~~~   71 (71)
T cd01812           1 IRVRVKHGGESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAETLDMSGVKDGSKVMLLED   71 (71)
T ss_pred             CEEEEEECCEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCcccCccCcHHHcCCCCCCEEEEecC
Confidence            68999999999999999999999999999999999999999999999999999999999999999999864

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

>cd01807 GDX_N ubiquitin-like domain of GDX

Probab=99.81  E-value=1.4e-19  Score=126.08  Aligned_cols=72  Identities=24%  Similarity=0.340  Sum_probs=66.8

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecCC
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDP  142 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~p  142 (167)
                      |+|+|++ .++++.++|++++||++||++|++.+|+|+++|+|+|+|++|+|+.+|++|||+++++|+|+..|
T Consensus         1 m~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~l~l~~~~   73 (74)
T cd01807           1 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDKRLSDYSIGPNAKLNLVVRP   73 (74)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCCHHHCCCCCCCEEEEEEcC
Confidence            4677776 45788999999999999999999999999999999999999999999999999999999998765

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

>cd01793 Fubi Fubi ubiquitin-like protein

Probab=99.78  E-value=5.4e-19  Score=123.24  Aligned_cols=69  Identities=20%  Similarity=0.327  Sum_probs=65.6

Q ss_pred             EEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           71 ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        71 I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      |+|+|++. +++.++|++++||++||++|++.+|+|+++|+|+|+|++|+|+.+|++|||+++++|+|+.
T Consensus         1 mqi~vk~~-~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~Gk~L~D~~tL~~~~i~~~~tl~l~~   69 (74)
T cd01793           1 MQLFVRAQ-NTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAG   69 (74)
T ss_pred             CEEEEECC-CEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCeECCCCCCHHHcCCCCCCEEEEEE
Confidence            57888886 6899999999999999999999999999999999999999999999999999999999975

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

>cd01791 Ubl5 UBL5 ubiquitin-like modifier

Probab=99.76  E-value=2.4e-18  Score=121.41  Aligned_cols=70  Identities=19%  Similarity=0.174  Sum_probs=65.9

Q ss_pred             eEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEe
Q 031040           70 SITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        70 ~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      +|.|+|++ .++.+.++|++++||++||++|++.+|+||++|||+|.|+.|+|+.+|++|||++|++|||-
T Consensus         1 ~~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~Gk~L~D~~tL~~ygi~~~stv~l~   71 (73)
T cd01791           1 MIEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHISLGDYEIHDGMNLELY   71 (73)
T ss_pred             CEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEeCCcCCCCCCCHHHcCCCCCCEEEEE
Confidence            47899998 45889999999999999999999999999999999999999999999999999999999984

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

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

Probab=99.75  E-value=4.9e-18  Score=120.86  Aligned_cols=73  Identities=27%  Similarity=0.354  Sum_probs=64.9

Q ss_pred             EEEEEee-CCE-EEEEE-EcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecCCc
Q 031040           71 ITIRVST-VSK-WHDIS-IKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDPA  143 (167)
Q Consensus        71 I~I~Vk~-g~~-~~~Ve-V~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~p~  143 (167)
                      |+|+|++ .++ .+.++ +++++||++||++|++.+|+|+++|||+|+||+|+|+.+|++|||+++++|+|+..+.
T Consensus         1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk~L~D~~tL~~y~i~~~~~i~l~~~~~   76 (78)
T cd01797           1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQMEDGHTLFDYNVGLNDIIQLLVRQD   76 (78)
T ss_pred             CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCEECCCCCCHHHcCCCCCCEEEEEEecC
Confidence            5677786 334 46885 8999999999999999999999999999999999999999999999999999987543

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

>cd01805 RAD23_N Ubiquitin-like domain of RAD23

Probab=99.74  E-value=8.5e-18  Score=116.63  Aligned_cols=71  Identities=25%  Similarity=0.393  Sum_probs=65.4

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCC--CCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGL--EPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGV--ppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      |+|+|++ .++++.++|++++||.+||++|++.+|+  |+++|+|+|+|++|+|+.+|++|||++|++|+++..
T Consensus         1 m~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~i~~~~~   74 (77)
T cd01805           1 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDTTLEEYKIDEKDFVVVMVS   74 (77)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCEEccCCCCHHHcCCCCCCEEEEEEe
Confidence            4677776 4588999999999999999999999999  999999999999999999999999999999998753

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

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

Probab=99.74  E-value=6.1e-18  Score=116.41  Aligned_cols=68  Identities=16%  Similarity=0.344  Sum_probs=62.8

Q ss_pred             EEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           73 IRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        73 I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      |.|++ .+.++.++|++++||++||++|++.+|+|+++|+|+|+|++|+|+.+|++|||+++++|+|+.
T Consensus         1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li~~G~~L~d~~~l~~~~i~~~stl~l~~   69 (70)
T cd01798           1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGKELRNTTTIQECDLGQQSILHAVR   69 (70)
T ss_pred             CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence            34555 457889999999999999999999999999999999999999999999999999999999974

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

>cd01804 midnolin_N Ubiquitin-like domain of midnolin

Probab=99.74  E-value=8.2e-18  Score=119.14  Aligned_cols=70  Identities=19%  Similarity=0.263  Sum_probs=65.0

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      |+|+|+. .++.++++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+ +|++|||+++++|+|+..
T Consensus         2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~   72 (78)
T cd01804           2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPT   72 (78)
T ss_pred             eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEee
Confidence            6788886 357889999999999999999999999999999999999999998 999999999999999864

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

>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein

Probab=99.74  E-value=1e-17  Score=114.05  Aligned_cols=70  Identities=29%  Similarity=0.415  Sum_probs=65.4

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      |+|+|++ .++.+.+++++++||++||++|++.+|+||+.|+|+|+|+.|+|+.+|++|||+++++|+|+.
T Consensus         1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~l~l~~   71 (72)
T cd01809           1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDETLSEYKVEDGHTIHLVK   71 (72)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCEECCCcCcHHHCCCCCCCEEEEEe
Confidence            5788887 447899999999999999999999999999999999999999999999999999999999874

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

>PTZ00044 ubiquitin; Provisional

Probab=99.74  E-value=1.1e-17  Score=115.96  Aligned_cols=71  Identities=21%  Similarity=0.342  Sum_probs=66.2

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      |+|+|++ .++++.++|++++||.+||++|++.+|+|+++|+|+|+|++|+|+.+|++|+|+++++|+|+..
T Consensus         1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~l~~~~i~~~~~i~l~~~   72 (76)
T PTZ00044          1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMVLQ   72 (76)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEEccCCCcHHHcCCCCCCEEEEEEE
Confidence            5688887 5578999999999999999999999999999999999999999999999999999999999753

>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein

Probab=99.73  E-value=1e-17  Score=117.05  Aligned_cols=67  Identities=30%  Similarity=0.399  Sum_probs=61.9

Q ss_pred             EEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           73 IRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        73 I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      |+..+| +++.++|++++||++||++|++..|+|+++|+|+|+|++|+|+.+|++|+|+++++|+|+.
T Consensus         3 vk~~~G-~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~~L~D~~~l~~~~i~~~~tv~~~~   69 (70)
T cd01794           3 VRLSTG-KDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGKLLTDKTRLQETKIQKDYVVQVIV   69 (70)
T ss_pred             EEcCCC-CEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCCCHHHcCCCCCCEEEEEe
Confidence            444444 7899999999999999999999999999999999999999999999999999999999974

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

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

Probab=99.73  E-value=1.1e-17  Score=116.58  Aligned_cols=68  Identities=22%  Similarity=0.221  Sum_probs=62.7

Q ss_pred             EEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           73 IRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        73 I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      |+|++ .++++.++|++++||++||++|++.+|+|+++|+|+|+|++|+|+.+|++|||+++++|+|+.
T Consensus         1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~D~~tL~~~~i~~~~tl~l~~   69 (74)
T cd01810           1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNL   69 (74)
T ss_pred             CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCCHHHcCCCCCCEEEEEE
Confidence            35565 347899999999999999999999999999999999999999999999999999999999874

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

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

Probab=99.72  E-value=2.2e-17  Score=114.86  Aligned_cols=67  Identities=25%  Similarity=0.468  Sum_probs=60.5

Q ss_pred             EEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCc-chhhhcCCCCCCEEEE
Q 031040           72 TIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDN-EFLHMVGVRDKDKVLL  138 (167)
Q Consensus        72 ~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~-~tL~~~GIkdgskL~L  138 (167)
                      +|+...+++++.|+|++++||++||++|++.+|+|+++|+|+|+|++|+|+ .+|++|||+++++|+|
T Consensus         2 ~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~l~l   69 (71)
T cd01796           2 TVYTARSETTFSLDVDPDLELENFKALCEAESGIPASQQQLIYNGRELVDNKRLLALYGVKDGDLVVL   69 (71)
T ss_pred             EEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEECCeEccCCcccHHHcCCCCCCEEEE
Confidence            444443457899999999999999999999999999999999999999887 6899999999999987

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

>cd01806 Nedd8 Nebb8-like ubiquitin protein

Probab=99.72  E-value=3.7e-17  Score=112.35  Aligned_cols=70  Identities=24%  Similarity=0.373  Sum_probs=65.2

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      |+|+|+. +++++.++|+++.||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++|+|++|++|+|+.
T Consensus         1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~g~~L~d~~tl~~~~i~~g~~i~l~~   71 (76)
T cd01806           1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLVL   71 (76)
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCeEccCCCCHHHcCCCCCCEEEEEE
Confidence            4677776 457889999999999999999999999999999999999999999999999999999999975

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

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

Probab=99.72  E-value=3.7e-17  Score=111.10  Aligned_cols=64  Identities=28%  Similarity=0.553  Sum_probs=61.1

Q ss_pred             CEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecCC
Q 031040           79 SKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDP  142 (167)
Q Consensus        79 ~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~p  142 (167)
                      ++.+.++|++++||.+||++|++.+|+|+++|+|+|+|++|+|+.+|++|||+++++|+|+..|
T Consensus         5 g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L~d~~tL~~~~i~~~~~I~l~~k~   68 (69)
T PF00240_consen    5 GKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKELDDDKTLSDYGIKDGSTIHLVIKP   68 (69)
T ss_dssp             SEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEESTTSBTGGGTTSTTEEEEEEESS
T ss_pred             CcEEEEEECCCCCHHHhhhhcccccccccccceeeeeeecccCcCcHHHcCCCCCCEEEEEEec
Confidence            4789999999999999999999999999999999999999999999999999999999998654

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

>cd01802 AN1_N ubiquitin-like domain of AN1

Probab=99.71  E-value=3.5e-17  Score=122.35  Aligned_cols=72  Identities=15%  Similarity=0.251  Sum_probs=67.7

Q ss_pred             ceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           69 GSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        69 p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      +.|+|+|++ .++++.++|++++||.+||++|++..|+|+++|+|+|+|+.|+|+.+|++|+|+++++|+|+.
T Consensus        26 ~~M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~~Gk~L~D~~tL~dy~I~~~stL~l~~   98 (103)
T cd01802          26 DTMELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEYCLNDYNISEGCTLKLVL   98 (103)
T ss_pred             CCEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEE
Confidence            468899997 558899999999999999999999999999999999999999999999999999999999974

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

>cd01803 Ubiquitin Ubiquitin

Probab=99.71  E-value=3.6e-17  Score=112.41  Aligned_cols=71  Identities=25%  Similarity=0.403  Sum_probs=65.8

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      |+|+|++ +++.+.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||+++++|+|+..
T Consensus         1 m~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~i~l~~~   72 (76)
T cd01803           1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   72 (76)
T ss_pred             CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCcHHHcCCCCCCEEEEEEE
Confidence            4678886 4578899999999999999999999999999999999999999999999999999999999753

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

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

Probab=99.71  E-value=3.5e-17  Score=113.06  Aligned_cols=70  Identities=23%  Similarity=0.275  Sum_probs=63.0

Q ss_pred             EEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           71 ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        71 I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      |+|+|++....+.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||+++++|+|+.
T Consensus         1 ~~i~vk~~~g~~~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li~~Gk~L~d~~tL~~~~i~~~stl~l~~   70 (71)
T cd01808           1 IKVTVKTPKDKEEIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGKILKDTDTLTQHNIKDGLTVHLVI   70 (71)
T ss_pred             CEEEEEcCCCCEEEEECCCChHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEE
Confidence            4677776332358999999999999999999999999999999999999999999999999999999874

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

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

Probab=99.69  E-value=9.2e-17  Score=113.78  Aligned_cols=71  Identities=24%  Similarity=0.234  Sum_probs=66.2

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEE--EEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRL--LFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKL--ifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      |+|+|+. .++++.++|++++||++||++|++.+|+|+++|+|  +|+|+.|+|+.+|++|||++|++|+|+..
T Consensus         3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~l~l~~~   76 (80)
T cd01792           3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLLVVQ   76 (80)
T ss_pred             eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEEEEE
Confidence            6788887 45788999999999999999999999999999999  89999999999999999999999999864

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

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

Probab=99.68  E-value=1.4e-16  Score=111.80  Aligned_cols=65  Identities=14%  Similarity=0.214  Sum_probs=61.9

Q ss_pred             eCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           77 TVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        77 ~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      .++++++++|++++||++||++|+..+|+||++|+|+|+|+.|+|+.+|++|+|+++++|+|+..
T Consensus         5 l~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~~   69 (76)
T cd01800           5 LNGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQLK   69 (76)
T ss_pred             cCCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEEe
Confidence            35689999999999999999999999999999999999999999999999999999999999864

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

>smart00213 UBQ Ubiquitin homologues

Probab=99.64  E-value=7.9e-16  Score=101.46  Aligned_cols=64  Identities=30%  Similarity=0.464  Sum_probs=59.7

Q ss_pred             EEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCC
Q 031040           71 ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKD  134 (167)
Q Consensus        71 I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgs  134 (167)
                      |+|+|++.+..+.++|++++||++||++|+..+|+|+++|+|+|+|+.|+|+.+|++|||++|+
T Consensus         1 ~~i~vk~~~~~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~~g~~L~d~~tL~~~~i~~~~   64 (64)
T smart00213        1 IELTVKTLDGTITLEVKPSDTVSELKEKIAELTGIPVEQQRLIYKGKVLEDDRTLADYNIQDGS   64 (64)
T ss_pred             CEEEEEECCceEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEECCCCCCHHHcCCcCCC
Confidence            5788887556889999999999999999999999999999999999999999999999999985

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

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

Probab=99.64  E-value=8e-16  Score=110.96  Aligned_cols=70  Identities=30%  Similarity=0.291  Sum_probs=60.8

Q ss_pred             EEEEEee-CCEE--EEEEEcCCCCHHHHHHHHHhhhC--CCCCceEEEEcCeecCCcchhhhcC--CCCCCEEEEec
Q 031040           71 ITIRVST-VSKW--HDISIKATSTFGELKMILSMVSG--LEPREQRLLFKGKEREDNEFLHMVG--VRDKDKVLLLE  140 (167)
Q Consensus        71 I~I~Vk~-g~~~--~~VeV~~t~TV~eLK~~Ia~~TG--Vppe~QKLifkGK~LdD~~tL~~~G--IkdgskL~Lv~  140 (167)
                      |+|+||. .+..  ++|++++++||++||++|++..+  .||++|||||+||.|+|+.+|++|+  ++++.+||||-
T Consensus         2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~tL~~~~~~~~~~~tiHLV~   78 (79)
T cd01790           2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHLKLRDVLRKQDEYHMVHLVC   78 (79)
T ss_pred             eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchhhHHHHhhcccCCceEEEEe
Confidence            6788887 4455  55666899999999999999874  5579999999999999999999996  99999999973

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

>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP

Probab=99.54  E-value=1e-14  Score=104.45  Aligned_cols=53  Identities=19%  Similarity=0.364  Sum_probs=49.5

Q ss_pred             CCCCHHHHHHHHHhhh--CCC-CCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           88 ATSTFGELKMILSMVS--GLE-PREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        88 ~t~TV~eLK~~Ia~~T--GVp-pe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      .++||++||++|++.+  |++ +++|||+|+||.|+|+.+|++|||+++++|||+.
T Consensus        19 ~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~TL~dygI~~gstlhLv~   74 (75)
T cd01815          19 GGYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQTLDFYGIQSGSTIHILR   74 (75)
T ss_pred             ccCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCCcHHHcCCCCCCEEEEEe
Confidence            4899999999999997  475 9999999999999999999999999999999985

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

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=99.52  E-value=3.1e-14  Score=127.44  Aligned_cols=71  Identities=23%  Similarity=0.369  Sum_probs=66.0

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhC---CCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSG---LEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TG---Vppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      |+|+||+ .++++.|+|++++||.+||++|+..+|   +|+++|||+|+||.|+|+.+|++|+|+++++|++|..
T Consensus         1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd~tL~dy~I~e~~~Ivvmv~   75 (378)
T TIGR00601         1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVREYKIKEKDFVVVMVS   75 (378)
T ss_pred             CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCCCcHHHcCCCCCCEEEEEec
Confidence            5788887 457899999999999999999999999   9999999999999999999999999999999988754

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).

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

Probab=99.52  E-value=1.7e-14  Score=132.21  Aligned_cols=73  Identities=22%  Similarity=0.364  Sum_probs=69.9

Q ss_pred             ceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           69 GSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        69 p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      ..|+|+||+.+.++++.|..++||.+||+.|+..+++|+++|+|||.||.|+|++||..|||+||.|||||..
T Consensus        14 ~~irV~Vkt~~dk~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrILKD~dTL~~~gI~Dg~TvHLVik   86 (493)
T KOG0010|consen   14 SLIRVTVKTPKDKYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGRILKDDDTLKQYGIQDGHTVHLVIK   86 (493)
T ss_pred             ceeEEEEecCCcceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCccccChhhHHHcCCCCCcEEEEEec
Confidence            4599999998789999999999999999999999999999999999999999999999999999999999964

>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1

Probab=99.51  E-value=5e-14  Score=99.85  Aligned_cols=61  Identities=25%  Similarity=0.305  Sum_probs=56.0

Q ss_pred             CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecC-CcchhhhcCCC-CCCEEEEe
Q 031040           78 VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKERE-DNEFLHMVGVR-DKDKVLLL  139 (167)
Q Consensus        78 g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~Ld-D~~tL~~~GIk-dgskL~Lv  139 (167)
                      .+.++.++|++++||++||++|++.+|+||++|+| |.|+.|. |+.+|++|||+ +|++|+|.
T Consensus        11 ~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~   73 (75)
T cd01799          11 HTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLY   73 (75)
T ss_pred             CCCeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEE
Confidence            34678899999999999999999999999999999 9999985 77999999999 88999984

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

>cd01763 Sumo Small ubiquitin-related modifier (SUMO)

Probab=99.50  E-value=1.9e-13  Score=98.54  Aligned_cols=74  Identities=22%  Similarity=0.280  Sum_probs=68.6

Q ss_pred             CCceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           67 GEGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        67 ~~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ....|+|+|++ .+..+.+.|.+++|+..||+++++..|+|+++|+|+|+|+.|+|+.|+++|+++++|+|+++.
T Consensus         8 ~~~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l   82 (87)
T cd01763           8 ISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVML   82 (87)
T ss_pred             CCCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeECCCCCCHHHcCCCCCCEEEEEE
Confidence            45679999997 357889999999999999999999999999999999999999999999999999999999873

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

>cd01769 UBL Ubiquitin-like domain of UBL

Probab=99.49  E-value=1.1e-13  Score=92.11  Aligned_cols=62  Identities=27%  Similarity=0.479  Sum_probs=59.1

Q ss_pred             CEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           79 SKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        79 ~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      +..+.+.+++++||++||++|+..+|+|++.|+|+|+|+.|+|+.+|.+|+|++++.|+++.
T Consensus         7 ~~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~~g~~l~d~~~l~~~~v~~~~~i~v~~   68 (69)
T cd01769           7 GKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKDDKTLSDYGIQDGSTLHLVL   68 (69)
T ss_pred             CCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCcCCCCcCCHHHCCCCCCCEEEEEE
Confidence            57788999999999999999999999999999999999999999999999999999999874

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

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

Probab=99.43  E-value=1.3e-13  Score=95.85  Aligned_cols=69  Identities=25%  Similarity=0.392  Sum_probs=63.3

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEe
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      |.|+|++ .++.++++|+|+++|..+|+.+++..|+||.+|+|+|.||++.|+.+-..|++.-|+.|||+
T Consensus         1 m~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp~qqrli~~gkqm~DD~tA~~Y~~~~GSVlHlv   70 (70)
T KOG0005|consen    1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYAGKQMNDDKTAAHYNLLGGSVLHLV   70 (70)
T ss_pred             CeeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhhhccccccccccHHHhhhccceeEeeC
Confidence            3566776 34778999999999999999999999999999999999999999999999999999999985

>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4

Probab=99.41  E-value=3.1e-13  Score=103.46  Aligned_cols=92  Identities=17%  Similarity=0.085  Sum_probs=71.6

Q ss_pred             EEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhh-----hCCC--CCceEEEEcCeecCCcchhhhcC------CCCCCEEE
Q 031040           71 ITIRVSTVSKWHDISIKATSTFGELKMILSMV-----SGLE--PREQRLLFKGKEREDNEFLHMVG------VRDKDKVL  137 (167)
Q Consensus        71 I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~-----TGVp--pe~QKLifkGK~LdD~~tL~~~G------IkdgskL~  137 (167)
                      |+++...|...=+..+++++||++||++|++.     .|+|  +++|||||.||.|+|+.||++|+      +.-..++|
T Consensus         7 ~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~TL~d~~~p~g~~~~~~~TmH   86 (113)
T cd01814           7 IKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSKTVGECRSPVGDIAGGVITMH   86 (113)
T ss_pred             EEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCCcHHHhCCcccccCCCceEEE
Confidence            44444456555567889999999999999944     4556  99999999999999999999999      77789999


Q ss_pred             EecCCchhhhhhhccccCCcccccc
Q 031040          138 LLEDPAIKDMKLHGLRGGQPIGTAY  162 (167)
Q Consensus       138 Lv~~p~~~~~k~~~~~~~~~~~~~~  162 (167)
                      |+.-|...+++-.....+...+..|
T Consensus        87 vvlr~~~~~~~~~k~~~~~~~~~~c  111 (113)
T cd01814          87 VVVQPPLADKKTEKKVDKAPKAVIC  111 (113)
T ss_pred             EEecCCCCCccccccccCCcccCCC
Confidence            9988777777665554444444444

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

>cd01795 USP48_C USP ubiquitin-specific protease

Probab=99.36  E-value=1.5e-12  Score=98.41  Aligned_cols=64  Identities=27%  Similarity=0.365  Sum_probs=57.3

Q ss_pred             EEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecC-CcchhhhcCCCCCCEEEEec-CCchh
Q 031040           82 HDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKERE-DNEFLHMVGVRDKDKVLLLE-DPAIK  145 (167)
Q Consensus        82 ~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~Ld-D~~tL~~~GIkdgskL~Lv~-~p~~~  145 (167)
                      ..++|++++||++||.+|.+.++|+|++|+|+|.|+.|. |..||++|||..++.|+|.. .|...
T Consensus        17 ~~L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~LlideP~~d   82 (107)
T cd01795          17 KALLVSANQTLKELKIQIMHAFSVAPFDQNLSIDGKILSDDCATLGTLGVIPESVILLKADEPIAD   82 (107)
T ss_pred             ceEEeCccccHHHHHHHHHHHhcCCcccceeeecCceeccCCccHHhcCCCCCCEEEEEecCCccc
Confidence            468899999999999999999999999999999999985 56899999999999999875 45443

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

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

Probab=99.30  E-value=4.1e-13  Score=102.86  Aligned_cols=68  Identities=25%  Similarity=0.393  Sum_probs=62.4

Q ss_pred             EEEe-eCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           73 IRVS-TVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        73 I~Vk-~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ++++ ..+++..|+|.|++||..||++|....|+||++|+|+|+|++|+|.-||++|||+.-|+|+++.
T Consensus         3 ~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~~~~   71 (128)
T KOG0003|consen    3 IFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL   71 (128)
T ss_pred             EEEEEeeCceEEEEecccchHHHHHHHhccccCCCHHHHHHHhcccccccCCcccccCccchhhhhhhH
Confidence            3444 3557889999999999999999999999999999999999999999999999999999999873

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

Probab=99.30  E-value=1.5e-11  Score=88.46  Aligned_cols=70  Identities=26%  Similarity=0.391  Sum_probs=58.8

Q ss_pred             EEEEEeeC--CEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEE-EEcCe-----ec-CCcchhhhcCCCCCCEEEEec
Q 031040           71 ITIRVSTV--SKWHDISIKATSTFGELKMILSMVSGLEPREQRL-LFKGK-----ER-EDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        71 I~I~Vk~g--~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKL-ifkGK-----~L-dD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ++|.|...  ....+..++++.||.+||++|+..||+||+.|+| +|.|+     .| +|..+|+.||++||..||++.
T Consensus         2 v~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVvD   80 (84)
T cd01789           2 VTVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVID   80 (84)
T ss_pred             EEEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEEe
Confidence            34555543  4555666999999999999999999999999999 58888     45 677899999999999999985

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

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

Probab=99.29  E-value=1.8e-11  Score=83.98  Aligned_cols=69  Identities=29%  Similarity=0.438  Sum_probs=62.1

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCC-CceEEEEcCeecCCcchhhhcCCCCCCEEEEe
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEP-REQRLLFKGKEREDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVpp-e~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      |+|+|+. +++.+.+.|.++.+|..|++.+++..|+|+ +.++|+|.|+.|+++.|++++|++++|.|.++
T Consensus         1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~T~~~~~ied~d~Idv~   71 (72)
T PF11976_consen    1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPNDTPEDLGIEDGDTIDVI   71 (72)
T ss_dssp             EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTSCHHHHT-STTEEEEEE
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCCCHHHCCCCCCCEEEEE
Confidence            5677776 457899999999999999999999999999 99999999999999999999999999999875

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

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

Probab=99.28  E-value=1.8e-12  Score=103.95  Aligned_cols=70  Identities=27%  Similarity=0.433  Sum_probs=64.5

Q ss_pred             EEEEEeeCC-EEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           71 ITIRVSTVS-KWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        71 I~I~Vk~g~-~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      |.|+|++-. .+...+|.+++||..+|++|++..||||++|+|||.|++|+|..+|++|+|+..++|+|+-
T Consensus         1 m~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~egIp~dqqrlifag~qLedgrtlSDY~Iqkestl~l~l   71 (156)
T KOG0004|consen    1 MQIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL   71 (156)
T ss_pred             CccchhhccccceeeeecccccHHHHHHhhhcccCCCchhhhhhhhhcccccCCccccccccccceEEEEE
Confidence            467788633 6889999999999999999999999999999999999999999999999999999999974

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

Probab=99.27  E-value=2.1e-11  Score=87.45  Aligned_cols=71  Identities=21%  Similarity=0.387  Sum_probs=58.4

Q ss_pred             eEEEEEeeCCE---EEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEc----Ce---ec-CCcchhhhcCCCCCCEEEE
Q 031040           70 SITIRVSTVSK---WHDISIKATSTFGELKMILSMVSGLEPREQRLLFK----GK---ER-EDNEFLHMVGVRDKDKVLL  138 (167)
Q Consensus        70 ~I~I~Vk~g~~---~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifk----GK---~L-dD~~tL~~~GIkdgskL~L  138 (167)
                      .|.|+|.+...   .++..++.+.||++||++|+..||+||+.|+|.+.    +.   .+ +|..+|..||+++|+.|++
T Consensus         1 ~v~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~i~V   80 (87)
T PF14560_consen    1 VVKLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMRIHV   80 (87)
T ss_dssp             EEEEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEEEEE
T ss_pred             CEEEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCEEEE
Confidence            36777776443   88999999999999999999999999999999886    11   23 5778999999999999998


Q ss_pred             ec
Q 031040          139 LE  140 (167)
Q Consensus       139 v~  140 (167)
                      ..
T Consensus        81 ~D   82 (87)
T PF14560_consen   81 VD   82 (87)
T ss_dssp             EE
T ss_pred             Ee
Confidence            75

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

Probab=99.21  E-value=1.9e-11  Score=107.86  Aligned_cols=71  Identities=21%  Similarity=0.354  Sum_probs=66.4

Q ss_pred             EEEEEeeCC-EEEEEEEcCCCCHHHHHHHHHhhhC--CCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           71 ITIRVSTVS-KWHDISIKATSTFGELKMILSMVSG--LEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        71 I~I~Vk~g~-~~~~VeV~~t~TV~eLK~~Ia~~TG--Vppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      |+|+||+-+ ++++++|.|+.||.++|+.|+...|  .|++.|+|||+||.|+|+.+|.+|+|++++.|++|.+
T Consensus         1 m~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~tv~Eykv~E~~fiVvMls   74 (340)
T KOG0011|consen    1 MKLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDETTVGEYKVKEKKFIVVMLS   74 (340)
T ss_pred             CeeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceeccCCcchhhhccccCceEEEEEe
Confidence            578999844 7889999999999999999999999  9999999999999999999999999999999988864

>KOG4361 consensus BCL2-associated athanogene-like proteins and related BAG family chaperone regulators [Signal transduction mechanisms]

Probab=99.15  E-value=1.5e-11  Score=109.27  Aligned_cols=121  Identities=25%  Similarity=0.299  Sum_probs=105.0

Q ss_pred             ceeeEecCCceeEEeecCCCC------CCceEEEEEeeCCEEEEEEEcCCCCHH---HHHHHHHhhhCCCCCce--EEEE
Q 031040           46 EIKWELRPGGMLVQKRESGCE------GEGSITIRVSTVSKWHDISIKATSTFG---ELKMILSMVSGLEPREQ--RLLF  114 (167)
Q Consensus        46 ~~~we~rpggmlvq~r~~~~~------~~p~I~I~Vk~g~~~~~VeV~~t~TV~---eLK~~Ia~~TGVppe~Q--KLif  114 (167)
                      +++|+.|||||+||+|.....      .+..++|.+.++...|.+.|.+..+++   ++++.+.+.+|+...+|  +++|
T Consensus        31 ~~~~~~~Pg~~~~q~r~~p~~~~~~~~~p~~~~v~~~~~~~~~~~~i~p~~~~g~~~d~a~~~~~~ag~sh~d~~~k~~y  110 (344)
T KOG4361|consen   31 GVDAAPRPGGMPVQQRPQPQPPLSWPHFPFGIRVQIEYGQLGHGLAIVPQYPSGNALDLAKPLTEDAGLSHYDQEVKLVY  110 (344)
T ss_pred             CcccccCCCCCcCCcCCCCCCcccccccCCCccceeeecccccccccccccccccchhhhcccccccceeecccccccce
Confidence            779999999999999985421      144688889999888999999999999   99999999999999998  9999


Q ss_pred             cCeecCC-cchhhhcCCCCCCEEEEecCCchhhhhhhccccCCcccccccccc
Q 031040          115 KGKERED-NEFLHMVGVRDKDKVLLLEDPAIKDMKLHGLRGGQPIGTAYRTIS  166 (167)
Q Consensus       115 kGK~LdD-~~tL~~~GIkdgskL~Lv~~p~~~~~k~~~~~~~~~~~~~~~~~~  166 (167)
                      .+++++| ...|+.+|+++-+++.++.++.++..++...+....+.++..+++
T Consensus       111 ~~~e~rd~~l~l~~~g~p~~sk~~~~~~~~~q~~~~~~~~~~p~~~q~s~~v~  163 (344)
T KOG4361|consen  111 VDKELRDQSLRLSSAGVPDASKINVVPDPGSQRARQLGALVAPAPTQTSKNVS  163 (344)
T ss_pred             ecccccccccccccccCcccccceeccChhhcccccccccccccccccccccc
Confidence            9999765 568999999999999999999999999999988777666655543

>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]

Probab=99.09  E-value=1.7e-10  Score=105.57  Aligned_cols=74  Identities=19%  Similarity=0.255  Sum_probs=69.8

Q ss_pred             ceEEEEEeeCCEEEEEE-EcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecCC
Q 031040           69 GSITIRVSTVSKWHDIS-IKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDP  142 (167)
Q Consensus        69 p~I~I~Vk~g~~~~~Ve-V~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~p  142 (167)
                      +...|.|+|+++.|+++ ++.++|...||++|..+|||||++|||+++|+.+.|+-.+..++|+++.+||||.++
T Consensus         2 ~~~~v~VKW~gk~y~v~~l~~d~t~~vlKaqlf~LTgV~PeRQKv~vKGg~a~dd~~~~al~iKpn~~lmMmGt~   76 (473)
T KOG1872|consen    2 PSDTVIVKWGGKKYPVETLSTDETPSVLKAQLFALTGVPPERQKVMVKGGLAKDDVDWGALQIKPNETLMMMGTA   76 (473)
T ss_pred             CcceEeeeecCccccceeccCCCchHHHHHHHHHhcCCCccceeEEEecccccccccccccccCCCCEEEeeccc
Confidence            56789999999999988 999999999999999999999999999999999999989999999999999999753

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

Probab=98.88  E-value=2.5e-09  Score=105.22  Aligned_cols=73  Identities=25%  Similarity=0.348  Sum_probs=67.7

Q ss_pred             EEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecCCchh
Q 031040           72 TIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDPAIK  145 (167)
Q Consensus        72 ~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~p~~~  145 (167)
                      .|+||+ ..+++++.|..++||.+||.+|.+.++|+.+.|||||.|+.|.|++++.+|+| ||-+|||++.|-..
T Consensus         4 ~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~ni~s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlverppp~   77 (1143)
T KOG4248|consen    4 NVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVNIPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVERPPPQ   77 (1143)
T ss_pred             ceeeeecccceeEEEechHHHHHHHHHHHHHhcccccccceeeecceeeccchhhhhccC-CCeEEEeeccCCCC
Confidence            478888 44899999999999999999999999999999999999999999999999999 99999999975543

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

Probab=98.88  E-value=2.1e-08  Score=65.44  Aligned_cols=64  Identities=22%  Similarity=0.298  Sum_probs=60.1

Q ss_pred             CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           78 VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        78 g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      .++...+.+.+..+|..+|.+|+...|+|+.+|.|.|.|+.|.|..+|.+|+|..+++++|...
T Consensus         8 ~gk~~~~~~~~~~~i~~~k~~i~~~~~~~~~~q~~~~~~~~l~d~~~l~~~~i~~~~~~~l~~~   71 (75)
T KOG0001|consen    8 DGKTITLEVSPSDTIEVVKAKIRDKEGIPVDQQRLIFGGKPLEDGRTLADYNIQEGSTLHLVLS   71 (75)
T ss_pred             CCCEEEEEecCCCHHHHHHHHHHhhcCCCCeeEEEEECCEECcCCCcHHHhCCCCCCEEEEEEe
Confidence            3467889999999999999999999999999999999999999999999999999999998764

>cd01788 ElonginB Ubiquitin-like domain of Elongin B

Probab=98.86  E-value=9.3e-09  Score=79.31  Aligned_cols=69  Identities=22%  Similarity=0.179  Sum_probs=62.4

Q ss_pred             EEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCC-------CCCCEEEEe
Q 031040           71 ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGV-------RDKDKVLLL  139 (167)
Q Consensus        71 I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GI-------kdgskL~Lv  139 (167)
                      +++.|+..+.++-++..++.||.|||++|+..+..||++|+|+-.+..|+|+.||++||+       +.-++|-|.
T Consensus         3 vFlmIrR~KTTiF~dakes~tVlelK~~iegI~k~pp~dQrL~kd~qvLeD~kTL~d~g~t~~~akaq~pA~vgLa   78 (119)
T cd01788           3 VFLMIRRHKTTIFTDAKESTTVYELKRIVEGILKRPPEDQRLYKDDQLLDDGKTLGDCGFTSQTARPQAPATVGLA   78 (119)
T ss_pred             eEEEEEecceEEEeecCCcccHHHHHHHHHHHhcCChhHheeecCceeecccccHHHcCccccccccCCCCeEEEE
Confidence            688899888888999999999999999999999999999999955667999999999999       778887664

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

>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13

Probab=98.85  E-value=7.3e-09  Score=72.88  Aligned_cols=52  Identities=27%  Similarity=0.346  Sum_probs=47.7

Q ss_pred             cCCCCHHHHHHHHHhhhC-CCCCceEEE--EcCeecCCcchhhhcCCCCCCEEEE
Q 031040           87 KATSTFGELKMILSMVSG-LEPREQRLL--FKGKEREDNEFLHMVGVRDKDKVLL  138 (167)
Q Consensus        87 ~~t~TV~eLK~~Ia~~TG-Vppe~QKLi--fkGK~LdD~~tL~~~GIkdgskL~L  138 (167)
                      ++++||.+||+.|+...+ +++++|+|.  ++|+.|.|+.+|.++||++|++|++
T Consensus        20 ~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~d~~tL~~~gv~~g~~lyv   74 (77)
T cd01801          20 SGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKDDDTLVDLGVGAGATLYV   74 (77)
T ss_pred             CCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccCCcccHhhcCCCCCCEEEE
Confidence            589999999999999876 589999995  8999999999999999999999876

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

>PLN02560 enoyl-CoA reductase

Probab=98.84  E-value=9.2e-09  Score=90.07  Aligned_cols=69  Identities=20%  Similarity=0.287  Sum_probs=56.4

Q ss_pred             EEEEEeeCCEE--EEEEEcCCCCHHHHHHHHHhhhCC-CCCceEEEEc---C----eecCCcchhhhcCCCCCCEEEEe
Q 031040           71 ITIRVSTVSKW--HDISIKATSTFGELKMILSMVSGL-EPREQRLLFK---G----KEREDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        71 I~I~Vk~g~~~--~~VeV~~t~TV~eLK~~Ia~~TGV-ppe~QKLifk---G----K~LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      |+|+.++|...  .+|+|++++||+|||++|++..++ ++++|+|++.   |    +.|+|+.+|+++||+++++|++-
T Consensus         3 I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gstLy~k   81 (308)
T PLN02560          3 VTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTVVFK   81 (308)
T ss_pred             EEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCCCHHhcCCCCCceEEEE
Confidence            34443345443  379999999999999999999986 8999999983   4    37899999999999999998764

>cd00196 UBQ Ubiquitin-like proteins

Probab=98.80  E-value=3.3e-08  Score=60.51  Aligned_cols=63  Identities=32%  Similarity=0.430  Sum_probs=58.1

Q ss_pred             CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           78 VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        78 g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ++....+.++++.|+.+||+.|...+|++++.|+|+++|..+++...+..+++.+++.|+++.
T Consensus         6 ~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~   68 (69)
T cd00196           6 DGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVP   68 (69)
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence            346778999999999999999999999999999999999999999888999999999999864

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

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

Probab=98.75  E-value=5.4e-08  Score=74.09  Aligned_cols=75  Identities=19%  Similarity=0.271  Sum_probs=54.5

Q ss_pred             EEEEEe--eCCEEEEEEEcCCCCHHHHHHHHHhh-------hCCCCCceEEEEcCeecCCcchhhhcCCCCCC------E
Q 031040           71 ITIRVS--TVSKWHDISIKATSTFGELKMILSMV-------SGLEPREQRLLFKGKEREDNEFLHMVGVRDKD------K  135 (167)
Q Consensus        71 I~I~Vk--~g~~~~~VeV~~t~TV~eLK~~Ia~~-------TGVppe~QKLifkGK~LdD~~tL~~~GIkdgs------k  135 (167)
                      |.|++.  .|....++..++++||++||+.|...       .-..+.+.||||.||.|+|+.+|.+|.+..++      +
T Consensus         3 i~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~~~~~~~~~~~~~v   82 (111)
T PF13881_consen    3 IELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDCRLPSGETPGGPTV   82 (111)
T ss_dssp             EEEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGGT--TTSETT--EE
T ss_pred             EEEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHhCCCCCCCCCCCEE
Confidence            444444  45458899999999999999999853       23456899999999999999999999999887      4


Q ss_pred             EEEecCCchh
Q 031040          136 VLLLEDPAIK  145 (167)
Q Consensus       136 L~Lv~~p~~~  145 (167)
                      +||+..|...
T Consensus        83 mHlvvrp~~~   92 (111)
T PF13881_consen   83 MHLVVRPNAP   92 (111)
T ss_dssp             EEEEE-SSSS
T ss_pred             EEEEecCCCC
Confidence            6787654433

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

Probab=98.61  E-value=8.8e-08  Score=68.90  Aligned_cols=70  Identities=24%  Similarity=0.317  Sum_probs=41.9

Q ss_pred             eEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEc---Ceec--CCcchhhhcCCCCCCEEEEe
Q 031040           70 SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFK---GKER--EDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        70 ~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifk---GK~L--dD~~tL~~~GIkdgskL~Lv  139 (167)
                      .|-|+|....-.+.|++++++|+++|+++|++.+++|+..|.|..+   ..++  .++.+|+++||+.||.|+|-
T Consensus         4 ~milRvrS~dG~~Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmlyL~   78 (80)
T PF11543_consen    4 SMILRVRSKDGMKRIEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLYLK   78 (80)
T ss_dssp             --EEEEE-SSEEEEEEE-TTSBHHHHHHHHHHHS---TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE--
T ss_pred             cEEEEEECCCCCEEEEcCCcccHHHHHHHHHHHcCCCCcceEEEecCCCCcccccCCcCCHHHcCCCCccEEEEe
Confidence            3556666544478899999999999999999999999999887432   1234  46789999999999999873

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

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

Probab=98.51  E-value=1.5e-07  Score=83.90  Aligned_cols=60  Identities=13%  Similarity=0.316  Sum_probs=54.9

Q ss_pred             EEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEe
Q 031040           80 KWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        80 ~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      ...+|+|+.+.+|.+||+.++.++|||+++.++||.||+|.|+.+++.+.+..-+.+|+|
T Consensus        14 h~l~v~v~~~t~I~~lke~Vak~~gvp~D~L~viFaGKeLs~~ttv~~cDL~qqs~~hi~   73 (446)
T KOG0006|consen   14 HGLPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELSNDTTVQNCDLSQQSATHIM   73 (446)
T ss_pred             CceeEEEecCCCHHHHHHHHHHhhCCChhheEEEEeccccccCceeecccccccchhhhh
Confidence            345788999999999999999999999999999999999999999999988888888776

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

Probab=98.14  E-value=6.2e-06  Score=58.29  Aligned_cols=69  Identities=25%  Similarity=0.285  Sum_probs=51.1

Q ss_pred             eEEEEEeeCC-EEEEEEEcCCCCHHHHHHHHHhhhCCCCCc------eEEE-EcCeecCCcchhhhcCCCCCCEEEE
Q 031040           70 SITIRVSTVS-KWHDISIKATSTFGELKMILSMVSGLEPRE------QRLL-FKGKEREDNEFLHMVGVRDKDKVLL  138 (167)
Q Consensus        70 ~I~I~Vk~g~-~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~------QKLi-fkGK~LdD~~tL~~~GIkdgskL~L  138 (167)
                      .++|+|.++. ..+++.++.+.+|++|...|.+..+.+..+      .+|. -+|..|+++.+|+++||.||+.|+|
T Consensus         2 ~~rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~g~~L~~~~tL~~~gV~dGd~L~L   78 (79)
T PF08817_consen    2 LCRVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARAGGRPLDPDQTLADAGVRDGDVLVL   78 (79)
T ss_dssp             EEEEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-GGTEEEETTSBCGGGT--TT-EEEE
T ss_pred             EEEEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEecCCcccCCcCcHhHcCCCCCCEEEe
Confidence            4678888865 899999999999999999999988875443      3444 5788999999999999999999987

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

>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]

Probab=97.69  E-value=0.00011  Score=55.61  Aligned_cols=69  Identities=26%  Similarity=0.142  Sum_probs=58.2

Q ss_pred             eEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEE-cC-eecCCcchhhhcC-------CCCCCEEEE
Q 031040           70 SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLF-KG-KEREDNEFLHMVG-------VRDKDKVLL  138 (167)
Q Consensus        70 ~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLif-kG-K~LdD~~tL~~~G-------IkdgskL~L  138 (167)
                      .+.|+|+-...++-++..++.||-|||.+|+..+.-|+..|+|.. .- ..|+|..+|++||       .+...+|-|
T Consensus         2 ~~f~~VrR~kttif~da~es~tV~elK~~l~gi~~~Pvn~qrL~kmd~eqlL~D~ktL~d~gfts~~ak~q~pA~vgL   79 (110)
T KOG4495|consen    2 DVFLRVRRHKTTIFTDAKESSTVFELKRKLEGILKRPVNEQRLYKMDTEQLLDDGKTLGDCGFTSQTAKPQAPATVGL   79 (110)
T ss_pred             ceeeeeeecceeEEeecCccccHHHHHHHHHHHHhCCCcchheeecCHHHHhhccchhhhccccccccccCCCceeee
Confidence            367889988778889999999999999999999999999999976 23 4689999999994       556666655

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

Probab=97.62  E-value=2.1e-05  Score=55.74  Aligned_cols=60  Identities=20%  Similarity=0.179  Sum_probs=52.4

Q ss_pred             CEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEE
Q 031040           79 SKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLL  138 (167)
Q Consensus        79 ~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~L  138 (167)
                      ++...|...+++||+|||+.|+..||-.|+...|---+-.++|.-+|++|.|.+|--+.|
T Consensus        11 GKKVRvKCn~dDtiGD~KKliaaQtGT~~~kivl~k~~~i~kd~I~L~dyeihdg~~lel   70 (73)
T KOG3493|consen   11 GKKVRVKCNTDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHITLSDYEIHDGMNLEL   70 (73)
T ss_pred             CceEEEEeCCcccccCHHHHHHHhhCCChhHhHHHhhhhhhhcccceeeEEeccCccEEE
Confidence            367788999999999999999999999999888764555678999999999999988765

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

Probab=97.61  E-value=0.00027  Score=49.30  Aligned_cols=64  Identities=13%  Similarity=0.164  Sum_probs=48.0

Q ss_pred             EeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEE
Q 031040           75 VSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLL  138 (167)
Q Consensus        75 Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~L  138 (167)
                      |.++++.+.|.|.|+.|+.++-+.....+|+++++-.|.|++|.+|-+.++.-.|+..|++|.|
T Consensus         2 i~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h~~k~ldlslp~R~snL~n~akLeL   65 (65)
T PF11470_consen    2 ICYNFRRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLKHNNKPLDLSLPFRLSNLPNNAKLEL   65 (65)
T ss_dssp             E-TTS-EEEE---TTSBHHHHHHHHHHHTT--GGG-EEEETTEEESSS-BHHHH---SS-EEEE
T ss_pred             CccCCcEEEEEECCCCCHHHHHHHHHHHcCCCccceEEEECCEEeccccceeecCCCCCCEEeC
Confidence            5567788999999999999999999999999999999999999999999999999999999975

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

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

Probab=97.59  E-value=0.00015  Score=54.12  Aligned_cols=61  Identities=25%  Similarity=0.192  Sum_probs=47.4

Q ss_pred             eEEEEEeeCCEEEEEEEc--CCCCHHHHHHHHHhhh--CCCCCceEEEEcCeecCCcchhhhcCC
Q 031040           70 SITIRVSTVSKWHDISIK--ATSTFGELKMILSMVS--GLEPREQRLLFKGKEREDNEFLHMVGV  130 (167)
Q Consensus        70 ~I~I~Vk~g~~~~~VeV~--~t~TV~eLK~~Ia~~T--GVppe~QKLifkGK~LdD~~tL~~~GI  130 (167)
                      .|.|++..+---..++|+  .+.|+.+||++|-+..  ...-..+||||+|+.|.|...|...-.
T Consensus         2 ~l~IRFs~sipDl~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t~l~~~l~   66 (97)
T PF10302_consen    2 YLTIRFSDSIPDLPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHTDLSSELK   66 (97)
T ss_pred             eEEEEECCCCCCceeecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccchhhhhhc
Confidence            366777763333567777  8899999999999987  455577889999999999988877643

They contain a characteristic GFDRL sequence motif.

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

Probab=97.53  E-value=0.00043  Score=50.22  Aligned_cols=70  Identities=21%  Similarity=0.209  Sum_probs=60.0

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEc---Ce--ecCCcchhhhcCCCCCCEEEEecC
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFK---GK--EREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifk---GK--~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      |+|+|+- |.....+.|+|..+|..+|++|...-|++- +|+|-|.   |+  .|.+..+|++|||=-+..|.|++.
T Consensus         1 iqVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~~~g-~qrLsfQepgg~rqlL~s~~sLA~yGiFs~~~i~lleT   76 (80)
T cd01811           1 IQVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRNCSG-LQRLSFQEPGGERQLLSSRKSLADYGIFSKTNICLLET   76 (80)
T ss_pred             CEEEeeecCCCceEEEeCCcchHHHHHHHHHHhhCccc-ceEEEeecCCcccccccccccHhhhcceeccEEEEEec
Confidence            5789994 667788999999999999999999999986 9999983   22  357889999999998888888875

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

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

Probab=97.33  E-value=0.0019  Score=48.75  Aligned_cols=73  Identities=18%  Similarity=0.252  Sum_probs=66.4

Q ss_pred             CceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           68 EGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        68 ~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      +..|+++|+. .+....+.|..++.+.-|...-++..|++....+++|+|+.+.+.+|=++++.+++|.|-++.
T Consensus        18 ~~hi~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~   91 (99)
T KOG1769|consen   18 SEHINLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQ   91 (99)
T ss_pred             cceEEEEEecCCCCEEEEEeecCChHHHHHHHHHHHcCCccceEEEEECCcCcCCCCChhhhCCcCCcEEEEEe
Confidence            4679999996 446667899999999999999999999999999999999999999999999999999997764

>KOG3206 consensus Alpha-tubulin folding cofactor B [Posttranslational modification, protein turnover, chaperones]

Probab=97.04  E-value=0.0018  Score=54.99  Aligned_cols=71  Identities=17%  Similarity=0.318  Sum_probs=57.5

Q ss_pred             EEEEEeeCCEE--EEEEEcCCCCHHHHHHHHHhhhCCCCCceEE-EEcC-----eecC-CcchhhhcCCCCCCEEEEecC
Q 031040           71 ITIRVSTVSKW--HDISIKATSTFGELKMILSMVSGLEPREQRL-LFKG-----KERE-DNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        71 I~I~Vk~g~~~--~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKL-ifkG-----K~Ld-D~~tL~~~GIkdgskL~Lv~~  141 (167)
                      ++|.|.+....  .+...+++.|+.+||.+|+-++|.+++.+.| +|+|     ..|+ ++..|..|++.||-.||++..
T Consensus         2 v~v~Iss~~~~~~~Ekr~~~~ltl~q~K~KLe~~~G~~~~~M~l~l~~~~d~~~~~lsn~d~~lg~~~~~Dg~rihviD~   81 (234)
T KOG3206|consen    2 VRVVISSSLNDFRTEKRLSNSLTLAQFKDKLELLTGTEAESMELELYDGDDKKVSALSNEDADLGFYKVEDGLRIHVIDS   81 (234)
T ss_pred             eEEEEecccccchhhhhcCCcCcHHHHHhhhhhhhCCCccceEEEEEcCCCceeeeccCCcccccccCCCCceEEEEEec
Confidence            56666654323  4567899999999999999999999999999 5766     2454 567899999999999999864

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

Probab=96.76  E-value=0.012  Score=40.96  Aligned_cols=70  Identities=14%  Similarity=0.155  Sum_probs=53.9

Q ss_pred             ceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCc-eEEE--EcCeecCCc--chhhhcCCCCCCEEEE
Q 031040           69 GSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPRE-QRLL--FKGKEREDN--EFLHMVGVRDKDKVLL  138 (167)
Q Consensus        69 p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~-QKLi--fkGK~LdD~--~tL~~~GIkdgskL~L  138 (167)
                      +.++|.|+. +|..+.-...+++|+.+|.+-|......+... -.|+  |--+.+.+.  .+|.++|+.+.++|+|
T Consensus         5 ~~~~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v   80 (82)
T PF00789_consen    5 DVVRIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIV   80 (82)
T ss_dssp             SEEEEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEE
T ss_pred             CEEEEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEE
Confidence            445555554 33567888999999999999999988877765 6665  555677554  5999999999999986

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

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

Probab=96.71  E-value=0.0032  Score=44.78  Aligned_cols=58  Identities=21%  Similarity=0.287  Sum_probs=49.6

Q ss_pred             EcCCCCHHHHHHHHHhhhC-CCCCceEEEEcCeecCCcchhhhc-CCCCCCEEEEecCCc
Q 031040           86 IKATSTFGELKMILSMVSG-LEPREQRLLFKGKEREDNEFLHMV-GVRDKDKVLLLEDPA  143 (167)
Q Consensus        86 V~~t~TV~eLK~~Ia~~TG-Vppe~QKLifkGK~LdD~~tL~~~-GIkdgskL~Lv~~p~  143 (167)
                      |+++++|.|+++.|..... ..-..-.|.++|+.|+|...|.++ |++++.+|.|+++|=
T Consensus         1 v~~~d~v~dvrq~L~~~~~t~~~Tn~~L~~~g~~L~~~~el~~i~~~~~~~~L~lve~pY   60 (76)
T PF15044_consen    1 VSPTDTVQDVRQVLAESPETCYLTNFSLEHNGQRLDDFVELSEIEGIKDGCVLELVEEPY   60 (76)
T ss_pred             CChhhHHHHHHHHHHhCccccceeEEEEEECCCccCCchhhhhhhCCCCCcEEEEEecCC
Confidence            5789999999999998644 555778889999999998888887 699999999998763

>smart00666 PB1 PB1 domain

Probab=96.69  E-value=0.009  Score=41.42  Aligned_cols=46  Identities=13%  Similarity=0.284  Sum_probs=41.5

Q ss_pred             EEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcC
Q 031040           71 ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKG  116 (167)
Q Consensus        71 I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkG  116 (167)
                      ++|++.+++..+.+.++++.|+.+|+.+|+..++++.+...|-|..
T Consensus         2 ~~vK~~~~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~D   47 (81)
T smart00666        2 VDVKLRYGGETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQD   47 (81)
T ss_pred             ccEEEEECCEEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEEC
Confidence            6788888889999999999999999999999999988888888873

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

>COG5417 Uncharacterized small protein [Function unknown]

Probab=96.66  E-value=0.011  Score=43.07  Aligned_cols=69  Identities=13%  Similarity=0.097  Sum_probs=56.5

Q ss_pred             EEEEEe-eCCEEEEEEEcCCCCHHHHHHHHHhhhCCC-----CCceEEEEcCeecCCcchhhhcCCCCCCEEEEe
Q 031040           71 ITIRVS-TVSKWHDISIKATSTFGELKMILSMVSGLE-----PREQRLLFKGKEREDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        71 I~I~Vk-~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVp-----pe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      ++|-++ |++.++++.++...++..|-..+.+...++     -.+.|+.-+++.|.+++.|.+|+|.+||.|.++
T Consensus         7 VTvD~t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~LeiL   81 (81)
T COG5417           7 VTVDFTNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEIL   81 (81)
T ss_pred             EEEEeEecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEeC
Confidence            344444 377899999999999999999888765443     356788899999999999999999999999764

>KOG0013 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.64  E-value=0.0015  Score=55.42  Aligned_cols=93  Identities=23%  Similarity=0.340  Sum_probs=71.3

Q ss_pred             ceeeEecCCceeEEeecCCC--------C--CCceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEc
Q 031040           46 EIKWELRPGGMLVQKRESGC--------E--GEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFK  115 (167)
Q Consensus        46 ~~~we~rpggmlvq~r~~~~--------~--~~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifk  115 (167)
                      .+---++|-+|+--+-+...        .  ..+..++++.+..+.+-+.+...+|++++|..|....|++|--|+++|+
T Consensus       113 p~ycls~p~n~~~E~~d~~s~ei~~ppp~~~~e~~lk~rlTtT~~d~~lta~~~Dtv~eik~~L~Aaeg~D~~sQrif~S  192 (231)
T KOG0013|consen  113 PIYCLSRPPNAFAERKDSESLEIPEPPPSNHTEPILKLRLTTTREDFWLTAPHYDTVGEIKRALRAAEGVDPLSQRIFFS  192 (231)
T ss_pred             cceeeccCchHHHhhccccccccCCCCCCCCCCcchHHHhhhhhhheeecccCcCcHHHHHHHHHHhhccchhhheeecc
Confidence            34455677776643333221        1  1233456666555677788999999999999999999999999999999


Q ss_pred             CeecCCcchhhhcCCCCCCEEEE
Q 031040          116 GKEREDNEFLHMVGVRDKDKVLL  138 (167)
Q Consensus       116 GK~LdD~~tL~~~GIkdgskL~L  138 (167)
                      |+.+-|...|+.|+|..|.+.+|
T Consensus       193 g~~l~dkt~LeEc~iekg~rYvl  215 (231)
T KOG0013|consen  193 GGVLVDKTDLEECKIEKGQRYVL  215 (231)
T ss_pred             CCceeccccceeeeecCCCEEEE
Confidence            99999999999999999976655

>smart00166 UBX Domain present in ubiquitin-regulatory proteins

Probab=96.13  E-value=0.056  Score=37.90  Aligned_cols=68  Identities=12%  Similarity=0.069  Sum_probs=51.7

Q ss_pred             eEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEE--EcCeecCC---cchhhhcCCCCCCEEEE
Q 031040           70 SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLL--FKGKERED---NEFLHMVGVRDKDKVLL  138 (167)
Q Consensus        70 ~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLi--fkGK~LdD---~~tL~~~GIkdgskL~L  138 (167)
                      .|+|++-.| ........+++|+.+|.+-|....+.+.....|+  |--+.+.+   +.+|.++|+-+..+|+|
T Consensus         6 ~I~iRlPdG-~ri~~~F~~~~tl~~v~~~v~~~~~~~~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p~~~l~v   78 (80)
T smart00166        6 RLQIRLPDG-SRLVRRFPSSDTLRTVYEFVSAALTDGNDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLVL   78 (80)
T ss_pred             EEEEEcCCC-CEEEEEeCCCCcHHHHHHHHHHcccCCCCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEEE
Confidence            455555555 5677889999999999999977667666667775  55566754   46899999998888875

Present in FAF1 and Shp1p.

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

Probab=95.97  E-value=0.039  Score=38.17  Aligned_cols=47  Identities=19%  Similarity=0.328  Sum_probs=42.3

Q ss_pred             eEEEEEeeCCEEEE-EEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcC
Q 031040           70 SITIRVSTVSKWHD-ISIKATSTFGELKMILSMVSGLEPREQRLLFKG  116 (167)
Q Consensus        70 ~I~I~Vk~g~~~~~-VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkG  116 (167)
                      ++.|++.+++..+. +.+.++.|+.+|+.+|+..++.++...+|.|..
T Consensus         1 t~~vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D   48 (84)
T PF00564_consen    1 TVRVKVRYGGDIRRIISLPSDVSFDDLRSKIREKFGLLDEDFQLKYKD   48 (84)
T ss_dssp             SEEEEEEETTEEEEEEEECSTSHHHHHHHHHHHHHTTSTSSEEEEEEE
T ss_pred             CEEEEEEECCeeEEEEEcCCCCCHHHHHHHHHHHhCCCCccEEEEeeC
Confidence            47889999887777 999999999999999999999998999998864

The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....

>PRK06437 hypothetical protein; Provisional

Probab=95.93  E-value=0.058  Score=37.25  Aligned_cols=58  Identities=28%  Similarity=0.318  Sum_probs=46.3

Q ss_pred             EEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           73 IRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        73 I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      |+|. |+....++++...|+.+|-+.    .|++++.-.+..+|..+.     .++-|++||+|.++.
T Consensus         5 ~~v~-g~~~~~~~i~~~~tv~dLL~~----Lgi~~~~vaV~vNg~iv~-----~~~~L~dgD~Veiv~   62 (67)
T PRK06437          5 IRVK-GHINKTIEIDHELTVNDIIKD----LGLDEEEYVVIVNGSPVL-----EDHNVKKEDDVLILE   62 (67)
T ss_pred             EEec-CCcceEEEcCCCCcHHHHHHH----cCCCCccEEEEECCEECC-----CceEcCCCCEEEEEe
Confidence            4444 555667888999999998776    489999999999999987     455689999998873

>cd01767 UBX UBX (ubiquitin regulatory X) domain

Probab=95.74  E-value=0.11  Score=36.03  Aligned_cols=65  Identities=15%  Similarity=0.195  Sum_probs=46.2

Q ss_pred             EEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEE--EcCeecC---CcchhhhcCCCCCCEEEE
Q 031040           71 ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLL--FKGKERE---DNEFLHMVGVRDKDKVLL  138 (167)
Q Consensus        71 I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLi--fkGK~Ld---D~~tL~~~GIkdgskL~L  138 (167)
                      |+|++-.| ..+.....+++|+.+|.+-|.....- +....|+  |--+.+.   ++.+|.++|+.+ +.+++
T Consensus         5 i~iRlpdG-~~~~~~F~~~~tl~~l~~fv~~~~~~-~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~~-s~~~~   74 (77)
T cd01767           5 IQIRLPDG-KRLEQRFNSTHKLSDVRDFVESNGPP-AEPFTLMTSFPRRVLTDLDYELTLQEAGLVN-EVVFQ   74 (77)
T ss_pred             EEEEcCCC-CEEEEEeCCCCCHHHHHHHHHHcCCC-CCCEEEEeCCCCccCCCCCccCcHHHcCCcc-ceEEE
Confidence            44444455 56778899999999999999876443 5556665  4456664   478999999994 55544

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

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

Probab=95.69  E-value=0.052  Score=39.57  Aligned_cols=45  Identities=13%  Similarity=0.155  Sum_probs=39.6

Q ss_pred             eEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCe
Q 031040           70 SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGK  117 (167)
Q Consensus        70 ~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK  117 (167)
                      .|+|++++   ++.|.|++..++.+|.++|.++.++|+++-+|-|+-.
T Consensus         4 vvKV~f~~---tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYkde   48 (80)
T cd06406           4 VVKVHFKY---TVAIQVARGLSYATLLQKISSKLELPAEHITLSYKSE   48 (80)
T ss_pred             EEEEEEEE---EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEeccC
Confidence            45666664   7899999999999999999999999999999999764

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

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

Probab=95.40  E-value=0.071  Score=38.51  Aligned_cols=45  Identities=13%  Similarity=0.138  Sum_probs=38.1

Q ss_pred             EEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCC-CceEEEEc
Q 031040           71 ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEP-REQRLLFK  115 (167)
Q Consensus        71 I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVpp-e~QKLifk  115 (167)
                      |+|++.+++..+.+.++++.++.+|++.|+..+++.. ....|-|.
T Consensus         1 ~~vK~~~~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~   46 (82)
T cd06407           1 VRVKATYGEEKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYL   46 (82)
T ss_pred             CEEEEEeCCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEE
Confidence            5788889999999999999999999999999999875 44555553

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

>cd01770 p47_UBX p47-like ubiquitin domain

Probab=95.35  E-value=0.15  Score=36.25  Aligned_cols=66  Identities=20%  Similarity=0.155  Sum_probs=47.8

Q ss_pred             eEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCC-CCceEEE--EcCeecCC-cchhhhcCCCCCCEE
Q 031040           70 SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLE-PREQRLL--FKGKERED-NEFLHMVGVRDKDKV  136 (167)
Q Consensus        70 ~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVp-pe~QKLi--fkGK~LdD-~~tL~~~GIkdgskL  136 (167)
                      .|+|++.+| +......+.++||.+|.+-|....+-+ .....|+  |=.|.+.| +.||.++|+.+...+
T Consensus         6 ~iqiRlpdG-~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s~v~   75 (79)
T cd01770           6 SIQIRLADG-KRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKELSDESLTLKEANLLNAVIV   75 (79)
T ss_pred             EEEEECCCC-CEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcccCCCCCcHHHCCCcCcEEE
Confidence            455555555 566788999999999999999876432 3556665  66777754 689999999865444

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

>PRK08364 sulfur carrier protein ThiS; Provisional

Probab=95.15  E-value=0.22  Score=34.43  Aligned_cols=62  Identities=16%  Similarity=0.171  Sum_probs=45.2

Q ss_pred             eEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           70 SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        70 ~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      +|+|++-.......+++++..|+.+|-+.|    +++++.-.+..+|.....     +.-+++||.|-++.
T Consensus         4 mm~v~vng~~~~~~~~~~~~~tv~~ll~~l----~~~~~~v~v~vNg~iv~~-----~~~l~~gD~Veii~   65 (70)
T PRK08364          4 MIRVKVIGRGIEKEIEWRKGMKVADILRAV----GFNTESAIAKVNGKVALE-----DDPVKDGDYVEVIP   65 (70)
T ss_pred             EEEEEEeccccceEEEcCCCCcHHHHHHHc----CCCCccEEEEECCEECCC-----CcCcCCCCEEEEEc
Confidence            455555322234578888999999998876    788877777889988753     44589999998874

>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]

Probab=94.97  E-value=0.068  Score=46.82  Aligned_cols=57  Identities=23%  Similarity=0.278  Sum_probs=45.9

Q ss_pred             EEEEcCCCCHHHHHHHHHh-hhCCCCCceEEEE----cCeecCCcchhhhcCCCCCCEEEEe
Q 031040           83 DISIKATSTFGELKMILSM-VSGLEPREQRLLF----KGKEREDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        83 ~VeV~~t~TV~eLK~~Ia~-~TGVppe~QKLif----kGK~LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      ..+++...|++|+++.+.. ...+.|..|++.+    +||.+.|+++|++||+..+++|.+-
T Consensus        16 ~~~~s~~~ti~d~~~~~~~~~~k~~~~~~r~tlr~e~kgkpl~~~s~l~e~~~~s~~~i~vK   77 (297)
T KOG1639|consen   16 EKDLSGSETIDDLLKAISAKNLKITPYRIRLTLRVEPKGKPLIDNSKLQEYGDGSGATIYVK   77 (297)
T ss_pred             eecCCCCCcHHHHHHHHHHhhhccCccchhheeeccCCCccccchhHHHHhccCCCCEEEEe
Confidence            4677889999999966654 5677775555543    7999999999999999999998763

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

Probab=94.92  E-value=0.09  Score=36.06  Aligned_cols=46  Identities=13%  Similarity=0.270  Sum_probs=38.7

Q ss_pred             EEEEEeeCCEEEEEEEc-CCCCHHHHHHHHHhhhCCCCCceEEEEcC
Q 031040           71 ITIRVSTVSKWHDISIK-ATSTFGELKMILSMVSGLEPREQRLLFKG  116 (167)
Q Consensus        71 I~I~Vk~g~~~~~VeV~-~t~TV~eLK~~Ia~~TGVppe~QKLifkG  116 (167)
                      ++|++.+++..+.+.++ .+.|+.+|+++|.+.++++.....|-|..
T Consensus         1 ~~vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y~D   47 (81)
T cd05992           1 VRVKVKYGGEIRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKYPD   47 (81)
T ss_pred             CcEEEEecCCCEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEeeC
Confidence            46788887778889998 99999999999999999987666666654

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

>cd01772 SAKS1_UBX SAKS1-like UBX domain

Probab=94.55  E-value=0.39  Score=33.87  Aligned_cols=67  Identities=16%  Similarity=0.251  Sum_probs=49.8

Q ss_pred             eEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEE--EcCeecCC---cchhhhcCCCCCCEEEE
Q 031040           70 SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLL--FKGKERED---NEFLHMVGVRDKDKVLL  138 (167)
Q Consensus        70 ~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLi--fkGK~LdD---~~tL~~~GIkdgskL~L  138 (167)
                      .|.|++-.| .......++++|+.+|.+-|....+-+ ....|+  |--|.+.+   +.+|.++|+.+...|+|
T Consensus         6 ~i~iRlp~G-~~~~~~F~~~~tl~~v~~fV~~~~~~~-~~f~L~t~fPrk~~~~~d~~~TL~elgL~Psa~L~v   77 (79)
T cd01772           6 RIQIRLLDG-TTLKQTFKAREQLAAVRLFVELNTGNG-GPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIV   77 (79)
T ss_pred             EEEEECCCC-CEEEEEeCCCChHHHHHHHHHHcCCCC-CCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEE
Confidence            355555455 567778899999999999998765433 445665  56677753   47999999999999876

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

>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain

Probab=94.34  E-value=0.54  Score=33.99  Aligned_cols=67  Identities=9%  Similarity=0.082  Sum_probs=50.5

Q ss_pred             eEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcC--eecC--------CcchhhhcCCCCCCEEEE
Q 031040           70 SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKG--KERE--------DNEFLHMVGVRDKDKVLL  138 (167)
Q Consensus        70 ~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkG--K~Ld--------D~~tL~~~GIkdgskL~L  138 (167)
                      .|.|++-.| ....-....++|+.+|..-|.. .+..|+...|+++=  |.+.        .+.||.++|+.+...|++
T Consensus         6 ~I~iRlp~G-~Rl~rrF~~~~tl~~l~~fv~~-~~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~L~V   82 (85)
T cd01774           6 KIVFKLPNG-TRVERRFLFTQSLRVIHDFLFS-LKETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEVLFV   82 (85)
T ss_pred             EEEEECCCC-CEEEEEeCCCCcHHHHHHHHHh-CCCCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccEEEE
Confidence            345555555 5667788899999999999965 45577889988755  6664        357999999998877764

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

>cd01771 Faf1_UBX Faf1 UBX domain

Probab=94.16  E-value=0.61  Score=33.33  Aligned_cols=69  Identities=16%  Similarity=0.201  Sum_probs=52.6

Q ss_pred             ceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEE--EcCeecC---CcchhhhcCCCCCCEEEE
Q 031040           69 GSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLL--FKGKERE---DNEFLHMVGVRDKDKVLL  138 (167)
Q Consensus        69 p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLi--fkGK~Ld---D~~tL~~~GIkdgskL~L  138 (167)
                      +.++|.++. +|....-....++++.+|-.-|... |.+++..+|+  |==|.+.   .+.+|.++|+.+..+|+|
T Consensus         3 ~~~~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~~-~~~~~~f~L~t~fPRk~~~~~d~~~TL~e~gL~p~~~L~V   77 (80)
T cd01771           3 PISKLRVRTPSGDFLERRFLGDTPLQVLLNFVASK-GYPIDEYKLLSSWPRRDLTQLDPNFTLLELKLYPQETLIL   77 (80)
T ss_pred             CeEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-CCCCCCEEEecCCCCCCCcCCCCCCcHHHcCCCCCcEEEE
Confidence            455556654 3356677899999999999999874 8888888886  4445553   356999999999998876

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

>cd00754 MoaD Ubiquitin domain of MoaD-like proteins

Probab=94.04  E-value=0.28  Score=33.49  Aligned_cols=58  Identities=17%  Similarity=0.143  Sum_probs=43.3

Q ss_pred             CCEEEEEEEcCCCCHHHHHHHHHhhhCC----CCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           78 VSKWHDISIKATSTFGELKMILSMVSGL----EPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        78 g~~~~~VeV~~t~TV~eLK~~Ia~~TGV----ppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      |.....++++...|+.+|.+.|....+-    ....-.+..+|+...     .+.-|++||.|.++-
T Consensus        14 g~~~~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~-----~~~~l~~gD~v~i~p   75 (80)
T cd00754          14 GKDEEELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVR-----LDTPLKDGDEVAIIP   75 (80)
T ss_pred             CCceEEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcC-----CCcccCCCCEEEEeC
Confidence            3345677888889999999999987542    344566777888876     345699999998873

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

>PF13019 Telomere_Sde2: Telomere stability and silencing

Probab=94.01  E-value=0.3  Score=39.84  Aligned_cols=64  Identities=22%  Similarity=0.143  Sum_probs=46.5

Q ss_pred             EEEEEee-CC----EEEEEEEcCCCCHHHHHHHHHhhhCCCCCceE-EEE-cCeec--CCcchhhhcCCCCCC
Q 031040           71 ITIRVST-VS----KWHDISIKATSTFGELKMILSMVSGLEPREQR-LLF-KGKER--EDNEFLHMVGVRDKD  134 (167)
Q Consensus        71 I~I~Vk~-g~----~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QK-Lif-kGK~L--dD~~tL~~~GIkdgs  134 (167)
                      |+|.|++ .+    .+..+.+++++||.+|+..|...+++++..|- |.+ .++.+  .++..+..+--.+.+
T Consensus         1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~~~   73 (162)
T PF13019_consen    1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTNSNGQLSPSSDIPLSSLLSSSQD   73 (162)
T ss_pred             CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEeCCCeeCCCccccHHhhccCcCC
Confidence            4566765 33    57889999999999999999999999999863 444 35555  455666666544443

>cd01773 Faf1_like1_UBX Faf1 ike-1 UBX domain

Probab=93.95  E-value=0.76  Score=33.42  Aligned_cols=70  Identities=14%  Similarity=0.186  Sum_probs=53.0

Q ss_pred             ceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEE--EcCeec---CCcchhhhcCCCCCCEEEEe
Q 031040           69 GSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLL--FKGKER---EDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        69 p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLi--fkGK~L---dD~~tL~~~GIkdgskL~Lv  139 (167)
                      |.-+|.|+. +|+...-....++++.+|-.-+.. .|.+++...|+  |==|.+   +.+.||.++|+.+..+|+|=
T Consensus         4 ~~t~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~-~g~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~~~LfVq   79 (82)
T cd01773           4 PKARLMLRYPDGKREQIALPEQAKLLALVRHVQS-KGYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQ   79 (82)
T ss_pred             CeeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEEEe
Confidence            444555553 336677888899999999999998 57888999987  333444   44579999999999999863

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

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

Probab=93.90  E-value=0.22  Score=37.60  Aligned_cols=71  Identities=24%  Similarity=0.266  Sum_probs=62.3

Q ss_pred             ceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEe
Q 031040           69 GSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        69 p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      ..|.++|.. ++......|--+.|+.-|-...+...|-.-...|++|.|+-++-++|=.+++..+++.|..+
T Consensus        23 ~hinLkvv~qd~telfFkiKktT~f~klm~af~~rqGK~m~slRfL~dG~rI~~dqTP~dldmEdnd~iEav   94 (103)
T COG5227          23 KHINLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRIDLDQTPGDLDMEDNDEIEAV   94 (103)
T ss_pred             cccceEEecCCCCEEEEEEeccchHHHHHHHHHHHhCcCcceeEEEEcceecCCCCChhhcCCccchHHHHH
Confidence            467888884 55677788999999999999999999999999999999999999999999999999877543

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

Probab=93.77  E-value=0.46  Score=34.63  Aligned_cols=60  Identities=10%  Similarity=0.249  Sum_probs=45.1

Q ss_pred             EEEEEeeCCEEEEEEEcC--CCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecCCchhh
Q 031040           71 ITIRVSTVSKWHDISIKA--TSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDPAIKD  146 (167)
Q Consensus        71 I~I~Vk~g~~~~~VeV~~--t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~p~~~~  146 (167)
                      |+|++.+++.+..+.+++  +.|+.+|++.|+..++++      -|.=|-+||          |++-|.|.-+...+|
T Consensus         1 V~vKaty~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~------~f~lKYlDd----------e~e~v~lssd~eLeE   62 (81)
T cd06396           1 VNLKVTYNGESQSFLVSDSENTTWASVEAMVKVSFGLN------DIQIKYVDE----------ENEEVSVNSQGEYEE   62 (81)
T ss_pred             CEEEEEECCeEEEEEecCCCCCCHHHHHHHHHHHhCCC------cceeEEEcC----------CCCEEEEEchhhHHH
Confidence            578889999999999999  679999999999999999      233445555          346666655444443

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

>TIGR02958 sec_mycoba_snm4 secretion protein snm4

Probab=93.45  E-value=0.41  Score=44.21  Aligned_cols=70  Identities=20%  Similarity=0.164  Sum_probs=57.2

Q ss_pred             EEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCC------CCceEE-EEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           71 ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLE------PREQRL-LFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        71 I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVp------pe~QKL-ifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      .+|+|-.+.+..++-++.+..+.||--.|-...+-.      +..-.| .-.|.+|+.+.+|++.||.||+.|+|..
T Consensus         3 ~RVtV~~~~~~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r~gG~pL~~~~sL~~~gV~DG~~L~L~p   79 (452)
T TIGR02958         3 CRVTVLAGRRAVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALARAGGSPLDPDASLAEAGVRDGELLVLVP   79 (452)
T ss_pred             EEEEEeeCCeeeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEecCCCCCCCCCCCHHHcCCCCCCeEEEee
Confidence            478888877788999999999999999998887642      222333 2478899999999999999999999975

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

>cd06410 PB1_UP2 Uncharacterized protein 2

Probab=93.14  E-value=0.44  Score=35.53  Aligned_cols=51  Identities=22%  Similarity=0.281  Sum_probs=40.4

Q ss_pred             CceeEEeecCCCCCCceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEE
Q 031040           54 GGMLVQKRESGCEGEGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLF  114 (167)
Q Consensus        54 ggmlvq~r~~~~~~~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLif  114 (167)
                      ||=++.+...+       +  +.| |++++.+.|+.+.|+.||+++|++.++++.. ..|-|
T Consensus         5 GG~i~pr~~dg-------~--l~Y~GG~tr~i~V~r~~s~~el~~kl~~~~~~~~~-~~lky   56 (97)
T cd06410           5 GGRILPRPPDG-------Q--LRYVGGETRIVSVDRSISFKELVSKLSELFGAGVV-VTLKY   56 (97)
T ss_pred             CCEEeCcCCCC-------C--EEEcCCceEEEEEcCCCCHHHHHHHHHHHhCCCCc-eEEEE
Confidence            67777666543       1  456 6799999999999999999999999999976 55544

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

>KOG4250 consensus TANK binding protein kinase TBK1 [Signal transduction mechanisms]

Probab=93.02  E-value=0.38  Score=47.12  Aligned_cols=49  Identities=24%  Similarity=0.306  Sum_probs=44.1

Q ss_pred             eEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCee
Q 031040           70 SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKE  118 (167)
Q Consensus        70 ~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~  118 (167)
                      .+.|+.......|.+.|+++.|+..|++.|+..||+|.+.|-|+|.|..
T Consensus       315 vvhiFs~~~~~~~~~~~~~~ntl~~~~~~I~~~Tgipe~~qeLL~e~~~  363 (732)
T KOG4250|consen  315 VVHIFSMVQATSHEYYVHADNTLHSLIERISKQTGIPEGKQELLFEGGL  363 (732)
T ss_pred             eeEEEeeccceEEEEecChhhhHHHHHHHHHHhhCCCCccceeeeecCc
Confidence            3677777777899999999999999999999999999999999999764

>KOG4583 consensus Membrane-associated ER protein involved in stress response (contains ubiquitin-like domain) [Posttranslational modification, protein turnover, chaperones]

Probab=93.01  E-value=0.044  Score=49.61  Aligned_cols=60  Identities=28%  Similarity=0.294  Sum_probs=44.2

Q ss_pred             eEEEEEeeCCEE---EEEEEcCCCCHHHHHHHHHhhhC--CCCCceEEEEcCeecCCcchhhhcC
Q 031040           70 SITIRVSTVSKW---HDISIKATSTFGELKMILSMVSG--LEPREQRLLFKGKEREDNEFLHMVG  129 (167)
Q Consensus        70 ~I~I~Vk~g~~~---~~VeV~~t~TV~eLK~~Ia~~TG--Vppe~QKLifkGK~LdD~~tL~~~G  129 (167)
                      .+++.+|...+.   .+|+.+..-||++||..|+...-  --+.+|||+|.||.|.|...|.+.=
T Consensus         9 ~v~lliks~Nq~y~dl~i~~dl~wtv~~Lk~hls~VyPskpl~~dqrliYsgkllld~qcl~d~l   73 (391)
T KOG4583|consen    9 PVTLLIKSPNQSYKDLSISLDLKWTVGDLKVHLSQVYPSKPLELDQRLIYSGKLLLDHQCLTDWL   73 (391)
T ss_pred             ceEEEecCCCccccceeeehhhhhhHHHHhhhHhhcCCCCCchhhHHHHhhccccccchhHHHHH
Confidence            456666653333   34555667899999999998643  2347899999999999988887763

>PLN02799 Molybdopterin synthase sulfur carrier subunit

Probab=92.40  E-value=0.76  Score=32.04  Aligned_cols=56  Identities=16%  Similarity=0.128  Sum_probs=37.7

Q ss_pred             EEEEEEEcCCCCHHHHHHHHHhhh-CCCC--CceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           80 KWHDISIKATSTFGELKMILSMVS-GLEP--REQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        80 ~~~~VeV~~t~TV~eLK~~Ia~~T-GVpp--e~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ....++++...|+.+|.+.|.... ++..  ..-.+..+|+...+     +.-|++||.|.++-
T Consensus        19 ~~~~~~~~~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~~v~~-----~~~l~dgDeVai~P   77 (82)
T PLN02799         19 SDMTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEEYTTE-----SAALKDGDELAIIP   77 (82)
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHChhHHHHhhCcEEEECCEEcCC-----CcCcCCCCEEEEeC
Confidence            456788888999999999997654 1111  11135567776543     33589999998873

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.36  E-value=0.23  Score=45.15  Aligned_cols=68  Identities=22%  Similarity=0.189  Sum_probs=51.5

Q ss_pred             EEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEE---cCeec-----CCcchhhhcCCCCCCEEEEe
Q 031040           72 TIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLF---KGKER-----EDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        72 ~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLif---kGK~L-----dD~~tL~~~GIkdgskL~Lv  139 (167)
                      ++-..+....-..-|+-+-||.||+..|..+-|+-+..+||+|   .|+.-     +-+..|+.|+|++||.+.+=
T Consensus       340 k~l~~~~~v~~s~~I~~~~TV~D~~~~Ld~~VGvk~trMkLf~L~eD~rt~~~ss~~~N~~L~~fkIedGDs~lvq  415 (418)
T KOG2982|consen  340 KALNSGPKVIASGLICMTRTVLDFMKILDPKVGVKFTRMKLFLLREDGRTDDFSSSDYNMPLHYFKIEDGDSFLVQ  415 (418)
T ss_pred             eeeccCCccccceEEEeehHHHHHHHHhccccccccceeEEEEEcccCccCCccccCCCCcceEEeccCCCEeeee
Confidence            3333333333445566788999999999999999999999987   55543     34568999999999998653

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

Probab=92.29  E-value=0.75  Score=33.89  Aligned_cols=45  Identities=18%  Similarity=0.286  Sum_probs=37.0

Q ss_pred             eEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEc
Q 031040           70 SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFK  115 (167)
Q Consensus        70 ~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifk  115 (167)
                      .|+|+|.+.+....+.|+++.++.+|..+|.+.+++. +..+|-|+
T Consensus         2 ~ikVKv~~~~Dv~~i~v~~~i~f~dL~~kIrdkf~~~-~~~~iKyk   46 (86)
T cd06408           2 KIRVKVHAQDDTRYIMIGPDTGFADFEDKIRDKFGFK-RRLKIKMK   46 (86)
T ss_pred             cEEEEEEecCcEEEEEcCCCCCHHHHHHHHHHHhCCC-CceEEEEE
Confidence            4778888877889999999999999999999999995 34444443

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

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

Probab=92.12  E-value=0.74  Score=33.90  Aligned_cols=45  Identities=11%  Similarity=0.214  Sum_probs=37.1

Q ss_pred             EEEEeeCCEEEEEEEcC-----CCCHHHHHHHHHhhhCCCC-CceEEEEcC
Q 031040           72 TIRVSTVSKWHDISIKA-----TSTFGELKMILSMVSGLEP-REQRLLFKG  116 (167)
Q Consensus        72 ~I~Vk~g~~~~~VeV~~-----t~TV~eLK~~Ia~~TGVpp-e~QKLifkG  116 (167)
                      .|+|++++..+-+.++.     +.++.+|+++|++.+.+++ ..-.|-|..
T Consensus         2 ~vKv~y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~D   52 (91)
T cd06398           2 VVKVKYGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTD   52 (91)
T ss_pred             EEEEEeCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEEC
Confidence            58889988888888874     7999999999999999998 555556654

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

>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]

Probab=91.31  E-value=0.39  Score=43.80  Aligned_cols=61  Identities=18%  Similarity=0.288  Sum_probs=55.5

Q ss_pred             CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCc--chhhhcCCCCCCEEEE
Q 031040           78 VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDN--EFLHMVGVRDKDKVLL  138 (167)
Q Consensus        78 g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~--~tL~~~GIkdgskL~L  138 (167)
                      ......++|..+-...+|+..++..+|++.+.--|+|++.++.+.  ..|.+||++++|.|.+
T Consensus        11 ~~~~~~i~v~~dg~L~nl~aL~~~d~g~~~~~~~li~n~~~l~s~~s~~l~Q~g~~~~dsl~l   73 (380)
T KOG0012|consen   11 FEKKFPIPVTTDGELNNLAALCWKDTGIVYDPSDLIYNPRPLVSNESQGLTQIGLKDGDSLAL   73 (380)
T ss_pred             ceeeeccccccccchhhHHHHHHHHhCcccchhhcccCCCccccchhhhhhhcccccceeEec
Confidence            447778999999999999999999999999999999999999765  6799999999999976

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

Probab=91.13  E-value=1.1  Score=33.12  Aligned_cols=58  Identities=19%  Similarity=0.192  Sum_probs=41.1

Q ss_pred             EEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEE----cCee-cCC-cchhhhcCCCCCCEEEE
Q 031040           80 KWHDISIKATSTFGELKMILSMVSGLEPREQRLLF----KGKE-RED-NEFLHMVGVRDKDKVLL  138 (167)
Q Consensus        80 ~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLif----kGK~-LdD-~~tL~~~GIkdgskL~L  138 (167)
                      ..+....+..+||+.+.+.+..++.| +++-||--    ++-+ |.+ ..||+++||.+|..|+|
T Consensus        14 ~~~t~~FSk~DTI~~v~~~~rklf~i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~vli   77 (88)
T PF14836_consen   14 SVLTKQFSKTDTIGFVEKEMRKLFNI-QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQVVLI   77 (88)
T ss_dssp             EEEEEEE-TTSBHHHHHHHHHHHCT--TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEEEEE
T ss_pred             cHhHhhccccChHHHHHHHHHHHhCC-CccceehhccCCcchhhhCCCCccHHHccCcCCCEEEE
Confidence            46778899999999999999999999 77788853    2223 544 46999999999997754

>PRK01777 hypothetical protein; Validated

Probab=90.96  E-value=2.8  Score=31.09  Aligned_cols=63  Identities=17%  Similarity=0.242  Sum_probs=45.1

Q ss_pred             ceEEEEEeeC--C--EEEEEEEcCCCCHHHHHHHHHhhhCCCCC-------ceEEEEcCeecCCcchhhhcCCCCCCEEE
Q 031040           69 GSITIRVSTV--S--KWHDISIKATSTFGELKMILSMVSGLEPR-------EQRLLFKGKEREDNEFLHMVGVRDKDKVL  137 (167)
Q Consensus        69 p~I~I~Vk~g--~--~~~~VeV~~t~TV~eLK~~Ia~~TGVppe-------~QKLifkGK~LdD~~tL~~~GIkdgskL~  137 (167)
                      ..|+|.|.|.  .  ....+++++.+||.|+-+.+    |++.+       .-.+.-+|+...-++     -+++||.|-
T Consensus         2 ~~i~v~V~ya~~~~~~~~~l~vp~GtTv~dal~~s----gi~~~~pei~~~~~~vgI~Gk~v~~d~-----~L~dGDRVe   72 (95)
T PRK01777          2 GKIRVEVVYALPERQYLQRLTLQEGATVEEAIRAS----GLLELRTDIDLAKNKVGIYSRPAKLTD-----VLRDGDRVE   72 (95)
T ss_pred             CeeEEEEEEECCCceEEEEEEcCCCCcHHHHHHHc----CCCccCcccccccceEEEeCeECCCCC-----cCCCCCEEE
Confidence            3678888872  2  44568899999999987774    65555       236677888765433     589999998


Q ss_pred             Eec
Q 031040          138 LLE  140 (167)
Q Consensus       138 Lv~  140 (167)
                      +..
T Consensus        73 Iyr   75 (95)
T PRK01777         73 IYR   75 (95)
T ss_pred             Eec
Confidence            874

>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein

Probab=90.71  E-value=1.3  Score=29.69  Aligned_cols=53  Identities=21%  Similarity=0.324  Sum_probs=40.7

Q ss_pred             EEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           83 DISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        83 ~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      .++++...|+.+|.+.+    +++++.-.+.++|+.+..+ .-+..-|++||.|.++.
T Consensus         8 ~~~~~~~~tv~~ll~~l----~~~~~~i~V~vNg~~v~~~-~~~~~~L~~gD~V~ii~   60 (65)
T cd00565           8 PREVEEGATLAELLEEL----GLDPRGVAVALNGEIVPRS-EWASTPLQDGDRIEIVT   60 (65)
T ss_pred             EEEcCCCCCHHHHHHHc----CCCCCcEEEEECCEEcCHH-HcCceecCCCCEEEEEE
Confidence            46677888999998885    5788888888999877543 33344599999998873

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

>PF14453 ThiS-like: ThiS-like ubiquitin

Probab=90.56  E-value=0.9  Score=31.11  Aligned_cols=47  Identities=17%  Similarity=0.323  Sum_probs=37.8

Q ss_pred             EEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           83 DISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        83 ~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      .+++....|..+||.++....      -.++|+|-+.+++.     -+++||.|+++.
T Consensus         9 ~~~~~~~~tl~~lr~~~k~~~------DI~I~NGF~~~~d~-----~L~e~D~v~~Ik   55 (57)
T PF14453_consen    9 EIETEENTTLFELRKESKPDA------DIVILNGFPTKEDI-----ELKEGDEVFLIK   55 (57)
T ss_pred             EEEcCCCcCHHHHHHhhCCCC------CEEEEcCcccCCcc-----ccCCCCEEEEEe
Confidence            578889999999999966532      37899998877654     478999999985

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

Probab=90.13  E-value=2.1  Score=29.71  Aligned_cols=58  Identities=17%  Similarity=0.167  Sum_probs=41.2

Q ss_pred             CCEEEEEEEcCC-CCHHHHHHHHHhhhC-CC--CCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           78 VSKWHDISIKAT-STFGELKMILSMVSG-LE--PREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        78 g~~~~~VeV~~t-~TV~eLK~~Ia~~TG-Vp--pe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      +.....++++.. .|+.+|.+.|.+... +.  .....+..+++...+     +.-|++||.|.++-
T Consensus        14 g~~~~~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~~-----~~~l~dgDevai~P   75 (80)
T TIGR01682        14 GTDEETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVTD-----DALLNEGDEVAFIP   75 (80)
T ss_pred             CCCeEEEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcCC-----CcCcCCCCEEEEeC
Confidence            334456888876 899999999988763 11  123456678877664     45799999998873

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

>PRK06488 sulfur carrier protein ThiS; Validated

Probab=90.12  E-value=2.1  Score=28.70  Aligned_cols=58  Identities=14%  Similarity=0.075  Sum_probs=40.4

Q ss_pred             EeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           75 VSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        75 Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      +.-+++.+.+  + ..|+.+|.+.+    +++++...+-+++..+. ....++.-+++||.|.++.
T Consensus         3 i~~Ng~~~~~--~-~~tl~~Ll~~l----~~~~~~vavavN~~iv~-~~~~~~~~L~dgD~Ieiv~   60 (65)
T PRK06488          3 LFVNGETLQT--E-ATTLALLLAEL----DYEGNWLATAVNGELVH-KEARAQFVLHEGDRIEILS   60 (65)
T ss_pred             EEECCeEEEc--C-cCcHHHHHHHc----CCCCCeEEEEECCEEcC-HHHcCccccCCCCEEEEEE
Confidence            3334555555  3 45899988775    67776666778998776 3445566799999998874

>cd06411 PB1_p51 The PB1 domain is present in the p51 protein, a homolog of the p67 protein

Probab=89.97  E-value=0.84  Score=33.17  Aligned_cols=42  Identities=12%  Similarity=0.200  Sum_probs=36.5

Q ss_pred             EEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcC
Q 031040           72 TIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKG  116 (167)
Q Consensus        72 ~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkG  116 (167)
                      +|++++   ++.+.+.+..+..+|..+|+++..++|+.-+|-|+-
T Consensus         2 ~Vh~~f---TVai~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY~~   43 (78)
T cd06411           2 TVQCAF---TVALRAPRGADVSSLRALLSQALPQQAQRGQLSYRA   43 (78)
T ss_pred             EEEEEE---EEEEEccCCCCHHHHHHHHHHHhcCChhhcEEEecC
Confidence            455553   477899999999999999999999999999999965

p51 plays an important role in NADPH oxidase activation during phagosytosis. The PB1 domain is a modular domain mediating specific protein-protein interaction in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain mo

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

Probab=89.15  E-value=0.12  Score=46.12  Aligned_cols=62  Identities=26%  Similarity=0.282  Sum_probs=0.0

Q ss_pred             CceEEEEEeeCC-EEEEEEE--c-C--CCCHHHHHHHHHh----------hhCCCCCceE-----EEEcCeecCCcchhh
Q 031040           68 EGSITIRVSTVS-KWHDISI--K-A--TSTFGELKMILSM----------VSGLEPREQR-----LLFKGKEREDNEFLH  126 (167)
Q Consensus        68 ~p~I~I~Vk~g~-~~~~VeV--~-~--t~TV~eLK~~Ia~----------~TGVppe~QK-----LifkGK~LdD~~tL~  126 (167)
                      ...|.|++|... -..++.+  . |  +.||.|||..+++          .+++|.+..+     |+|+-|++.|..+|.
T Consensus        76 ~~sItV~Lks~rnp~l~i~L~~~~plattSv~dlk~~v~~rv~~~~~~~~~~~vp~dKik~~~~~lL~~kkPv~~~ktl~  155 (309)
T PF12754_consen   76 SKSITVHLKSLRNPPLDISLPNVPPLATTSVQDLKDAVQQRVHPSQATYDETRVPLDKIKNFRCRLLYKKKPVGDSKTLA  155 (309)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CceEEEEeecCCCCCceeEeCCCCcCCcCcHHHHHHHHHhhhcccccccccccCCHHHhhhhhhhheecCccCCCcCcHH
Confidence            345677766532 1222222  2 3  6899999999999          9999999999     999999998888877


Q ss_pred             hcC
Q 031040          127 MVG  129 (167)
Q Consensus       127 ~~G  129 (167)
                      +..
T Consensus       156 e~l  158 (309)
T PF12754_consen  156 EVL  158 (309)
T ss_dssp             ---
T ss_pred             HHH
Confidence            664

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

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

Probab=88.20  E-value=4.3  Score=28.41  Aligned_cols=61  Identities=15%  Similarity=0.301  Sum_probs=45.7

Q ss_pred             EEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           73 IRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        73 I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      +++..+++  .++++...|+.||-+.    .|++++.--+.++|.....+.. ++.-+++||.|.++.
T Consensus         3 m~i~~ng~--~~e~~~~~tv~dLL~~----l~~~~~~vav~vNg~iVpr~~~-~~~~l~~gD~ievv~   63 (68)
T COG2104           3 MTIQLNGK--EVEIAEGTTVADLLAQ----LGLNPEGVAVAVNGEIVPRSQW-ADTILKEGDRIEVVR   63 (68)
T ss_pred             EEEEECCE--EEEcCCCCcHHHHHHH----hCCCCceEEEEECCEEccchhh-hhccccCCCEEEEEE
Confidence            34444444  5677777999999887    7999999999999988865433 445589999998764

>TIGR01687 moaD_arch MoaD family protein, archaeal

Probab=88.16  E-value=4.1  Score=28.52  Aligned_cols=59  Identities=22%  Similarity=0.181  Sum_probs=40.1

Q ss_pred             CCEEEEEEEcCCCCHHHHHHHHHhhhC-----CCC------CceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           78 VSKWHDISIKATSTFGELKMILSMVSG-----LEP------REQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        78 g~~~~~VeV~~t~TV~eLK~~Ia~~TG-----Vpp------e~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      +.....++++ ..|+.+|.+.|.+...     +-.      ....+..+|...+++..   .-|++||.|.++-
T Consensus        14 g~~~~~v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~~~~---~~l~dgdev~i~P   83 (88)
T TIGR01687        14 GKKSEEIEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDWGLG---TELKDGDVVAIFP   83 (88)
T ss_pred             CCceEEEEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCccCC---CCCCCCCEEEEeC
Confidence            3344567776 8899999999987753     111      23456678877654432   5689999998873

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

>cd06397 PB1_UP1 Uncharacterized protein 1

Probab=87.63  E-value=1.8  Score=31.82  Aligned_cols=43  Identities=14%  Similarity=0.139  Sum_probs=37.8

Q ss_pred             EEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEE
Q 031040           72 TIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLF  114 (167)
Q Consensus        72 ~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLif  114 (167)
                      +.+|++++.+..+.++.+-|...|+++|+.++.+|+...-|.|
T Consensus         2 ~fKv~~~g~~RRf~~~~~pt~~~L~~kl~~Lf~lp~~~~~vtY   44 (82)
T cd06397           2 QFKSSFLGDTRRIVFPDIPTWEALASKLENLYNLPEIKVGVTY   44 (82)
T ss_pred             eEEEEeCCceEEEecCCCccHHHHHHHHHHHhCCChhHeEEEE
Confidence            5788998878888899999999999999999999998766666

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

>PRK06083 sulfur carrier protein ThiS; Provisional

Probab=87.53  E-value=5.8  Score=28.72  Aligned_cols=64  Identities=11%  Similarity=0.128  Sum_probs=45.9

Q ss_pred             eEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           70 SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        70 ~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      .+.+++.-+++  ..++++..|+.+|-+.    .++++..--+-++|..+. .+..+..-+++||.|.++.
T Consensus        16 ~~~m~I~VNG~--~~~~~~~~tl~~LL~~----l~~~~~~vAVevNg~iVp-r~~w~~t~L~egD~IEIv~   79 (84)
T PRK06083         16 MVLITISINDQ--SIQVDISSSLAQIIAQ----LSLPELGCVFAINNQVVP-RSEWQSTVLSSGDAISLFQ   79 (84)
T ss_pred             CceEEEEECCe--EEEcCCCCcHHHHHHH----cCCCCceEEEEECCEEeC-HHHcCcccCCCCCEEEEEE
Confidence            33444554454  4566778898888776    478887778889998774 4556777799999998874

>TIGR01683 thiS thiamine biosynthesis protein ThiS

Probab=87.46  E-value=3.4  Score=27.67  Aligned_cols=53  Identities=17%  Similarity=0.289  Sum_probs=39.6

Q ss_pred             EEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           83 DISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        83 ~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      .++++...|+.+|.+.+    +++++.-.+.++|..+..+ .-..+-|++||.|.++.
T Consensus         7 ~~~~~~~~tv~~ll~~l----~~~~~~v~v~vN~~iv~~~-~~~~~~L~~gD~veii~   59 (64)
T TIGR01683         7 PVEVEDGLTLAALLESL----GLDPRRVAVAVNGEIVPRS-EWDDTILKEGDRIEIVT   59 (64)
T ss_pred             EEEcCCCCcHHHHHHHc----CCCCCeEEEEECCEEcCHH-HcCceecCCCCEEEEEE
Confidence            46677788999998874    6778888888899877432 33445699999998863

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

>PRK05659 sulfur carrier protein ThiS; Validated

Probab=87.14  E-value=3.2  Score=27.67  Aligned_cols=53  Identities=15%  Similarity=0.185  Sum_probs=39.7

Q ss_pred             EEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           83 DISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        83 ~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      .++++...|+.+|-+.    .+++++.--+.++|..+.-.. -.+.-+++||.|.++.
T Consensus         9 ~~~~~~~~tl~~lL~~----l~~~~~~vav~vNg~iv~r~~-~~~~~l~~gD~vei~~   61 (66)
T PRK05659          9 PRELPDGESVAALLAR----EGLAGRRVAVEVNGEIVPRSQ-HASTALREGDVVEIVH   61 (66)
T ss_pred             EEEcCCCCCHHHHHHh----cCCCCCeEEEEECCeEeCHHH-cCcccCCCCCEEEEEE
Confidence            4577778899888765    588999888999997775332 3334489999998863

>cd01615 CIDE_N CIDE_N domain, found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins, as well as CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD(DFF45)

Probab=86.26  E-value=5.5  Score=28.87  Aligned_cols=65  Identities=22%  Similarity=0.315  Sum_probs=46.3

Q ss_pred             EEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEE--EcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           73 IRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLL--FKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        73 I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLi--fkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ++|....++...-|-+. |..||+.+..+.++++...-+|.  -.|-+++|++++..+  .++..++++.
T Consensus         5 ~kV~~~~r~~k~GV~A~-sL~eL~~K~~~~l~l~~~~~~lvL~eDGTeVddEeYF~tL--p~nT~l~~l~   71 (78)
T cd01615           5 FKVCDSDRSRKKGVAAS-SLEELLSKACEKLKLPSAPVTLVLEEDGTEVDDEEYFQTL--PDNTVLMLLE   71 (78)
T ss_pred             EEEecCCCCeeEEEEcC-CHHHHHHHHHHHcCCCCCCeEEEEeCCCcEEccHHHHhcC--CCCcEEEEEC
Confidence            34444444444555444 89999999999999976666654  389999999998875  4666666664

These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of ICAD/DFF45, and the CAD/DFF40 and CIDE nucleases during apoptosis. The CIDE-N domain is also found in the FSP27/CIDE-C protein.

>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation

Probab=86.20  E-value=5.6  Score=28.61  Aligned_cols=64  Identities=20%  Similarity=0.293  Sum_probs=45.6

Q ss_pred             EEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEE--cCeecCCcchhhhcCCCCCCEEEEec
Q 031040           74 RVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLF--KGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        74 ~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLif--kGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      +|....++...-|-+ .|..||+.+..+.++++...-+|..  .|-+++|++++..+  .++..++++.
T Consensus         4 kV~~~~r~~k~GV~A-~sL~eL~~K~~~~l~l~~~~~~l~L~eDGT~VddEeyF~tL--p~nt~l~~L~   69 (74)
T smart00266        4 KVRDHDRNVRKGVAA-SSLEELLSKVCDKLALPDSPVTLVLEEDGTIVDDEEYFQTL--PDNTELMALE   69 (74)
T ss_pred             EEecCCCCeeEEEEc-CCHHHHHHHHHHHhCCCCCCcEEEEecCCcEEccHHHHhcC--CCCcEEEEEc
Confidence            444433333444444 4899999999999999977666643  89999999998875  4666666664

>PRK05863 sulfur carrier protein ThiS; Provisional

Probab=85.54  E-value=4.1  Score=27.56  Aligned_cols=52  Identities=10%  Similarity=0.168  Sum_probs=38.5

Q ss_pred             EEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           83 DISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        83 ~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ..++++..|+.+|-+.    .+++++.--+.+++..+...+. +.+ +++||+|.++.
T Consensus         9 ~~~~~~~~tl~~ll~~----l~~~~~~vav~~N~~iv~r~~~-~~~-L~~gD~ieIv~   60 (65)
T PRK05863          9 QVEVDEQTTVAALLDS----LGFPEKGIAVAVDWSVLPRSDW-ATK-LRDGARLEVVT   60 (65)
T ss_pred             EEEcCCCCcHHHHHHH----cCCCCCcEEEEECCcCcChhHh-hhh-cCCCCEEEEEe
Confidence            3455677888887665    5889999999999996543322 235 99999998864

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

Probab=84.89  E-value=3.4  Score=27.74  Aligned_cols=58  Identities=19%  Similarity=0.130  Sum_probs=45.0

Q ss_pred             EEEEEEcCCCCHHHHHHHHHhhhCC--CCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           81 WHDISIKATSTFGELKMILSMVSGL--EPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        81 ~~~VeV~~t~TV~eLK~~Ia~~TGV--ppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ...+.+....|+.+|.+.|.....-  ..+.-.+..+|+...+ . -.+.-|++||.|.++-
T Consensus        13 ~~~~~~~~~~tv~~ll~~l~~~~p~~~~~~~~~v~vN~~~v~~-~-~~~~~l~~gD~V~i~p   72 (77)
T PF02597_consen   13 EEEIEVPEGSTVRDLLEALAERYPELALRDRVAVAVNGEIVPD-D-GLDTPLKDGDEVAILP   72 (77)
T ss_dssp             EEEEEESSTSBHHHHHHHHCHHTGGGHTTTTEEEEETTEEEGG-G-TTTSBEETTEEEEEEE
T ss_pred             CeEEecCCCCcHHHHHHHHHhhccccccCccEEEEECCEEcCC-c-cCCcCcCCCCEEEEEC
Confidence            4578889999999999999876521  3366777889988887 3 5556689999998873

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

>PF02017 CIDE-N: CIDE-N domain; InterPro: IPR003508 This domain consists of caspase-activated (CAD) nucleases, which induce DNA fragmentation and chromatin condensation during apoptosis, and the cell death activator proteins CIDE-A and CIDE-B, which are inhibitors of CAD nuclease

Probab=84.78  E-value=3.6  Score=29.80  Aligned_cols=56  Identities=25%  Similarity=0.356  Sum_probs=42.7

Q ss_pred             EEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEE--cCeecCCcchhhhcCCCCCCEEEEec
Q 031040           80 KWHDISIKATSTFGELKMILSMVSGLEPREQRLLF--KGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        80 ~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLif--kGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ..+-|-.   .|..||+.+..+.++++.+.-+|..  .|-+.+|++++..+  .++..++++.
T Consensus        14 ~k~Gv~A---~sL~eL~~K~~~~l~~~~~~~~lvL~eDGT~VddEeyF~tL--p~nT~lm~L~   71 (78)
T PF02017_consen   14 VKKGVAA---SSLEELLEKACDKLQLPEEPVRLVLEEDGTEVDDEEYFQTL--PDNTVLMLLE   71 (78)
T ss_dssp             CEEEEEE---SSHHHHHHHHHHHHT-SSSTCEEEETTTTCBESSCHHHCCS--SSSEEEEEEE
T ss_pred             ceEeEEc---CCHHHHHHHHHHHhCCCCcCcEEEEeCCCcEEccHHHHhhC--CCCCEEEEEC
Confidence            4444444   5999999999999999987777765  88899999888765  4666776665

The two proteins interact through the region defined by the method signatures.; GO: 0006915 apoptosis, 0005622 intracellular; PDB: 1IBX_A 2EEL_A 1F2R_I 1C9F_A 1D4B_A.

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

Probab=83.80  E-value=3.7  Score=30.14  Aligned_cols=63  Identities=19%  Similarity=0.308  Sum_probs=45.3

Q ss_pred             EEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCC---ceEEEEcCeecCCcchhhhcCCCCCCEEEEecCCchhhhhh
Q 031040           74 RVST-VSKWHDISIKATSTFGELKMILSMVSGLEPR---EQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDPAIKDMKL  149 (167)
Q Consensus        74 ~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe---~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~p~~~~~k~  149 (167)
                      +++. .+..|.+.+.|+..+.+|++.|+.+.|+...   .-.|.|    ++|          +|+.|.|.-+....|--.
T Consensus         4 K~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~Y----lDD----------EgD~VllT~D~DL~e~v~   69 (86)
T cd06409           4 KFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSY----VDD----------EGDIVLITSDSDLVAAVL   69 (86)
T ss_pred             EeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEE----EcC----------CCCEEEEeccchHHHHHH
Confidence            3443 4589999999999999999999999999975   444444    333          567777776655555443


Q ss_pred             h
Q 031040          150 H  150 (167)
Q Consensus       150 ~  150 (167)
                      +
T Consensus        70 i   70 (86)
T cd06409          70 V   70 (86)
T ss_pred             H
Confidence            3

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

>PRK06944 sulfur carrier protein ThiS; Provisional

Probab=83.72  E-value=6.2  Score=26.10  Aligned_cols=52  Identities=12%  Similarity=0.139  Sum_probs=35.7

Q ss_pred             EEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           83 DISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        83 ~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      .+++++..|+.+|.+.+    +++ ..-.+.++|.....+. -.+.-+++||.|.++.
T Consensus         9 ~~~~~~~~tl~~ll~~l----~~~-~~~~v~vN~~~v~~~~-~~~~~L~~gD~vei~~   60 (65)
T PRK06944          9 TLSLPDGATVADALAAY----GAR-PPFAVAVNGDFVARTQ-HAARALAAGDRLDLVQ   60 (65)
T ss_pred             EEECCCCCcHHHHHHhh----CCC-CCeEEEECCEEcCchh-cccccCCCCCEEEEEe
Confidence            46677888999998876    343 3356778888765332 2233499999998873

>cd06539 CIDE_N_A CIDE_N domain of CIDE-A proteins

Probab=83.53  E-value=7.8  Score=28.18  Aligned_cols=65  Identities=22%  Similarity=0.209  Sum_probs=45.9

Q ss_pred             EEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEE--EEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           73 IRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRL--LFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        73 I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKL--ifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ++|....++...-|-+ .|..||+.+..+.+.++...-+|  --.|-+++|++++..+  .++..++++.
T Consensus         5 fkV~~~~r~~k~GV~A-~sL~EL~~K~~~~l~~~~~~~~lvL~eDGT~Vd~EeyF~~L--pdnT~lm~L~   71 (78)
T cd06539           5 FRVSNHDRSSRRGVMA-SSLQELISKTLDALVITSGLVTLVLEEDGTVVDTEEFFQTL--GDNTHFMVLE   71 (78)
T ss_pred             EEEecCCCCceEEEEe-cCHHHHHHHHHHHhCCCCCCcEEEEeCCCCEEccHHHHhhC--CCCCEEEEEC
Confidence            3444433333333433 48999999999999998665555  4589999999998875  4777777775

The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins. These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40, ICAD/DFF45, and CIDE nucleases during apoptosis. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, the CIDE proteins were initially characterized as mitochondrial activators of apoptosis. However, strong metabolic phenotypes of mice lacking CIDE-A and CIDE-B indicated that this family may play critical roles in energy balance.

>PF14451 Ub-Mut7C: Mut7-C ubiquitin

Probab=83.10  E-value=5.6  Score=28.66  Aligned_cols=52  Identities=15%  Similarity=0.216  Sum_probs=41.2

Q ss_pred             EEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEE-cCeecCCcchhhhcCCCCCCEEEEec
Q 031040           80 KWHDISIKATSTFGELKMILSMVSGLEPREQRLLF-KGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        80 ~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLif-kGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ....+.++..+||+++-+.    .|||..+-.+++ +|+..+-+     |-+++||.|.+.-
T Consensus        23 ~~~~~~~~~~~tvkd~IEs----LGVP~tEV~~i~vNG~~v~~~-----~~~~~Gd~v~V~P   75 (81)
T PF14451_consen   23 GPFTHPFDGGATVKDVIES----LGVPHTEVGLILVNGRPVDFD-----YRLKDGDRVAVYP   75 (81)
T ss_pred             CceEEecCCCCcHHHHHHH----cCCChHHeEEEEECCEECCCc-----ccCCCCCEEEEEe
Confidence            3556788999999988766    899999998875 78766543     6689999998754

>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]

Probab=82.60  E-value=2.3  Score=39.05  Aligned_cols=68  Identities=18%  Similarity=0.226  Sum_probs=49.7

Q ss_pred             ceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCC-CceEEE--EcCeecC-CcchhhhcCCCCCCEEE
Q 031040           69 GSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEP-REQRLL--FKGKERE-DNEFLHMVGVRDKDKVL  137 (167)
Q Consensus        69 p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVpp-e~QKLi--fkGK~Ld-D~~tL~~~GIkdgskL~  137 (167)
                      .+|+|+..+|++ ....++-+.||.+++..|...-.--+ .-|.|+  |=-|+|. |+.||+++||.+...|.
T Consensus       306 TsIQIRLanG~R-lV~~fN~sHTv~DIR~fI~~aRp~~~~~~F~L~~~FPpk~l~D~sqTle~AgL~Nsvlvq  377 (380)
T KOG2086|consen  306 TSIQIRLANGTR-LVLKFNHSHTVSDIREFIDTARPGDSSTYFILMMAFPPKPLSDDSQTLEEAGLLNSVLVQ  377 (380)
T ss_pred             ceEEEEecCCce-eeeeccCcccHHHHHHHHHhcCCCCcCCceeeeecCCCcccCCcchhHHhccchhhhhhh
Confidence            358888888864 45778888999999999997644333 345554  4557775 56899999998766554

>PRK07440 hypothetical protein; Provisional

Probab=81.37  E-value=15  Score=25.40  Aligned_cols=61  Identities=15%  Similarity=0.283  Sum_probs=43.7

Q ss_pred             EEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           73 IRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        73 I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      +++.-+++  .+++....|+.+|-+.    .+++++.--+-++|..+.- ....+.-+++||+|.++.
T Consensus         5 m~i~vNG~--~~~~~~~~tl~~lL~~----l~~~~~~vav~~N~~iv~r-~~w~~~~L~~gD~IEIv~   65 (70)
T PRK07440          5 ITLQVNGE--TRTCSSGTSLPDLLQQ----LGFNPRLVAVEYNGEILHR-QFWEQTQVQPGDRLEIVT   65 (70)
T ss_pred             eEEEECCE--EEEcCCCCCHHHHHHH----cCCCCCeEEEEECCEEeCH-HHcCceecCCCCEEEEEE
Confidence            33443444  4667788899988765    5788888888899987753 344556699999998863

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

Probab=80.74  E-value=2.3  Score=29.99  Aligned_cols=44  Identities=30%  Similarity=0.381  Sum_probs=33.2

Q ss_pred             CCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEe
Q 031040           90 STFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        90 ~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      .|+.||.+.-++.+|++ ..-.+.-.|-+.+|=..     |.|||.|+++
T Consensus        26 ~SleeLl~ia~~kfg~~-~~~v~~~dgaeIdDI~~-----IRDgD~L~~~   69 (69)
T PF11834_consen   26 DSLEELLKIASEKFGFS-ATKVLNEDGAEIDDIDV-----IRDGDHLYLV   69 (69)
T ss_pred             ccHHHHHHHHHHHhCCC-ceEEEcCCCCEEeEEEE-----EEcCCEEEEC
Confidence            69999999999999997 33334456666665443     7899999875

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

>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells

Probab=80.63  E-value=4.6  Score=29.71  Aligned_cols=38  Identities=11%  Similarity=0.081  Sum_probs=34.2

Q ss_pred             EEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCC
Q 031040           71 ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPR  108 (167)
Q Consensus        71 I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe  108 (167)
                      |+|++.+++..+...+++..|..+|.+++.+...++.+
T Consensus         1 i~~K~~y~gdi~it~~d~~~s~e~L~~~v~~~c~~~~~   38 (83)
T cd06404           1 VRVKAAYNGDIMITSIDPSISLEELCNEVRDMCRFHND   38 (83)
T ss_pred             CeEEEEecCcEEEEEcCCCcCHHHHHHHHHHHhCCCCC
Confidence            57888898889999999999999999999999998754

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

---

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	167
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	7e-15
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	2e-14
1wgg_A	96	Ubiquitin carboxyl-terminal hydrolase 14; ubiquiti	5e-08
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	7e-08
1wxv_A	92	BAG-family molecular chaperone regulator-1; struct	1e-07
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	2e-07
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	3e-07
1v5t_A	90	8430435I17RIK protein; hypothetical protein, ubiqu	5e-07
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	1e-06
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	2e-06
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	2e-06
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	2e-06
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	3e-06
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	3e-06
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	5e-06
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	1e-05
1we6_A	111	Splicing factor, putative; structural genomics, ub	1e-05
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	3e-05
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	4e-05
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	5e-05
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	5e-05
3u5c_F	225	RP14, S2, YS8, 40S ribosomal protein S5; translati	1e-04
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	2e-04
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	2e-04
4dbg_A	105	Ranbp-type and C3HC4-type zinc finger-containing;	2e-04
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	2e-04
2kdb_A	99	Homocysteine-responsive endoplasmic reticulum- res	4e-04
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	5e-04
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	5e-04
3shq_A	320	UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila	6e-04
1wia_A	95	Hypothetical ubiquitin-like protein (riken cDNA 20	6e-04

>1v86_A DNA segment, CHR 7, wayne state university 128, expressed; ubiquitin fold, structural genomics, D7WSU128E protein; HET: DNA; NMR {Mus musculus} SCOP: d.15.1.1 Length = 95

 Score = 65.6 bits (160), Expect = 7e-15
 Identities = 18/78 (23%), Positives = 40/78 (51%), Gaps = 1/78 (1%)

Query: 62  ESGCEGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKERED 121
             G  G+  + +++      HD+ +   ST  ELK  +  ++GL P  Q++++KG    +
Sbjct: 9   AGGGVGKELVDLKIIWNKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGLVP-E 67

Query: 122 NEFLHMVGVRDKDKVLLL 139
           ++ L  + V    K++++
Sbjct: 68  DKTLREIKVTSGAKIMVV 85

>2kd0_A LRR repeats and ubiquitin-like domain-containing protein AT2G30105; ubiquitin-like protein, NESG, leucine-rich repeat, structural genomics; NMR {Arabidopsis thaliana} Length = 85

 Score = 63.8 bits (156), Expect = 2e-14
 Identities = 20/72 (27%), Positives = 34/72 (47%)

Query: 68  EGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHM 127
             +I + V    K   +S+    T  +LK  L  ++ + PR Q+L+FKGK   +   L  
Sbjct: 10  HSTIKLTVKFGGKSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVETSTLKQ 69

Query: 128 VGVRDKDKVLLL 139
             V    K++L+
Sbjct: 70  SDVGSGAKLMLM 81

>1wgg_A Ubiquitin carboxyl-terminal hydrolase 14; ubiquitin specific protease 14, USP14, ubiquitin-like fold, structural genomics; NMR {Mus musculus} SCOP: d.15.1.1 Length = 96

 Score = 47.6 bits (113), Expect = 5e-08
 Identities = 13/77 (16%), Positives = 35/77 (45%), Gaps = 2/77 (2%)

Query: 64  GCEGEGSITIRVSTVSK-WHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDN 122
           G  G    ++ V    + +  + +         K  L  ++G++P  Q+++ KG   +D+
Sbjct: 1   GSSGSSGYSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD 60

Query: 123 EFLHMVGVRDKDKVLLL 139
           +    + +++   VL++
Sbjct: 61  D-WGNIKMKNGMTVLMM 76

>2bwf_A Ubiquitin-like protein DSK2; signaling protein, UBA, signaling proteins; 1.15A {Saccharomyces cerevisiae} SCOP: d.15.1.1 PDB: 2bwe_S Length = 77

 Score = 46.4 bits (111), Expect = 7e-08
 Identities = 14/70 (20%), Positives = 33/70 (47%), Gaps = 11/70 (15%)

Query: 70  SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNE------ 123
           S+ I + +     ++++   ST  + K  ++  +G+    QRL++ GK  +D++      
Sbjct: 4   SLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYH 63

Query: 124 -----FLHMV 128
                 +H+V
Sbjct: 64  IQDGHSVHLV 73

>1wxv_A BAG-family molecular chaperone regulator-1; structural genomics, apoptosis, riken structural genomics/proteomics initiative, RSGI, NPPSFA; NMR {Homo sapiens} SCOP: d.15.1.1 Length = 92

 Score = 46.3 bits (109), Expect = 1e-07
 Identities = 21/82 (25%), Positives = 42/82 (51%), Gaps = 6/82 (7%)

Query: 64  GCEGEGSITIRVSTVSKWHDISIKA-----TSTFGELKMILSMVSGLEPREQRLLFKGKE 118
           G  G   +T+ V+  ++ HD+ + +          +L  ++  V G+    Q+L+FKGK 
Sbjct: 1   GSSGSSGLTVTVTHSNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKS 60

Query: 119 -REDNEFLHMVGVRDKDKVLLL 139
            +E    L  +G++D  +V+L+
Sbjct: 61  LKEMETPLSALGIQDGCRVMLI 82

>3m63_B Ubiquitin domain-containing protein DSK2; armadillo-like repeats, UBL conjugation pathway, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} Length = 101

 Score = 45.8 bits (109), Expect = 2e-07
 Identities = 16/73 (21%), Positives = 37/73 (50%)

Query: 66  EGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFL 125
           +G  S+ I + +     ++++   ST  + K  ++  +G+    QRL++ GK  +D++ +
Sbjct: 24  QGAMSLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTV 83

Query: 126 HMVGVRDKDKVLL 138
               ++D   V L
Sbjct: 84  ESYHIQDGHSVHL 96

>1wx8_A Riken cDNA 4931431F19; ubiquitin-like domain, ubiquilin 1-like, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.15.1.1 Length = 96

 Score = 45.1 bits (107), Expect = 3e-07
 Identities = 16/73 (21%), Positives = 24/73 (32%)

Query: 66  EGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFL 125
                I + V T    H+  +   S     K  +S           L+F GK   D + L
Sbjct: 13  PSSRIIRVSVKTPQDCHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDIL 72

Query: 126 HMVGVRDKDKVLL 138
              G+ D   V +
Sbjct: 73  SQRGILDGSTVHV 85

>1v5t_A 8430435I17RIK protein; hypothetical protein, ubiquitin-like fold, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.15.1.1 PDB: 2kx3_A Length = 90

 Score = 44.9 bits (106), Expect = 5e-07
 Identities = 19/80 (23%), Positives = 39/80 (48%), Gaps = 4/80 (5%)

Query: 64  GCEGEGSITIRVSTVSKWHDI-SIKATSTFGELKMILSMVSGLEPREQRLL---FKGKER 119
           G  G   + I V    + + + ++    T  +LK  L  ++G+ P  Q+LL    KGK  
Sbjct: 1   GSSGSSGLPIIVKWGGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPA 60

Query: 120 EDNEFLHMVGVRDKDKVLLL 139
           E++  L  + ++   K++++
Sbjct: 61  ENDVKLGALKLKPNTKIMMM 80

>3m62_B UV excision repair protein RAD23; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} Length = 106

 Score = 43.5 bits (103), Expect = 1e-06
 Identities = 16/69 (23%), Positives = 36/69 (52%), Gaps = 1/69 (1%)

Query: 70  SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVG 129
           S+T +     K   + ++ ++T  E K  L+     E  + +L++ GK  +D++ +   G
Sbjct: 3   SLTFKNFKKEKV-PLDLEPSNTILETKTKLAQSISCEESQIKLIYSGKVLQDSKTVSECG 61

Query: 130 VRDKDKVLL 138
           ++D D+V+ 
Sbjct: 62  LKDGDQVVF 70

>4eew_A Large proline-rich protein BAG6; ubiquitin-like fold, GP78-binding, chaperone; 1.30A {Homo sapiens} Length = 88

 Score = 43.0 bits (102), Expect = 2e-06
 Identities = 14/81 (17%), Positives = 32/81 (39%), Gaps = 11/81 (13%)

Query: 59  QKRESGCEGEGSITIRVSTVS-KWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGK 117
               +  E   S+ + V T+  +     + A     E K  ++    +   +QRL+++G+
Sbjct: 6   DSTSTAVEEPDSLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGR 65

Query: 118 ERED----------NEFLHMV 128
             +D           + +H+V
Sbjct: 66  VLQDDKKLQEYNVGGKVIHLV 86

>4dwf_A HLA-B-associated transcript 3; ubiquitin-like domain, BAT3 protein, PF00240, structural GEN joint center for structural genomics, JCSG; 1.80A {Homo sapiens} PDB: 1wx9_A Length = 90

 Score = 43.0 bits (102), Expect = 2e-06
 Identities = 14/72 (19%), Positives = 31/72 (43%), Gaps = 11/72 (15%)

Query: 68  EGSITIRVSTV-SKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKERED----- 121
             S+ + V T+ S+     + A     E K  ++    +   +QRL+++G+  +D     
Sbjct: 3   PDSLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQ 62

Query: 122 -----NEFLHMV 128
                 + +H+V
Sbjct: 63  EYNVGGKVIHLV 74

>1yqb_A Ubiquilin 3; structural genomics consortium, ubiquitin, ubiquitin-like domain, structural genomics, signaling protein SGC; 2.00A {Homo sapiens} SCOP: d.15.1.1 Length = 100

 Score = 43.1 bits (102), Expect = 2e-06
 Identities = 21/67 (31%), Positives = 29/67 (43%)

Query: 66  EGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFL 125
                I + V T     D S+  T T  +LK  +S      P +  L+F GK  +D + L
Sbjct: 18  GSPHLIKVTVKTPKDKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSL 77

Query: 126 HMVGVRD 132
              GVRD
Sbjct: 78  AQCGVRD 84

>1wx7_A Ubiquilin 3; ubiquitin-like domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: d.15.1.1 Length = 106

 Score = 42.7 bits (101), Expect = 3e-06
 Identities = 23/73 (31%), Positives = 32/73 (43%)

Query: 66  EGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFL 125
           +    I + V T     D S+  T T  +LK  +S      P +  L+F GK  +D + L
Sbjct: 13  QDPHLIKVTVKTPKDKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSL 72

Query: 126 HMVGVRDKDKVLL 138
              GVRD   V L
Sbjct: 73  AQCGVRDGLTVHL 85

>1j8c_A Ubiquitin-like protein hplic-2; ubiquitin-like domain, structural genomics; NMR {Homo sapiens} SCOP: d.15.1.1 Length = 125

 Score = 43.3 bits (102), Expect = 3e-06
 Identities = 16/73 (21%), Positives = 30/73 (41%)

Query: 66  EGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFL 125
                I + V T  +  + ++   S+  + K  +S     +  +  L+F GK  +D + L
Sbjct: 28  AEPKIIKVTVKTPKEKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTL 87

Query: 126 HMVGVRDKDKVLL 138
              G+ D   V L
Sbjct: 88  IQHGIHDGLTVHL 100

>2klc_A Ubiquilin-1; ubiquitin-like, structural genomics, PSI-2, protein structur initiative, northeast structural genomics consortium, NESG; NMR {Homo sapiens} Length = 101

 Score = 42.4 bits (100), Expect = 5e-06
 Identities = 13/74 (17%), Positives = 29/74 (39%)

Query: 59  QKRESGCEGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKE 118
           ++          + + V T  +  + ++   S+  + K  +S        +  L+F GK 
Sbjct: 14  RENLYFQGHPKIMKVTVKTPKEKEEFAVPENSSVQQFKEEISKRFKSHTDQLVLIFAGKI 73

Query: 119 REDNEFLHMVGVRD 132
            +D + L   G+ D
Sbjct: 74  LKDQDTLSQHGIHD 87

>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 Length = 368

 Score = 43.4 bits (101), Expect = 1e-05
 Identities = 19/107 (17%), Positives = 40/107 (37%), Gaps = 4/107 (3%)

Query: 64  GCEGEGSITIRVSTVS-KWHDISIKATSTFGELKMILSMVSGLE---PREQRLLFKGKER 119
           G  G  ++TI + T+  +   I ++   T   LK  +    G +      Q+L++ GK  
Sbjct: 1   GPLGSSAVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKIL 60

Query: 120 EDNEFLHMVGVRDKDKVLLLEDPAIKDMKLHGLRGGQPIGTAYRTIS 166
            D+  +    + +K+ V+++                 P      + S
Sbjct: 61  SDDVPIRDYRIDEKNFVVVMVTKTKAGQGTSAPPEASPTAAPESSTS 107

>1we6_A Splicing factor, putative; structural genomics, ubiquitin-like domain, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: d.15.1.1 Length = 111

 Score = 41.0 bits (96), Expect = 1e-05
 Identities = 14/76 (18%), Positives = 27/76 (35%), Gaps = 3/76 (3%)

Query: 66  EGEGSITIRVSTVSKWHDISIK---ATSTFGELKMILSMVSGLEPREQRLLFKGKEREDN 122
            G  +I +     +    + I     +   G LK  ++    +   +Q+L  K    +DN
Sbjct: 25  PGPATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDN 84

Query: 123 EFLHMVGVRDKDKVLL 138
             L    V   + + L
Sbjct: 85  MSLAHYNVGAGEILTL 100

>1ttn_A DC-UBP, dendritic cell-derived ubiquitin-like protein; ubiquitin-like domain, solution structure, signaling protein; NMR {Homo sapiens} SCOP: d.15.1.1 Length = 106

 Score = 40.5 bits (95), Expect = 3e-05
 Identities = 15/65 (23%), Positives = 25/65 (38%), Gaps = 1/65 (1%)

Query: 62  ESGCEGEGSITIRVSTVS-KWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKERE 120
           E          +R+   + K   + +++T T   +K  L    G+EP  QR  F G+   
Sbjct: 15  EPPPNSGYECQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLT 74

Query: 121 DNEFL 125
           D    
Sbjct: 75  DKMKF 79

>1v5o_A 1700011N24RIK protein; hypothetical protein, ubiquitin-like fold, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.15.1.1 Length = 102

 Score = 39.6 bits (92), Expect = 4e-05
 Identities = 16/82 (19%), Positives = 35/82 (42%), Gaps = 6/82 (7%)

Query: 64  GCEGEGSITIRVSTVSKWHD-----ISIKATSTFGELKMILSMVSGLEPREQRLLFKGKE 118
           G  G   + I V  V +        + +         +++  + SG+   E ++++  + 
Sbjct: 1   GSSGSSGMLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQL 60

Query: 119 -REDNEFLHMVGVRDKDKVLLL 139
             +D+  L   G++D D V+LL
Sbjct: 61  LTDDHCSLGSYGLKDGDMVVLL 82

>2kan_A Uncharacterized protein AR3433A; ubiquitin fold, alpha+beta, structural genomics, protein structure initiative; NMR {Arabidopsis thaliana} Length = 94

 Score = 39.3 bits (92), Expect = 5e-05
 Identities = 15/71 (21%), Positives = 31/71 (43%), Gaps = 1/71 (1%)

Query: 70  SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKE-REDNEFLHMV 128
            I + V   SK   + +  T T   LK  + +V     +  +L + G E  +D   L+  
Sbjct: 15  KIHVTVKFPSKQFTVEVDRTETVSSLKDKIHIVENTPIKRMQLYYSGIELADDYRNLNEY 74

Query: 129 GVRDKDKVLLL 139
           G+ +  ++++ 
Sbjct: 75  GITEFSEIVVF 85

>2dzi_A Ubiquitin-like protein 4A; GDX, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 81

 Score = 38.8 bits (91), Expect = 5e-05
 Identities = 19/76 (25%), Positives = 32/76 (42%), Gaps = 1/76 (1%)

Query: 64  GCEGEGSITIRVSTV-SKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDN 122
           G  G   + + V  +  +   + +        LK ++S    +  R+QRLLFKGK   D 
Sbjct: 1   GSSGSSGMQLTVKALQGRECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADG 60

Query: 123 EFLHMVGVRDKDKVLL 138
           + L    +    K+ L
Sbjct: 61  KRLSDYSIGPNSKLNL 76

>3u5c_F RP14, S2, YS8, 40S ribosomal protein S5; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_F 3o30_D 3o2z_D 3u5g_F 3jyv_G* 2noq_F 1s1h_G 3iz6_F Length = 225

 Score = 39.0 bits (91), Expect = 1e-04
 Identities = 6/88 (6%), Positives = 17/88 (19%), Gaps = 13/88 (14%)

Query: 71  ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGV 130
            T       +     ++  +       I   V   +   +       E  + +   +V  
Sbjct: 3   DTEAPVE-VQEDFEVVEEFTPVVLATPIPEEVQQAQTEIKLFNKWSFEEVEVKDASLVDY 61

Query: 131 RDKDKV-LLLEDPAIKDMKLHGLRGGQP 157
               +   +               G   
Sbjct: 62  VQVRQPIFVAH-----------TAGRYA 78

>1wgd_A Homocysteine-responsive endoplasmic reticulum- resident ubiquitin-like domain member...; ENDPLASMIC reticulum stress, UBL domain; NMR {Homo sapiens} SCOP: d.15.1.1 Length = 93

 Score = 37.6 bits (87), Expect = 2e-04
 Identities = 20/76 (26%), Positives = 35/76 (46%), Gaps = 5/76 (6%)

Query: 64  GCEGEGSITIRVSTVSKWHD---ISIKATSTFGELKMILSMV--SGLEPREQRLLFKGKE 118
           G  G   +T+ V + ++ H    +S     + G LK  LS V      P +QRL++ GK 
Sbjct: 1   GSSGSSGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKL 60

Query: 119 REDNEFLHMVGVRDKD 134
             D++ L  +  + + 
Sbjct: 61  LLDHQCLRDLLPKQEK 76

>3dbh_I NEDD8; cell cycle, activating enzyme, apoptosis, membrane, UBL conjugation pathway, ATP-binding, ligase, nucleotide- binding, polymorphism; 2.85A {Homo sapiens} SCOP: k.45.1.1 PDB: 3dbr_I 3dbl_I Length = 88

 Score = 37.4 bits (87), Expect = 2e-04
 Identities = 25/99 (25%), Positives = 42/99 (42%), Gaps = 17/99 (17%)

Query: 61  RESGCEGEGSITIRVSTVS-KWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKER 119
           R +     GS+ I+V T++ K  +I I+ T     +K  +    G+ P++QRL++ GK+ 
Sbjct: 3   RRASVGSGGSMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQM 62

Query: 120 EDNEFLHMVGVRDKDKVLLLEDPAIKDMKLH---GLRGG 155
            D +      +                  LH    LRGG
Sbjct: 63  NDEKTAADYKIL-------------GGSVLHLVLRLRGG 88

>4dbg_A Ranbp-type and C3HC4-type zinc finger-containing; ubiquitin fold, ubiquitination, ligase; 2.71A {Homo sapiens} PDB: 2lgy_A Length = 105

 Score = 37.7 bits (87), Expect = 2e-04
 Identities = 19/85 (22%), Positives = 30/85 (35%), Gaps = 5/85 (5%)

Query: 60  KRESGCEGEGSITIRVSTVSKW-HDISIK----ATSTFGELKMILSMVSGLEPREQRLLF 114
           + +        I + VS      H ++I        T   LK ++ +  G  P  Q+ + 
Sbjct: 12  QLKPEVSPTQDIRLWVSVEDAQMHTVTIWLTVRPDMTVASLKDMVFLDYGFPPVLQQWVI 71

Query: 115 KGKEREDNEFLHMVGVRDKDKVLLL 139
             +   D E LH  GVR       L
Sbjct: 72  GQRLARDQETLHSHGVRQNGDSAYL 96

>3u5e_m 60S ribosomal protein L40; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3u5i_m 4a18_K 4a19_K 4a1b_K 4a1d_K 4adx_5 3izc_p 3izs_p 3iz5_p 3izr_p Length = 128

 Score = 38.1 bits (88), Expect = 2e-04
 Identities = 16/62 (25%), Positives = 31/62 (50%), Gaps = 1/62 (1%)

Query: 71  ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGV 130
           I ++  T  K   + ++++ T   +K  +    G+ P +QRL+F GK+ ED   L    +
Sbjct: 3   IFVKTLT-GKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 61

Query: 131 RD 132
           + 
Sbjct: 62  QK 63

>2kdb_A Homocysteine-responsive endoplasmic reticulum- resident ubiquitin-like domain member...; UBL domain, membrane, polymorphism, transmembrane; NMR {Homo sapiens} Length = 99

 Score = 36.8 bits (85), Expect = 4e-04
 Identities = 17/68 (25%), Positives = 30/68 (44%), Gaps = 3/68 (4%)

Query: 70  SITIRVSTVSKWH-DISIKATSTFGELKMILSMVSGLEPR--EQRLLFKGKEREDNEFLH 126
           ++ I+          IS     T G+LK  LS V   +P   +QRL++ G+   D+  L 
Sbjct: 25  TLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYPSKPLTKDQRLVYSGRLLPDHLQLK 84

Query: 127 MVGVRDKD 134
            +  +  +
Sbjct: 85  DILRKQDE 92

>1ndd_A NEDD8, protein (ubiquitin-like protein NEDD8); proteolysis, signaling protei; 1.60A {Homo sapiens} SCOP: d.15.1.1 PDB: 1r4m_I 1r4n_I* 1xt9_B 2ko3_A 3gzn_I* 2bkr_B 2nvu_I* 3dqv_A 1bt0_A Length = 76

 Score = 36.1 bits (84), Expect = 5e-04
 Identities = 21/85 (24%), Positives = 37/85 (43%), Gaps = 11/85 (12%)

Query: 71  ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGV 130
           I ++  T  K  +I I+ T     +K  +    G+ P++QRL++ GK+  D +      +
Sbjct: 3   IKVKTLT-GKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKI 61

Query: 131 RDKDKVLLLEDPAIKDMKLHGLRGG 155
                + L+         L  LRGG
Sbjct: 62  LGGSVLHLV---------LA-LRGG 76

>4fbj_B NEDD8; effector-HOST target complex, glutamine deamidase, deamidati bacterial effector, cell cycle-protein binding complex; 1.60A {Homo sapiens} PDB: 4f8c_B Length = 88

 Score = 36.5 bits (85), Expect = 5e-04
 Identities = 21/88 (23%), Positives = 38/88 (43%), Gaps = 11/88 (12%)

Query: 71  ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGV 130
           I ++  T  K  +I I+ T     +K  +    G+ P++QRL++ GK+  D +      +
Sbjct: 3   IKVKTLT-GKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKI 61

Query: 131 RDKDKVLLLEDPAIKDMKLHGLRGGQPI 158
                + L+         L  LRGG  +
Sbjct: 62  LGGSVLHLV---------LA-LRGGGGL 79

>3shq_A UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila melanogaster} Length = 320

 Score = 38.3 bits (88), Expect = 6e-04
 Identities = 14/75 (18%), Positives = 33/75 (44%), Gaps = 3/75 (4%)

Query: 68  EGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLL---FKGKEREDNEF 124
              + + V    K + + +    T   L+  +   + + P  Q+LL   +KGK   DN  
Sbjct: 3   VKEVVVIVKWSGKEYPVDLTDQDTVEVLRHEIFRKTQVRPERQKLLNLKYKGKTAADNVK 62

Query: 125 LHMVGVRDKDKVLLL 139
           +  + ++   K++++
Sbjct: 63  ISALELKPNFKLMMV 77

>1wia_A Hypothetical ubiquitin-like protein (riken cDNA 2010008E23); 'structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.15.1.1 Length = 95

 Score = 36.5 bits (84), Expect = 6e-04
 Identities = 12/78 (15%), Positives = 30/78 (38%), Gaps = 5/78 (6%)

Query: 64  GCEGEGSITIRVSTVS-KWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKE-RED 121
           G  G   I +R+  ++        +   T G LK   S     +  + +L+++G+  ++ 
Sbjct: 1   GSSGSSGINVRLKFLNDTEELAVARPEDTVGTLK---SKYFPGQESQMKLIYQGRLLQDP 57

Query: 122 NEFLHMVGVRDKDKVLLL 139
              L  + + +   +   
Sbjct: 58  ARTLSSLNITNNCVIHCH 75

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	167
1wgg_A	96	Ubiquitin carboxyl-terminal hydrolase 14; ubiquiti	99.83
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	99.83
1v5t_A	90	8430435I17RIK protein; hypothetical protein, ubiqu	99.83
3plu_A	93	Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-	99.83
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	99.82
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	99.82
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	99.8
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	99.8
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	99.8
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	99.8
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	99.8
1wxv_A	92	BAG-family molecular chaperone regulator-1; struct	99.8
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	99.79
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	99.79
1uh6_A	100	Ubiquitin-like 5; beta-grAsp fold, structural geno	99.79
3v6c_B	91	Ubiquitin; structural genomics, structural genomic	99.79
2lxa_A	87	Ubiquitin-like protein MDY2; ubiquitin-like domain	99.79
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	99.78
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	99.78
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	99.78
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	99.78
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	99.78
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	99.77
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	99.77
4a20_A	98	Ubiquitin-like protein MDY2; protein binding, GET-	99.77
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	99.77
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	99.77
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	99.77
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	99.76
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	99.76
1wju_A	100	NEDD8 ultimate buster-1; ubiquitin-like domain, st	99.76
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	99.76
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	99.76
4hcn_B	98	Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidas	99.76
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	99.75
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	99.75
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	99.75
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	99.75
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	99.75
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	99.75
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	99.74
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	99.74
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	99.74
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	99.74
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	99.73
2kdb_A	99	Homocysteine-responsive endoplasmic reticulum- res	99.73
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	99.72
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	99.72
3vdz_A	111	Ubiquitin-40S ribosomal protein S27A; gadolinium,	99.72
2fnj_B	118	Transcription elongation factor B polypeptide 2; b	99.71
3shq_A	320	UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila	99.71
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	99.55
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	99.71
1we6_A	111	Splicing factor, putative; structural genomics, ub	99.7
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	99.7
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	99.7
1x1m_A	107	Ubiquitin-like protein SB132; structural genomics,	99.7
4ajy_B	118	Transcription elongation factor B polypeptide 2; E	99.69
4b6w_A	86	Tubulin-specific chaperone; CAP-Gly, ubiquitin-lik	99.69
2dzm_A	100	FAS-associated factor 1; ubiquitin-like domain, HF	99.69
1wgh_A	116	Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fo	99.69
1wia_A	95	Hypothetical ubiquitin-like protein (riken cDNA 20	99.69
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	99.68
1v2y_A	105	3300001G02RIK protein; hypothetical protein, ubiqu	99.68
2daf_A	118	FLJ35834 protein; hypothetical protein FLJ35834, u	99.68
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	99.68
2gow_A	125	HCG-1 protein, ubiquitin-like protein 3; BC059385,	99.68
2kjr_A	95	CG11242; UBL, ubiquitin, ubiquitin-like, structura	99.67
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	99.67
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	99.67
4dbg_A	105	Ranbp-type and C3HC4-type zinc finger-containing;	99.66
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	99.66
1v6e_A	95	Cytoskeleton-associated protein 1; tubulin-specifi	99.66
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	99.65
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	99.65
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	99.65
2kj6_A	97	Tubulin folding cofactor B; methods development, N	99.64
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	99.63
3u5c_f	152	40S ribosomal protein S31; translation, ribosome,	99.6
1se9_A	126	Ubiquitin family; ubiquitin-like, cell-free, wheat	99.6
1wf9_A	107	NPL4 family protein; beta-grAsp fold like domain,	99.58
1t0y_A	122	Tubulin folding cofactor B; ubiquitin-like, cytosk	99.57
2dzj_A	88	Synaptic glycoprotein SC2; ubiquitin-like fold, st	99.56
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	99.55
2kzr_A	86	Ubiquitin thioesterase OTU1; structural genomics,	99.52
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	99.51
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	99.4
1wjn_A	97	Tubulin-folding protein TBCE; ubiquitin-like domai	99.39
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	99.36
1wm3_A	72	Ubiquitin-like protein SMT3B; ubiquitin fold, half	99.3
3a4r_A	79	Nfatc2-interacting protein; ubiquitin fold, coiled	99.29
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	99.26
2d07_B	93	Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Ho	99.22
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	99.2
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	99.14
2eke_C	106	Ubiquitin-like protein SMT3; UBC9, SUMO binding mo	99.14
3kyd_D	115	Small ubiquitin-related modifier 1; SUMO, thioeste	98.81
2pjh_A	80	Protein NPL4, nuclear protein localization protein	98.79
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	98.76
3tix_A	207	Ubiquitin-like protein SMT3, RNA-induced transcri	98.65
4efo_A	94	Serine/threonine-protein kinase TBK1; ubiquitin li	98.65
3v7o_A	227	Minor nucleoprotein VP30; ssgcid, seattle structur	98.24
2jxx_A	97	Nfatc2-interacting protein; nuclear factor of acti	98.23
3uf8_A	209	Ubiquitin-like protein SMT3, peptidyl-prolyl CIS-	98.15
3goe_A	82	DNA repair protein RAD60; SUMO-like domain, sumoyl	98.14
3ix6_A	360	TS, tsase, thymidylate synthase; niaid, ssgcid, se	98.12
2bps_A	81	YUKD protein; ubiquitin-like protein, ubiquitin; 2	97.95
2l76_A	95	Nfatc2-interacting protein; ubiquitin-like domain,	97.87
4da1_A	389	Protein phosphatase 1K, mitochondrial; metal-ION-a	97.83
1wj4_A	124	KIAA0794 protein; UBX domain, beta-grAsp fold, str	97.72
2al3_A	90	TUG long isoform; TUG UBL1 insulin, endocytosis/ex	97.66
2kc2_A	128	Talin-1, F1; FERM, adhesion, cell membrane, cell p	97.51
3qx1_A	84	FAS-associated factor 1; UBX, protein binding, P97	97.26
1oey_A	83	P67-PHOX, neutrophil cytosol factor 2; immune syst	96.1
2l32_A	74	Small archaeal modifier protein 2; protein BIN; NM	96.09
1ryj_A	70	Unknown; beta/alpha protein, structural genomics,	96.07
4a3p_A	217	Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {H	96.02
2dzk_A	109	UBX domain-containing protein 2; ubiquitin-like fo	96.0
3jyu_A	231	Ubiquitin carboxyl-terminal hydrolase; domain in u	95.98
3ivf_A	371	Talin-1; FERM domain, cell membrane, cell projecti	95.89
1vd2_A	89	Protein kinase C, IOTA type; PB1 domain, OPCA moti	95.37
1ip9_A	85	BEM1 protein; ubiquitin alpha/beta roll, signaling	95.36
2cr5_A	109	Reproduction 8; UBX domain, D0H8S2298E protein, st	95.09
1s3s_G	127	P47 protein; AAA ATPase, protein-protein complex,	94.26
2daj_A	91	KIAA0977 protein, COBL-like 1; ubiquitin-like doma	93.9
4e71_A	111	Plexin-B2, MM1; transmembrane, signaling, RBD, str	93.58
4eut_A	396	Serine/threonine-protein kinase TBK1; ATP binding,	93.34
3rpf_C	74	Molybdopterin converting factor, subunit 1 (MOAD);	92.73
2kvr_A	130	Ubiquitin carboxyl-terminal hydrolase 7; USP7, ubi	92.57
1vjk_A	98	Molybdopterin converting factor, subunit 1; struct	92.49
2r2o_A	138	Plexin-B1; effector domain, structural genomics, s	92.15
1wgk_A	114	Riken cDNA 2900073H19 protein; THis domain, ubiqut	91.02
3h6n_A	127	Plexin-D1; structural genomics consortium, SGC, me	90.47
1tyg_B	87	YJBS; alpha beta barrel, protein-protein complex,	90.46
2qjl_A	99	URM1, ubiquitin-related modifier 1; ubiquitin-like	90.28
2hj1_A	97	Hypothetical protein; structural genomics, PSI, pr	89.13
4e74_A	117	Plexin-A4; RBD, structural genomics, structural ge	88.89
3po0_A	89	Small archaeal modifier protein 1; ubiquitin-like	88.76
1fm0_D	81	Molybdopterin convertin factor, subunit 1; molybde	88.72
1f0z_A	66	THis protein; ubiquitin fold, transport protein; N	88.62
2cu3_A	64	Unknown function protein; thermus thermophilus HB8	88.6
3kuz_A	126	Plexin-C1; structural genomics, structural genomic	87.94
1q1o_A	98	Cell division control protein 24; PB1 domain, PCCR	87.89
3qa8_A	676	MGC80376 protein; kinase ubiquitin-like domain, ph	87.58
2kl0_A	73	Putative thiamin biosynthesis THis; structural gen	86.08
1y8x_B	98	Ubiquitin-activating enzyme E1C; ubiquitin-conjuga	85.35
2eel_A	91	Cell death activator CIDE-A; CIDE-N domain, cell d	84.92
2q5w_D	77	Molybdopterin converting factor, subunit 1; MOCO,	84.58
2ylm_A	530	Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70	83.73
1rws_A	77	Hypothetical protein PF1061; residual dipolar coup	83.05
2l52_A	99	Methanosarcina acetivorans SAMP1 homolog; beta-grA	82.91
2g1e_A	90	Hypothetical protein TA0895; MOAD, molybdopterin,	81.96
3ge3_C	84	Toluene-4-monooxygenase system protein B; DIIRON h	81.87
1wgr_A	100	Growth factor receptor-bound protein 7; RA domain,	81.32
2juo_A	89	GA-binding protein alpha chain; OST, ubiquitin, tr	81.27
3hm6_X	644	Plexin-B1; structural genomics consortium, SGC, me	80.19

>1wgg_A Ubiquitin carboxyl-terminal hydrolase 14; ubiquitin specific protease 14, USP14, ubiquitin-like fold, structural genomics; NMR {Mus musculus} SCOP: d.15.1.1

Probab=99.83  E-value=1.2e-20  Score=137.04  Aligned_cols=76  Identities=16%  Similarity=0.271  Sum_probs=72.1

Q ss_pred             CCceEEEEEeeCCEEE-EEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecCCc
Q 031040           67 GEGSITIRVSTVSKWH-DISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDPA  143 (167)
Q Consensus        67 ~~p~I~I~Vk~g~~~~-~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~p~  143 (167)
                      +..+|+|+|+++++.| .|+|++++||.+||++|++.+|+||++|||+|+||.|+|+ +|++|||+++++|+|+.++.
T Consensus         4 ~~~~m~i~Vk~~g~~~~~l~v~~~~TV~~lK~~I~~~tgip~~~QkLi~~Gk~L~D~-tL~~~~I~~g~~i~l~~~~~   80 (96)
T 1wgg_A            4 GSSGYSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD-DWGNIKMKNGMTVLMMGSAD   80 (96)
T ss_dssp             CCCEEEEEEEETTEEEEEEEEESSSCHHHHHHHHHHHTCCCTTTSCCEETTEECCSS-CCCSCCCCSSCEEECCCCCC
T ss_pred             CCcEEEEEEEECCEEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCcCCCCC-CHHHCCCCCCCEEEEEecch
Confidence            4568999999988999 6999999999999999999999999999999999999999 99999999999999998766

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

Probab=99.83  E-value=1.6e-20  Score=142.55  Aligned_cols=92  Identities=20%  Similarity=0.203  Sum_probs=83.8

Q ss_pred             cceeeEecCCceeEEeecCCCCCCceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcch
Q 031040           45 HEIKWELRPGGMLVQKRESGCEGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEF  124 (167)
Q Consensus        45 ~~~~we~rpggmlvq~r~~~~~~~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~t  124 (167)
                      ....||.+|.|+.+++-+     ..+|+|+|++.++.+.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+
T Consensus        12 ~~~~~~~~~~~s~~~~~~-----~~~m~I~Vk~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~t   86 (125)
T 1j8c_A           12 RPSRGPAAAQGSAAAPAE-----PKIIKVTVKTPKEKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDT   86 (125)
T ss_dssp             SSCCCSCCCCCSSSCCCC-----CCCEEEEEECSSCEEEEEECTTCCHHHHHHHHHHHHCSCSSSEEEEETTEEESTTSC
T ss_pred             ChhhCCcCCCCCCcccCC-----CCcEEEEEEeCCeEEEEEECCCCcHHHHHHHHHHHHCcCcceEEEEECCEEcCCCCC
Confidence            445799999999988765     357899999866788999999999999999999999999999999999999999999


Q ss_pred             hhhcCCCCCCEEEEecC
Q 031040          125 LHMVGVRDKDKVLLLED  141 (167)
Q Consensus       125 L~~~GIkdgskL~Lv~~  141 (167)
                      |++|||+++++|+|+..
T Consensus        87 L~dygI~~gstI~lv~~  103 (125)
T 1j8c_A           87 LIQHGIHDGLTVHLVIK  103 (125)
T ss_dssp             GGGTTCSSSEEEEEEEC
T ss_pred             HHHcCCCCCCEEEEEec
Confidence            99999999999999864

>1v5t_A 8430435I17RIK protein; hypothetical protein, ubiquitin-like fold, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.15.1.1 PDB: 2kx3_A

Probab=99.83  E-value=1.1e-20  Score=135.04  Aligned_cols=77  Identities=23%  Similarity=0.391  Sum_probs=73.1

Q ss_pred             CCceEEEEEeeCCEEEEE-EEcCCCCHHHHHHHHHhhhCCCCCceEEE---EcCeecCCcchhhhcCCCCCCEEEEecCC
Q 031040           67 GEGSITIRVSTVSKWHDI-SIKATSTFGELKMILSMVSGLEPREQRLL---FKGKEREDNEFLHMVGVRDKDKVLLLEDP  142 (167)
Q Consensus        67 ~~p~I~I~Vk~g~~~~~V-eV~~t~TV~eLK~~Ia~~TGVppe~QKLi---fkGK~LdD~~tL~~~GIkdgskL~Lv~~p  142 (167)
                      ..++|+|+|+++++.|.| +|++++||.+||++|++.+|+||++|||+   |+|++|+|+.+|++|+|+++++|+|+.+|
T Consensus         4 ~~~~m~i~Vk~~g~~~~i~~v~~~~TV~~lK~~I~~~~gip~~~QkLi~~k~~Gk~L~D~~~L~~~~i~~g~~l~l~~~~   83 (90)
T 1v5t_A            4 GSSGLPIIVKWGGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLGALKLKPNTKIMMMGTR   83 (90)
T ss_dssp             CCCSCCEEEEETTEEEEECSCCSSSBHHHHHHHHHHHTCCCTTTCEEESCEETTEECCTTSBHHHHTCCTTEEEEEECCC
T ss_pred             CCceEEEEEEECCEEEEEEEeCCCCCHHHHHHHHHHHHCcCHHHeEEEeeccCCcCcCCCCCHHHcCCCCCCEEEEEecC
Confidence            356799999998899999 99999999999999999999999999999   99999999999999999999999999887


Q ss_pred             c
Q 031040          143 A  143 (167)
Q Consensus       143 ~  143 (167)
                      +
T Consensus        84 ~   84 (90)
T 1v5t_A           84 E   84 (90)
T ss_dssp             S
T ss_pred             c
Confidence            6

>3plu_A Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-1, SNU66, peptide binding protein; 1.40A {Saccharomyces cerevisiae} PDB: 3plv_A 1m94_A 1p0r_A

Probab=99.83  E-value=2.6e-20  Score=136.94  Aligned_cols=74  Identities=23%  Similarity=0.297  Sum_probs=68.5

Q ss_pred             CCCceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEe
Q 031040           66 EGEGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        66 ~~~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      +.+|+|+|+|++ .++++.|+++|++||++||++|++.+|+||++|+|+|.|++|+|+.+|++|+|++|++|+|.
T Consensus        17 ~~~~mIqI~Vk~~~Gkk~~v~v~p~DTI~~LK~~I~~k~Gip~~qQrLif~Gk~LkD~~TL~dY~I~dgstLhL~   91 (93)
T 3plu_A           17 RGSHMIEVVVNDRLGKKVRVKCLGEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLEDYEVHDQTNLELY   91 (93)
T ss_dssp             ---CEEEEEEECTTSCEEEEEEETTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEE
T ss_pred             CCCceEEEEEECCCCCEEEEEECCcCHHHHHHHHHHHHhCCCHHHEEEEeCCEEccCcCCHHHcCCCCCCEEEEE
Confidence            357899999997 66899999999999999999999999999999999999999999999999999999999984

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

Probab=99.82  E-value=1.1e-19  Score=123.56  Aligned_cols=74  Identities=20%  Similarity=0.365  Sum_probs=69.7

Q ss_pred             eEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecCCc
Q 031040           70 SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDPA  143 (167)
Q Consensus        70 ~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~p~  143 (167)
                      .|+|+|+++++.+.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||++|++|+|+..|+
T Consensus         4 ~m~i~vk~~g~~~~~~v~~~~tV~~LK~~i~~~~~i~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~~~   77 (77)
T 2bwf_A            4 SLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKSQP   77 (77)
T ss_dssp             EEEEEEEETTEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECCC
T ss_pred             EEEEEEEECCEEEEEEECCCCcHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCCHHHcCCCCCCEEEEEEcCC
Confidence            38899998778999999999999999999999999999999999999999999999999999999999987653

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

Probab=99.82  E-value=7.5e-20  Score=125.85  Aligned_cols=72  Identities=24%  Similarity=0.269  Sum_probs=68.3

Q ss_pred             ceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           69 GSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        69 p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      +.|+|+|++ .++++.++|++++||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++|||+++++|+|+.
T Consensus         3 ~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~l~l~~   75 (79)
T 3phx_B            3 EPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNL   75 (79)
T ss_dssp             CCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEE
T ss_pred             CCEEEEEEeCCCCEEEEEECCcChHHHHHHHHHhhcCCCHHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEE
Confidence            568999998 568899999999999999999999999999999999999999999999999999999999975

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

Probab=99.80  E-value=2e-19  Score=125.29  Aligned_cols=74  Identities=26%  Similarity=0.379  Sum_probs=69.6

Q ss_pred             CCceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           67 GEGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        67 ~~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ....|+|+|++ .++.+.++|++++||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++|+|+++++|+|+.
T Consensus         9 ~~~~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~i~l~~   83 (88)
T 3dbh_I            9 SGGSMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVL   83 (88)
T ss_dssp             CCCCEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTSBGGGGTCCTTCEEEECC
T ss_pred             CCCcEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcCHHHEEEEECCeECCCCCcHHHcCCCCCCEEEEEE
Confidence            45679999997 568899999999999999999999999999999999999999999999999999999999975

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

Probab=99.80  E-value=8.9e-20  Score=131.77  Aligned_cols=75  Identities=24%  Similarity=0.396  Sum_probs=69.7

Q ss_pred             CceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecCCc
Q 031040           68 EGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDPA  143 (167)
Q Consensus        68 ~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~p~  143 (167)
                      ..+|+|+|++.+++|.|+|++++||.+||++|++.+|+||++|||+|+|+.|+| .+|++|+|+++++|+|+..++
T Consensus        15 ~~~~~i~Vk~~g~~~~i~v~~~~TV~~LK~~I~~~tgip~~~QrL~~~Gk~Ldd-~tL~~~~i~~g~~i~lv~~~~   89 (95)
T 1v86_A           15 KELVDLKIIWNKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGLVPED-KTLREIKVTSGAKIMVVGSTI   89 (95)
T ss_dssp             CCCEEEEEEETTEEEEEEECTTSBHHHHHHHHHHHHCSCSTTCCCBSSSBCCSS-SBHHHHCCCTTEEEEECCSSC
T ss_pred             CceEEEEEEECCEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCeeCCc-CcHHHCCCCCCCEEEEEeccc
Confidence            457999999988999999999999999999999999999999999999999955 599999999999999998654

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

Probab=99.80  E-value=1.7e-19  Score=127.83  Aligned_cols=74  Identities=9%  Similarity=0.104  Sum_probs=69.4

Q ss_pred             ceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCee-cCCcchhhhcCCCCCCEEEEecCC
Q 031040           69 GSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKE-REDNEFLHMVGVRDKDKVLLLEDP  142 (167)
Q Consensus        69 p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~-LdD~~tL~~~GIkdgskL~Lv~~p  142 (167)
                      ..|+|+|++ .++.+.++|++++||++||++|++.+|+||++|+|+|+|++ |+|+.+|++|||++|++|+|+..|
T Consensus         9 ~~~~i~vk~l~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~lL~D~~tL~~y~I~~gs~i~lv~~p   84 (84)
T 2kk8_A            9 SHMKFLVENLNGSSFELEVDYRDTLLVVKQKIERSQHIPVSKQTLIVDGIVILREDLTVEQCQIVPTSDIQLEVSS   84 (84)
T ss_dssp             CCEEEEEEETTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCCSSSBHHHHTCCTTSCEEEEECC
T ss_pred             CceEEEEEecCCcEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCEEecCCcCCHHHcCCCCCCEEEEEEcC
Confidence            468999997 55889999999999999999999999999999999999999 999999999999999999998765

>4dwf_A HLA-B-associated transcript 3; ubiquitin-like domain, BAT3 protein, PF00240, structural GEN joint center for structural genomics, JCSG; 1.80A {Homo sapiens} PDB: 1wx9_A

Probab=99.80  E-value=2.6e-19  Score=126.10  Aligned_cols=74  Identities=22%  Similarity=0.304  Sum_probs=69.3

Q ss_pred             CCceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           67 GEGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        67 ~~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      .+++|+|+|++ .++++.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++||| ++++|+|+..
T Consensus         2 ~~~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~d~~tL~~~~i-~g~~i~l~~~   76 (90)
T 4dwf_A            2 EPDSLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLVER   76 (90)
T ss_dssp             CCCEEEEEEEETTCCEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTC-TTEEEEEEEC
T ss_pred             CCcEEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCeECCCCCCHHHcCC-CCcEEEEEec
Confidence            35789999998 56889999999999999999999999999999999999999999999999999 8999999864

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

Probab=99.80  E-value=2e-19  Score=126.17  Aligned_cols=72  Identities=22%  Similarity=0.318  Sum_probs=67.9

Q ss_pred             CceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           68 EGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        68 ~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ++.|+|+|++ .++++.++|++++||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++||| +|++|||+.
T Consensus        15 ~~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i-~g~~i~lv~   87 (88)
T 4eew_A           15 PDSLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLVE   87 (88)
T ss_dssp             CCEEEEEEEETTSCEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTC-TTEEEEEEE
T ss_pred             CCeEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEECCCCCcHHHcCC-CCcEEEEEE
Confidence            5679999998 56889999999999999999999999999999999999999999999999999 899999974

>1wxv_A BAG-family molecular chaperone regulator-1; structural genomics, apoptosis, riken structural genomics/proteomics initiative, RSGI, NPPSFA; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=99.80  E-value=2.1e-19  Score=127.76  Aligned_cols=78  Identities=24%  Similarity=0.467  Sum_probs=71.1

Q ss_pred             CCceEEEEEeeCCEEEEEEEcCC-----CCHHHHHHHHHhhhCCCCCceEEEEcCeecCC-cchhhhcCCCCCCEEEEec
Q 031040           67 GEGSITIRVSTVSKWHDISIKAT-----STFGELKMILSMVSGLEPREQRLLFKGKERED-NEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        67 ~~p~I~I~Vk~g~~~~~VeV~~t-----~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD-~~tL~~~GIkdgskL~Lv~  140 (167)
                      ...+|+|+|++.++.|.|+|+++     +||.+||++|++.+|+||++|+|+|+|+.|+| +.+|++|||+++++|+|+.
T Consensus         4 ~~~~~~v~Vk~~~~~~~i~v~~~~~~~~~TV~~LK~~i~~~~gip~~~qrL~~~Gk~L~D~~~~L~~~~i~~g~~i~l~~   83 (92)
T 1wxv_A            4 GSSGLTVTVTHSNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLIG   83 (92)
T ss_dssp             CCSSEEEEEECSSSEEEEEECCCSSSSSCBHHHHHHHHHHHTCCCTTTCEEEETTEEECCSSSBHHHHTCCSSEEEEEES
T ss_pred             CCCeEEEEEEECCEEEEEEECCCcCcccCcHHHHHHHHHHHHCcCHHHEEEEECCeecCCCcccHHHCCCCCCCEEEEEe
Confidence            35689999999778899999996     99999999999999999999999999999998 5589999999999999998


Q ss_pred             CCch
Q 031040          141 DPAI  144 (167)
Q Consensus       141 ~p~~  144 (167)
                      .+..
T Consensus        84 ~~~~   87 (92)
T 1wxv_A           84 KKNS   87 (92)
T ss_dssp             CCSC
T ss_pred             cCCC
Confidence            6553

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

Probab=99.79  E-value=3.8e-19  Score=121.85  Aligned_cols=76  Identities=25%  Similarity=0.373  Sum_probs=70.1

Q ss_pred             CCceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecCC
Q 031040           67 GEGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDP  142 (167)
Q Consensus        67 ~~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~p  142 (167)
                      ++..|+|+|++ .++.+.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||++|++|+|+..+
T Consensus         4 ~~~~m~i~vk~~~g~~~~~~v~~~~tV~~LK~~i~~~~~i~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~~   80 (81)
T 2dzi_A            4 GSSGMQLTVKALQGRECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADGKRLSDYSIGPNSKLNLVVKP   80 (81)
T ss_dssp             SSSSEEEEEEETTSCEEEEEECSSCBHHHHHHHHHHHTCCCTTTCEEEETTEECCTTSBGGGGTCCSSBCCEEECCC
T ss_pred             CCCcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEeC
Confidence            45679999996 45788999999999999999999999999999999999999999999999999999999998653

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

Probab=99.79  E-value=4.8e-19  Score=122.84  Aligned_cols=75  Identities=19%  Similarity=0.245  Sum_probs=68.7

Q ss_pred             CceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhh---hCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecCC
Q 031040           68 EGSITIRVST-VSKWHDISIKATSTFGELKMILSMV---SGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDP  142 (167)
Q Consensus        68 ~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~---TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~p  142 (167)
                      +..|+|+|++ .++.+.++|++++||.+||++|++.   +|+|+++|+|+|+|+.|+|+.+|++|||++|++|+|+..+
T Consensus         3 ~~~m~i~vk~~~g~~~~~~v~~~~TV~~lK~~i~~~~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~i~l~~~~   81 (85)
T 2wyq_A            3 PMAVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVTK   81 (85)
T ss_dssp             -CCEEEEEEETTSCEEEEEECTTSBHHHHHHHHHHHHCTTTCCGGGEEEEETTEECCTTSBGGGGCCCTTSEEEEEEC-
T ss_pred             CceEEEEEEECCCCEEEEEECCCCCHHHHHHHHHhhccccCCCHHHeEEEECCEECcCCCCHHHcCCCCCCEEEEEEcC
Confidence            4678999998 4588999999999999999999997   8999999999999999999999999999999999998754

>1uh6_A Ubiquitin-like 5; beta-grAsp fold, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: d.15.1.1

Probab=99.79  E-value=1.7e-19  Score=133.76  Aligned_cols=74  Identities=16%  Similarity=0.106  Sum_probs=69.5

Q ss_pred             CCCceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEe
Q 031040           66 EGEGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        66 ~~~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      +++++|+|+|++ .++++.|+|++++||++||++|++.+|+||++|+|+|.||+|+|+.+|++|||+++++|+|.
T Consensus        24 ~~~~mm~I~VKtl~Gk~i~lev~p~dTV~~lK~~Ia~k~Gip~~qQrLi~~Gk~L~D~~TL~dygI~~gstlhL~   98 (100)
T 1uh6_A           24 GAATMIEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDYEIHDGMNLELY   98 (100)
T ss_dssp             SCCCEEEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCSSCBHHHHTCCTTEEEEEE
T ss_pred             CCCCeEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCHHHEEEEECCEECCCCCCHHHcCCCCCCEEEEE
Confidence            356789999997 36889999999999999999999999999999999999999999999999999999999986

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

Probab=99.79  E-value=5.1e-19  Score=125.51  Aligned_cols=74  Identities=26%  Similarity=0.424  Sum_probs=69.4

Q ss_pred             CCceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           67 GEGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        67 ~~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      .+..|+|+|++ .++++.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||++|++|+|+.
T Consensus        14 ~~~~m~i~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~   88 (91)
T 3v6c_B           14 PRGSMQIFVNTLTGTHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL   88 (91)
T ss_dssp             CCCSEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTCBTGGGTCCTTCEEEEEC
T ss_pred             CCCeEEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCCChhhEEEEECCeECCCcCcHHHCCCCCCCEEEEEE
Confidence            35679999996 558899999999999999999999999999999999999999999999999999999999975

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

Probab=99.79  E-value=1.4e-19  Score=130.25  Aligned_cols=75  Identities=23%  Similarity=0.288  Sum_probs=67.7

Q ss_pred             eEEEEEee-CCEEEEEEEc--CCCCHHHHHHHH-HhhhCCCCCceEEEEcCeecCCcchhhhcCC-CCCCEEEEecCCch
Q 031040           70 SITIRVST-VSKWHDISIK--ATSTFGELKMIL-SMVSGLEPREQRLLFKGKEREDNEFLHMVGV-RDKDKVLLLEDPAI  144 (167)
Q Consensus        70 ~I~I~Vk~-g~~~~~VeV~--~t~TV~eLK~~I-a~~TGVppe~QKLifkGK~LdD~~tL~~~GI-kdgskL~Lv~~p~~  144 (167)
                      +|+|+||+ .++++.|+|+  +++||.+||++| ++.+|+||++|||+|+||+|+|+.+|++|+| +++++|+|+..|..
T Consensus         1 mmqI~VKtl~g~~~~i~v~v~~~~TV~~lK~~I~~~~~gip~~~QrLi~~Gk~L~D~~tL~~y~I~~~~stl~v~~~~~~   80 (87)
T 2lxa_A            1 MVHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTITVMIKPNL   80 (87)
T ss_dssp             CCEEEEEECSSSCEECCEECCTTCBHHHHHHHHHHTTSCSSSTTEEEEETTEECCTTCBHHHHCCCGGGCEEEEEECCCC
T ss_pred             CEEEEEEcCCCCEEEEEEcCCCCCcHHHHHHHHHHHhcCCChHHEEEEECCEECcCcCCHHHcCCCCCCCEEEEEcCCCc
Confidence            47899998 4466777655  999999999999 9999999999999999999999999999999 69999999998874

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

Probab=99.78  E-value=8.5e-19  Score=124.12  Aligned_cols=76  Identities=26%  Similarity=0.376  Sum_probs=71.0

Q ss_pred             CceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecCCc
Q 031040           68 EGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDPA  143 (167)
Q Consensus        68 ~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~p~  143 (167)
                      -.++.+.++++++.+.++|++++||++||++|++.+|+||++|+|+|+|+.|+|+.+|++|||++|++|+|+..|.
T Consensus        10 ~~~~~~~~~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~l~l~~s~~   85 (85)
T 2kd0_A           10 HSTIKLTVKFGGKSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVETSTLKQSDVGSGAKLMLMASQG   85 (85)
T ss_dssp             CCCEEEEEEETTEEEEEEECTTSBHHHHHHHHHHHHCCCTTTCEEEETTEECCTTCBTTTTTCCTTEEEEEECCCC
T ss_pred             CCcEEEEEEECCEEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCeECCCcCCHHHCCCCCCCEEEEEEeCC
Confidence            3567888888889999999999999999999999999999999999999999999999999999999999998763

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

Probab=99.78  E-value=1e-18  Score=121.93  Aligned_cols=75  Identities=25%  Similarity=0.315  Sum_probs=70.4

Q ss_pred             CCceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           67 GEGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        67 ~~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      ++++|+|+|++ .++++.++|++++||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++|+|+++++|+|+..
T Consensus         4 ~~~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~qrL~~~Gk~L~d~~tL~~~~i~~g~~i~l~~~   79 (87)
T 1wh3_A            4 GSSGIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYGIQDSDTLILSKK   79 (87)
T ss_dssp             CSSSEEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTCCCTTTEEEEETTEECCSSSBHHHHTCCTTEEEEEEEC
T ss_pred             CCCCEEEEEEcCCCCEEEEEeCCCChHHHHHHHHHHHhCCChHHEEEEECCEEccCCCCHHHCCCCCCCEEEEEEe
Confidence            46789999998 4688999999999999999999999999999999999999999999999999999999999864

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

Probab=99.78  E-value=9.8e-19  Score=120.52  Aligned_cols=72  Identities=26%  Similarity=0.406  Sum_probs=67.5

Q ss_pred             ceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           69 GSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        69 p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ++|+|+|++ .++++.++|++++||.+||++|++.+++||++|+|+|+|+.|+|+.+|++|+|+++++|+|+.
T Consensus         2 s~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~i~~~~qrL~~~g~~L~d~~tL~~~~i~~~~~l~l~~   74 (85)
T 3mtn_B            2 SHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKWSTLFLLL   74 (85)
T ss_dssp             -CEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTGGGTCCTTCEEEEEC
T ss_pred             CeEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcChHHEEEEECCEECCCCCCHHHcCCCCCCEEEEEE
Confidence            568999997 458899999999999999999999999999999999999999999999999999999999985

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

Probab=99.78  E-value=6.6e-19  Score=121.63  Aligned_cols=72  Identities=25%  Similarity=0.410  Sum_probs=66.4

Q ss_pred             ceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           69 GSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        69 p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ++|+|+|++ .++++.++|++++||.+||++|++.+++||++|+|+|+|++|+|+.+|++|+|+++++|+|+.
T Consensus         2 s~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~ip~~~qrL~~~g~~L~d~~tL~~~~i~~~~~i~l~~   74 (85)
T 3n3k_B            2 SHMRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIHNHSALYLLL   74 (85)
T ss_dssp             --CEEEEECGGGCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETBEECCTTCBTTTTTCCTTCEEEEEE
T ss_pred             CeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCeECCCCCCHHHCCCCCCCEEEEEE
Confidence            468899996 457899999999999999999999999999999999999999999999999999999999985

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

Probab=99.78  E-value=8.6e-19  Score=124.25  Aligned_cols=70  Identities=24%  Similarity=0.360  Sum_probs=65.9

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      |+|+|++ .++++.++|++++||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++|||++|++|+|+.
T Consensus         1 M~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~l~l~~   71 (88)
T 4fbj_B            1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVL   71 (88)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTTTTTCCTTCEEEEEC
T ss_pred             CEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcChhHEEEEECCeECCCCCcHHHcCCCCCCEEEEEE
Confidence            5788886 558899999999999999999999999999999999999999999999999999999999985

>2faz_A Ubiquitin-like containing PHD and ring finger DOM protein 1; cell cycle, DNA damage, DNA repair, DNA-binding, ligase, Met binding, nuclear protein; 2.00A {Homo sapiens} SCOP: d.15.1.1

Probab=99.77  E-value=1.8e-18  Score=118.42  Aligned_cols=73  Identities=30%  Similarity=0.409  Sum_probs=66.2

Q ss_pred             eEEEEEee-CCEE-EEEE-EcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecCC
Q 031040           70 SITIRVST-VSKW-HDIS-IKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDP  142 (167)
Q Consensus        70 ~I~I~Vk~-g~~~-~~Ve-V~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~p  142 (167)
                      .|+|+|++ .++. +.++ |++++||.+||++|++.+|+||++|+|+|+|++|+|+.+|++|||++|++|+|+..+
T Consensus         2 ~m~i~Vk~~~g~~~~~l~~v~~~~tv~~lK~~i~~~~gip~~~qrL~~~g~~L~d~~tL~~~~i~~g~~i~l~~r~   77 (78)
T 2faz_A            2 SMWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQLLVRQ   77 (78)
T ss_dssp             CEEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTTTTTCCTTCEEEEEECC
T ss_pred             cEEEEEEECCCCEEEEEeccCCCCCHHHHHHHHHHHHCcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEEeC
Confidence            47888886 3344 6899 999999999999999999999999999999999999999999999999999998654

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

Probab=99.77  E-value=1.3e-18  Score=117.12  Aligned_cols=70  Identities=24%  Similarity=0.360  Sum_probs=65.9

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      |+|+|++ .++++.++|++++||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++|||+++++|+|+.
T Consensus         1 M~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~~i~~~~q~L~~~g~~L~d~~tL~~~~i~~g~~i~l~~   71 (76)
T 1ndd_A            1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVL   71 (76)
T ss_dssp             CEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEE
T ss_pred             CEEEEECCCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEE
Confidence            5788887 457889999999999999999999999999999999999999999999999999999999975

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

Probab=99.77  E-value=9.6e-19  Score=128.48  Aligned_cols=77  Identities=22%  Similarity=0.292  Sum_probs=66.7

Q ss_pred             CCCceEEEEEee-CCEEEEE--EEcCCCCHHHHHHHH-HhhhCCCCCceEEEEcCeecCCcchhhhcCC-CCCCEEEEec
Q 031040           66 EGEGSITIRVST-VSKWHDI--SIKATSTFGELKMIL-SMVSGLEPREQRLLFKGKEREDNEFLHMVGV-RDKDKVLLLE  140 (167)
Q Consensus        66 ~~~p~I~I~Vk~-g~~~~~V--eV~~t~TV~eLK~~I-a~~TGVppe~QKLifkGK~LdD~~tL~~~GI-kdgskL~Lv~  140 (167)
                      ..++.|+|+||+ .++.+.+  +|++++||++||++| ++.+|+||++|||+|+|+.|+|+.+|++|+| ++|++|+||.
T Consensus        15 ~~~~~m~I~VKtl~g~~~~i~v~v~~~~TV~~lK~~I~~~~~gip~~~QrLi~~Gk~L~D~~tL~dy~I~~~g~ti~lmv   94 (98)
T 4a20_A           15 MDNAAVHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTITVMI   94 (98)
T ss_dssp             ---CCEEEEEEECSSSCEEEEEEECTTCBHHHHHHHHHHTTSCSCGGGEEEEETTEEECTTCBGGGSCCBTTBCEEEEEE
T ss_pred             CCCCCEEEEEEcCCCCEEEEEEecCCCChHHHHHHHHHHHhcCCChhhEEEEECCEECcCcCCHHHcCcCCCCCEEEEEE
Confidence            356789999998 4455555  677999999999999 8999999999999999999999999999999 9999999987


Q ss_pred             CC
Q 031040          141 DP  142 (167)
Q Consensus       141 ~p  142 (167)
                      ..
T Consensus        95 sk   96 (98)
T 4a20_A           95 KP   96 (98)
T ss_dssp             CC
T ss_pred             eC
Confidence            53

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

Probab=99.77  E-value=8.2e-19  Score=125.31  Aligned_cols=75  Identities=21%  Similarity=0.274  Sum_probs=70.2

Q ss_pred             CCceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           67 GEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        67 ~~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      ++.+|+|+|++.++.+.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||+++++|+|+..
T Consensus        14 ~~~~m~i~Vk~~g~~~~~~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~~   88 (96)
T 1wx8_A           14 SSRIIRVSVKTPQDCHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQRGILDGSTVHVVVR   88 (96)
T ss_dssp             CSCEEEEEEECSSSEEEEEEETTCCHHHHHHHHHHHTCSCTTTBCCEETTEECCTTSCHHHHTCCTTEEEECCBC
T ss_pred             CCCcEEEEEEECCeEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEECCCcCCHHHCCCCCCCEEEEEEe
Confidence            356799999986678899999999999999999999999999999999999999999999999999999999864

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

Probab=99.77  E-value=1.8e-18  Score=124.89  Aligned_cols=75  Identities=20%  Similarity=0.301  Sum_probs=69.6

Q ss_pred             CCceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCc-chhhhcCCCCCCEEEEecC
Q 031040           67 GEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDN-EFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        67 ~~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~-~tL~~~GIkdgskL~Lv~~  141 (167)
                      ....|+|+|++.+.++.++|++++||.+||++|++.+|+||++|+|+|+||+|+|+ .+|++|||+++++|+|+..
T Consensus        12 ~~~~~~I~Vk~~~~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~~tL~~ygI~~gstl~lv~r   87 (94)
T 2kan_A           12 AVRKIHVTVKFPSKQFTVEVDRTETVSSLKDKIHIVENTPIKRMQLYYSGIELADDYRNLNEYGITEFSEIVVFLK   87 (94)
T ss_dssp             SSCCEEEEEECSSCEEEEEECTTCBHHHHHHHHHHHSSSCTTTEEEEETTEEECCTTSBHHHHTCCTTEEEEEEEC
T ss_pred             CCCCEEEEEEcCCcEEEEEECCCCcHHHHHHHHHHHHCcCHHHEEEEECCEECCCCcccHHHCCCCCCCEEEEEEe
Confidence            35679999998555889999999999999999999999999999999999999999 9999999999999999864

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

Probab=99.77  E-value=9e-19  Score=128.73  Aligned_cols=72  Identities=18%  Similarity=0.328  Sum_probs=66.8

Q ss_pred             eEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           70 SITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        70 ~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      +|+|+|++ +++.+.|+|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||++|++|+|+..
T Consensus         1 mm~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~~i~~g~~i~lv~~   73 (106)
T 3m62_B            1 MVSLTFKNFKKEKVPLDLEPSNTILETKTKLAQSISCEESQIKLIYSGKVLQDSKTVSECGLKDGDQVVFMVS   73 (106)
T ss_dssp             --CEEEECTTCCEEEECCCTTSBHHHHHHHHHHTTTSCGGGCEEEETTEECCTTSBTTTTTCCTTCEEEEECC
T ss_pred             CEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCChhhEEEEECCEECCCcCCHHHcCCCCCCEEEEEEc
Confidence            47899997 5688999999999999999999999999999999999999999999999999999999999864

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

Probab=99.76  E-value=2.4e-18  Score=125.49  Aligned_cols=75  Identities=20%  Similarity=0.237  Sum_probs=69.7

Q ss_pred             ceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecCCc
Q 031040           69 GSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDPA  143 (167)
Q Consensus        69 p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~p~  143 (167)
                      ..|+|+|++.++.+.++|++++||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++|||++|++|+|+..+.
T Consensus        24 ~~m~I~Vk~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~gI~~g~~I~l~~~~~   98 (101)
T 2klc_A           24 KIMKVTVKTPKEKEEFAVPENSSVQQFKEEISKRFKSHTDQLVLIFAGKILKDQDTLSQHGIHDGLTVHLVIKTQ   98 (101)
T ss_dssp             CCEEEEEECSSCEEEEEECSCCCHHHHHHHHHHHHTCCGGGEEEEETTEEECTTCCTGGGTCCTTCEEEEEECCS
T ss_pred             CeEEEEEEeCCcEEEEEECCCCCHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHcCCCCCCEEEEEEcCC
Confidence            568999998667889999999999999999999999999999999999999999999999999999999987543

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

Probab=99.76  E-value=3.8e-18  Score=119.63  Aligned_cols=75  Identities=28%  Similarity=0.337  Sum_probs=68.8

Q ss_pred             CCceEEEEEee-CC-EEEEE-EEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           67 GEGSITIRVST-VS-KWHDI-SIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        67 ~~p~I~I~Vk~-g~-~~~~V-eV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      +..+|+|+|++ .+ +.+.+ +|++++||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++|||+++++|+|+..
T Consensus         4 ~~~~m~i~Vk~~~g~~~~~l~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~   81 (89)
T 1wy8_A            4 GSSGMWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDYDVGLNDIIQLLVR   81 (89)
T ss_dssp             CSSCEEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCCTTTEEEEETTEECCSSSBHHHHTCCTTCEEEEEEC
T ss_pred             CCCcEEEEEEECCCCceEEEEecCCCCCHHHHHHHHHHHHCcChhhEEEEECCeECCCCCCHHHCCCCCCCEEEEEEe
Confidence            35679999997 34 68999 599999999999999999999999999999999999999999999999999999854

>1wju_A NEDD8 ultimate buster-1; ubiquitin-like domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, protein binding; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=99.76  E-value=7.5e-19  Score=130.36  Aligned_cols=75  Identities=19%  Similarity=0.226  Sum_probs=69.0

Q ss_pred             CCCceEEEEEee---CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           66 EGEGSITIRVST---VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        66 ~~~p~I~I~Vk~---g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      .+.++|+|++..   +++.++|+|++++||.+||++|++.+|+||++|+|||+||+|+|+.||++|+|+++++|++|.
T Consensus        13 tg~ati~V~~~~~~~~~~~~~lev~~~~TV~~lK~kI~~k~gip~~qQrLI~~GKiL~D~~TL~~y~I~~gsti~vl~   90 (100)
T 1wju_A           13 TGIATIEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEEQGVAHNVKAMVLE   90 (100)
T ss_dssp             CCEEEEEEECCTTTCCSSSEEEEEESSSBHHHHHHHHHHHTTCCSTTCEEEETTEECCTTSBHHHHTCCSSEEEEEEC
T ss_pred             cceEEEEEEecCCCCCCcEEEEEeCCcCHHHHHHHHHHHHHCcCHHHeEEEeCCeECCCCCcHHHcCCCCCCEEEEEE
Confidence            456788888887   147899999999999999999999999999999999999999999999999999999998875

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

Probab=99.76  E-value=2.8e-18  Score=115.48  Aligned_cols=71  Identities=25%  Similarity=0.399  Sum_probs=66.2

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      |+|+|++ .++.+.++|++++||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++|||++|++|+|+..
T Consensus         1 M~i~vk~~~g~~~~i~v~~~~tv~~lK~~i~~~~~i~~~~q~L~~~g~~L~d~~tL~~~~i~~g~~i~l~~~   72 (76)
T 3a9j_A            1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQRESTLHLVLR   72 (76)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEcCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEEe
Confidence            5788887 4578899999999999999999999999999999999999999999999999999999999854

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

Probab=99.76  E-value=1.4e-18  Score=122.92  Aligned_cols=73  Identities=23%  Similarity=0.264  Sum_probs=68.2

Q ss_pred             ceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           69 GSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        69 p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      .+|+|+|++ .++++.++|++++||.+||++|++.+|+||++|+|+|+|++|+|+.+|++|||++|++|+|+..
T Consensus         3 ~~m~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~~I~~g~~i~l~~~   76 (88)
T 2hj8_A            3 EPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLR   76 (88)
T ss_dssp             CEEEEEEEETTSCEEEEEEESSSBHHHHHHHHHHHTCSCTTTEEEESSSSCCCTTSBHHHHHCSTTCEEEEEEC
T ss_pred             ccEEEEEECCCCCEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEE
Confidence            368999997 3578899999999999999999999999999999999999999999999999999999999864

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

Probab=99.76  E-value=2.1e-18  Score=124.46  Aligned_cols=73  Identities=25%  Similarity=0.392  Sum_probs=67.4

Q ss_pred             CceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           68 EGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        68 ~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ...|+|+|++ .++.+.|+|++++||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++|||+++++|+|+.
T Consensus        20 ~~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~i~l~~   93 (98)
T 4hcn_B           20 GRPMQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL   93 (98)
T ss_dssp             --CCEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTCBSGGGTCCTTEEEEEEC
T ss_pred             CCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEECCEECCCCCcHHHCCCCCCCEEEEEE
Confidence            4568999996 557899999999999999999999999999999999999999999999999999999999985

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

Probab=99.75  E-value=2.1e-18  Score=122.92  Aligned_cols=75  Identities=25%  Similarity=0.332  Sum_probs=67.1

Q ss_pred             CCceEEEEEeeC-CE--EEEEEEcCCCCHHHHHHHHHhhh--CCCCCceEEEEcCeecCCcchhhhc--CCCCCCEEEEe
Q 031040           67 GEGSITIRVSTV-SK--WHDISIKATSTFGELKMILSMVS--GLEPREQRLLFKGKEREDNEFLHMV--GVRDKDKVLLL  139 (167)
Q Consensus        67 ~~p~I~I~Vk~g-~~--~~~VeV~~t~TV~eLK~~Ia~~T--GVppe~QKLifkGK~LdD~~tL~~~--GIkdgskL~Lv  139 (167)
                      .+..|+|+|++. +.  .+.|+|++++||.+||++|++.+  |+||++|||+|+|+.|+|+.+|++|  +|+++++|||+
T Consensus         4 ~~~~m~i~Vk~~~~~~~~~~v~v~~~~TV~~lK~~I~~~~~~~i~~~~QrLi~~Gk~L~D~~tL~~~~~~i~~~~~i~lv   83 (93)
T 1wgd_A            4 GSSGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDLLPKQEKRHVLHLV   83 (93)
T ss_dssp             CSCCCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECCSSSCHHHHSCSSSCSEEEEEE
T ss_pred             CCcEEEEEEEeCCCCeEEEEEecCCCCcHHHHHHHHHHHhcCCCChHHeEEEECCEECcCcCCHHHHhcCCCCCCEEEEE
Confidence            356789999983 34  56777789999999999999999  9999999999999999999999999  99999999998


Q ss_pred             cC
Q 031040          140 ED  141 (167)
Q Consensus       140 ~~  141 (167)
                      ..
T Consensus        84 ~~   85 (93)
T 1wgd_A           84 CN   85 (93)
T ss_dssp             CC
T ss_pred             eC
Confidence            64

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

Probab=99.75  E-value=2e-18  Score=123.84  Aligned_cols=73  Identities=22%  Similarity=0.390  Sum_probs=66.9

Q ss_pred             CceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           68 EGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        68 ~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      ++.|+|+|++ ++.+.++|++++||.+||++|++.+|+||++|+|+|+|++|+|+.+|++|+|+++++|+|+..
T Consensus        17 ~~~m~I~Vk~-g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~y~I~~gstI~lv~r   89 (93)
T 2l7r_A           17 RGSMQLFVRA-QELHTFEVTGQETVAQIKAHVASLEGIAPEDQVVLLAGAPLEDEATLGQCGVEALTTLEVAGR   89 (93)
T ss_dssp             ---CEEEEES-SSEEEEECCSSCBHHHHHHHHHHHHTCCGGGCEEEETTEECCTTSBHHHHTCCSSCEEEEECC
T ss_pred             CCcEEEEEEC-CCEEEEEeCCCCcHHHHHHHHHHHhCcChhHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEe
Confidence            4569999999 578899999999999999999999999999999999999999999999999999999999853

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

Probab=99.75  E-value=3e-18  Score=117.81  Aligned_cols=72  Identities=22%  Similarity=0.314  Sum_probs=67.9

Q ss_pred             ceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           69 GSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        69 p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      +.|+|+|++ .++.+.++|++++||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++|+|+++++|+|+.
T Consensus         2 ~~m~i~vk~~~g~~~~~~v~~~~tv~~lk~~i~~~~gi~~~~qrL~~~G~~L~d~~tl~~~~i~~~~~i~l~~   74 (79)
T 2uyz_B            2 EYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQ   74 (79)
T ss_dssp             CEEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCHHHHTCCTTEEEEEEE
T ss_pred             CeEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHHCCCcccEEEEECCEEeCCCCCHHHcCCCCCCEEEEEE
Confidence            468999997 457889999999999999999999999999999999999999999999999999999999985

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

Probab=99.75  E-value=4e-18  Score=121.05  Aligned_cols=70  Identities=26%  Similarity=0.410  Sum_probs=66.1

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      |+|+|++ .++.+.|+|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||+++++|+|+.
T Consensus         2 m~i~vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~i~l~~   72 (96)
T 3k9o_B            2 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL   72 (96)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEE
T ss_pred             cEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCCChhHEEEEECCEECCCCCcHHHcCCCCCCEEEEEE
Confidence            6788886 457899999999999999999999999999999999999999999999999999999999985

>1uel_A HHR23B, UV excision repair protein RAD23 homolog B; UBL, UIM, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=99.75  E-value=5.9e-18  Score=121.43  Aligned_cols=71  Identities=20%  Similarity=0.297  Sum_probs=66.0

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhh---hCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMV---SGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~---TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      |+|+|++ .++.+.++|++++||.+||++|++.   +|+|+++|+|+|+|+.|+|+.+|++|||++|++|+|+..
T Consensus         1 M~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~g~~i~l~~~   75 (95)
T 1uel_A            1 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKNFVVVMVT   75 (95)
T ss_dssp             CEEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECCTTSBGGGGTCCSSSEEEEEES
T ss_pred             CEEEEEeCCCCEEEEEECCCCHHHHHHHHHHhhcccCCCChhhEEEEECCEECCCcCcHHHCCCCCCCEEEEEEe
Confidence            5788887 4578899999999999999999999   899999999999999999999999999999999998753

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

Probab=99.75  E-value=4.6e-18  Score=123.82  Aligned_cols=75  Identities=19%  Similarity=0.347  Sum_probs=67.4

Q ss_pred             CCceEEEEEee--CC---EEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCc-chhhhcCCCCCCEEEEec
Q 031040           67 GEGSITIRVST--VS---KWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDN-EFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        67 ~~p~I~I~Vk~--g~---~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~-~tL~~~GIkdgskL~Lv~  140 (167)
                      +...|+|+|++  ++   +.+.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+ .+|++|||+++++|+|+.
T Consensus         4 ~~~~m~I~Vk~~~~~~~~~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~gk~L~D~~~tL~~ygI~~g~~l~l~~   83 (102)
T 1v5o_A            4 GSSGMLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVLLQ   83 (102)
T ss_dssp             CSCCEEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTCCCGGGBCEEETTEEECCSSSBHHHHTCCTTEEEEECB
T ss_pred             CCCeEEEEEEECCCCcCceEEEEEcCCCCCHHHHHHHHHHHHCcChHHeEEEECCEECCCCcccHHHCCCCCCCEEEEEE
Confidence            34567888876  44   6889999999999999999999999999999999999999887 689999999999999986


Q ss_pred             C
Q 031040          141 D  141 (167)
Q Consensus       141 ~  141 (167)
                      .
T Consensus        84 ~   84 (102)
T 1v5o_A           84 K   84 (102)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.74  E-value=7.5e-18  Score=122.82  Aligned_cols=75  Identities=31%  Similarity=0.325  Sum_probs=68.8

Q ss_pred             CCceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           67 GEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        67 ~~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      .+.+|+|+|++....+.++|++++||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++|||+++++|+|+..
T Consensus        19 ~~~~m~I~Vk~~~g~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r   93 (100)
T 1yqb_A           19 SPHLIKVTVKTPKDKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIK   93 (100)
T ss_dssp             CTTEEEEEEECSSCEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBHHHHTCCTTCEEEEEEC
T ss_pred             CCCeEEEEEEcCCCcEEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHCCCCCCCEEEEEEc
Confidence            356799999984434799999999999999999999999999999999999999999999999999999999864

>1ttn_A DC-UBP, dendritic cell-derived ubiquitin-like protein; ubiquitin-like domain, solution structure, signaling protein; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=99.74  E-value=8.6e-18  Score=123.12  Aligned_cols=74  Identities=20%  Similarity=0.272  Sum_probs=69.3

Q ss_pred             CceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           68 EGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        68 ~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      ...|+|+|++ +++.+.++|++++||.+||++|+..+|+|+++|+|+|+|+.|+|+.+|++|||++|++|+|+..
T Consensus        21 ~~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~g~ti~lv~~   95 (106)
T 1ttn_A           21 GYECQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELKIPKDYVVQVIVS   95 (106)
T ss_dssp             CCSEEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTCCCSTTCEEEETTEECCTTSHHHHCCCSSSCEEEEECC
T ss_pred             CCeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHHCcCcccEEEEECCEECCCCCcHHHcCCCCCCEEEEEEe
Confidence            3568999997 5689999999999999999999999999999999999999999999999999999999999864

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

Probab=99.74  E-value=8.8e-19  Score=128.12  Aligned_cols=73  Identities=21%  Similarity=0.353  Sum_probs=67.9

Q ss_pred             ceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           69 GSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        69 p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      ..|+|+|+++++.+.++|++++||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++|||++|++|+|+..
T Consensus        27 m~i~I~Vk~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~gI~~g~tI~lv~~   99 (101)
T 3m63_B           27 MSLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKS   99 (101)
T ss_dssp             --CCEEEECSSCCCCBCCCTTSBHHHHHHHHHHHHSCCSTTCCEEETTEECCTTSBTTTTTCCTTEEEEECCC
T ss_pred             cEEEEEEEECCEEEEEEeCCCCCHHHHHHHHHHHHCcChHHEEEEECCEECCCcCcHHHCCCCCCCEEEEEeC
Confidence            3588999987788999999999999999999999999999999999999999999999999999999999864

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

Probab=99.74  E-value=7.6e-18  Score=119.33  Aligned_cols=72  Identities=24%  Similarity=0.412  Sum_probs=66.2

Q ss_pred             eEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           70 SITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        70 ~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      .|+|+|++ .++++.++|++++||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++|||+++++|+|+..
T Consensus         9 ~~~i~v~~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~r   81 (88)
T 1sif_A            9 GLQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   81 (88)
T ss_dssp             -CEEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBSGGGTCCTTCEEEEEC-
T ss_pred             ceEEEEEeCCCCEEEEEECCCChHHHHHHHHHHHHCcChhhEEEEECCEECCCCCcHHHcCCCCCCEEEEEEe
Confidence            47888886 5588999999999999999999999999999999999999999999999999999999999854

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

Probab=99.73  E-value=1.7e-17  Score=121.18  Aligned_cols=74  Identities=31%  Similarity=0.328  Sum_probs=67.9

Q ss_pred             CceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           68 EGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        68 ~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      ..+|+|+|++....+.|+|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||+++++|+|+..
T Consensus        15 ~~~m~I~Vk~~~g~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~gi~~g~~i~l~~~   88 (106)
T 1wx7_A           15 PHLIKVTVKTPKDKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIK   88 (106)
T ss_dssp             SSEEEEEEECSSCEEEEEEETTCCHHHHHHHHHHHHTCCTTTEEEEETTEECCTTSCHHHHTCCTTEEEEEEEC
T ss_pred             CceEEEEEEeCCCcEEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHcCCCCCCEEEEEEc
Confidence            35689999984434799999999999999999999999999999999999999999999999999999999863

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

Probab=99.73  E-value=5.7e-18  Score=124.43  Aligned_cols=74  Identities=26%  Similarity=0.242  Sum_probs=62.9

Q ss_pred             CCCceEEEEEeeC-CE--EEEEEEcCCCCHHHHHHHHHhh-hCCCC-CceEEEEcCeecCCcchhhhc--CCCCCCEEEE
Q 031040           66 EGEGSITIRVSTV-SK--WHDISIKATSTFGELKMILSMV-SGLEP-REQRLLFKGKEREDNEFLHMV--GVRDKDKVLL  138 (167)
Q Consensus        66 ~~~p~I~I~Vk~g-~~--~~~VeV~~t~TV~eLK~~Ia~~-TGVpp-e~QKLifkGK~LdD~~tL~~~--GIkdgskL~L  138 (167)
                      ..+..|+|+|++. ++  .+.|+|++++||++||++|++. .|+|| ++|||+|+||+|+|+.+|++|  +|+++++|+|
T Consensus        19 ~~~~~m~I~VK~~~g~~~~i~l~v~~~~TV~~LK~~I~~~~~g~pp~~~QrLIy~Gk~L~D~~tL~~y~~~I~~~~tihL   98 (99)
T 2kdb_A           19 FQGHPVTLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYPSKPLTKDQRLVYSGRLLPDHLQLKDILRKQDEYHMVHL   98 (99)
T ss_dssp             ----CEEEEEECTTSSSCCEEEEECTTSBHHHHHHHHHHHSTTCCCTTTCCEEETTEEECTTSBTHHHHTTTCSEEEEEE
T ss_pred             CCCCeEEEEEEcCCCCEEEEEEEcCCCCHHHHHHHHHHHHhcCCCChhhEEEEECCEECCCCCCHHHHhcCCCCCCEEEe
Confidence            3456799999973 33  5689999999999999999985 56665 999999999999999999999  9999999998


Q ss_pred             e
Q 031040          139 L  139 (167)
Q Consensus       139 v  139 (167)
                      +
T Consensus        99 v   99 (99)
T 2kdb_A           99 V   99 (99)
T ss_dssp             C
T ss_pred             C
Confidence            6

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

Probab=99.72  E-value=1.9e-17  Score=118.74  Aligned_cols=71  Identities=25%  Similarity=0.403  Sum_probs=66.2

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      |+|+|++ .++++.++|++++||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++|||+++++|+|+..
T Consensus         1 M~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~gi~~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~~   72 (98)
T 1yx5_B            1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   72 (98)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHTCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEEe
Confidence            5788887 4578899999999999999999999999999999999999999999999999999999998754

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

Probab=99.72  E-value=1.6e-17  Score=119.94  Aligned_cols=74  Identities=22%  Similarity=0.298  Sum_probs=68.8

Q ss_pred             CCceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           67 GEGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        67 ~~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      .+..|+|+|++ .++.+.++|.+++||.+||++|++..|+|+++|+|+|+|+.|+|+.+|++|+|+++++|+|+.
T Consensus        18 ~~~~m~I~Vk~~~g~~~~l~v~~~~tv~~lK~~i~~~~gip~~~qrLif~Gk~L~d~~tl~dy~i~~g~~I~l~~   92 (97)
T 1wyw_B           18 EGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQ   92 (97)
T ss_dssp             -CCEEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCHHHHTCCTTCEEEEEE
T ss_pred             CCCcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCChhhEEEEECCeEcCCCCCHHHCCCCCCCEEEEEE
Confidence            34679999997 457889999999999999999999999999999999999999999999999999999999985

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

Probab=99.72  E-value=2.8e-17  Score=121.63  Aligned_cols=73  Identities=25%  Similarity=0.377  Sum_probs=68.5

Q ss_pred             ceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           69 GSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        69 p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      ..|+|+|++ .++.+.++|++++||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++|||+++++|+|+..
T Consensus        34 ~~m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~gI~~gs~I~l~~r  107 (111)
T 3vdz_A           34 LAMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR  107 (111)
T ss_dssp             GCEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTTTTTCCTTCEEEEEEC
T ss_pred             ccEEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEe
Confidence            469999996 5588999999999999999999999999999999999999999999999999999999999853

>2fnj_B Transcription elongation factor B polypeptide 2; beta-sandwich, lectin-like, SPRY, protein transport/signaling protein complex; 1.80A {Mus musculus} SCOP: d.15.1.1 PDB: 1lm8_B 1lqb_A 1vcb_A 2c9w_B 2izv_B 2jz3_B 2xai_C 3dcg_A 3zrc_A* 3zrf_A

Probab=99.71  E-value=2e-17  Score=126.01  Aligned_cols=71  Identities=24%  Similarity=0.156  Sum_probs=67.4

Q ss_pred             eEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCC-------CCCEEEEec
Q 031040           70 SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVR-------DKDKVLLLE  140 (167)
Q Consensus        70 ~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIk-------dgskL~Lv~  140 (167)
                      .|+|++++++.++.++|.+++||.+||++|++.+|+||++|+|+|+||.|+|+.+|++|||+       ++++|+|+.
T Consensus         2 ~mfl~ir~~ktti~lev~~sdTV~~lK~kI~~~egIP~~qQrLi~~Gk~LeD~~TLsdy~I~~~~a~~q~~stL~L~l   79 (118)
T 2fnj_B            2 DVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPEEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAF   79 (118)
T ss_dssp             EEEEEEEEBTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBHHHHTCCTTTSBTTBCEEEEEEE
T ss_pred             cEEEEEecCCEEEEEEeCCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCCCHHHcCcccccccCCCCCEEEEEe
Confidence            47899999888899999999999999999999999999999999999999999999999999       799999974

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

Probab=99.71  E-value=1.2e-17  Score=144.45  Aligned_cols=77  Identities=18%  Similarity=0.270  Sum_probs=70.8

Q ss_pred             CceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEE---EcCeecCCcchhhhcCCCCCCEEEEecCCch
Q 031040           68 EGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLL---FKGKEREDNEFLHMVGVRDKDKVLLLEDPAI  144 (167)
Q Consensus        68 ~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLi---fkGK~LdD~~tL~~~GIkdgskL~Lv~~p~~  144 (167)
                      ..+|+|+|+++++.|+|+|++++||++||++|++.|||||++|||+   |+||+|+|+.+|++|||++|++||||++|+.
T Consensus         3 ~~~i~i~Vk~~g~~~~v~v~~~~Tv~~lK~~I~~~tgVpp~~QkLi~~k~~Gk~l~D~~~L~~~~ik~g~~l~L~gs~~~   82 (320)
T 3shq_A            3 VKEVVVIVKWSGKEYPVDLTDQDTVEVLRHEIFRKTQVRPERQKLLNLKYKGKTAADNVKISALELKPNFKLMMVGSTEA   82 (320)
T ss_dssp             -CEEEEEEEETTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGCEETTCBSSSSBCCTTSBTTSSCCC--CEEEEECCCC-
T ss_pred             CceEEEEEEECCEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEeecccCCcccCccccHHHcCCCCCCEEEEEccchh
Confidence            3679999999999999999999999999999999999999999999   9999999999999999999999999998775

>3b1l_X E3 ubiquitin-protein ligase parkin; proteasome, ALFA-beta-protein; 1.85A {Mus musculus} PDB: 1mg8_A 2zeq_A 2knb_A 1iyf_A

Probab=99.55  E-value=6.9e-19  Score=119.74  Aligned_cols=71  Identities=15%  Similarity=0.280  Sum_probs=65.9

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      |+|+|++ .++++.++|++++||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++|||++|++|+|+..
T Consensus         1 M~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~r   72 (76)
T 3b1l_X            1 MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKQQGVPADQLRVIFAGKELPNHLTVQNCDLEQQSIVHIVQR   72 (76)
Confidence            5788887 4578899999999999999999999999999999999999999999999999999999999854

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

Probab=99.71  E-value=6.1e-17  Score=119.46  Aligned_cols=74  Identities=24%  Similarity=0.359  Sum_probs=69.1

Q ss_pred             CceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           68 EGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        68 ~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      .+.|+|+|++ .++.+.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||+++++|+|+..
T Consensus        33 ~~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~gI~~gs~I~l~~r  107 (111)
T 2ojr_A           33 LLAMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR  107 (111)
T ss_dssp             SSCEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCCCTTTEEEEETTEECCSSCBTTTTTCCTTCEEEEEEC
T ss_pred             CCeEEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHHHCcCcccEEEEECCEECCCCCcHHHcCCCCCCEEEEEEe
Confidence            4579999997 4578899999999999999999999999999999999999999999999999999999999853

>1we6_A Splicing factor, putative; structural genomics, ubiquitin-like domain, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: d.15.1.1

Probab=99.70  E-value=3.5e-17  Score=120.59  Aligned_cols=73  Identities=25%  Similarity=0.257  Sum_probs=66.9

Q ss_pred             ceEEEEEee----CCEEEEEEEcC-CCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           69 GSITIRVST----VSKWHDISIKA-TSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        69 p~I~I~Vk~----g~~~~~VeV~~-t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      ..|+|+|++    .++.+.++|++ ++||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++|||++|++|+|+..
T Consensus        26 ~~i~i~Vk~~~~~~g~~~~l~v~~l~~TV~~LK~~I~~~~gip~~~QrL~~~Gk~L~D~~tL~~y~I~~g~~l~l~~r  103 (111)
T 1we6_A           26 GPATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAHYNVGAGEILTLSLR  103 (111)
T ss_dssp             SCEEEEECCTTCSSSCCEEEEESCSSSBHHHHHHHHHHHTTCCTTTSEEECSSSBCCTTSBTTTTTCSSSCEEEEECS
T ss_pred             CcEEEEEEecccCCCcEEEEEecCCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCcHHHCCCCCCCEEEEEEE
Confidence            457888886    34788999998 99999999999999999999999999999999999999999999999999853

>3rt3_B Ubiquitin-like protein ISG15; ubiquitin-like domain, isgylation, antiviral protein-viral P complex; 2.01A {Homo sapiens} PDB: 3sdl_C 3r66_C 3pse_B 1z2m_A

Probab=99.70  E-value=6.7e-17  Score=124.07  Aligned_cols=73  Identities=23%  Similarity=0.264  Sum_probs=68.4

Q ss_pred             ceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           69 GSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        69 p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      ..|+|+|++ .++++.++|++++||.+||++|++.+|+||++|+|+|+|++|+|+.+|++|||++|++|+|+..
T Consensus        80 ~~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~y~i~~g~~l~l~~r  153 (159)
T 3rt3_B           80 EPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLR  153 (159)
T ss_dssp             CCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEEC
T ss_pred             CcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCHHHEEEEECCeecCCCCCHHHcCCCCCCEEEEEEe
Confidence            468899997 4588999999999999999999999999999999999999999999999999999999999853

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

Probab=99.70  E-value=8e-17  Score=125.75  Aligned_cols=75  Identities=24%  Similarity=0.375  Sum_probs=69.1

Q ss_pred             CCceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           67 GEGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        67 ~~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      +++.|+|+|++ +++++.++|++++||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++|||+++++|+|+..
T Consensus        17 ~~~~m~i~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~QrL~~~g~~L~d~~tL~~~~i~~~~~l~l~~~   92 (172)
T 3u30_A           17 RGSHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   92 (172)
T ss_dssp             --CCEEEEEEETTTEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTGGGTCCTTCEEEEEEC
T ss_pred             CCCcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCccccccCCHhHcCCcccceeeeeec
Confidence            35679999995 6689999999999999999999999999999999999999999999999999999999999853

>1x1m_A Ubiquitin-like protein SB132; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.15.1.1

Probab=99.70  E-value=4.4e-17  Score=119.69  Aligned_cols=76  Identities=14%  Similarity=0.204  Sum_probs=66.9

Q ss_pred             CceEEEEEeeCC----EEEEEEEcC---------CCCHHHHHHHHHhhh--CCCCCc-eEEEEcCeecCCcchhhhcCCC
Q 031040           68 EGSITIRVSTVS----KWHDISIKA---------TSTFGELKMILSMVS--GLEPRE-QRLLFKGKEREDNEFLHMVGVR  131 (167)
Q Consensus        68 ~p~I~I~Vk~g~----~~~~VeV~~---------t~TV~eLK~~Ia~~T--GVppe~-QKLifkGK~LdD~~tL~~~GIk  131 (167)
                      +..|+|+|++.+    ..+.|+|++         ++||.+||++|++.+  |+|+++ |+|+|+|+.|+|+.+|++|||+
T Consensus        10 ~~~~~i~Vk~~~~~~~~~~~l~v~~~~~~~v~~~~~TV~~LK~~i~~~~~~gip~~~~qrLi~~Gk~L~D~~tL~~y~i~   89 (107)
T 1x1m_A           10 LSDWHLAVKLADQPLAPKSILQLPETELGEYSLGGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQTLDFYGIQ   89 (107)
T ss_dssp             CCSCCEEEEETTCTTSCCEEECCCCCSSCSSCCCCCBHHHHHHHHHHHCTTTCCCSSSEEEEETTEECCTTCBHHHHTCC
T ss_pred             CCceEEEEEeCCCCCccEEEEEecCccccccCcccCCHHHHHHHHHHHhccCCChhhcEEEEECCeECCCCCcHHHcCCC
Confidence            456888999743    488899554         599999999999999  999999 9999999999999999999999


Q ss_pred             CCCEEEEecCCc
Q 031040          132 DKDKVLLLEDPA  143 (167)
Q Consensus       132 dgskL~Lv~~p~  143 (167)
                      ++++|+|+..+.
T Consensus        90 ~g~~i~lv~~~~  101 (107)
T 1x1m_A           90 PGSTVHVLRKSW  101 (107)
T ss_dssp             TTCEEEEEESSC
T ss_pred             CCCEEEEEeCCC
Confidence            999999987543

>4ajy_B Transcription elongation factor B polypeptide 2; E3 ubiquitin ligase, transcription factor, hypoxic signaling transcription; 1.73A {Homo sapiens} PDB: 1lqb_A 1vcb_A 2c9w_B 2izv_B 2jz3_B 2xai_C 3dcg_A 3zrc_A* 3zrf_A 3ztc_A* 3ztd_A* 3zun_A* 1lm8_B 4b95_A* 2fnj_B 4b9k_A* 4awj_A*

Probab=99.69  E-value=5.6e-17  Score=123.71  Aligned_cols=71  Identities=24%  Similarity=0.157  Sum_probs=68.1

Q ss_pred             eEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCC-------CCEEEEec
Q 031040           70 SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRD-------KDKVLLLE  140 (167)
Q Consensus        70 ~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkd-------gskL~Lv~  140 (167)
                      .|.|+++.++.++.++|.+++||.+||++|+..+|+||++|+|+|.||.|+|+.||++|||++       +++|+|+-
T Consensus         2 ~vFl~Ikr~ktTI~ldve~sdTV~~lK~kI~~~~giPp~qQrLI~~Gk~LeD~kTL~dy~I~~~ta~~q~~atl~Lvl   79 (118)
T 4ajy_B            2 DVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAF   79 (118)
T ss_dssp             EEEEEEEEBTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTTTTTCCGGGSBTTBCEEEEEEE
T ss_pred             ceEEEEecCCEEEEEEcCCCChHHHHHHHHHHHHCCCHHHeEEEeCCeECCCcCCHHHcCCCcCcccCCCCCEEEEEE
Confidence            378999999889999999999999999999999999999999999999999999999999999       99999984

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

Probab=99.69  E-value=7.5e-17  Score=115.49  Aligned_cols=71  Identities=11%  Similarity=0.111  Sum_probs=64.1

Q ss_pred             eEEEEEee---CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEE-------cCeecCCcchhhhcCCCCCCEEEEe
Q 031040           70 SITIRVST---VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLF-------KGKEREDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        70 ~I~I~Vk~---g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLif-------kGK~LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      .|+|.|.+   +...+++.+++++||.+||++|+..+|+||++|+|+|       .|+.++|+.+|++|||++|++|||+
T Consensus         2 ~V~v~iths~~~~~~~E~r~~~s~TI~~lK~ki~~~~Gip~~~QrLi~~~~~~~~~g~~l~d~~tL~~Y~i~~g~~ihlv   81 (86)
T 4b6w_A            2 VVKVSLTHSASRMRVPEKRYGLAQTIESIKENVFTHFATPPEYMQLQLIDDRGITIEKNMANDKQLGYYQCRDEFVIHVV   81 (86)
T ss_dssp             EEEEEEEETTCSCCEEEEEEETTSBHHHHHHHHHTTSCCCGGGEEEEEECTTSCEEESSCCTTSBGGGGTCCTTCEEEEE
T ss_pred             EEEEEEEEcCCCCeEEEEEcCccCcHHHHHHHHHHHHCCCHHHEEEEEecCCCCceeeEcCCCCCHHHCCCCCCCEEEEE
Confidence            46677765   3377899999999999999999999999999999997       4889999999999999999999998


Q ss_pred             c
Q 031040          140 E  140 (167)
Q Consensus       140 ~  140 (167)
                      .
T Consensus        82 d   82 (86)
T 4b6w_A           82 D   82 (86)
T ss_dssp             E
T ss_pred             e
Confidence            6

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

Probab=99.69  E-value=4e-17  Score=120.55  Aligned_cols=73  Identities=22%  Similarity=0.258  Sum_probs=65.8

Q ss_pred             ceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEE-cCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           69 GSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLF-KGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        69 p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLif-kGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      .++.+++++.+++|+|+|++++||++||++|+++|||||++|||+| +++.|+|+.+|++|+|++|++|||+-.
T Consensus         8 ~m~~~~vk~~Gk~~~v~v~~~~TV~~LK~~I~~~tgIpp~~QkLi~~~~gkL~D~~tLs~~~I~~gstL~lvl~   81 (100)
T 2dzm_A            8 RMLDFRVEYRDRNVDVVLEDTCTVGEIKQILENELQIPVSKMLLKGWKTGDVEDSTVLKSLHLPKNNSLYVLTP   81 (100)
T ss_dssp             CEEEEEEECSSCEEEEEEETTSBHHHHHHHHHHHHCCCTTTCCEECCSSSCCCTTSBHHHHCCCSEEEEEECCS
T ss_pred             ceEEEEEEeCCeEEEEEECCCCcHHHHHHHHHHHHCCChhHeEEEccCCCCCCCcCCHHHcCCCCCCEEEEEec
Confidence            4677888888889999999999999999999999999999999996 433499999999999999999999754

>1wgh_A Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fold, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: d.15.1.1

Probab=99.69  E-value=9.1e-17  Score=121.61  Aligned_cols=83  Identities=12%  Similarity=0.136  Sum_probs=70.4

Q ss_pred             CCceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHh------hhCC--CCCceEEEEcCeecCCcchhhhcCCCCC--CE
Q 031040           67 GEGSITIRVST-VSKWHDISIKATSTFGELKMILSM------VSGL--EPREQRLLFKGKEREDNEFLHMVGVRDK--DK  135 (167)
Q Consensus        67 ~~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~------~TGV--ppe~QKLifkGK~LdD~~tL~~~GIkdg--sk  135 (167)
                      +...|.|+|++ .+++|+++|++++||.+||++|++      ..++  ||++|||||.||+|+|+.+|++|+|+.+  .+
T Consensus        13 ~~~~m~I~vKtl~G~t~~lev~~s~TV~~lK~kI~~~~p~dwke~~p~p~~qqrLIy~GK~LeD~~TL~~y~I~~~~~~t   92 (116)
T 1wgh_A           13 PADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTTV   92 (116)
T ss_dssp             CSSSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTCCSSCEEE
T ss_pred             CCCeEEEEEEeCCCCEEEEEECCcCHHHHHHHHHHHhcccccccCCCCChHHEEEEECCcCCCCCCcHHHcCCCCCCceE
Confidence            35679999996 458999999999999999999999      6675  6999999999999999999999999877  56


Q ss_pred             EEEecCCchhhhhh
Q 031040          136 VLLLEDPAIKDMKL  149 (167)
Q Consensus       136 L~Lv~~p~~~~~k~  149 (167)
                      |||+..+...+++-
T Consensus        93 lhLvlr~~~~~~~~  106 (116)
T 1wgh_A           93 MHLVARETLPEPNS  106 (116)
T ss_dssp             EEEEECSSCSSSCC
T ss_pred             EEEEccCCCCCCCc
Confidence            88887655554443

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

Probab=99.69  E-value=1.3e-16  Score=113.91  Aligned_cols=72  Identities=15%  Similarity=0.205  Sum_probs=66.6

Q ss_pred             CCceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCc-chhhhcCCCCCCEEEEecC
Q 031040           67 GEGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDN-EFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        67 ~~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~-~tL~~~GIkdgskL~Lv~~  141 (167)
                      ++..|+|+|++ .++.+.++|++++||.+||++|++.+   +++|+|+|+|+.|+|+ .+|++|||+++++|||+..
T Consensus         4 ~~~~m~i~Vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~---~~~qrLi~~Gk~L~D~~~tL~~y~i~~g~~i~l~~~   77 (95)
T 1wia_A            4 GSSGINVRLKFLNDTEELAVARPEDTVGTLKSKYFPGQ---ESQMKLIYQGRLLQDPARTLSSLNITNNCVIHCHRS   77 (95)
T ss_dssp             CCCSEEEEEEETTTEEEEEEECSSSBHHHHHHHHSSST---TTTCEEEETTEECCCSSCBTTTTTCCTTEEEEEECC
T ss_pred             CCCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHhhC---cCcEEEEECCEEccCCcCCHHHcCCCCCCEEEEEEC
Confidence            45679999997 46889999999999999999999998   9999999999999999 9999999999999999864

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

Probab=99.68  E-value=1.1e-16  Score=119.25  Aligned_cols=72  Identities=22%  Similarity=0.362  Sum_probs=66.5

Q ss_pred             eEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           70 SITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        70 ~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      ..+|+|++ .++++.++|++++||.+||++|++.+|+||++|+|+|+|++|+|+.+|++|||+++++|+|+..
T Consensus         9 ~~~i~vk~l~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~~   81 (114)
T 2kdi_A            9 EFQIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDYNIQRESTLHLVLR   81 (114)
T ss_dssp             CCEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTTTTTCCSSCEEEEEEC
T ss_pred             cEEEEEEeCCCcEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEE
Confidence            45777776 4588999999999999999999999999999999999999999999999999999999999864

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

Probab=99.68  E-value=3e-17  Score=122.36  Aligned_cols=74  Identities=22%  Similarity=0.332  Sum_probs=66.7

Q ss_pred             CCceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCC---------------ceEEEEcCeecC-CcchhhhcC
Q 031040           67 GEGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPR---------------EQRLLFKGKERE-DNEFLHMVG  129 (167)
Q Consensus        67 ~~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe---------------~QKLifkGK~Ld-D~~tL~~~G  129 (167)
                      .+..|+|+|++ .+++++|+|++++||++||++|++.+++||+               +|+|+|+||.|. |+.+|++||
T Consensus         4 ~~~~M~I~Vk~l~g~~~~v~V~~~~TV~dLK~~I~~~~~i~~~~q~g~~~isw~~~w~q~~Li~~Gk~L~dD~~tL~dyg   83 (105)
T 1v2y_A            4 GSSGMTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKLRDYG   83 (105)
T ss_dssp             CCCSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSBHHHHT
T ss_pred             CCCcEEEEEEecCCCEEEEEECCCChHHHHHHHHHHHhCCCcccccCcceeeeeecceeEEEEeCCcCccCCcCCHHHcC
Confidence            34569999986 5589999999999999999999999999984               579999999995 679999999


Q ss_pred             CCCCCEEEEec
Q 031040          130 VRDKDKVLLLE  140 (167)
Q Consensus       130 IkdgskL~Lv~  140 (167)
                      |++|++|+|+.
T Consensus        84 I~~g~~l~lv~   94 (105)
T 1v2y_A           84 IRNRDEVSFIK   94 (105)
T ss_dssp             CCSSEEEEEEE
T ss_pred             CCCCCEEEEEe
Confidence            99999999986

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

Probab=99.68  E-value=8.5e-17  Score=122.82  Aligned_cols=73  Identities=23%  Similarity=0.255  Sum_probs=67.5

Q ss_pred             CceEEEEEe--eCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           68 EGSITIRVS--TVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        68 ~p~I~I~Vk--~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      .+.|+|+|+  .+++.+++++++++||++||+.|+..+++|+++|+|+|+||.|+|++||.+|||++|.+|||+.
T Consensus        13 ~~~itvkv~l~~~~~k~tv~v~~d~TV~dLKe~ls~~~~iP~e~qrLIy~GKiLKD~eTL~~~gIk~g~TIhLvi   87 (118)
T 2daf_A           13 DSLATVKVVLIPVGQEIVIPFKVDTILKYLKDHFSHLLGIPHSVLQIRYSGKILKNNETLVQHGVKPQEIVQVEI   87 (118)
T ss_dssp             SSCEEEEEEETTTCCEEEEEECSSSCSHHHHHHHHHHHTCCTTTEEEEETTEEECSSCCHHHHSCCSSCEEEEEE
T ss_pred             CccEEEEEEEcCCCcEEEEEeCCCCcHHHHHHHHHhhhCCChHHEEEEECCeEcCCcchHHHcCCCCCCEEEEEE
Confidence            456777766  3567899999999999999999999999999999999999999999999999999999999986

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

Probab=99.68  E-value=1.4e-16  Score=126.15  Aligned_cols=70  Identities=26%  Similarity=0.415  Sum_probs=65.9

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      |+|+|++ .++++.++|++++||.+||++|++.+|+||++|+|+|+|++|+|+.+|++|||++|++|+|+.
T Consensus         1 MqI~Vk~~~Gk~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~y~I~~gstI~Lvl   71 (169)
T 3l0w_B            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL   71 (169)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCTTTEEEEETTEECCTTSBGGGGTCCTTCEEEEEE
T ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHHCcCHHHEEEEECCccccCcCcHHHcCCCCCCEEEEEE
Confidence            5788887 458899999999999999999999999999999999999999999999999999999999985

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

Probab=99.68  E-value=1.8e-16  Score=121.22  Aligned_cols=81  Identities=12%  Similarity=0.147  Sum_probs=69.3

Q ss_pred             CCceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHh------hhCC--CCCceEEEEcCeecCCcchhhhcCCCCCC--E
Q 031040           67 GEGSITIRVST-VSKWHDISIKATSTFGELKMILSM------VSGL--EPREQRLLFKGKEREDNEFLHMVGVRDKD--K  135 (167)
Q Consensus        67 ~~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~------~TGV--ppe~QKLifkGK~LdD~~tL~~~GIkdgs--k  135 (167)
                      ....|+|+|++ .+++++++|++++||++||++|++      ..|+  +|++|||||.||.|+|+.+|++|+|++++  +
T Consensus        14 ~~~~m~I~vktl~G~~~~lev~~s~TV~~lK~~I~~~~p~dwke~ip~~~~~qrLIy~GK~LeD~~TL~~y~I~~~~~~t   93 (125)
T 2gow_A           14 PADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTTV   93 (125)
T ss_dssp             CTTCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHSSCCCSCCCCTTCCGGGEEEESSSSEEESSCBTGGGCCCTTSEEE
T ss_pred             CCCeEEEEEEeCCCCEEEEEeCCccHHHHHHHHHHHHCCcccccCCCCChHHEEEEECCcCCCCCCcHHHcCCCCCCceE
Confidence            34579999996 458999999999999999999999      7888  49999999999999999999999999887  6


Q ss_pred             EEEecCCchhhh
Q 031040          136 VLLLEDPAIKDM  147 (167)
Q Consensus       136 L~Lv~~p~~~~~  147 (167)
                      |||+..+...++
T Consensus        94 lhlv~r~~~~~~  105 (125)
T 2gow_A           94 MHLVARETLPEP  105 (125)
T ss_dssp             EEEEECSCCSSS
T ss_pred             EEEEecCCCCcc
Confidence            788765444333

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

Probab=99.67  E-value=2.4e-16  Score=114.86  Aligned_cols=74  Identities=14%  Similarity=0.158  Sum_probs=65.3

Q ss_pred             CCceEEEEEeeCC---EEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEc--Ce---ec-CCcchhhhcCCCCCCEEE
Q 031040           67 GEGSITIRVSTVS---KWHDISIKATSTFGELKMILSMVSGLEPREQRLLFK--GK---ER-EDNEFLHMVGVRDKDKVL  137 (167)
Q Consensus        67 ~~p~I~I~Vk~g~---~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifk--GK---~L-dD~~tL~~~GIkdgskL~  137 (167)
                      ++..|+|+|++..   ..++++|++++||.+||++|+..+|+||++|||+|.  |+   .| +|+.+|++|||++|++|+
T Consensus        12 ~~~~v~l~It~s~~~~~~~~~~v~~~~TV~~LK~kI~~~~GiP~~~QrL~~~~~g~~~~~L~~D~~tL~~Y~i~~gstih   91 (95)
T 2kjr_A           12 KSDFIKVNVSNSHNDAVAFEVKLAKDLTVAQLKTKLEILTGGCAGTMKVQVFKGDTCVSTMDNNDAQLGYYANSDGLRLH   91 (95)
T ss_dssp             CCCEEEEEEEESSCSCEEEEEEEETTCBHHHHHHHHHHHHCSCTTTEEEEEEETTEEEEECCCTTSBHHHHCCSSSCEEE
T ss_pred             CCCeEEEEEEECCCCceEEEEEeCccCHHHHHHHHHHHHHCcCHHHeEEEEecCCcccceeCCCCCCHhHCCcCCCCEEE
Confidence            3567888888633   478999999999999999999999999999999998  45   45 899999999999999999


Q ss_pred             Eec
Q 031040          138 LLE  140 (167)
Q Consensus       138 Lv~  140 (167)
                      |+.
T Consensus        92 lvD   94 (95)
T 2kjr_A           92 VVD   94 (95)
T ss_dssp             EEE
T ss_pred             EEC
Confidence            974

>1we7_A SF3A1 protein; structural genomics, ubiquitin-like domain, riken structural genomics/proteomics initiative, RSGI, gene regulation; NMR {Mus musculus} SCOP: d.15.1.1 PDB: 1zkh_A

Probab=99.67  E-value=2.1e-16  Score=117.22  Aligned_cols=62  Identities=15%  Similarity=0.187  Sum_probs=59.8

Q ss_pred             CEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           79 SKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        79 ~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ++++.++|++++||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++|+|+++++|+|+.
T Consensus        45 G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrL~~~Gk~L~D~~tL~~y~i~~g~~i~lv~  106 (115)
T 1we7_A           45 GQGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMASGAVIHLAL  106 (115)
T ss_dssp             SEEEEEEECSCSBTHHHHHHHHHHSSCCTTTEEEEETTEEECTTSBHHHHTCCSSCEEEEEE
T ss_pred             CeEEEEEECCCCCHHHHHHHHHHHHCCChHHEEEEECCEECCCCCCHHHCCCCCCCEEEEEE
Confidence            47899999999999999999999999999999999999999999999999999999999975

>3rt3_B Ubiquitin-like protein ISG15; ubiquitin-like domain, isgylation, antiviral protein-viral P complex; 2.01A {Homo sapiens} PDB: 3sdl_C 3r66_C 3pse_B 1z2m_A

Probab=99.67  E-value=1.7e-16  Score=121.87  Aligned_cols=71  Identities=24%  Similarity=0.306  Sum_probs=67.2

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEE-E-cCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLL-F-KGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLi-f-kGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      |+|+|++ +++++.++|++++||.+||++|++.+|+||++|+|+ | +|++|+|+.+|++|||+++++|+|+..
T Consensus         3 m~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~QrL~~~~~g~~L~d~~tL~~y~i~~~~~l~l~~~   76 (159)
T 3rt3_B            3 WDLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVD   76 (159)
T ss_dssp             CEEEEEETTSCEEEEECCTTCCHHHHHHHHHHHHCCCGGGEEEEEETTCCBCCTTSCGGGGTCCTTCEEEEEEC
T ss_pred             eEEEEEECCCCEEEEEeCCCCcHHHHHHHHHHHhCCCHHHEEEEEcCCCCCCCCCCCHHHcCCCCCCEEEEEcc
Confidence            7888985 568899999999999999999999999999999999 9 799999999999999999999999876

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

Probab=99.66  E-value=5.4e-16  Score=115.90  Aligned_cols=73  Identities=21%  Similarity=0.242  Sum_probs=66.3

Q ss_pred             eEEEEEeeCC---EEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCC-CCCCEEEEecCC
Q 031040           70 SITIRVSTVS---KWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGV-RDKDKVLLLEDP  142 (167)
Q Consensus        70 ~I~I~Vk~g~---~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GI-kdgskL~Lv~~p  142 (167)
                      .+.|+|++..   ..+.++|+|++||++||++|++..|+||++|||+|+|+.++|+.+|++||| ++|++|||+.-.
T Consensus        24 ~l~v~v~d~~s~~~~i~l~V~ps~TV~~LK~~I~~k~Gipp~~QRli~ggkll~D~~TL~~ygI~~~G~t~hL~l~~  100 (105)
T 4dbg_A           24 RLWVSVEDAQMHTVTIWLTVRPDMTVASLKDMVFLDYGFPPVLQQWVIGQRLARDQETLHSHGVRQNGDSAYLYLLS  100 (105)
T ss_dssp             EEEEEEEESSSCCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEEECTTCBTGGGTCCSTTCEEEEEECC
T ss_pred             EEEEEEEccCCCCceEEEEECCcChHHHHHHHHHHHhCCCHHHEEEeccCeEccCcCcHHHcCCCCCCCEEEEEEEe
Confidence            5788888732   788999999999999999999999999999999999999999999999999 599999997643

>3b08_A Polyubiquitin-C, ubiquitin; protein complex, signaling protein-metal binding protein COM; HET: TRE; 1.70A {Homo sapiens} PDB: 2w9n_A* 3b0a_A* 3axc_A 2zvn_A 2zvo_A 2y5b_B

Probab=99.66  E-value=3.3e-16  Score=117.72  Aligned_cols=72  Identities=25%  Similarity=0.387  Sum_probs=66.9

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecCC
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDP  142 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~p  142 (167)
                      |+|+|++ .++++.++|++++||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++|||+++++|+|+..+
T Consensus         1 M~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gip~~~q~L~~~g~~L~d~~tL~~~~i~~~~~l~l~~~~   73 (152)
T 3b08_A            1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL   73 (152)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECC
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHHHHHCcChHHeEEEECCeECcCcccHHHhccCCCCeeEEEeec
Confidence            5788886 45789999999999999999999999999999999999999999999999999999999998753

>1v6e_A Cytoskeleton-associated protein 1; tubulin-specific chaperone B, tubulin folding cofactor B, microtubule, ubiquitin-like fold, structural genomics; NMR {Mus musculus} SCOP: d.15.1.1

Probab=99.66  E-value=2.4e-16  Score=113.32  Aligned_cols=74  Identities=19%  Similarity=0.270  Sum_probs=66.5

Q ss_pred             CCceEEEEEeeCCE--EEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcC---ee----cCCcchhhhcCCCCCCEEE
Q 031040           67 GEGSITIRVSTVSK--WHDISIKATSTFGELKMILSMVSGLEPREQRLLFKG---KE----REDNEFLHMVGVRDKDKVL  137 (167)
Q Consensus        67 ~~p~I~I~Vk~g~~--~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkG---K~----LdD~~tL~~~GIkdgskL~  137 (167)
                      ++..|+|+|++...  .++++|++++||.+||++|+..+|+||++|+|+|.|   +.    ++|+.+|++|||++|++||
T Consensus         4 ~~~~v~l~I~~~~~~~~~~~~v~~~~TV~~lK~ki~~~~gip~~~qrL~~~~~~g~~~~~l~~D~~tL~~y~i~~g~~l~   83 (95)
T 1v6e_A            4 GSSGVMVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQEDALLGSYPVDDGCRIH   83 (95)
T ss_dssp             CCCCEEEEEEETTSSSCEEEEECTTSBHHHHHHHHHHHTCSCTTTCBCEEECSSSCEEEECCCSSSBTTSSSCCTTCEEE
T ss_pred             CCcEEEEEEEECCCCeeEEEEcCccCHHHHHHHHHHHHHCCCHHHeEEEEeCCCCccccccCCCcCCHhHCCCCCCCEEE
Confidence            45679999998654  689999999999999999999999999999999987   43    5899999999999999999


Q ss_pred             Eec
Q 031040          138 LLE  140 (167)
Q Consensus       138 Lv~  140 (167)
                      |+.
T Consensus        84 v~d   86 (95)
T 1v6e_A           84 VID   86 (95)
T ss_dssp             EBC
T ss_pred             EEE
Confidence            985

>3b08_A Polyubiquitin-C, ubiquitin; protein complex, signaling protein-metal binding protein COM; HET: TRE; 1.70A {Homo sapiens} PDB: 2w9n_A* 3b0a_A* 3axc_A 2zvn_A 2zvo_A 2y5b_B

Probab=99.65  E-value=9.7e-16  Score=115.18  Aligned_cols=72  Identities=25%  Similarity=0.399  Sum_probs=66.4

Q ss_pred             eEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           70 SITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        70 ~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      .+.|+|++ .++++.++|++++||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++|||+++++|+|+..
T Consensus        76 ~~~i~Vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~qrL~~~g~~L~d~~tL~~~~i~~~~~i~l~~r  148 (152)
T 3b08_A           76 GMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR  148 (152)
T ss_dssp             CEEEEEEESSSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEEC
T ss_pred             ccceeeeecCCCEEEEEeCCCCcHHHHHHHHHHHhCcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEEe
Confidence            46777775 4578999999999999999999999999999999999999999999999999999999999864

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

Probab=99.65  E-value=3.2e-16  Score=127.23  Aligned_cols=72  Identities=25%  Similarity=0.367  Sum_probs=68.1

Q ss_pred             eEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           70 SITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        70 ~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      .|+|+|++ .++++.|+|++++||.+||++|++.+|+||++|+|+|+|++|+|+.+|++|+|+++++|+|+..
T Consensus       105 eMqI~VKtl~Gkt~~l~V~~s~TV~~LK~kI~~~~gIp~~~QrLi~~Gk~L~D~~tL~dygI~~gstI~Lvlr  177 (189)
T 3q3f_A          105 GGQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR  177 (189)
T ss_dssp             CEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTCBGGGGTCCTTCEEEECCC
T ss_pred             ceeeeeecCCCCEEEEEeCCCCcHHHHHHHHHhccCCCHHHEEEEECCEECCCCCCHHHCCCCCCCEEEEEEE
Confidence            48999998 5588999999999999999999999999999999999999999999999999999999999853

>3u5e_m 60S ribosomal protein L40; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3u5i_m 4b6a_m 4a18_K 4a19_K 4a1b_K 4a1d_K 4adx_5 3izc_p 3izs_p 3iz5_p 3izr_p

Probab=99.65  E-value=1e-17  Score=126.63  Aligned_cols=70  Identities=26%  Similarity=0.415  Sum_probs=0.0

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      |+|+|++ .++++.++|++++||.+||++|++.+|+||++|+|+|+|++|+|+.+|++|||++|++|+|+.
T Consensus         1 M~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~~I~~gsti~l~~   71 (128)
T 3u5e_m            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL   71 (128)
T ss_dssp             -----------------------------------------------------------------------
T ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCcChHHEEEEECCEECCCCCchhhhccCCCCEEEEEE
Confidence            5678887 457899999999999999999999999999999999999999999999999999999999975

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

Probab=99.64  E-value=6.5e-16  Score=113.14  Aligned_cols=73  Identities=12%  Similarity=0.149  Sum_probs=64.3

Q ss_pred             CceEEEEEeeCC---EEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCe---e----cCCcchhhhcCCCCCCEEE
Q 031040           68 EGSITIRVSTVS---KWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGK---E----REDNEFLHMVGVRDKDKVL  137 (167)
Q Consensus        68 ~p~I~I~Vk~g~---~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK---~----LdD~~tL~~~GIkdgskL~  137 (167)
                      ...|+|.|++..   ..+++.|++++||++||++|+..+|+||++|+|+|.|+   .    ++|+.+|++|+|++|++|+
T Consensus        12 ~~~v~l~It~s~~~~~~~e~~v~~~~TV~~LK~kIe~~~Gip~~~QrLi~~g~~g~~~~~L~~D~~tL~~Y~I~~g~~Ih   91 (97)
T 2kj6_A           12 DDSVHLHITHANLKSFSADARFSPQMSVEAVKEKLWKKCGTSVNSMALELYDDSGSKVAVLSDDSRPLGFFSPFDGFRLH   91 (97)
T ss_dssp             CCCEEEEEEETTSSCCCEEEEECTTCCHHHHHHHHHHHHCCCTTSEEEEEECSSSCBCCCSSGGGSCHHHHCCCSCCEEE
T ss_pred             CceEEEEEEECCCCceEEEEEeCCCChHHHHHHHHHHHHCcCHHHeEEEEecCCCcccceecCCcCCHHHCCCCCCCEEE
Confidence            456777777632   37899999999999999999999999999999999984   3    4888999999999999999


Q ss_pred             Eec
Q 031040          138 LLE  140 (167)
Q Consensus       138 Lv~  140 (167)
                      |+.
T Consensus        92 lvd   94 (97)
T 2kj6_A           92 IID   94 (97)
T ss_dssp             EEE
T ss_pred             EEe
Confidence            985

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

Probab=99.63  E-value=1e-15  Score=119.40  Aligned_cols=71  Identities=25%  Similarity=0.406  Sum_probs=65.5

Q ss_pred             eEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           70 SITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        70 ~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      .+.|+|++ .++++.++|++++||.+||++|+..+|+||++|+|+|+|++|+|+.+|++|+|++|++|+|+.
T Consensus        96 g~~i~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~q~L~~~g~~L~D~~tL~~y~i~~g~tl~l~~  167 (172)
T 3u30_A           96 GMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL  167 (172)
T ss_dssp             CEEEEEEESSCCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTSBSGGGTCCTTCEEEECC
T ss_pred             cccceeecccCcceeEEecCCCCHHHHHHHHHHHhCCCceeEEEEECCccCCCCCcHHHhCCCCCCEEEEEE
Confidence            35667775 457899999999999999999999999999999999999999999999999999999999975

>3u5c_f 40S ribosomal protein S31; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3u5g_f

Probab=99.60  E-value=7e-17  Score=126.86  Aligned_cols=70  Identities=26%  Similarity=0.415  Sum_probs=0.0

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      |+|+|++ .++++.|+|++++||.+||++|++.+|+||++|+|+|+|++|+|+.+|++|||+++++|+|+.
T Consensus         1 MqI~VK~l~G~~~~l~V~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~dygI~~gstL~Lvl   71 (152)
T 3u5c_f            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL   71 (152)
T ss_dssp             -----------------------------------------------------------------------
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEEccccCcHHHcCCCCCCEEEEEe
Confidence            5678887 457889999999999999999999999999999999999999999999999999999999975

>1se9_A Ubiquitin family; ubiquitin-like, cell-free, wheat GERM, structural genomics, protein structure initiative, CESG; NMR {Arabidopsis thaliana} SCOP: d.15.1.1

Probab=99.60  E-value=4.8e-15  Score=113.98  Aligned_cols=82  Identities=12%  Similarity=0.112  Sum_probs=67.1

Q ss_pred             CCceEEEEEee--CCEEEEEEEcCCCCHHHHHHHH-----HhhhCCCC--CceEEEEcCeecCCcchhhhcCCCCC----
Q 031040           67 GEGSITIRVST--VSKWHDISIKATSTFGELKMIL-----SMVSGLEP--REQRLLFKGKEREDNEFLHMVGVRDK----  133 (167)
Q Consensus        67 ~~p~I~I~Vk~--g~~~~~VeV~~t~TV~eLK~~I-----a~~TGVpp--e~QKLifkGK~LdD~~tL~~~GIkdg----  133 (167)
                      ....|.|+|++  |.....+++++++||.+||++|     ++..|+|+  ++|||||.||.|+|+.||++|+|+++    
T Consensus        13 ~~~~~~i~~kt~~G~~i~~l~v~psdTV~~lK~kI~~~~p~dkegiP~~~~qQrLIy~GK~LeD~~TLsdy~I~~~~~~~   92 (126)
T 1se9_A           13 VHNQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVSNLAG   92 (126)
T ss_dssp             SCCCEEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCTTSCTT
T ss_pred             hcccEEEEEEECCCCEEEeeecCccCHHHHHHHHHHhhcccccccCCCChhhEEEEECCeECcCCCcHHHcCCCcCCccC
Confidence            34567888876  4344479999999999999999     56789997  89999999999999999999999999    


Q ss_pred             --CEEEEecCCchhhhh
Q 031040          134 --DKVLLLEDPAIKDMK  148 (167)
Q Consensus       134 --skL~Lv~~p~~~~~k  148 (167)
                        ++|+|+..+...+++
T Consensus        93 ~v~tmhlVlrl~g~~kk  109 (126)
T 1se9_A           93 AVTTMHVIIQAPVTEKE  109 (126)
T ss_dssp             CCEEEEEEECCCSSCCC
T ss_pred             CcEEEEEEeccCCcccc
Confidence              578887654443333

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

Probab=99.58  E-value=2.8e-15  Score=110.30  Aligned_cols=75  Identities=15%  Similarity=0.163  Sum_probs=65.4

Q ss_pred             CceEEEEEeeCCEEEEEEEc-CCCCHHHHHHHHHhhhCCCCCceEEEEcCe-----------e----cCCcchhhhcCCC
Q 031040           68 EGSITIRVSTVSKWHDISIK-ATSTFGELKMILSMVSGLEPREQRLLFKGK-----------E----REDNEFLHMVGVR  131 (167)
Q Consensus        68 ~p~I~I~Vk~g~~~~~VeV~-~t~TV~eLK~~Ia~~TGVppe~QKLifkGK-----------~----LdD~~tL~~~GIk  131 (167)
                      ...|.|+|++..-.+.|+|+ +++||.+||++|++.+|+||++|+|+|.|+           .    ++|+.+|++|||+
T Consensus         5 ~~~M~irvrs~~G~~~v~v~~~~~Tv~~LK~kI~~~~gip~~~QrL~~~~~~~~~k~~~~~~~l~~~l~d~~tL~~~gi~   84 (107)
T 1wf9_A            5 SSGTMLRVRSRDGLERVSVDGPHITVSQLKTLIQDQLQIPIHNQTLSTNRNLLLAKSPSDFLAFTDMADPNLRISSLNLA   84 (107)
T ss_dssp             CCCEEEEEECSSCEEEEEECCTTSBHHHHHHHHHHHSCCCTTTCCCBSSGGGGTCCSHHHHTTCCSSCCTTCBGGGTCCC
T ss_pred             CCeEEEEEECCCCCEEEEECCCCCcHHHHHHHHHHHhCcCcccCEEEECCccccccCccccccccccCCCCCCHHHCCCC
Confidence            34478999873334579999 999999999999999999999999999998           4    5888999999999


Q ss_pred             CCCEEEEecCC
Q 031040          132 DKDKVLLLEDP  142 (167)
Q Consensus       132 dgskL~Lv~~p  142 (167)
                      +|++|||+..+
T Consensus        85 ~G~~L~l~~~~   95 (107)
T 1wf9_A           85 HGSMVYLAYEG   95 (107)
T ss_dssp             TTCEEECCCSS
T ss_pred             CCCEEEEEeCC
Confidence            99999998654

>1t0y_A Tubulin folding cofactor B; ubiquitin-like, cytoskeleton, microtubule, CESG, structural genomics, protein structure initiative, PSI; NMR {Caenorhabditis elegans} SCOP: d.15.1.1

Probab=99.57  E-value=6.7e-15  Score=110.71  Aligned_cols=76  Identities=18%  Similarity=0.241  Sum_probs=66.7

Q ss_pred             ceEEEEEeeCCE--EEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcC---e---e-cCCcchhhhcCCCCCCEEEEe
Q 031040           69 GSITIRVSTVSK--WHDISIKATSTFGELKMILSMVSGLEPREQRLLFKG---K---E-REDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        69 p~I~I~Vk~g~~--~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkG---K---~-LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      ..|+|+|++...  .+++.|++++||.+||++|+..+|+||++|+|+|.|   +   . ++|+.+|++|||++|++|||+
T Consensus         5 ~~v~l~V~~~~~~~~~e~~v~~~~TV~~lK~ki~~~~Gip~~~qrL~~~g~~~~~~~~l~~D~~tL~~y~i~~g~~ihvv   84 (122)
T 1t0y_A            5 EVYDLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRIHAV   84 (122)
T ss_dssp             CEEEEEEEESSCCSCEEEEEETTSBHHHHHHHHHHHHCCCTTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSEEEEEE
T ss_pred             CEEEEEEEECCCCccEEEEeCCCCcHHHHHHHHHHHhCCCHHHeEEEEecCCCccccccCCCcCCHHHCCCCCCCEEEEE
Confidence            478999998554  689999999999999999999999999999999987   4   3 478899999999999999998


Q ss_pred             c-CCch
Q 031040          140 E-DPAI  144 (167)
Q Consensus       140 ~-~p~~  144 (167)
                      . .|.+
T Consensus        85 d~~p~~   90 (122)
T 1t0y_A           85 DVTGGN   90 (122)
T ss_dssp             ECTTCC
T ss_pred             eCCCCC
Confidence            5 4553

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

Probab=99.56  E-value=3.2e-15  Score=107.11  Aligned_cols=70  Identities=16%  Similarity=0.271  Sum_probs=61.7

Q ss_pred             ceEEEEEeeC--CEE-EEE-EEcCCCCHHHHHHHHHhh-hCCCCCceEEEEc--CeecCCcchhhhcCCCCCCEEEE
Q 031040           69 GSITIRVSTV--SKW-HDI-SIKATSTFGELKMILSMV-SGLEPREQRLLFK--GKEREDNEFLHMVGVRDKDKVLL  138 (167)
Q Consensus        69 p~I~I~Vk~g--~~~-~~V-eV~~t~TV~eLK~~Ia~~-TGVppe~QKLifk--GK~LdD~~tL~~~GIkdgskL~L  138 (167)
                      .+|+|+|++.  +.. +.| +|+|++||.+||++|++. .|+||++|+|+|.  ||.|+|+.+|++|||+++++|++
T Consensus         9 ~~M~I~Vk~~~g~~~~~~l~~v~~~~TV~~lK~~I~~~~~~i~~~~QrL~~~~~Gk~L~D~~tL~~y~i~~~stl~~   85 (88)
T 2dzj_A            9 KHYEVEILDAKTREKLCFLDKVEPHATIAEIKNLFTKTHPQWYPARQSLRLDPKGKSLKDEDVLQKLPVGTTATLYF   85 (88)
T ss_dssp             CCEEEEEEESSSCCCCEEEEEECSSCBHHHHHHHHHHHCSSSCTTTCCEESSTTSCCCCTTCBTTTSSCCSEEEEEE
T ss_pred             EEEEEEEECCCCCEEeeEEeEcCCCCcHHHHHHHHHHHhcCCChHHeEEEecCCCcCcCCCCCHHHcCCCCCCEEEE
Confidence            3589999973  332 368 999999999999999994 8999999999976  99999999999999999999876

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

Probab=99.55  E-value=1.3e-14  Score=125.55  Aligned_cols=73  Identities=27%  Similarity=0.433  Sum_probs=68.8

Q ss_pred             CceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           68 EGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        68 ~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ...|+|+|++ .++++.++|++++||.+||++|++.+|+||++|+|+|+|++|+|+.+|++|+|+++++|+|+.
T Consensus       231 ~~~MqI~VKtl~Gk~~~leV~~s~TV~dLK~kI~~~~GIp~~~QRLi~~Gk~L~D~~TLsdygI~~gstL~Lvl  304 (307)
T 3ai5_A          231 TGSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL  304 (307)
T ss_dssp             CCCEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTGGGTCCTTCEEEEEC
T ss_pred             CCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEeCCeecCCCCCHHHcCCCCCCEEEEEE
Confidence            4678999998 457899999999999999999999999999999999999999999999999999999999985

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

Probab=99.52  E-value=1.6e-14  Score=101.90  Aligned_cols=72  Identities=18%  Similarity=0.294  Sum_probs=61.9

Q ss_pred             EEEEEeeCCEEEEEE-EcCCCCHHHHHHHHHhhhCCCCCceEEEEcC--eecC---CcchhhhcCCCCCCEEEEecCC
Q 031040           71 ITIRVSTVSKWHDIS-IKATSTFGELKMILSMVSGLEPREQRLLFKG--KERE---DNEFLHMVGVRDKDKVLLLEDP  142 (167)
Q Consensus        71 I~I~Vk~g~~~~~Ve-V~~t~TV~eLK~~Ia~~TGVppe~QKLifkG--K~Ld---D~~tL~~~GIkdgskL~Lv~~p  142 (167)
                      |+|+|++.+..+.|+ +++++||.+||+.|++.+|+||++|+|+|.+  |.++   |+.+|++|||++|++|+|..+.
T Consensus         1 m~i~vr~~~G~~~v~~l~~~~Tv~~Lk~~I~~~~gi~~~~qrL~~~~p~k~l~l~~~~~tL~~~gl~~g~~l~v~~~~   78 (86)
T 2kzr_A            1 WRVRCKAKGGTHLLQGLSSRTRLRELQGQIAAITGIAPGSQRILVGYPPECLDLSDRDITLGDLPIQSGDMLIVEEDQ   78 (86)
T ss_dssp             CCEEEEETTEEEEECSCCTTCBHHHHHHHHHHHTCCCTTTCCCEESSCCCCCCCCCSSCBTTTSSCCTTCEEECCCCS
T ss_pred             CEEEEEcCCCCEEeeecCCCCCHHHHHHHHHHHhCCCccceEEEeCCCCcccccCCCCCCHHHcCCCCCCEEEEEeCC
Confidence            467777744355688 9999999999999999999999999999974  7774   6789999999999999988663

>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=99.51  E-value=1.4e-14  Score=127.60  Aligned_cols=73  Identities=19%  Similarity=0.283  Sum_probs=65.9

Q ss_pred             CceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHh---hhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEE-EEec
Q 031040           68 EGSITIRVST-VSKWHDISIKATSTFGELKMILSM---VSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKV-LLLE  140 (167)
Q Consensus        68 ~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~---~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL-~Lv~  140 (167)
                      ...|+|+||+ .+++|.|+|++++||.+||++|+.   .+|+|+++|||+|+||.|+|+.+|++|||+++++| +|+.
T Consensus         5 ~~~M~I~VKtl~Gk~~~leV~~~~TV~~LK~~I~~~~~~~gip~~~QrLiy~GK~L~D~~tL~dygI~~gstIv~lv~   82 (368)
T 1oqy_A            5 SSAVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVT   82 (368)
T ss_dssp             -CCCCEEEEETTTEEEEECCCTTCBHHHHHHHHHHHTCSSSCCSTEEEEESSSSEECSSSBTTTTCCCTTSCEEEEEE
T ss_pred             CceEEEEEEeCCCCEEEEEeCCCChHHHHHHHHHHHhCcCCCChhheEEEECCeecCCcCCHHHcCCCCCCEEEEEEe
Confidence            3568899998 468999999999999999999999   68899999999999999999999999999999999 4543

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

Probab=99.40  E-value=2.4e-14  Score=116.67  Aligned_cols=65  Identities=18%  Similarity=0.176  Sum_probs=0.0

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      |+|+|++ .++++.|+|++++||.+||++|++.+|+||++|+|+|+|++|+|+.+|+     ++++|+|+.
T Consensus         1 MqI~VKtL~GktitLeV~~sdTV~~LK~kI~~keGIP~~qQRLIf~GK~LeD~~TLs-----~~STLhLvl   66 (189)
T 2xzm_9            1 MQVQVKTLEGETKIYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAPNTELVT-----DDVTYYLSL   66 (189)
T ss_dssp             -----------------------------------------------------------------------
T ss_pred             CEEEEEcCCCCEEEEEECCcChHHHHHHHHHHHhCcChhHEEEEecCeECCCCCccc-----CCCEEEEEE
Confidence            5788886 4588999999999999999999999999999999999999999999998     899999984

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

Probab=99.39  E-value=1.6e-12  Score=93.47  Aligned_cols=73  Identities=18%  Similarity=0.184  Sum_probs=62.0

Q ss_pred             CceEEEEEee----CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcC-------eec-CCcchhhhcCCCCCCE
Q 031040           68 EGSITIRVST----VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKG-------KER-EDNEFLHMVGVRDKDK  135 (167)
Q Consensus        68 ~p~I~I~Vk~----g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkG-------K~L-dD~~tL~~~GIkdgsk  135 (167)
                      ...|+|+|..    .++.+++.++++.||++||.+|+..||+||..|+|+|.+       ..| +|..+|+.|||.+|++
T Consensus         7 ~~~v~l~I~~~~~~~~~~~e~~l~~~~TV~~LK~~i~~~~gip~~~q~L~~~~~~~~~~~~~L~~d~~~L~~y~i~~G~~   86 (97)
T 1wjn_A            7 GQLLTLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSKMPGREIELENDLQPLQFYSVENGDC   86 (97)
T ss_dssp             SCEEEEEEEESSCSSSCCEEEEEETTSBHHHHHHHHHTTTTCCTTTCEEEEECTTSCSCEEECCCSSSBSGGGTCCTTCE
T ss_pred             CccEEEEEEecCCCCCcEEEEECCCCCCHHHHHHHHHHHHCCChhHeEEEEEcCCCCceeeccCCCcccHhhcCCCCCCE
Confidence            3457776653    346888999999999999999999999999999999973       124 6778999999999999


Q ss_pred             EEEec
Q 031040          136 VLLLE  140 (167)
Q Consensus       136 L~Lv~  140 (167)
                      |+|..
T Consensus        87 I~V~d   91 (97)
T 1wjn_A           87 LLVRW   91 (97)
T ss_dssp             EEEEC
T ss_pred             EEEEe
Confidence            99976

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

Probab=99.36  E-value=2.9e-12  Score=92.99  Aligned_cols=73  Identities=18%  Similarity=0.304  Sum_probs=67.9

Q ss_pred             CceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           68 EGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        68 ~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      .+.|+|+|+. .++.+.+.|.+++++..|++.+++..|+|+++|+|+|.|+.|.+++|+++|+++++|+|+++.
T Consensus         5 ~~~i~ikVk~~~g~~i~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~   78 (94)
T 2io1_B            5 NDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQ   78 (94)
T ss_dssp             -CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTCEEEEEE
T ss_pred             CCeEEEEEECCCCCEEEEEECCCCHHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEE
Confidence            4679999996 456788999999999999999999999999999999999999999999999999999999985

>1wm3_A Ubiquitin-like protein SMT3B; ubiquitin fold, half-open barrel, two helices, protein transport; 1.20A {Homo sapiens} SCOP: d.15.1.1 PDB: 1wm2_A 3uin_B 3uio_B 2ckh_B

Probab=99.30  E-value=1.1e-11  Score=85.14  Aligned_cols=69  Identities=19%  Similarity=0.310  Sum_probs=64.8

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEe
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      |+|+|+. .+..+.+.|.+++++..|++..++..|+++.+|+|+|.|+.|.+++|.++|++++||+|+++
T Consensus         2 i~lkV~~~~g~~v~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~~l~medgD~Idv~   71 (72)
T 1wm3_A            2 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVF   71 (72)
T ss_dssp             EEEEEECTTSCEEEEEECTTSCTHHHHHHHHHHHTCCTTTCEEEETTEECCTTCCTTTTTCCTTEEEEEE
T ss_pred             EEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEE
Confidence            7888986 45678999999999999999999999999999999999999999999999999999999885

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

Probab=99.29  E-value=2.3e-11  Score=85.23  Aligned_cols=73  Identities=19%  Similarity=0.302  Sum_probs=67.2

Q ss_pred             CCceEEEEEee-CC-EEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEe
Q 031040           67 GEGSITIRVST-VS-KWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        67 ~~p~I~I~Vk~-g~-~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      .+..|+|+|+. .+ +.+.+.|.+++++..|+...++..|+++++|+|+|.|+.|.+++|.++|++++||+|+++
T Consensus         4 ~~~~i~ikV~~~~g~~~i~~~i~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~~l~medgD~Idv~   78 (79)
T 3a4r_A            4 GSQELRLRVQGKEKHQMLEISLSPDSPLKVLMSHYEEAMGLSGHKLSFFFDGTKLSGKELPADLGLESGDLIEVW   78 (79)
T ss_dssp             CCCCEEEEEECSSTTCEEEEEECTTSCHHHHHHHHHHHHTCTTCCCEEEETTEECCSCCCHHHHTCCTTCEEEEE
T ss_pred             CCCEEEEEEEeCCCCEEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEe
Confidence            35679999996 44 478899999999999999999999999999999999999999999999999999999886

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

Probab=99.26  E-value=2.3e-11  Score=87.95  Aligned_cols=74  Identities=18%  Similarity=0.304  Sum_probs=67.8

Q ss_pred             CceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           68 EGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        68 ~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      .+.|+|+|+. .+..+.+.|.+++++..|++..++..|+++.+|+|+|.|+.|.+++|.++|++++||+|.++..
T Consensus         3 ~~~i~ikVk~~~g~~v~~~vk~~t~l~kl~~~y~~~~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~   77 (91)
T 2io0_B            3 NDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQ   77 (91)
T ss_dssp             -CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHTTCCSTTEEEEETTEECCTTCCTTTTTCCTTEEEEEEEC
T ss_pred             CCeEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEe
Confidence            3578999996 4567899999999999999999999999999999999999999999999999999999998753

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

Probab=99.22  E-value=5.9e-11  Score=85.68  Aligned_cols=74  Identities=18%  Similarity=0.304  Sum_probs=68.2

Q ss_pred             CceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           68 EGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        68 ~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      ...|+|+|+. .+..+.+.|.+++++..|+..+++..|+++++|+|+|.|+.|.+++|+++|+++++|+|+++..
T Consensus        15 ~~~i~ikV~~~~g~~i~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~dl~medgD~Idv~~~   89 (93)
T 2d07_B           15 NDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQ   89 (93)
T ss_dssp             CCEEEEEEECTTSCEEEEEEETTSCHHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEEC
T ss_pred             CCeEEEEEECCCCCEEEEEEccCCHHHHHHHHHHHHhCCCccceEEEECCEEcCCCCCHHHcCCCCCCEEEEEee
Confidence            4579999996 4467889999999999999999999999999999999999999999999999999999998753

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

Probab=99.20  E-value=6e-11  Score=87.82  Aligned_cols=73  Identities=18%  Similarity=0.304  Sum_probs=67.9

Q ss_pred             CceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           68 EGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        68 ~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ...|+|+|+. .+..+.+.|.+++++..|+..+++..|+++.+|+|+|.|+.|.+++|+++|+++++|+|+++.
T Consensus        22 ~~~I~IkVk~~~g~~i~~kVk~~t~l~kL~~~y~ek~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~   95 (104)
T 1wz0_A           22 NDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQ   95 (104)
T ss_dssp             SCCEEEEEECSSSCEEEEEECTTSCHHHHHHHHHHHHTCCTTTSCEESSSSBCCTTSCTTTTTCCTTEEEEECC
T ss_pred             CCeEEEEEECCCCCEEEEEEcCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEEE
Confidence            4679999996 446788999999999999999999999999999999999999999999999999999999875

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

Probab=99.14  E-value=9.9e-11  Score=87.66  Aligned_cols=74  Identities=16%  Similarity=0.259  Sum_probs=68.3

Q ss_pred             CceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           68 EGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        68 ~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      ...|+|+|+. .+..+.+.|.+++++..|++.+++..|+++++|+|+|.|+.|.+++|+++|+++++|+|.++..
T Consensus        24 ~~~I~IkVk~~~g~~i~fkVk~~t~l~kL~~ay~ek~gi~~~~~rfiFdG~~L~~~~Tp~dl~mEDgD~Idv~~~   98 (110)
T 2k8h_A           24 TALVAVKVVNADGAEMFFRIKSRTALKKLIDTYCKKQGISRNSVRFLFDGTPIDETKTPEELGMEDDDVIDAMVE   98 (110)
T ss_dssp             CCCEEEEEEETTSCCEEEEECTTSSHHHHHHHHHHHHTCCSSSCEEESSSCBCCSSSHHHHHHCSSEEEEEEECC
T ss_pred             CCeEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEc
Confidence            4679999996 4467789999999999999999999999999999999999999999999999999999998754

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

Probab=99.14  E-value=2e-10  Score=85.49  Aligned_cols=75  Identities=21%  Similarity=0.227  Sum_probs=68.7

Q ss_pred             CCceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           67 GEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        67 ~~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      ....|+|+|++.+..+.+.|.+++++..|+..+++..|+++.+|+|+|.|+.|.++.|.++|+++++|+|.++..
T Consensus        28 ~~~~I~IkV~~~g~~i~fkIk~tt~l~kL~~ay~ek~gi~~~~~rF~FdG~rl~~~~Tp~dl~medgD~Idv~~~  102 (106)
T 2eke_C           28 PETHINLKVSDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHRE  102 (106)
T ss_dssp             CCSEEEEEEECSSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEEC
T ss_pred             CCCeEEEEEecCCcEEEEEeCCCCHHHHHHHHHHHHhCCCcccEEEEECCeEcCCCCCHHHcCCCCCCEEEEEee
Confidence            346799999984467889999999999999999999999999999999999999999999999999999998753

>3kyd_D Small ubiquitin-related modifier 1; SUMO, thioester, adenylation, inhibitor, TETR intermediate, ligase, nucleus, phosphoprotein; HET: VMX; 2.61A {Homo sapiens} SCOP: d.15.1.1

Probab=98.81  E-value=2.6e-08  Score=75.36  Aligned_cols=73  Identities=22%  Similarity=0.306  Sum_probs=66.6

Q ss_pred             CceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           68 EGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        68 ~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      .+.|+|+|+. .+..+.+.|.+++++..|+...++..|+++..++++|.|+.|.+++|..++++.|||+|.++.
T Consensus        38 ~~~I~LKV~~qdg~ev~fkIk~tt~L~KLm~aY~er~Gl~~~~irFlFDG~rI~~~~TP~dL~MEDgD~IdV~~  111 (115)
T 3kyd_D           38 GEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQ  111 (115)
T ss_dssp             -CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHHTCCTTSEEEEETTEECCTTCCTTTTTCCTTCEEEEEE
T ss_pred             CCeEEEEEEcCCCCEEEEEEccCChHHHHHHHHHHHhCCChhhEEEEECCeECCCCCCHHHcCCCCCCEEEEEe
Confidence            4679999986 445578999999999999999999999999999999999999999999999999999998864

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

Probab=98.79  E-value=3.1e-09  Score=74.88  Aligned_cols=69  Identities=16%  Similarity=0.243  Sum_probs=57.4

Q ss_pred             EEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCee---c--CCcchhhhcCCCCCCEEEEe
Q 031040           71 ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKE---R--EDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        71 I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~---L--dD~~tL~~~GIkdgskL~Lv  139 (167)
                      |.|+|+.-.-++.|+|++++||.+|+++|++.++++++.|.|.+.-.+   |  .++.+|+++||+.||+|+|.
T Consensus         5 m~lRvrs~~G~~Ri~v~~~~t~~~L~~~I~~~~~i~~~~~~l~~~~~p~~~l~~~~~~~l~~lgl~hGd~l~l~   78 (80)
T 2pjh_A            5 IIIRVQSPDGVKRITATKRETAATFLKKVAKEFGFQNNGFSVYINRNKTGEITASSSKSLHLLKIKHGDLLFLF   78 (80)
T ss_dssp             CCCEEECSSEEEECCCCSSCCHHHHHHHHHHHTCCCTTTCCCCCSCCGGGGSSSCCCCTTTTTCCCTTCCEEC-
T ss_pred             EEEEEECCCCCEEEEcCCcChHHHHHHHHHHHcCCCCCcceEEecCCCCCcccCCCCCCHHHcCCCCCCEEEEe
Confidence            667777644578899999999999999999999999999888665543   3  36789999999999999874

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

Probab=98.76  E-value=2.7e-08  Score=81.49  Aligned_cols=73  Identities=22%  Similarity=0.228  Sum_probs=68.0

Q ss_pred             CceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           68 EGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        68 ~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ...|+|+|+..+..+.+.|.+++++..|++..++..|+++.+++++|.|+.|.+++|.+++++.+||+|.++.
T Consensus        27 ~~~I~LkV~~~g~~v~fkIk~~t~l~kL~~ay~er~Gi~~~~~RF~FdG~rI~~~~TP~dL~MEdgD~Idv~~   99 (200)
T 3pge_A           27 ETHINLKVSDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHR   99 (200)
T ss_dssp             CCCEEEEEECSSCEEEEEECTTSCTHHHHHHHHHHHSSCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEE
T ss_pred             CCeEEEEEecCCCEEEEEEecCCHHHHHHHHHHHHhCCChhhEEEEECCEEcCCCCCHHHcCCCCCCEEEEEe
Confidence            4568999987667789999999999999999999999999999999999999999999999999999998874

>3tix_A Ubiquitin-like protein SMT3, RNA-induced transcri silencing complex protein TAS3; PIN, rossmann fold, SPOC, alpha-helical hairpin, heterochrom silencing, RITS, RNAI, argonaute; 2.90A {Saccharomyces cerevisiae}

Probab=98.65  E-value=6.1e-08  Score=79.87  Aligned_cols=73  Identities=22%  Similarity=0.221  Sum_probs=68.0

Q ss_pred             CceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           68 EGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        68 ~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ...|+|+|+..+..+.+.|.+++++..|++..++..|+++..++++|.|+.|.+++|..++++.|+|+|.++.
T Consensus        55 ~e~InLKVk~dG~eV~FKIKrtTpL~KLmeAYcERqGL~~~sIRFLFDGqRI~~ddTPeDLdMEDGDtIDV~l  127 (207)
T 3tix_A           55 ETHINLKVSDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLTFLYDGIEIQADQTPEDLDMEDNDIIEAHR  127 (207)
T ss_dssp             CCEEEEEEECSSCEEEEEEETTSCTHHHHHHHHHHTTCCGGGSCEEETTEECCSSCCTTTTTCCTTEEEEECC
T ss_pred             CCcEEEEEecCCCEEEEEEccCChHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCHHHcCCCCCCEEEEEE
Confidence            4568999987667788999999999999999999999999999999999999999999999999999999875

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

Probab=98.65  E-value=7.3e-08  Score=70.68  Aligned_cols=70  Identities=11%  Similarity=0.194  Sum_probs=53.2

Q ss_pred             eEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecC--Ccchhhhc-CCCCCCEEEEe
Q 031040           70 SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKERE--DNEFLHMV-GVRDKDKVLLL  139 (167)
Q Consensus        70 ~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~Ld--D~~tL~~~-GIkdgskL~Lv  139 (167)
                      .|.|+.......|.++|.++.|+..||++|++.|||||++|+|+|.|+.+.  .+..-..| .-.+..-|+|+
T Consensus        14 vvHVf~~~~a~~h~v~I~~~etv~~~ke~V~eqTgIp~~~Q~LL~eg~~l~l~p~~~a~~~p~Tt~~~Pl~L~   86 (94)
T 4efo_A           14 VIHVFSLQQMTAHKIYIHSYNTATIFHELVYKQTKIISSNQELIYEGRRLVLEPGRLAQHFPKTTEENPIFVV   86 (94)
T ss_dssp             EEEEEETTTTEEEEEEEETTCBHHHHHHHHHHHHCCCGGGEEEEETTEEECCCTTCBGGGSCCCBTTBCEEEE
T ss_pred             eEEEEEcccceEEEEEeccchHHHHHHHHHHHHhCCCHHHHHHHhCCCccccCCCCccccCCCCCCCCCEEEE
Confidence            355555666699999999999999999999999999999999999998764  33333333 33444556554

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

Probab=98.24  E-value=1.4e-07  Score=78.67  Aligned_cols=73  Identities=22%  Similarity=0.228  Sum_probs=0.0

Q ss_pred             CceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           68 EGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        68 ~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ...|+|+|...+..+.+.|.+++.+..|++..++..|+++..++++|.|+.+.+++|.++++++|||+|.++.
T Consensus        19 ~e~InLKV~qdGseV~FKIKrtTpL~KLM~AYcERqGLs~~siRFLFDGqRI~dddTPadL~MEDGDtIDV~l   91 (227)
T 3v7o_A           19 ETHINLKVSDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHR   91 (227)
T ss_dssp             -------------------------------------------------------------------------
T ss_pred             CCeEEEEEeCCCCEEEEEEccCChHHHHHHHHHHHhCCCccceEEEECCEecCCCCCHHHcCCCCCCEEEEEe
Confidence            4568888854557778999999999999999999999999999999999999999999999999999998874

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

Probab=98.23  E-value=9.1e-06  Score=59.48  Aligned_cols=73  Identities=18%  Similarity=0.272  Sum_probs=65.9

Q ss_pred             CCceEEEEEee-CC-EEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEe
Q 031040           67 GEGSITIRVST-VS-KWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        67 ~~p~I~I~Vk~-g~-~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      ....|+|+|+. .+ +.+.+.|.++.++.-|....++..|+++..-+++|.|..+.+++|.+++++.|||.|-+.
T Consensus        22 ~~~~I~LkV~~~dg~~~v~fkIk~~t~l~kLm~aY~~~~g~~~~~vrF~FDG~rI~~~~TP~dLdMEDgD~IDv~   96 (97)
T 2jxx_A           22 TSQQLQLRVQGKEKHQTLEVSLSRDSPLKTLMSHYEEAMGLSGRKLSFFFDGTKLSGRELPADLGMESGDLIEVW   96 (97)
T ss_dssp             SCSEEEEEEEESSSSCEEEEEEETTSCHHHHHHHHHHHTTCSSSCCEEEETTEECCSCSCHHHHTCCTTEEEEEE
T ss_pred             CCCeEEEEEEcCCCCEEEEEEECCCChHHHHHHHHHHHHCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEe
Confidence            34678999986 33 467899999999999999999999999999999999999999999999999999999765

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

Probab=98.15  E-value=8.2e-06  Score=66.16  Aligned_cols=73  Identities=22%  Similarity=0.228  Sum_probs=67.4

Q ss_pred             CceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           68 EGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        68 ~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ...|.|+|...+..+.+.|..++.+.-|++..++..|+++.+++++|.|+.+.+++|-.++.+.|+|.|.+..
T Consensus        19 ~~~i~ikv~~~~~~v~~~i~~~~~l~kl~~~y~~~~g~~~~~~~f~fdG~~i~~~~Tpk~L~~ed~d~I~~~~   91 (209)
T 3uf8_A           19 ETHINLKVSDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHR   91 (209)
T ss_dssp             CSEEEEEEECSSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGCEEEETTEECCTTCCTTTTTCCTTEEEEEEC
T ss_pred             CCcEEEEEEcCCCEEEEEEeeCCHHHHHHHHHHHhhCCChheEEEEECCEeccCCCChHHhhhcccccchhhc
Confidence            4678999987556778999999999999999999999999999999999999999999999999999998875

>3goe_A DNA repair protein RAD60; SUMO-like domain, sumoylation, SUMO, genome stability, DNA damage, DNA recombination, nucleus; HET: DNA; 0.97A {Schizosaccharomyces pombe} PDB: 3rcz_A*

Probab=98.14  E-value=1.9e-05  Score=56.62  Aligned_cols=71  Identities=20%  Similarity=0.196  Sum_probs=62.1

Q ss_pred             eEEEEEeeCC-EEEEEEEcCCCCHHHHHHHHHhhhCCCCC-ceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           70 SITIRVSTVS-KWHDISIKATSTFGELKMILSMVSGLEPR-EQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        70 ~I~I~Vk~g~-~~~~VeV~~t~TV~eLK~~Ia~~TGVppe-~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      .|++-+...+ ....+.|.++++|.+|-+.-..+.|||++ ..+|+|.|-.|+.++++++|++.|+|.|-++.
T Consensus         9 ~~~~~~~~~~~~dl~f~I~~~t~v~kLi~ayc~~~~I~~~~~IrllFDGdRLdp~~tp~DlemeD~D~IDvmL   81 (82)
T 3goe_A            9 LITLLLRSSKSEDLRLSIPVDFTVKDLIKRYCTEVKISFHERIRLEFEGEWLDPNDQVQSTELEDEDQVSVVL   81 (82)
T ss_dssp             EEEEEEEESSSCCEEEEEETTSBHHHHHHHHHHHHTCCCCTTCEEEETTEECCTTSBGGGSSCCTTCEEEEEC
T ss_pred             HHHHhhhccCCCCeEEEecCCCCHHHHHHHHHHHcCCCcCceEEEEEcCcccCccCChhhhCCcCCceeeeee
Confidence            4555555432 45789999999999999999999999999 99999999999999999999999999997764

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

Probab=98.12  E-value=2.9e-07  Score=81.25  Aligned_cols=86  Identities=20%  Similarity=0.161  Sum_probs=4.9

Q ss_pred             CceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecCCchhhh
Q 031040           68 EGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDPAIKDM  147 (167)
Q Consensus        68 ~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~p~~~~~  147 (167)
                      .+.|+|+|+..+..+.+.|.+++++..|++..++..|++++.++++|.|+.+.+++|.++++++|||+|.++..-..-++
T Consensus        19 ~~~I~LKV~~~g~~v~FkIk~~t~l~kLm~aY~~r~G~~~~~~rFlFdG~rI~~~~TP~~L~MEDgD~Idv~~~Q~g~~~   98 (360)
T 3ix6_A           19 ETHINLKVSDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGGMR   98 (360)
T ss_dssp             ------------------------------------------------------------------------------CH
T ss_pred             CCeEEEEEecCCcEEEEEEecCChHHHHHHHHHHHhCCCcceEEEEECCeECCCCCChHHcCCCccchhhhhhccCchHH
Confidence            45788999876577788999999999999999999999999999999999999999999999999999999877666666


Q ss_pred             hhhccc
Q 031040          148 KLHGLR  153 (167)
Q Consensus       148 k~~~~~  153 (167)
                      .|+++.
T Consensus        99 ~Yl~l~  104 (360)
T 3ix6_A           99 TYLDLL  104 (360)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            666654

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

Probab=97.95  E-value=1.8e-05  Score=56.42  Aligned_cols=69  Identities=16%  Similarity=0.136  Sum_probs=57.7

Q ss_pred             EEEEEe---eCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCC-----ceEEEEcCeecCCcchhhhcCCCCCCEEEEe
Q 031040           71 ITIRVS---TVSKWHDISIKATSTFGELKMILSMVSGLEPR-----EQRLLFKGKEREDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        71 I~I~Vk---~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe-----~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      |.|++-   +.++.+++.|+...|+.+|++.|.+..+++..     ..|+.-++..|.+++.|.+|+|.+||.|.++
T Consensus         5 I~ITidl~~y~~~~~DLRIP~~~tvK~Li~~l~ea~~l~~~~~~~~~irv~NK~~~L~~~~~L~d~~ItnGD~Leil   81 (81)
T 2bps_A            5 IDITIDLKHYNGSVFDLRLSDYHPVKKVIDIAWQAQSVSMPPREGHWIRVVNKDKVFSGECKLSDCGITNGDRLEIL   81 (81)
T ss_dssp             EEEEEECTTTTCCEEEEEEETTSBTTHHHHHHHHHSCCCSCCCTTCEEEEGGGTEEEETTSBTGGGTCCTTCEEEEC
T ss_pred             EEEEEEeeccCCceEEEECCCchhHHHHHHHHHHHhCCCcCCCCCCEEEEecCCEEEcCCCEEeeCCcCCCCEEEEC
Confidence            444544   46689999999999999999999999998762     3455668888999999999999999999763

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

Probab=97.87  E-value=0.0001  Score=54.14  Aligned_cols=73  Identities=10%  Similarity=0.113  Sum_probs=66.9

Q ss_pred             ceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           69 GSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        69 p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      ..|.|+|+..+..+.+.|-.++-+.-|....+.+.|+++..-+++|.|..+.+++|-+++++.++|.|-++.-
T Consensus        20 ~~IniKV~~~g~ev~FkIK~tt~l~KL~~aYc~r~gv~~~sirFlfDG~rI~~~~TP~~L~meD~DiID~~~~   92 (95)
T 2l76_A           20 RLFPLKIRCRADLVRLPLRMSEPLQSVVDHMATHLGVSPSRILLLFGETELSPTATPRTLKLGVADIIDCVVL   92 (95)
T ss_dssp             CCEEEEEECSSSEEEEEECSSSCTHHHHHHHHHHHTSCGGGEEEEETTEECCTTSCHHHHTCCSSCEEEEEEC
T ss_pred             CeEEEEEEcCCcEEEEEEecCChHHHHHHHHHhhcCCChhhEEEEECCcCCCCCCCHhHcCCCCCCEEEEEEe
Confidence            4599999986677889999999999999999999999999999999999999999999999999999976643

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

Probab=97.83  E-value=2.3e-06  Score=74.25  Aligned_cols=74  Identities=22%  Similarity=0.237  Sum_probs=0.0

Q ss_pred             CceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           68 EGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        68 ~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      ...|.|+|...+..+.+.|..++++.-|++..++..|+++.+++++|.|+.+.+++|-++++++|||+|.++..
T Consensus        28 ~~~i~lkv~~~~~~~~~~i~~~~~~~~l~~~y~~~~g~~~~~~~f~f~G~~i~~~~Tp~~l~med~d~i~~~~~  101 (389)
T 4da1_A           28 ETHINLKVSDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQAPEDLDMEDNDIIEAHRE  101 (389)
T ss_dssp             --------------------------------------------------------------------------
T ss_pred             CCcEEEEEecCCcEEEEEECCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEeeeeec
Confidence            35688888875567789999999999999999999999999999999999999999999999999999988753

>1wj4_A KIAA0794 protein; UBX domain, beta-grAsp fold, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: d.15.1.2

Probab=97.72  E-value=0.00019  Score=54.11  Aligned_cols=92  Identities=15%  Similarity=0.153  Sum_probs=67.3

Q ss_pred             CcceeeEecCC---ceeEEeecCCCCCCceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEE--EcCe
Q 031040           44 SHEIKWELRPG---GMLVQKRESGCEGEGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLL--FKGK  117 (167)
Q Consensus        44 ~~~~~we~rpg---gmlvq~r~~~~~~~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLi--fkGK  117 (167)
                      .++.+|+..||   |+.+.-    +...+.++|.|+. .+..+.-....++||.+|..-|... +.++....|+  |=.|
T Consensus        18 ~~~~~~~~~~~~~~~~~~~~----d~~~~~t~IqIRlPdG~rl~~rF~~~~tl~~V~~fV~~~-~~~~~~F~L~t~fPrk   92 (124)
T 1wj4_A           18 VDSEILEMPPEKADGVVEGI----DVNGPKAQLMLRYPDGKREQITLPEQAKLLALVKHVQSK-GYPNERFELLTNFPRR   92 (124)
T ss_dssp             CCCCSCSCCCCCCCCCCCCC----CCSSCEEEEEEECTTSCEEEEEEETTSCHHHHHHHHHHH-HCCTTTEEEECSSSCC
T ss_pred             cChhhhhcCCCCCCCccccc----CCCCCcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHhc-CCCCCCeEEecCCCCc
Confidence            35667998765   332221    1345666666665 3356778899999999999999887 8888888887  5577


Q ss_pred             ec--C-CcchhhhcCCCCCCEEEEec
Q 031040          118 ER--E-DNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus       118 ~L--d-D~~tL~~~GIkdgskL~Lv~  140 (167)
                      .+  + .+.+|.++|+.+...|+|..
T Consensus        93 ~l~~~d~~~TL~e~gL~psa~Liv~~  118 (124)
T 1wj4_A           93 KLSHLDYDITLQEAGLCPQETVFVQE  118 (124)
T ss_dssp             EETSSCSSSCTTTTTCCSSBCCEEEE
T ss_pred             CCccCCCCCCHHHCCCCCceEEEEEE
Confidence            78  3 46899999999988887753

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

Probab=97.66  E-value=0.00016  Score=52.68  Aligned_cols=71  Identities=10%  Similarity=0.142  Sum_probs=64.2

Q ss_pred             EEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecCC
Q 031040           72 TIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDP  142 (167)
Q Consensus        72 ~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~p  142 (167)
                      .|.|-. +++.+.|.|.|+.|+.|+-+.-.+.+|+++++-.|.|++|.+|-+..+.-.||.++++|.|+...
T Consensus        11 ~v~Vl~~n~rr~~VKvtp~t~L~~VL~eaC~K~gl~~~~~~Lkh~~k~lDLSlpfRlsgLpnnAkLELv~~s   82 (90)
T 2al3_A           11 AVSVLAPNGRRHTVKVTPSTVLLQVLEDTCRRQDFNPSEYDLKFQRTVLDLSLQWRFANLPNNAKLEMVPVS   82 (90)
T ss_dssp             CEEEECTTSCEEEECCCTTSBHHHHHHHHHHHTTCCGGGCEEEETTEEESSSCBHHHHCCCSSCEEEEECSS
T ss_pred             EEEEEcCCCcEEEEEECCCCCHHHHHHHHHHHhCCChhhCeEEeCCEeccccceeEecCCCCCCEEEEEEcc
Confidence            555554 55788999999999999999999999999999999999999999999999999999999998753

>2kc2_A Talin-1, F1; FERM, adhesion, cell membrane, cell projection, cytoplasm, cytoskeleton, membrane, phosphoprotein, structural protein; NMR {Mus musculus}

Probab=97.51  E-value=0.00016  Score=55.54  Aligned_cols=68  Identities=19%  Similarity=0.284  Sum_probs=54.3

Q ss_pred             EEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCC-------------------------------------ceEEE
Q 031040           71 ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPR-------------------------------------EQRLL  113 (167)
Q Consensus        71 I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe-------------------------------------~QKLi  113 (167)
                      ++|+.-. +..+++.|+.+.||++++..|+...||++.                                     .|+|-
T Consensus        14 LkV~llD-g~~ktl~VD~S~~V~~lv~~Ic~kigI~n~~ey~L~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~k~kL~   92 (128)
T 2kc2_A           14 LKIRMLD-GTVKTIMVDDSKTVTDMLMTICARIGITNHDEYSLVRELMEEKKDEGTGTLRKDKTLLRDEKKMEKLKQKLH   92 (128)
T ss_dssp             EEEECTT-SCEEEEEEEECSSHHHHHHHHHHHHTCCCCSSEEEEEECCCCCCCCCSSCCSSSSSCSCCSCCSCSSCCSCC
T ss_pred             EEEEcCC-CCEEEEEeCCCcCHHHHHHHHHHHhCCCCcccccccccccccccccCchhhccccccccchhHHHHHHHHhc
Confidence            4444444 478899999999999999999999999955                                     45542


Q ss_pred             E--cCeecCCcchhhhcCCCCCCEEEEe
Q 031040          114 F--KGKEREDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus       114 f--kGK~LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      .  .+..|+++.+|.+.||.++++|.|=
T Consensus        93 ~dd~~~WLD~srtL~EQGI~e~~tllLR  120 (128)
T 2kc2_A           93 TDDELNWLDHGRTLREQGVEEHETLLLR  120 (128)
T ss_dssp             CSSSEEEECSSSCHHHHTCCTTSEEEEE
T ss_pred             ccCCCCcccCCCcHHHcCCCCCCEEEEE
Confidence            2  2367888999999999999998763

>3qx1_A FAS-associated factor 1; UBX, protein binding, P97 binding; 1.60A {Homo sapiens} PDB: 3qwz_B* 3qc8_B 3qca_A 3qq8_B 3r3m_B 1h8c_A

Probab=97.26  E-value=0.0015  Score=45.33  Aligned_cols=72  Identities=18%  Similarity=0.246  Sum_probs=56.1

Q ss_pred             CceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEE--EcCeec---CCcchhhhcCCCCCCEEEEec
Q 031040           68 EGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLL--FKGKER---EDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        68 ~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLi--fkGK~L---dD~~tL~~~GIkdgskL~Lv~  140 (167)
                      .+..+|.|+. +|....-....++|+.+|..-|.. .+.++...+|+  |=.|.+   +.+.+|.++|+.+.++|+|-+
T Consensus         5 ~~~~~i~iRlpdG~r~~~~F~~~~tl~~v~~fv~~-~~~~~~~f~L~t~fPrk~l~~~d~~~TL~e~gL~p~a~L~ve~   82 (84)
T 3qx1_A            5 EPVSKLRIRTPSGEFLERRFLASNKLQIVFDFVAS-KGFPWDEYKLLSTFPRRDVTQLDPNKSLLEVKLFPQETLFLEA   82 (84)
T ss_dssp             CCEEEEEEECTTSCEEEEEEETTSBHHHHHHHHHH-TTCCTTTEEEECSSSCCBGGGSCTTSBTTTTTCCSEEEEEEEE
T ss_pred             CCeEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHH-cCCCCCCeEEEeCCCCCCCcCCCCCCCHHHCCCCCCCEEEEEe
Confidence            4555566664 335567788899999999999998 67888889988  446777   446899999999999998743

>1oey_A P67-PHOX, neutrophil cytosol factor 2; immune system, PB1 heterodimer/complex, NADPH oxidase, PB1 D heterodimerization; 2.0A {Homo sapiens} SCOP: d.15.2.2

Probab=96.10  E-value=0.015  Score=41.40  Aligned_cols=50  Identities=10%  Similarity=0.143  Sum_probs=43.7

Q ss_pred             CCceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCe
Q 031040           67 GEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGK  117 (167)
Q Consensus        67 ~~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK  117 (167)
                      +++.++|+|-+. -++.|.|++..++.+|..+|.++.+++++.-+|-|+-.
T Consensus         2 ~~~~~~VKV~~~-~tvairvp~~~~y~~L~~~l~~kL~l~~~~~~LsYk~~   51 (83)
T 1oey_A            2 SHMAYTLKVHYK-YTVVMKTQPGLPYSQVRDMVSKKLELRLEHTKLSYRPR   51 (83)
T ss_dssp             CSSCEEEEEESS-SEEEEEECTTCCHHHHHHHHHHHTTCCGGGCCEEECCT
T ss_pred             CCCcEEEEEEEE-EEEEEECCCCCCHHHHHHHHHHHhCCCcceeEEEeeCC
Confidence            345578888877 58899999999999999999999999999999999763

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

Probab=96.09  E-value=0.014  Score=40.19  Aligned_cols=60  Identities=18%  Similarity=0.394  Sum_probs=46.1

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      |+|+|+- +.....+++++..|+.||-+.    .|+|++.--++.+|..+..+.      +.+||+|.++.
T Consensus         1 M~v~Vkl~g~~~~~~ev~~g~Tv~dLL~~----Lgl~~~~VvV~vNG~~v~~d~------~l~GD~VeIv~   61 (74)
T 2l32_A            1 MNVTVEVVGEETSEVAVDDDGTYADLVRA----VDLSPHEVTVLVDGRPVPEDQ------SVEVDRVKVLR   61 (74)
T ss_dssp             CEEEEECSSSSEEEEECSTTCSHHHHHHT----TCCCSSCCCEECCCCCCCTTS------SSCCCCEEECS
T ss_pred             CEEEEEEeCccceeEEcCCCCcHHHHHHH----cCCCcceEEEEECCEECCHHH------CCCCCEEEEEE
Confidence            3555553 445667899999999998776    899999998888998876555      34589998874

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

Probab=96.07  E-value=0.082  Score=35.35  Aligned_cols=62  Identities=15%  Similarity=0.074  Sum_probs=48.7

Q ss_pred             eEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           70 SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        70 ~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      .|+|+|-.......++++...|+.+|.+.|    +++++.-.+..+|.....+.     -|++||.|.++.
T Consensus         4 ~m~i~vNg~~~~~~~~~~~~~tv~~Ll~~l----~~~~~~v~vavN~~~v~~~~-----~L~~gD~V~ii~   65 (70)
T 1ryj_A            4 GMKFTVITDDGKKILESGAPRRIKDVLGEL----EIPIETVVVKKNGQIVIDEE-----EIFDGDIIEVIR   65 (70)
T ss_dssp             CEEEEEEETTEEEEEEESSCCBHHHHHHHT----TCCTTTEEEEETTEECCTTS-----BCCTTCEEEEEE
T ss_pred             eEEEEEeCccCceeEECCCCCcHHHHHHHh----CCCCCCEEEEECCEECCCcc-----cCCCCCEEEEEe
Confidence            367777665556678888889999999986    67788777889999886554     589999998873

>4a3p_A Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {Homo sapiens} PDB: 4a3o_A 3pv1_A 3ppa_A* 3t9l_A 3lmn_A

Probab=96.02  E-value=0.044  Score=44.24  Aligned_cols=58  Identities=9%  Similarity=0.188  Sum_probs=47.8

Q ss_pred             EEEEEEcCCCCHHHHHHHHHhhhCCCCC-ceEEE--E-cC--eecCC-cchhhhcCCCCCCEEEE
Q 031040           81 WHDISIKATSTFGELKMILSMVSGLEPR-EQRLL--F-KG--KERED-NEFLHMVGVRDKDKVLL  138 (167)
Q Consensus        81 ~~~VeV~~t~TV~eLK~~Ia~~TGVppe-~QKLi--f-kG--K~LdD-~~tL~~~GIkdgskL~L  138 (167)
                      .+.+.++..+||.+|++.+...++|+++ +-||-  | .+  ..|+| +.+|++++|.++..|+|
T Consensus       141 ~~~~~~Sk~~ti~~l~~~~~~~~~i~~~~~~RlW~~~~~~~~~~L~~~~~tl~~~~l~~~Q~ill  205 (217)
T 4a3p_A          141 VVTRRFSKADTIDTIEKEIRKIFSIPDEKETRLWNKYMSNTFEPLNKPDSTIQDAGLYQGQVLVI  205 (217)
T ss_dssp             EEEEEECTTSBHHHHHHHHHHHTTCCTTSCEEEEEEEETTEEEECCCTTSBHHHHTCCTTCEEEE
T ss_pred             ceEEEEcccchHHHHHHHHHHHhCCCCCCceEEEEecCCCCeeecCCCCCCHHHhCCCCCCEEEE
Confidence            3567889999999999999999999997 68884  3 23  24565 46999999999999975

>2dzk_A UBX domain-containing protein 2; ubiquitin-like fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} PDB: 2kxj_A

Probab=96.00  E-value=0.053  Score=39.58  Aligned_cols=72  Identities=14%  Similarity=0.075  Sum_probs=55.6

Q ss_pred             ceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEE--EcCeecC---CcchhhhcCCCCCCEEEEec
Q 031040           69 GSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLL--FKGKERE---DNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        69 p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLi--fkGK~Ld---D~~tL~~~GIkdgskL~Lv~  140 (167)
                      +..+|.|+. .+....-....++|+.+|.+-|....+.+.....|+  |--|.+.   .+.+|.++|+.+...|++..
T Consensus        12 ~~t~IqIRlpdG~rl~~rF~~~~tl~~v~~fV~~~~~~~~~~f~L~t~fPrk~l~~~d~~~TL~elgL~psa~L~v~~   89 (109)
T 2dzk_A           12 TIARIQFRLPDGSSFTNQFPSDAPLEEARQFAAQTVGNTYGNFSLATMFPRREFTREDYKRRLLDLELAPSASVVLLP   89 (109)
T ss_dssp             CCEEEEEECSSSCEEEEEECTTSBHHHHHHHHHHHHTTSSCSCEEECSSSCCBCCTTTTTSBTGGGTCSSEEEEEEEC
T ss_pred             CcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHhccCCCCCceEEEcCCCCcCCcccccCCCHHHCCCCCceEEEEEE
Confidence            344555553 235677889999999999999999888887788886  4566775   36799999999998887764

>3jyu_A Ubiquitin carboxyl-terminal hydrolase; domain in ubiquitin-specific peptidases (DUSP), proto- oncogene, ubiquitin-fold, UBL, protease, thioesterase; HET: 1PS; 2.37A {Mus musculus}

Probab=95.98  E-value=0.053  Score=44.21  Aligned_cols=58  Identities=9%  Similarity=0.127  Sum_probs=47.8

Q ss_pred             EEEEEEcCCCCHHHHHHHHHhhhCCCCC-ceEEEE-c----CeecCC-cchhhhcCCCCCCEEEE
Q 031040           81 WHDISIKATSTFGELKMILSMVSGLEPR-EQRLLF-K----GKERED-NEFLHMVGVRDKDKVLL  138 (167)
Q Consensus        81 ~~~VeV~~t~TV~eLK~~Ia~~TGVppe-~QKLif-k----GK~LdD-~~tL~~~GIkdgskL~L  138 (167)
                      .+.+.++..+||.+|++.+...++|+++ +-||-. .    -..|.| +.+|+++++.++..|+|
T Consensus       153 ~~~~~~Sk~~ti~~l~~~~~~~~~i~~~~~~RLW~~~~~~~~~~L~~~~~tl~d~~L~~~Q~ill  217 (231)
T 3jyu_A          153 VLSCHFSKADTIATIEKEMRKLFNIPAERETRLWNKYMSNTYEQLSKLDNTIQDAGLYQGQVLVI  217 (231)
T ss_dssp             EEEEEECTTCBHHHHHHHHHHHTTCCTTSCEEEEECSSSSSCEECCCTTSBTTTTTCCTTEEEEE
T ss_pred             eEEEEecccCcHHHHHHHHHHHhCCCCCCeEEEEEecCCCCHhhhcCCCCCHHHhCCCCCCEEEE
Confidence            3456779999999999999999999997 688864 2    234665 58999999999999965

>3ivf_A Talin-1; FERM domain, cell membrane, cell projection, cytoskeleton, M phosphoprotein, cell adhesion, structural protein; 1.94A {Mus musculus} PDB: 2kma_A 2kc1_A

Probab=95.89  E-value=0.057  Score=46.04  Aligned_cols=69  Identities=13%  Similarity=0.154  Sum_probs=56.9

Q ss_pred             EEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhh----CCCCCceEEEE------cCeecCCcchhhhcCCCCCCEEEEe
Q 031040           71 ITIRVSTVSKWHDISIKATSTFGELKMILSMVS----GLEPREQRLLF------KGKEREDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        71 I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~T----GVppe~QKLif------kGK~LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      +.++|.-.+.+..+..+|++||.|.-..|.++.    -.++++--|+.      +|.-|+++.+|+.|++++++.|..-
T Consensus         4 ~~~~~~~~~~~~~~~f~~~~~v~~~~~~i~e~~~~~~~~~~~~y~l~~~~~~~~~~~Wl~~~~~l~~y~~~~~~~l~~~   82 (371)
T 3ivf_A            4 LSLKISIGNVVKTMQFEPSTMVYDACRMIRERIPEALAGPPNDFGLFLSDDDPKKGIWLEAGKALDYYMLRNGDTMEYR   82 (371)
T ss_dssp             EEEEEEETTEEEEEEECTTCBHHHHHHHHHTTCGGGGSSCGGGEEEEECCSSGGGCEECCTTSBGGGGTCCTTCEEEEE
T ss_pred             EEEEEEecceeEEEEECCCCCHHHHHHHHHHhcccccCCCHHHCeEeccCCCCCcCEeccCCCCHHHhCCCCCceeecc
Confidence            444444447888999999999999999997765    34788889988      6677999999999999999998765

>1vd2_A Protein kinase C, IOTA type; PB1 domain, OPCA motif, APKC, ZIP/P62, MEK5, molecular recognition, transferase; NMR {Homo sapiens} SCOP: d.15.2.2 PDB: 1wmh_A

Probab=95.37  E-value=0.077  Score=38.09  Aligned_cols=50  Identities=4%  Similarity=0.023  Sum_probs=42.3

Q ss_pred             CCceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCc-eEEEEcC
Q 031040           67 GEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPRE-QRLLFKG  116 (167)
Q Consensus        67 ~~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~-QKLifkG  116 (167)
                      ++..|+|++.+.+....+.++++.++.+|.++|.+.+++++.+ ..|-|..
T Consensus         3 ~~~~vkvK~~~~gdi~~~~v~~~i~~~~L~~kv~~~~~~~~~~~f~lky~D   53 (89)
T 1vd2_A            3 LGSQVRVKAYYRGDIMITHFEPSISFEGLCNEVRDMCSFDNEQLFTMKWID   53 (89)
T ss_dssp             CSSCEEEEEESSSCEEEEEECTTCCHHHHHHHHHHHTTCCSSCCEEEEECC
T ss_pred             CCCeEEEEEEeCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCeEEEEEEC
Confidence            3567899999988888999999999999999999999998655 5566664

>1ip9_A BEM1 protein; ubiquitin alpha/beta roll, signaling protein; NMR {Saccharomyces cerevisiae} SCOP: d.15.2.2 PDB: 1ipg_A 2kfk_A

Probab=95.36  E-value=0.039  Score=39.68  Aligned_cols=68  Identities=13%  Similarity=0.140  Sum_probs=50.9

Q ss_pred             ceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEE-EcC----eecCCcchhhhcCCCCCCEEEEe
Q 031040           69 GSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLL-FKG----KEREDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        69 p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLi-fkG----K~LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      ..|+|+|-+....+.|-|+++.++.+|+.+|..+..+.  ++.|+ |++    .++.+++.|+.+ |+...+|+|.
T Consensus        11 ~~~KVK~yy~DDIiAIrvP~di~~~~L~dKi~~RLk~~--~~~l~~ykde~~g~~i~sD~dl~~a-iqrn~KL~l~   83 (85)
T 1ip9_A           11 KTTKIKFYYKDDIFALMLKGDTTYKELRSKIAPRIDTD--NFKLQTKLFDGSGEEIKTDSQVSNI-IQAKLKISVH   83 (85)
T ss_dssp             CCEEEEECBTTCCEEEEECSCCCHHHHHHHHHHHHTSS--CEEEEECCSSSCCSCCCSHHHHHHH-HHTTCCEEEE
T ss_pred             CceEEEEEecCcEEEEECCCCCCHHHHHHHHHHHhccc--ceEEEEecCCCCCCcccCHHHHHHH-HHhcCeeEEe
Confidence            45888888877889999999999999999999999994  44444 433    345555566655 6777777654

>2cr5_A Reproduction 8; UBX domain, D0H8S2298E protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.15.1.2

Probab=95.09  E-value=0.14  Score=37.16  Aligned_cols=72  Identities=17%  Similarity=0.105  Sum_probs=54.2

Q ss_pred             CceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEE--EcCeecC--CcchhhhcCCCCCCEEEEec
Q 031040           68 EGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLL--FKGKERE--DNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        68 ~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLi--fkGK~Ld--D~~tL~~~GIkdgskL~Lv~  140 (167)
                      .+.++|.|+. .|..+.-....++||.+|..-|... +..+...+|+  |=.|.+.  .+.+|.++|+.+...|+|-.
T Consensus        21 ~~~~~IqiRlpdG~r~~rrF~~~~tl~~v~~fv~~~-~~~~~~f~L~t~fPrk~l~~d~~~TL~e~gL~p~a~L~Ve~   97 (109)
T 2cr5_A           21 EEVVTVALRCPNGRVLRRRFFKSWNSQVLLDWMMKV-GYHKSLYRLSTSFPRRALEVEGGSSLEDIGITVDTVLNVEE   97 (109)
T ss_dssp             SSEEEEEEECTTSCEEEEEEESSSBTHHHHHHHHHH-TCCTTTEEEECSSSCCBCCCCSSCBHHHHTCSSCEEEEEEE
T ss_pred             CCcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHhc-CCCCCCeEEEeCCCCcCCCCCCCCCHHHcCCCCCeEEEEEe
Confidence            3456666664 3355677888999999999999965 5667778876  4466775  46899999999998887653

>1s3s_G P47 protein; AAA ATPase, protein-protein complex, UBX domain, protein binding; HET: ADP; 2.90A {Rattus norvegicus} SCOP: d.15.1.2 PDB: 1i42_A 1jru_A

Probab=94.26  E-value=0.1  Score=39.08  Aligned_cols=67  Identities=16%  Similarity=0.237  Sum_probs=51.1

Q ss_pred             ceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhh-hCCCCCceEEE--EcCeecCC-cchhhhcCCCCCCEE
Q 031040           69 GSITIRVSTVSKWHDISIKATSTFGELKMILSMV-SGLEPREQRLL--FKGKERED-NEFLHMVGVRDKDKV  136 (167)
Q Consensus        69 p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~-TGVppe~QKLi--fkGK~LdD-~~tL~~~GIkdgskL  136 (167)
                      ..|+|++-+|. ...-....++||.+|.+-|... .+.+.....|+  |--|.++| +.+|.++|+.+...|
T Consensus        53 t~IqIRlpdG~-rl~~rF~~~~tl~~v~~fV~~~~~~~~~~~f~L~t~fPrk~l~d~~~TL~eagL~psavl  123 (127)
T 1s3s_G           53 TNIQIRLADGG-RLVQKFNHSHRISDIRLFIVDARPAMAATSFVLMTTFPNKELADENQTLKEANLLNAVIV  123 (127)
T ss_dssp             CCEEEEETTTT-EEEEECCSSCBHHHHHHHHHHHCSGGGTSCEEEEETTTTEECCSTTCBHHHHTCSSCEEE
T ss_pred             EEEEEECCCCC-EEEEEeCCCCCHHHHHHHHHHhCcCCCCCCeEEecCCCCCCCCCCCCcHHHCCCcCceEE
Confidence            45666666664 5677899999999999999985 45666777877  45678865 589999999985444

>2daj_A KIAA0977 protein, COBL-like 1; ubiquitin-like domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=93.90  E-value=0.16  Score=36.74  Aligned_cols=70  Identities=16%  Similarity=0.278  Sum_probs=58.9

Q ss_pred             CCceEEEEEeeCC-EEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEc---CeecCCcchhhhcCCCCCCEEEEe
Q 031040           67 GEGSITIRVSTVS-KWHDISIKATSTFGELKMILSMVSGLEPREQRLLFK---GKEREDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        67 ~~p~I~I~Vk~g~-~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifk---GK~LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      ++.++++-|-+.. +...+.|+|..++.+|--.|.++..+.|+.-.|+-.   +.+|+=+.+|.+|||++   |+.+
T Consensus         7 PE~TvRLvVNy~~tQKtVvRVSP~vpL~ellp~IC~Kcefdp~~~~Ll~d~~~~e~LdLskSLndlgirE---Lya~   80 (91)
T 2daj_A            7 GEKTVRVVINFKKTQKTIVRVSPHASLQELAPIICSKCEFDPLHTLLLKDYQSQEPLDLTKSLNDLGLRE---LYAM   80 (91)
T ss_dssp             CCSCEEEEEEETTTEEEEEEECSSSCTTTHHHHHHHHTTCCTTSEEEESCSSCCCBCCTTSCHHHHTCSE---EEEE
T ss_pred             CccEEEEEEeecCcceeEEEeCCCCcHHHHHHHHhhcccCChhhEEEecCCCCCcccchhcchhhhhhhh---hhee
Confidence            3457888888844 888899999999999999999999999999988743   44688889999999998   5554

>4e71_A Plexin-B2, MM1; transmembrane, signaling, RBD, structural genomics consortium, SGC, signaling protein; 2.26A {Homo sapiens}

Probab=93.58  E-value=0.5  Score=35.27  Aligned_cols=72  Identities=18%  Similarity=0.190  Sum_probs=50.2

Q ss_pred             ceEEEEEee---CCEEEEEEEcCCCCHHHHHHHHHhh--hCCC------CCceEEEEc----CeecCCc-----------
Q 031040           69 GSITIRVST---VSKWHDISIKATSTFGELKMILSMV--SGLE------PREQRLLFK----GKEREDN-----------  122 (167)
Q Consensus        69 p~I~I~Vk~---g~~~~~VeV~~t~TV~eLK~~Ia~~--TGVp------pe~QKLifk----GK~LdD~-----------  122 (167)
                      .+++++|..   +...+.+.|-.-+||.++|++|-+.  -|+|      +++.-|-++    |+.|.|.           
T Consensus        10 ~~ltl~v~~~~~~~~~i~vkVLdCDTItQvKeKiLd~vyk~~pyS~rP~~~~~dLEwr~g~~~~iL~D~D~ts~~~~~wk   89 (111)
T 4e71_A           10 APLTVSVIVQDEGVDAIPVKVLNCDTISQVKEKIIDQVYRGQPCSCWPRPDSVVLEWRPGSTAQILSDLDLTSQREGRWK   89 (111)
T ss_dssp             CEEEEEEEETTSCCCCEEEEEETTCBHHHHHHHHHHHHTC---------CCSEEEEEC--CCCEECCSSCTTSCC---CC
T ss_pred             EEEEEEEEecCCCCCceeeeeeccCcHHHHHHHHHHHHHcCCccccCCCCCceeeEEecCCCCccccccCccceecCcce
Confidence            456666653   2356788898999999999999874  2333      456667663    3455442           


Q ss_pred             --chhhhcCCCCCCEEEEec
Q 031040          123 --EFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus       123 --~tL~~~GIkdgskL~Lv~  140 (167)
                        .||..|+|.||++|-|+.
T Consensus        90 rLNTL~HY~V~dgatl~l~~  109 (111)
T 4e71_A           90 RVNTLMHYNVRDGATLILSK  109 (111)
T ss_dssp             CCCBHHHHTCCTTCEEEEEE
T ss_pred             EecchhhcCCCCCCEEEEEe
Confidence              379999999999998863

>4eut_A Serine/threonine-protein kinase TBK1; ATP binding, phosphorylation, transferase-transferas inhibitor complex; HET: BX7; 2.60A {Homo sapiens}

Probab=93.34  E-value=0.27  Score=41.18  Aligned_cols=59  Identities=15%  Similarity=0.168  Sum_probs=46.4

Q ss_pred             EEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCe-ec-CCcchhhhcC
Q 031040           71 ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGK-ER-EDNEFLHMVG  129 (167)
Q Consensus        71 I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK-~L-dD~~tL~~~G  129 (167)
                      +.+........+.+.+.+..|+.+|++.++..|+++++.|.|+|.+. .. +.......|.
T Consensus       313 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~i~~~~q~~l~~~~~~~~~~~~~~~~~~  373 (396)
T 4eut_A          313 IHVFSLQQMTAHKIYIHSYNTATIFHELVYKQTKIISSNQELIYEGRRLVLEPGRLAQHFP  373 (396)
T ss_dssp             EEEEETTTTEEEEEEECTTCBHHHHHHHHHHHHCCCSTTEEEESSSSEECCCSSCBTTSSC
T ss_pred             EEEEEeccceEEEEEcCchhHHHHHHHHHHHhcCCChhhhHHHhcCCCCCCCCCCccccCC
Confidence            34555556688899999999999999999999999999999999984 33 3334444443

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

Probab=92.73  E-value=0.41  Score=31.93  Aligned_cols=65  Identities=20%  Similarity=0.246  Sum_probs=42.1

Q ss_pred             EEEEEee-CC-EEEEEEEcCCCCHHHHHHHHHhhhCCCC--CceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           71 ITIRVST-VS-KWHDISIKATSTFGELKMILSMVSGLEP--REQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        71 I~I~Vk~-g~-~~~~VeV~~t~TV~eLK~~Ia~~TGVpp--e~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      |.|+|++ +. ..-++++ ...|+.+|.+.|....++..  +.-.+..+|....+    .+.-|++||.|.++-
T Consensus         1 M~v~V~~fa~l~~~~~e~-~~~tv~~ll~~L~~~~~l~~~l~~~~vavN~~~v~~----~~~~l~~gDeV~i~P   69 (74)
T 3rpf_C            1 MMVEVRFFGPIKEENFFI-KANDLKELRAILQEKEGLKEWLGVCAIALNDHLIDN----LNTPLKDGDVISLLP   69 (74)
T ss_dssp             CEEEEEECTTCCCCCEEE-ECSSHHHHHHHHHTCTTTTTTTTTCEEEESSSEECC----TTCCCCTTCEEEEEC
T ss_pred             CEEEEEEEeecceeEEee-CCCcHHHHHHHHHHCcCHHHHhhccEEEECCEEcCC----CCcCCCCCCEEEEEC
Confidence            3566665 22 2134677 66899999999987544332  34455667776443    234699999998873

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

Probab=92.57  E-value=0.11  Score=39.24  Aligned_cols=32  Identities=22%  Similarity=0.231  Sum_probs=29.5

Q ss_pred             EEEEcCCCCHHHHHHHHHhhhCCCCCceEEEE
Q 031040           83 DISIKATSTFGELKMILSMVSGLEPREQRLLF  114 (167)
Q Consensus        83 ~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLif  114 (167)
                      .+.|..++||.+|+.+|+..+|+|+++|+|-+
T Consensus        59 ~~rv~k~~~~~~~~~~va~~lg~~~~~~RlW~   90 (130)
T 2kvr_A           59 VFKVLKNSSLAEFVQSLSQTMGFPQDQIRLWP   90 (130)
T ss_dssp             EEECCTTSBHHHHHHHHHHHHCCCGGGCEEEE
T ss_pred             eEEEeccCcHHHHHHHHHHHhCCCcccEEEEE
Confidence            56788999999999999999999999999964

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

Probab=92.49  E-value=1.1  Score=31.38  Aligned_cols=56  Identities=13%  Similarity=0.113  Sum_probs=40.0

Q ss_pred             EEEEEEEcCCCCHHHHHHHHHhhhC-C----------CCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           80 KWHDISIKATSTFGELKMILSMVSG-L----------EPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        80 ~~~~VeV~~t~TV~eLK~~Ia~~TG-V----------ppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ....++++...||.+|.+.|..... +          ....-.+..+|...+.     +.-|++||.|.++-
T Consensus        27 ~~~~~e~~~~~Tv~~Ll~~L~~~~p~l~~~l~~~~g~~~~~v~v~VNg~~v~~-----~~~L~dGDeV~i~p   93 (98)
T 1vjk_A           27 DEEEIELPEGARVRDLIEEIKKRHEKFKEEVFGEGYDEDADVNIAVNGRYVSW-----DEELKDGDVVGVFP   93 (98)
T ss_dssp             SEEEEEECTTCBHHHHHHHHHHHCGGGGGSCBCSSSCTTSSBEEEETTBCCCT-----TCBCCTTCEEEEES
T ss_pred             CeEEEECCCCCCHHHHHHHHHhHChhHHHHhhccccccCCcEEEEECCEECCC-----CCCCCCCCEEEEEC
Confidence            4567888888999999999987631 1          1233456778877653     45699999998763

>2r2o_A Plexin-B1; effector domain, structural genomics, structural GEN consortium, SGC, glycoprotein, membrane, phosphorylation, R secreted, transmembrane; 2.00A {Homo sapiens} PDB: 2rex_A* 2jph_A

Probab=92.15  E-value=0.94  Score=35.03  Aligned_cols=73  Identities=18%  Similarity=0.199  Sum_probs=51.0

Q ss_pred             ceEEEEEeeC-------CEEEEEEEcCCCCHHHHHHHHHhh--hCCC------CCceEEEE----cCee-cCCc------
Q 031040           69 GSITIRVSTV-------SKWHDISIKATSTFGELKMILSMV--SGLE------PREQRLLF----KGKE-REDN------  122 (167)
Q Consensus        69 p~I~I~Vk~g-------~~~~~VeV~~t~TV~eLK~~Ia~~--TGVp------pe~QKLif----kGK~-LdD~------  122 (167)
                      .+++|+|...       .+.+.|.|-.-+||.++|++|-+.  -|+|      +++.-|-+    .|+. |.|.      
T Consensus        23 ~~ltl~v~~~~~~~~~~~~~i~VkVLdCDTItQvKeKiLDavYk~~PySqRP~~~d~dLEwr~g~~g~liL~D~D~tS~~  102 (138)
T 2r2o_A           23 RPLTLNALLAVGPGAGEAQGVPVKVLDCDTISQAKEKMLDQLYKGVPLTQRPDPRTLDVEWRSGVAGHLILSDEDVTSEV  102 (138)
T ss_dssp             CEEEEEEEEC-------CCCEEEEEETTCBHHHHHHHHHHHHTTTSCGGGCCCGGGEEEEEECSSSCEEEECSSSTTCCE
T ss_pred             EEEEEEEEccCCcccccCCceeEEEeccccHHHHHHHHHHHHHcCCccccCCCccceeEEEecCCcCceEeeccCCcccc
Confidence            4566666432       256788999999999999999875  4443      34555544    2332 4442      


Q ss_pred             -------chhhhcCCCCCCEEEEecC
Q 031040          123 -------EFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus       123 -------~tL~~~GIkdgskL~Lv~~  141 (167)
                             .||..|+|.||++|.|+..
T Consensus       103 ~~~wkrLNTL~HY~V~Dga~l~l~~~  128 (138)
T 2r2o_A          103 QGLWRRLNTLQHYKVPDGATVALVPC  128 (138)
T ss_dssp             ETTEEECCBHHHHTCCTTCEEEEEEC
T ss_pred             cCCceeecchhccCCCCCCEEEEEEC
Confidence                   2899999999999999854

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

Probab=91.02  E-value=1.2  Score=32.62  Aligned_cols=70  Identities=16%  Similarity=0.244  Sum_probs=42.3

Q ss_pred             ceEEEEEee--------CC-EEEEEEEcC---CCCHHHHHHHHHhhhCCCCCceEEEEc-Cee------c---CCcchhh
Q 031040           69 GSITIRVST--------VS-KWHDISIKA---TSTFGELKMILSMVSGLEPREQRLLFK-GKE------R---EDNEFLH  126 (167)
Q Consensus        69 p~I~I~Vk~--------g~-~~~~VeV~~---t~TV~eLK~~Ia~~TGVppe~QKLifk-GK~------L---dD~~tL~  126 (167)
                      ++|+|+|+.        ++ +.|+|+++.   ..||.+|.+.|.+..  |....+|+.. |+.      +   .|...|.
T Consensus        10 ~~M~v~V~~~~~Lr~~~g~~~~~~vel~~~~~~~TV~~Ll~~L~~~~--~~~~~~lf~~~g~lr~~i~VlVN~~di~~l~   87 (114)
T 1wgk_A           10 APLCVKVEFGGGAELLFDGVKKHQVALPGQEEPWDIRNLLVWIKKNL--LKERPELFIQGDSVRPGILVLINDADWELLG   87 (114)
T ss_dssp             CCEEEEEEECTTTGGGTTTCSEEEEEECCCSSCCBHHHHHHHHTTTT--CCSCHHHHCCSSSCCSSEEEEESSSBHHHHC
T ss_pred             CCcEEEEEEchHHHHHhCCceEEEEEeCCCCCCCCHHHHHHHHHHHc--cchhHhhCccCCcccCCeEEEECCeeeeccC
Confidence            446677663        33 367899884   369999999998775  2222233222 221      1   1223443


Q ss_pred             --hcCCCCCCEEEEec
Q 031040          127 --MVGVRDKDKVLLLE  140 (167)
Q Consensus       127 --~~GIkdgskL~Lv~  140 (167)
                        ++-|+|||.|.++-
T Consensus        88 gldt~L~dGDeV~iip  103 (114)
T 1wgk_A           88 ELDYQLQDQDSILFIS  103 (114)
T ss_dssp             TTTCBCCSSEEEEEEE
T ss_pred             CcCcCCCCCCEEEEeC
Confidence              36799999998864

>3h6n_A Plexin-D1; structural genomics consortium, SGC, membrane, transmembrane, receptor, alternative splicing, cell membrane, glycoprotein, polymorphism; 2.00A {Homo sapiens}

Probab=90.47  E-value=2.2  Score=32.55  Aligned_cols=61  Identities=10%  Similarity=0.041  Sum_probs=45.1

Q ss_pred             EEEEEEEcCCCCHHHHHHHHHhh--hCCC------CCceEEEEc-C---ee-cCCc-------------chhhhcCCCCC
Q 031040           80 KWHDISIKATSTFGELKMILSMV--SGLE------PREQRLLFK-G---KE-REDN-------------EFLHMVGVRDK  133 (167)
Q Consensus        80 ~~~~VeV~~t~TV~eLK~~Ia~~--TGVp------pe~QKLifk-G---K~-LdD~-------------~tL~~~GIkdg  133 (167)
                      ..+.|.|-.-+||.++|++|-+.  -|+|      +++.-|-++ |   .. |.|.             .||..|+|.||
T Consensus        17 ~~i~VkVLdCDTItQvKeKiLd~vyk~~p~S~rP~~~~~dLEwr~g~~~~~iL~D~D~ts~~~~~~krLNTL~HY~V~dg   96 (127)
T 3h6n_A           17 DSLSVRAMDTDTLTQVKEKILEAFCKNVPYSQWPRAEDVDLEWFASSTQSYILRDLDDTSVVEDGRKKLNTLAHYKIPEG   96 (127)
T ss_dssp             CCEEEEEETTSBHHHHHHHHHHHHSTTSCGGGSCCGGGEEEEEECSSSCEEECCSSSTTSCEETTEECCCBTTTTTCCTT
T ss_pred             CceeeeeeccCchhhhhHHHHHHHhccCCcccCCCCcccceEEecCCCCceEeecCCCcceecCceeEeccccccCCCCC
Confidence            55778888999999999999875  2333      567777762 3   32 5442             37999999999


Q ss_pred             CEEEEec
Q 031040          134 DKVLLLE  140 (167)
Q Consensus       134 skL~Lv~  140 (167)
                      ++|-|+.
T Consensus        97 atv~l~~  103 (127)
T 3h6n_A           97 ASLAMSL  103 (127)
T ss_dssp             CEEEEEE
T ss_pred             CEEEEEE
Confidence            9998874

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

Probab=90.46  E-value=0.93  Score=31.98  Aligned_cols=60  Identities=18%  Similarity=0.152  Sum_probs=43.6

Q ss_pred             EEeeCCEEEEEEEcCC-CCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           74 RVSTVSKWHDISIKAT-STFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        74 ~Vk~g~~~~~VeV~~t-~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ++.-+++  .++++.. .|+.+|.+.|    +++++.-.+..+|..+..+ ...+.-|++||.|.++.
T Consensus        22 ~I~vNGe--~~el~~~~~Tv~dLL~~L----~~~~~~vaVavNg~iV~~~-~~~~~~L~dGD~Vei~~   82 (87)
T 1tyg_B           22 MLQLNGK--DVKWKKDTGTIQDLLASY----QLENKIVIVERNKEIIGKE-RYHEVELCDRDVIEIVH   82 (87)
T ss_dssp             CEEETTE--EECCSSSCCBHHHHHHHT----TCTTSCCEEEETTEEECGG-GTTTSBCCSSSEEEEEE
T ss_pred             EEEECCE--EEECCCCCCcHHHHHHHh----CCCCCCEEEEECCEECChh-hcCCcCCCCCCEEEEEc
Confidence            3444454  4566776 8999998886    6778777788899877543 44455699999998873

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

Probab=90.28  E-value=2.9  Score=29.20  Aligned_cols=58  Identities=16%  Similarity=0.108  Sum_probs=36.0

Q ss_pred             CEEEEEEEc--CCCCHHHHHHHHHhhhC-CCCCc------e------EEEEcCeecCCcchh--hhcCCCCCCEEEEe
Q 031040           79 SKWHDISIK--ATSTFGELKMILSMVSG-LEPRE------Q------RLLFKGKEREDNEFL--HMVGVRDKDKVLLL  139 (167)
Q Consensus        79 ~~~~~VeV~--~t~TV~eLK~~Ia~~TG-Vppe~------Q------KLifkGK~LdD~~tL--~~~GIkdgskL~Lv  139 (167)
                      ...++++++  +..||++|.+.|.+... ..++.      .      .++.+|...   ..+  .++-|++||.|.++
T Consensus        19 ~~~~~~~l~~~~~~Tv~~L~~~L~~~~~~~~~~l~~~~~~~~lr~~~~v~VN~~~~---~~~~~~d~~L~dgDeVa~~   93 (99)
T 2qjl_A           19 QRVHKIKMDKEDPVTVGDLIDHIVSTMINNPNDVSIFIEDDSIRPGIITLINDTDW---ELEGEKDYILEDGDIISFT   93 (99)
T ss_dssp             CCEEEEEECSCSCCBHHHHHHHHHHHTCSSGGGHHHHEETTEECTTEEEEETTEEG---GGGTGGGCBCCTTCEEEEE
T ss_pred             CcEEEEecCCCCCCcHHHHHHHHHHHCchhhHHHhhhccCCccccCeEEEECCEEc---cccCCCCcCcCCCCEEEEE
Confidence            356677877  67899999999987763 21111      1      133444321   122  24569999999876

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

Probab=89.13  E-value=2.7  Score=30.16  Aligned_cols=68  Identities=6%  Similarity=0.080  Sum_probs=50.3

Q ss_pred             CceEEEEEee--CC--EEEEEEEcCCCCHHHHHHHHHh---hhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           68 EGSITIRVST--VS--KWHDISIKATSTFGELKMILSM---VSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        68 ~p~I~I~Vk~--g~--~~~~VeV~~t~TV~eLK~~Ia~---~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      -.+|.|.|.|  ..  ....++++..+||.++-+.+.-   ...|......+..+|+...     .+.-+++||.|.+..
T Consensus        10 ~~~~~v~v~ya~p~rq~~~~~~v~~g~TV~daI~~~gi~~~~peIdl~~~~V~Vng~~v~-----~d~~L~dGDRVEIyr   84 (97)
T 2hj1_A           10 LNQINIEIAYAFPERYYLKSFQVDEGITVQTAITQSGILSQFPEIDLSTNKIGIFSRPIK-----LTDVLKEGDRIEIYR   84 (97)
T ss_dssp             -CEEEEEEEEEETTEEEEEEEEEETTCBHHHHHHHHTHHHHCTTCCTTTSEEEEEECSCC-----TTCBCCTTCEEEECC
T ss_pred             cceEEEEEEEeCCCCCEEEEEEcCCCCcHHHHHHHcCCCccCCcccccccEEEEcCEECC-----CCccCCCCCEEEEEe
Confidence            4578888887  33  4456788999999999888753   2345555688889998887     334499999999874

>4e74_A Plexin-A4; RBD, structural genomics, structural genomics consor SGC, signaling protein; 1.58A {Homo sapiens} PDB: 3q3j_A*

Probab=88.89  E-value=2  Score=32.18  Aligned_cols=72  Identities=17%  Similarity=0.183  Sum_probs=50.1

Q ss_pred             ceEEEEEeeC----CEEEEEEEcCCCCHHHHHHHHHhh--hCCC------CCceEEEE-cC---e-ecCCc---------
Q 031040           69 GSITIRVSTV----SKWHDISIKATSTFGELKMILSMV--SGLE------PREQRLLF-KG---K-EREDN---------  122 (167)
Q Consensus        69 p~I~I~Vk~g----~~~~~VeV~~t~TV~eLK~~Ia~~--TGVp------pe~QKLif-kG---K-~LdD~---------  122 (167)
                      .+++|+|...    ...+.|.|-.-+||.++|++|-+.  -|.|      +++.-|-+ .|   + .|.|.         
T Consensus        12 ~~ltl~v~~~~~~~~~~i~VkVLdCDTItQvKeKiLd~vyk~~p~S~rP~~~~~dLEwr~g~~~~~iL~D~D~ts~~~~~   91 (117)
T 4e74_A           12 KTLVLSCVSPDNANSPEVPVKILNCDTITQVKEKILDAIFKNVPCSHRPKAADMDLEWRQGSGARMILQDEDITTKIEND   91 (117)
T ss_dssp             CEEEEEECCC----CCCEEEEEETTSBHHHHHHHHHHHHTTTSCGGGSCCGGGEEEEEECTTSCEEEECSSSTTCCC---
T ss_pred             EEEEEEEEccCCCCCCceEeeeecCCchHHHHHHHHHHHhcCCCcccCCCCCceeEEEecCCCCceEeecCCCccEecCc
Confidence            4567777641    245778888999999999999864  3333      45666765 23   2 24331         


Q ss_pred             ----chhhhcCCCCCCEEEEec
Q 031040          123 ----EFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus       123 ----~tL~~~GIkdgskL~Lv~  140 (167)
                          .||..|+|.||++|-|+.
T Consensus        92 wkrLNTL~HY~V~dgatl~l~~  113 (117)
T 4e74_A           92 WKRLNTLAHYQVPDGSVVALVS  113 (117)
T ss_dssp             CCCCCBHHHHTCCTTCEEEEEE
T ss_pred             ceEeccccccCCCCCCEEEEEe
Confidence                369999999999998874

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

Probab=88.76  E-value=2.1  Score=29.05  Aligned_cols=58  Identities=17%  Similarity=0.142  Sum_probs=40.9

Q ss_pred             CCEEEEEEEcCCCCHHHHHHHHHhhhC-CC-----C-----CceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           78 VSKWHDISIKATSTFGELKMILSMVSG-LE-----P-----REQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        78 g~~~~~VeV~~t~TV~eLK~~Ia~~TG-Vp-----p-----e~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      +.....++++...||.+|.+.|..... +.     .     ..-.+..+|+....     +.-|++||.|.++-
T Consensus        16 g~~~~~~~~~~~~Tv~~ll~~L~~~~p~~~~~~l~~~g~l~~~~~v~VN~~~v~~-----~~~l~~gDeV~i~P   84 (89)
T 3po0_A           16 GSRTVRVDVDGDATVGDALDALVGAHPALESRVFGDDGELYDHINVLRNGEAAAL-----GEATAAGDELALFP   84 (89)
T ss_dssp             TCSEEEEECCTTCBHHHHHHHHHHHCGGGHHHHBCTTSCBCTTSEEEETTEECCT-----TSBCCTTCEEEEEC
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHCcHHHHHHhccCCcccccEEEEECCEECCC-----CcccCCCCEEEEEC
Confidence            434567888888999999999987642 11     0     12467778887764     34599999998873

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

Probab=88.72  E-value=1  Score=29.83  Aligned_cols=54  Identities=15%  Similarity=0.075  Sum_probs=37.3

Q ss_pred             EEEEEEcCCCCHHHHHHHHHhhhC-----CCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           81 WHDISIKATSTFGELKMILSMVSG-----LEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        81 ~~~VeV~~t~TV~eLK~~Ia~~TG-----Vppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ..+++ ....|+.+|.+.|.....     ++...-.+..+|.....     +.-|++||.|.++-
T Consensus        18 ~~~~~-~~~~tv~~ll~~L~~~~p~~~~~l~~~~~~v~vN~~~v~~-----~~~l~~gD~V~i~P   76 (81)
T 1fm0_D           18 ATEVA-ADFPTVEALRQHMAAQSDRWALALEDGKLLAAVNQTLVSF-----DHPLTDGDEVAFFP   76 (81)
T ss_dssp             EEEEC-SCCSBHHHHHHHHHTTCHHHHHHHCCTTCEEEETTEECCT-----TCBCCTTCEEEEEC
T ss_pred             eEEEc-CCCCCHHHHHHHHHHHChhHHHHhcCCCEEEEECCEECCC-----CCCCCCCCEEEEeC
Confidence            44555 567899999999985521     23334467788887653     34689999998873

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

Probab=88.62  E-value=0.71  Score=30.11  Aligned_cols=53  Identities=21%  Similarity=0.154  Sum_probs=39.6

Q ss_pred             EEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           83 DISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        83 ~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      .++++...|+.+|.+.|    +++++.-.+..+|...... ...+.-+++||.|.++.
T Consensus         9 ~~~~~~~~tv~~ll~~l----~~~~~~v~vavN~~~v~~~-~~~~~~L~~gD~v~i~~   61 (66)
T 1f0z_A            9 AMQCAAGQTVHELLEQL----DQRQAGAALAINQQIVPRE-QWAQHIVQDGDQILLFQ   61 (66)
T ss_dssp             EECCCTTCCHHHHHHHH----TCCCSSEEEEETTEEECHH-HHTTCCCCTTEEECEEE
T ss_pred             EEEcCCCCcHHHHHHHc----CCCCCCEEEEECCEECCch-hcCCcCCCCCCEEEEEe
Confidence            35667789999999987    5777777778888876532 33445699999998773

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

Probab=88.60  E-value=1  Score=29.25  Aligned_cols=55  Identities=16%  Similarity=0.100  Sum_probs=39.5

Q ss_pred             CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           78 VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        78 g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      +++.  +++ ...|+.+|.+.|    +++++.-.+..+|.....+ ...+.-+++||.|.++.
T Consensus         5 Ng~~--~~~-~~~tv~~ll~~l----~~~~~~v~vavN~~~v~~~-~~~~~~L~dgD~v~i~~   59 (64)
T 2cu3_A            5 NGEP--RPL-EGKTLKEVLEEM----GVELKGVAVLLNEEAFLGL-EVPDRPLRDGDVVEVVA   59 (64)
T ss_dssp             TTEE--ECC-TTCCHHHHHHHH----TBCGGGEEEEETTEEEEGG-GCCCCCCCTTCEEEEEE
T ss_pred             CCEE--EEc-CCCcHHHHHHHc----CCCCCcEEEEECCEECCcc-ccCCcCCCCCCEEEEEe
Confidence            3444  455 678999999887    5677777788888876543 33344699999998874

>3kuz_A Plexin-C1; structural genomics, structural genomics consortium, SGC; 2.30A {Homo sapiens}

Probab=87.94  E-value=4.2  Score=30.94  Aligned_cols=61  Identities=16%  Similarity=0.185  Sum_probs=42.3

Q ss_pred             EEEEEEEcCCCCHHHHHHHHHhh-h---CCCC----CceEEEE-cC---eecCC----------c----chhhhcCCCCC
Q 031040           80 KWHDISIKATSTFGELKMILSMV-S---GLEP----REQRLLF-KG---KERED----------N----EFLHMVGVRDK  133 (167)
Q Consensus        80 ~~~~VeV~~t~TV~eLK~~Ia~~-T---GVpp----e~QKLif-kG---K~LdD----------~----~tL~~~GIkdg  133 (167)
                      +.++|.|-.-+||.++|++|-+. .   |+|-    ++.-|-+ .|   ..|.|          .    .||..|+|.||
T Consensus        39 ~~v~VkVLdCDTItQVKEKILdavYk~k~~pys~r~~d~dLEwr~g~~~~~L~D~D~tS~~~e~~wkrLNTL~HY~V~Dg  118 (126)
T 3kuz_A           39 RNISVNVLDCDTIGQAKEKIFQAFLSKNGSPYGLQLNEIGLELQMGTRQKELLDIDSSSVILEDGITKLNTIGHYEISNG  118 (126)
T ss_dssp             CEEEEEEETTCBHHHHHHHHHHHHHHHHSSCCSSCGGGEEEEEEETTEEEEECSSCTTCCBCTTSCBCCCBTGGGTCCTT
T ss_pred             CceEeeeecCCcHHHHHHHHHHHHhccCCCcCCCCccccceEEecCCCcceeeccCCcceEecCCeeEeccccccCCCCC
Confidence            56788888999999999998764 2   6653    4455544 12   12222          1    36888999999


Q ss_pred             CEEEEec
Q 031040          134 DKVLLLE  140 (167)
Q Consensus       134 skL~Lv~  140 (167)
                      ++|-|+.
T Consensus       119 atlal~k  125 (126)
T 3kuz_A          119 STIKVFK  125 (126)
T ss_dssp             CEEEEEE
T ss_pred             CEEEEee
Confidence            9998764

>1q1o_A Cell division control protein 24; PB1 domain, PCCR, PC motif, OPCA motif, yeast, cell polarity, protein-protein interaction; NMR {Saccharomyces cerevisiae} SCOP: d.15.2.2 PDB: 2kfj_A 2kfk_B

Probab=87.89  E-value=1  Score=32.87  Aligned_cols=47  Identities=17%  Similarity=0.261  Sum_probs=37.2

Q ss_pred             eEEEEEeeC--------CEEEEEEEcCCCCHHHHHHHHHhhhCCCCCc-----eEEEEcC
Q 031040           70 SITIRVSTV--------SKWHDISIKATSTFGELKMILSMVSGLEPRE-----QRLLFKG  116 (167)
Q Consensus        70 ~I~I~Vk~g--------~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~-----QKLifkG  116 (167)
                      .|+|+|.++        ...+.|-|+++.++.+|..+|..++++++.+     .+|-|+.
T Consensus         5 sikVKv~y~~~~~~~~~~d~~~i~V~~~i~f~~L~~kI~~Kl~~~~~~~i~~~~klkYkD   64 (98)
T 1q1o_A            5 SILFRISYNNNSNNTSSSEIFTLLVEKVWNFDDLIMAINSKISNTHNNNISPITKIKYQD   64 (98)
T ss_dssp             CEEEEEEECSSCSSCCCCEEEEEEECTTCCHHHHHHHHHHHHHHHCSSCCCCCCCEEEEC
T ss_pred             cEEEEEEecCcccccccCcEEEEEecCCCCHHHHHHHHHHHHcCCccccccceeEEEEEc
Confidence            478888876        5578899999999999999999999876333     3566654

>3qa8_A MGC80376 protein; kinase ubiquitin-like domain, phosphorylation, kinase domain ubiquitin-like domain, kinase, substrate binding; 3.60A {Xenopus laevis} PDB: 3qad_A* 3rzf_A*

Probab=87.58  E-value=0.53  Score=44.05  Aligned_cols=57  Identities=18%  Similarity=0.189  Sum_probs=44.9

Q ss_pred             EEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCee-cCCcchhhhc
Q 031040           72 TIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKE-REDNEFLHMV  128 (167)
Q Consensus        72 ~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~-LdD~~tL~~~  128 (167)
                      .+......+.+.+.+.++.|+.+|+..|+..||++++.|-+++.... ++.......|
T Consensus       314 ~~f~~~~~~~~~~~i~~~~tl~~l~~~i~~~T~i~~~~q~~~~~~~~~~~p~~~~~~~  371 (676)
T 3qa8_A          314 SVMNMVSGRVHTYPVTENENLQNLKSWLQQDTGIPEEEQELLQASGLALNSAQPLTQY  371 (676)
T ss_dssp             ECCCSSSSCCCEEECCTTCCHHHHHHHHHTTSCCCSTTCEEESSSSCCCCTTSCGGGS
T ss_pred             ccccccccccceeecCCCccHHHHHHHHHHHhCCCHHHHHHHhccCCCCCCCcchhhh
Confidence            44444445777899999999999999999999999999999997654 4555455554

>1y8x_B Ubiquitin-activating enzyme E1C; ubiquitin-conjugating enzyme E2 M, ligase; 2.40A {Homo sapiens} SCOP: c.111.1.2 PDB: 3fn1_A

Probab=85.35  E-value=0.84  Score=33.09  Aligned_cols=62  Identities=16%  Similarity=0.282  Sum_probs=42.3

Q ss_pred             EEEEEEcCCCCHHHHHHHHHhhhCCCCC-----------ceEEEEcC-eecCC------cchhhhcCCCCCCEEEEecCC
Q 031040           81 WHDISIKATSTFGELKMILSMVSGLEPR-----------EQRLLFKG-KERED------NEFLHMVGVRDKDKVLLLEDP  142 (167)
Q Consensus        81 ~~~VeV~~t~TV~eLK~~Ia~~TGVppe-----------~QKLifkG-K~LdD------~~tL~~~GIkdgskL~Lv~~p  142 (167)
                      ...++|+++.|..+|-+.|.+...+.-.           ...|++.+ ..|+.      +.+|.++|+.+|+-|++. ||
T Consensus         6 ~~~l~v~~~~TL~~lid~L~~~p~~qlk~PSltt~~~~~~k~LYmq~pp~Lee~Tr~NL~k~l~eLgl~~g~ei~Vt-D~   84 (98)
T 1y8x_B            6 PQNIQFSPSAKLQEVLDYLTNSASLQMKSPAITATLEGKNRTLYMQSVTSIEERTRPNLSKTLKELGLVDGQELAVA-DV   84 (98)
T ss_dssp             CCCEECCTTCBHHHHHHHHHHCTTCCCSSCEEEEEETTEEEEEECSSCHHHHHHHHHHHHSBSGGGTCCTTCEEEEE-CT
T ss_pred             cEEEEECCchhHHHHHHHHHhChHhhccCCeeeeecCCCCCeEEEeCcHHHHHHhHhhhhCCHHHhCCCCCCEEEEE-CC
Confidence            3568999999999999999985433222           34444443 22322      345899999999999875 44


Q ss_pred             c
Q 031040          143 A  143 (167)
Q Consensus       143 ~  143 (167)
                      +
T Consensus        85 ~   85 (98)
T 1y8x_B           85 T   85 (98)
T ss_dssp             T
T ss_pred             C
Confidence            3

>2eel_A Cell death activator CIDE-A; CIDE-N domain, cell death- inducing DFFA-like effector A, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=84.92  E-value=1.8  Score=31.13  Aligned_cols=66  Identities=23%  Similarity=0.302  Sum_probs=46.5

Q ss_pred             EEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEE--cCeecCCcchhhhcCCCCCCEEEEec
Q 031040           72 TIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLF--KGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        72 ~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLif--kGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      -++|.+..++...-|-+ .+..||+.+..+.++++.+.-.|..  .|-+++|++++..+.  ++..++++.
T Consensus        11 pfkV~~~~Rs~k~GV~A-~sL~EL~~K~~~~l~l~~~~~~lvLeeDGT~VddEeyF~tLp--~nT~lmvL~   78 (91)
T 2eel_A           11 PFRVSNHDRSSRRGVMA-SSLQELISKTLDALVIATGLVTLVLEEDGTVVDTEEFFQTLG--DNTHFMILE   78 (91)
T ss_dssp             EEEEECTTSCCCEEEEE-SSHHHHHHHHHHHTTCSSSCEEEEETTTCCBCCCHHHHTTSC--SSEEEEEEE
T ss_pred             CEEEecCCCCeEEeEEc-CCHHHHHHHHHHHhcCCCCCcEEEEeeCCcEEechhhhhhCC--CCCEEEEEc
Confidence            45555544333344433 3899999999999999866666654  699999999988775  666666654

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

Probab=84.58  E-value=1  Score=29.63  Aligned_cols=55  Identities=13%  Similarity=0.121  Sum_probs=39.0

Q ss_pred             EEEEEEEcCCCCHHHHHHHHHhhhCCCCCce--EEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           80 KWHDISIKATSTFGELKMILSMVSGLEPREQ--RLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        80 ~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~Q--KLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ....++++...|+.+|.+.|..... ..+..  .+..+|+....+     .-+++||.|.++.
T Consensus        16 ~~~~~~~~~~~tv~~ll~~l~~~~p-~~~~v~~~v~vNg~~v~~~-----~~L~~gD~V~i~p   72 (77)
T 2q5w_D           16 AQEDIVLEQALTVQQFEDLLFERYP-QINNKKFQVAVNEEFVQKS-----DFIQPNDTVALIP   72 (77)
T ss_dssp             SEEECCCSSCEEHHHHHHHHHHHCG-GGTTCCCEEEETTEEECTT-----SEECTTCEEEEEC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHCc-chhcceEEEEECCEECCCC-----CCcCCCCEEEEEC
Confidence            3456777778899999999876631 01223  677899877643     4689999998863

>2ylm_A Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70A {Homo sapiens}

Probab=83.73  E-value=0.91  Score=41.18  Aligned_cols=31  Identities=23%  Similarity=0.279  Sum_probs=29.1

Q ss_pred             EEEEcCCCCHHHHHHHHHhhhCCCCCceEEE
Q 031040           83 DISIKATSTFGELKMILSMVSGLEPREQRLL  113 (167)
Q Consensus        83 ~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLi  113 (167)
                      .+.|..++|+.+||++|++.+|+|+++|||-
T Consensus        39 ~~rv~k~~~~~~l~~~va~~lg~~~~~~RlW   69 (530)
T 2ylm_A           39 VFKVLKNSSLAEFVQSLSQTMGFPQDQIRLW   69 (530)
T ss_dssp             EEEEETTSBHHHHHHHHHHHHTSCGGGEEEE
T ss_pred             eEEEcCcCCHHHHHHHHHHHhCcCcccEEEE
Confidence            5788999999999999999999999999994

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

Probab=83.05  E-value=0.43  Score=32.24  Aligned_cols=48  Identities=17%  Similarity=0.231  Sum_probs=37.5

Q ss_pred             EEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEe
Q 031040           83 DISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        83 ~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      .++++...|+.+|.+.|    +++++.-.+..+|+..+.+     .-|++||.|-++
T Consensus        24 ~~~~~~~~Tv~dLl~~L----~~~~~~v~VavNg~~v~~~-----~~L~dGD~V~i~   71 (77)
T 1rws_A           24 EIEWREGMKVRDILRAV----GFNTESAIAKVNGKVVLED-----DEVKDGDFVEVI   71 (77)
T ss_dssp             CCCCCSSCCHHHHHHTT----TCSSCSSCEEETTEEECSS-----SCCCSSCCCBCS
T ss_pred             EEECCCCCcHHHHHHHh----CCCCcCEEEEECCEECCCC-----CCcCCCCEEEEE
Confidence            45677788999998876    4677777788999887654     469999998765

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

Probab=82.91  E-value=3.6  Score=28.87  Aligned_cols=67  Identities=16%  Similarity=0.144  Sum_probs=40.6

Q ss_pred             eEEEEEee--------CCEEEEEEEcCCCCHHHHHHHHHhhh-CCCCC---------ce-------EEEEcCeecCCcch
Q 031040           70 SITIRVST--------VSKWHDISIKATSTFGELKMILSMVS-GLEPR---------EQ-------RLLFKGKEREDNEF  124 (167)
Q Consensus        70 ~I~I~Vk~--------g~~~~~VeV~~t~TV~eLK~~Ia~~T-GVppe---------~Q-------KLifkGK~LdD~~t  124 (167)
                      +|+|+|++        +...+  +++ ..|+.+|.+.|.... ++...         .-       .+..+|........
T Consensus         3 mm~v~V~~fa~lr~~~g~~~~--~l~-~~tv~~ll~~L~~~~p~l~~~l~~~g~l~~~v~~~~~~~~v~VNg~~v~~~~~   79 (99)
T 2l52_A            3 MAEVKVKLFANLREAAGTPEL--PLS-GEKVIDVLLSLTDKYPALKYVIFEKGDEKSEILILCGSINILINGNNIRHLEG   79 (99)
T ss_dssp             CCEEEEEECTHHHHHHSSSEE--EEE-CSSHHHHHHHHHHHCGGGTTTSBCSCCTTSSCCCBCSSCEEEETTSCGGGTTS
T ss_pred             ceEEEEEEeHHHHHHhCCCeE--EEe-CCcHHHHHHHHHHHChhHHHHHhcccccccceeccccccEEEECCEEccccCC
Confidence            45667764        22233  444 589999999998763 11111         12       57788876532222


Q ss_pred             hhhcCCCCCCEEEEec
Q 031040          125 LHMVGVRDKDKVLLLE  140 (167)
Q Consensus       125 L~~~GIkdgskL~Lv~  140 (167)
                      + +.-|++||.|.++-
T Consensus        80 ~-~~~L~~gD~V~i~p   94 (99)
T 2l52_A           80 L-ETLLKDSDEIGILP   94 (99)
T ss_dssp             T-TSCCCTTEEEEEEC
T ss_pred             C-CCCCCCCCEEEEEC
Confidence            2 33589999998763

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

Probab=81.96  E-value=5.7  Score=26.54  Aligned_cols=57  Identities=19%  Similarity=0.224  Sum_probs=37.4

Q ss_pred             EEEEcCCCCHHHHHHHHHhhhC------C-----CCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           83 DISIKATSTFGELKMILSMVSG------L-----EPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        83 ~VeV~~t~TV~eLK~~Ia~~TG------V-----ppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      +++++...|+.+|.+.|.....      +     ....-.+..+|........ .+.-|++||.|.++-
T Consensus        18 ~~~~~~~~tv~~ll~~l~~~~p~~~~~~l~~~~g~~~~v~v~vN~~~v~~~~~-~~~~l~~gD~V~i~p   85 (90)
T 2g1e_A           18 EETFNGISKISELLERLKVEYGSEFTKQMYDGNNLFKNVIILVNGNNITSMKG-LDTEIKDDDKIDLFP   85 (90)
T ss_dssp             EEEESSCCBHHHHHHHHHHHSCHHHHHHHCCSSCSTTTCEEEESSSBGGGTCS-SSCBCCTTCEEEEEC
T ss_pred             EEEcCCCCcHHHHHHHHHHHCcchhhhccccccCcCcceEEEECCEEccccCC-CCcCCCCCCEEEEeC
Confidence            3566667899999999987641      1     1134467788876642222 233599999998863

>3ge3_C Toluene-4-monooxygenase system protein B; DIIRON hydroxylase, effector protein, T201A, aromatic hydrocarbons catabolism, FAD, flavoprotein; 1.52A {Pseudomonas mendocina} SCOP: d.15.12.0 PDB: 3dhh_C* 3dhg_C* 3dhi_C 3ge8_C 3i5j_C 3i63_C 3q14_C 3q2a_C* 3q3m_C* 3q3n_C* 3q3o_C* 3rmk_C* 3ri7_C*

Probab=81.87  E-value=12  Score=26.66  Aligned_cols=65  Identities=3%  Similarity=-0.009  Sum_probs=51.7

Q ss_pred             EeeCCEEEEEEEcCCCCHHHHHHHHHhh-hC--CC--CCceEEEEcCee--cCCcchhhhcCCCCCCEEEEe
Q 031040           75 VSTVSKWHDISIKATSTFGELKMILSMV-SG--LE--PREQRLLFKGKE--REDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        75 Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~-TG--Vp--pe~QKLifkGK~--LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      +....-.+-|.|+.++|..++-++++.- -|  ++  |.-.++.++|..  +.++.++.+.||++-+.|-++
T Consensus        10 F~gDFv~~Lv~VDt~dtmdqVA~k~A~h~VGrrv~p~pg~lrVr~~G~~~~~Pr~mtVaeaGl~Pme~vev~   81 (84)
T 3ge3_C           10 FEKDFLVQLVVVDLNDSMDQVAEKVAYHCVNRRVAPREGVMRVRKHRSTELFPRDMTIAESGLNPTEVIDVV   81 (84)
T ss_dssp             ETTCSBEEEEEEETTCBHHHHHHHHHHTTBTTTBCCCSSCEEEEETTCSCBCCTTCBHHHHCCCTTCEEEEE
T ss_pred             eccccEEEEEEecCCCcHHHHHHHHhhhhcceeeCCCCCcEEEEECCCcccCCCCCEeeccCCCcceEEEEE
Confidence            3334467789999999999999998863 23  22  236788899998  999999999999999998765

>1wgr_A Growth factor receptor-bound protein 7; RA domain, GRB7, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.15.1.5

Probab=81.32  E-value=6.4  Score=28.54  Aligned_cols=73  Identities=14%  Similarity=0.065  Sum_probs=52.0

Q ss_pred             eEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEE-------cCeecCCcch----hhhcCCCCCCEEEE
Q 031040           70 SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLF-------KGKEREDNEF----LHMVGVRDKDKVLL  138 (167)
Q Consensus        70 ~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLif-------kGK~LdD~~t----L~~~GIkdgskL~L  138 (167)
                      .|+|+...+ .+..|.|++++|+.|+=++|.+..++..+.---||       --+.++|.+.    |.+..+....+++.
T Consensus        11 vvkvf~~Dg-ssksi~V~~~~Ta~dv~~~L~~K~~~~~~~~WaLvE~~P~L~~ER~~EDHE~vvevl~~W~~~s~nr~~F   89 (100)
T 1wgr_A           11 VVKVYSEDG-ACRSVEVAAGATARHVCEMLVQRAHALSDETWGLVECHPHLALERGLEDHESVVEVQAAWPVGGDSRFVF   89 (100)
T ss_dssp             EEEEEETTS-CEEEEEECTTCCHHHHHHHHHCSSSCCCCCCCCEEEEETTTTEEEEECSSSCHHHHHTTSCSSSCCEEEE
T ss_pred             EEEEEecCC-CEEEEEECCCCcHHHHHHHHHHHcCCCCCCCeEEEEecCCCCcEEeccCchhHHHHHhhCccCCCcEEEE
Confidence            455555555 67799999999999999999999998865544433       2345677654    45556777788877


Q ss_pred             ecCCc
Q 031040          139 LEDPA  143 (167)
Q Consensus       139 v~~p~  143 (167)
                      .+.+.
T Consensus        90 ~kr~~   94 (100)
T 1wgr_A           90 RKNFA   94 (100)
T ss_dssp             CSCCS
T ss_pred             ecchh
Confidence            76543

>2juo_A GA-binding protein alpha chain; OST, ubiquitin, transcription factor, ensemble, DNA-binding, nucleus, transcription regulation; NMR {Mus musculus}

Probab=81.27  E-value=5.7  Score=28.53  Aligned_cols=58  Identities=17%  Similarity=0.199  Sum_probs=51.3

Q ss_pred             EEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEe
Q 031040           82 HDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        82 ~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      ..-.++-+.++..||+.|+.+.|++-+.-.+...+..|+++.+|-+-+|+-.-.|.+.
T Consensus         5 i~qhmDI~epL~~Lk~LLe~Rl~i~L~~y~f~LQd~~L~~~k~LvdQcVqgeGlVQin   62 (89)
T 2juo_A            5 VSQAIDINEPIGNLKKLLEPRLQCSLDAHEICLQDIQLDPDRSLFDQGVKTDGTVQLS   62 (89)
T ss_dssp             EEEEEESSSBGGGHHHHSHHHHCSCCSSCEEEETTEECCTTSBTTTSSCCCCSEEEEE
T ss_pred             hhhhccccCcHHHHHHHHHHHhcCCcccCeEEeeccccCCCccHHHhhcccccEEEEE
Confidence            3456777889999999999999999999999899999999999999999888888764

>3hm6_X Plexin-B1; structural genomics consortium, SGC, membrane, transmembrane receptor, cell membrane, glycoprotein, phosphoprotein; 2.40A {Homo sapiens} PDB: 3sua_D* 3su8_X*

Probab=80.19  E-value=7.4  Score=36.68  Aligned_cols=72  Identities=18%  Similarity=0.231  Sum_probs=50.0

Q ss_pred             ceEEEEEeeC-------CEEEEEEEcCCCCHHHHHHHHHhh--hCCC------CCceEEEEc----Ce-ecCCc------
Q 031040           69 GSITIRVSTV-------SKWHDISIKATSTFGELKMILSMV--SGLE------PREQRLLFK----GK-EREDN------  122 (167)
Q Consensus        69 p~I~I~Vk~g-------~~~~~VeV~~t~TV~eLK~~Ia~~--TGVp------pe~QKLifk----GK-~LdD~------  122 (167)
                      .+++++|-..       .+.+.|.|-.-+||.++|++|-+.  -|+|      +++.-|-++    |. .|.|.      
T Consensus       256 ~~ltL~v~~~~~~~~~~~~~i~VkVLdCDTItQVKeKiLDavYk~~pyS~rP~~~~~dLEwr~g~~g~~iL~D~D~ts~~  335 (644)
T 3hm6_X          256 RPLTLNALLAVGPGAGEAQGVPVKVLDCDTISQAKEKMLDQLYKGVPLTQRPDPRTLDVEWRSGVAGHLILSDEDVTSEV  335 (644)
T ss_dssp             CEEEEEEECC-------CCCEEEEEETTSBHHHHHHHHHHHHTTTSCGGGSCCGGGEEEEEECSSSCEEEECSSSTTCCE
T ss_pred             eeEEEEEeecCccccCCCCceeeEeeccCcHHHHHHHHHHHHHcCCCcccCCCCCCcceEEeeCCCCceeecccCcccee
Confidence            4566776531       245778888999999999999864  3444      355566552    22 24443      


Q ss_pred             -------chhhhcCCCCCCEEEEec
Q 031040          123 -------EFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus       123 -------~tL~~~GIkdgskL~Lv~  140 (167)
                             .||..|+|+||++|.|+.
T Consensus       336 ~~~wkrLNTL~HY~V~dga~v~L~p  360 (644)
T 3hm6_X          336 QGLWRRLNTLQHYKVPDGATVALVP  360 (644)
T ss_dssp             ETTEEECCBTTTTTCCTTCEEEEEE
T ss_pred             cCcceeecchhhcCCCCCcEEEEEe
Confidence                   379999999999998874

---

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	167
d2bwfa1	73	d.15.1.1 (A:2-74) DSK2 {Baker's yeast (Saccharomyc	5e-12
d1j8ca_	103	d.15.1.1 (A:) Ubiquitin-like N-terminal domain of	5e-10
d1wxva1	81	d.15.1.1 (A:7-87) Bag-family molecular chaperone r	8e-10
d1wx8a1	83	d.15.1.1 (A:8-90) 4931431F19Rik {Mouse (Mus muscul	5e-09
d1v86a_	95	d.15.1.1 (A:) hypothetical D7wsu128e protein {Mous	2e-08
d1yqba1	84	d.15.1.1 (A:15-98) Ubiquilin-3 {Human (Homo sapien	1e-07
d1oqya4	77	d.15.1.1 (A:1-77) Ubiquitin-like domain of Rad23 h	3e-07
d1euvb_	79	d.15.1.1 (B:) SUMO-1 (smt3 homologue) {Baker's yea	8e-07
d1wgga_	96	d.15.1.1 (A:) Ubiquitin carboxyl-terminal hydrolas	8e-07
d1ogwa_	76	d.15.1.1 (A:) Ubiquitin {Human (Homo sapiens) [Tax	2e-06
d1v5ta_	90	d.15.1.1 (A:) 8430435i17rik protein {Mouse (Mus mu	2e-06
d1wgda_	93	d.15.1.1 (A:) Homocysteine-responsive endoplasmic	8e-06
d1wiaa_	95	d.15.1.1 (A:) Ubiquitin-like protein bab25500 (201	1e-05
d1se9a_	101	d.15.1.1 (A:) Hypothetical protein At3g01050 {Thal	3e-05
d1zkha1	86	d.15.1.1 (A:1-86) Splicing factor 3 subunit 1, C-t	4e-05
d2uyzb1	77	d.15.1.1 (B:20-96) SUMO-1 (smt3 homologue) {Human	5e-05
d1wx9a1	73	d.15.1.1 (A:8-80) Large proline-rich protein BAT3	6e-05
d1bt0a_	73	d.15.1.1 (A:) Rub1 {Mouse-ear cress (Arabidopsis t	9e-05
d1wjna_	97	d.15.1.1 (A:) Tubulin-folding protein TbcE {Mouse	1e-04
d1wjua_	100	d.15.1.1 (A:) NEDD8 ultimate buster-1, NUB1 {Human	2e-04
d1wgha_	116	d.15.1.1 (A:) Ubiquitin-like protein 3, Ubl3 {Mous	2e-04
d1z2ma1	76	d.15.1.1 (A:3-78) Interferon-induced 15 kDa protei	3e-04
d1v2ya_	105	d.15.1.1 (A:) Ubiquitin-like protein 3300001g02rik	5e-04
d1t0ya_	90	d.15.1.1 (A:) Ubiquitin-like domain of tubulin fol	6e-04
d1v5oa_	102	d.15.1.1 (A:) 1700011n24rik protein {Mouse (Mus mu	7e-04
d1uela_	95	d.15.1.1 (A:) Ubiquitin-like domain of Rad23 homol	0.001
d2c9wb1	103	d.15.1.1 (B:2-104) Elongin B {Human (Homo sapiens)	0.001
d1x1ma1	94	d.15.1.1 (A:8-101) Ubiquitin-like protein 7 {Mouse	0.002
d1v6ea_	95	d.15.1.1 (A:) Ubiquitin-like domain of tubulin fol	0.003
d1z2ma2	76	d.15.1.1 (A:79-154) Interferon-induced 15 kDa prot	0.003

>d2bwfa1 d.15.1.1 (A:2-74) DSK2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 73

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: DSK2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 55.9 bits (135), Expect = 5e-12
 Identities = 15/69 (21%), Positives = 35/69 (50%)

Query: 70  SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVG 129
           S+ I + +     ++++   ST  + K  ++  +G+    QRL++ GK  +D++ +    
Sbjct: 1   SLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYH 60

Query: 130 VRDKDKVLL 138
           ++D   V L
Sbjct: 61  IQDGHSVHL 69

>d1j8ca_ d.15.1.1 (A:) Ubiquitin-like N-terminal domain of PLIC-2 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like N-terminal domain of PLIC-2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.9 bits (124), Expect = 5e-10
 Identities = 20/98 (20%), Positives = 37/98 (37%), Gaps = 2/98 (2%)

Query: 44  SHEIKWELRPGGMLVQKRESGC--EGEGSITIRVSTVSKWHDISIKATSTFGELKMILSM 101
           + E     RP       + S         I + V T  +  + ++   S+  + K  +S 
Sbjct: 4   NGESSGPPRPSRGPAAAQGSAAAPAEPKIIKVTVKTPKEKEEFAVPENSSVQQFKEAISK 63

Query: 102 VSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLL 139
               +  +  L+F GK  +D + L   G+ D   V L+
Sbjct: 64  RFKSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLV 101

>d1wxva1 d.15.1.1 (A:7-87) Bag-family molecular chaperone regulator-1 {Human (Homo sapiens) [TaxId: 9606]} Length = 81

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Bag-family molecular chaperone regulator-1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 50.6 bits (121), Expect = 8e-10
 Identities = 19/75 (25%), Positives = 40/75 (53%), Gaps = 6/75 (8%)

Query: 71  ITIRVSTVSKWHDISIKA-----TSTFGELKMILSMVSGLEPREQRLLFKGKE-REDNEF 124
           +T+ V+  ++ HD+ + +          +L  ++  V G+    Q+L+FKGK  +E    
Sbjct: 2   LTVTVTHSNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETP 61

Query: 125 LHMVGVRDKDKVLLL 139
           L  +G++D  +V+L+
Sbjct: 62  LSALGIQDGCRVMLI 76

>d1wx8a1 d.15.1.1 (A:8-90) 4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]} Length = 83

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 4931431F19Rik
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 48.4 bits (115), Expect = 5e-09
 Identities = 16/74 (21%), Positives = 25/74 (33%)

Query: 66  EGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFL 125
                I + V T    H+  +   S     K  +S           L+F GK   D + L
Sbjct: 6   PSSRIIRVSVKTPQDCHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDIL 65

Query: 126 HMVGVRDKDKVLLL 139
              G+ D   V ++
Sbjct: 66  SQRGILDGSTVHVV 79

>d1v86a_ d.15.1.1 (A:) hypothetical D7wsu128e protein {Mouse (Mus musculus) [TaxId: 10090]} Length = 95

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: hypothetical D7wsu128e protein
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 47.2 bits (112), Expect = 2e-08
 Identities = 17/78 (21%), Positives = 39/78 (50%), Gaps = 1/78 (1%)

Query: 62  ESGCEGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKERED 121
             G  G+  + +++      HD+ +   ST  ELK  +  ++GL P  Q++++K     +
Sbjct: 9   AGGGVGKELVDLKIIWNKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYK-GLVPE 67

Query: 122 NEFLHMVGVRDKDKVLLL 139
           ++ L  + V    K++++
Sbjct: 68  DKTLREIKVTSGAKIMVV 85

>d1yqba1 d.15.1.1 (A:15-98) Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]} Length = 84

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquilin-3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.0 bits (106), Expect = 1e-07
 Identities = 23/73 (31%), Positives = 32/73 (43%)

Query: 67  GEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLH 126
               I + V T     D S+  T T  +LK  +S      P +  L+F GK  +D + L 
Sbjct: 4   SPHLIKVTVKTPKDKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLA 63

Query: 127 MVGVRDKDKVLLL 139
             GVRD   V L+
Sbjct: 64  QCGVRDGLTVHLV 76

>d1oqya4 d.15.1.1 (A:1-77) Ubiquitin-like domain of Rad23 homolog A (Hhr23a) {Human (Homo sapiens) [TaxId: 9606]} Length = 77

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of Rad23 homolog A (Hhr23a)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.7 bits (103), Expect = 3e-07
 Identities = 15/74 (20%), Positives = 35/74 (47%), Gaps = 4/74 (5%)

Query: 70  SITIRVSTVS-KWHDISIKATSTFGELKMILSMVSGLE---PREQRLLFKGKEREDNEFL 125
           ++TI + T+  +   I ++   T   LK  +    G +      Q+L++ GK   D+  +
Sbjct: 2   AVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPI 61

Query: 126 HMVGVRDKDKVLLL 139
               + +K+ V+++
Sbjct: 62  RDYRIDEKNFVVVM 75

>d1euvb_ d.15.1.1 (B:) SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomyces cerevisiae), smt3 [TaxId: 4932]} Length = 79

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: SUMO-1 (smt3 homologue)
species: Baker's yeast (Saccharomyces cerevisiae), smt3 [TaxId: 4932]

 Score = 42.5 bits (100), Expect = 8e-07
 Identities = 15/64 (23%), Positives = 25/64 (39%)

Query: 71  ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGV 130
           I ++VS  S      IK T+    L    +   G E    R L+ G   + ++    + +
Sbjct: 5   INLKVSDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDM 64

Query: 131 RDKD 134
            D D
Sbjct: 65  EDND 68

>d1wgga_ d.15.1.1 (A:) Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (Mus musculus) [TaxId: 10090]} Length = 96

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin carboxyl-terminal hydrolase 14
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 43.1 bits (101), Expect = 8e-07
 Identities = 14/77 (18%), Positives = 35/77 (45%), Gaps = 2/77 (2%)

Query: 64  GCEGEGSITIRVSTVS-KWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDN 122
           G  G    ++ V     K+  + +         K  L  ++G++P  Q+++ KG   +D+
Sbjct: 1   GSSGSSGYSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD 60

Query: 123 EFLHMVGVRDKDKVLLL 139
           +    + +++   VL++
Sbjct: 61  D-WGNIKMKNGMTVLMM 76

>d1ogwa_ d.15.1.1 (A:) Ubiquitin {Human (Homo sapiens) [TaxId: 9606]} Length = 76

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.4 bits (97), Expect = 2e-06
 Identities = 17/69 (24%), Positives = 34/69 (49%), Gaps = 1/69 (1%)

Query: 71  ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGV 130
           I ++  T  K   + ++ + T   +K  +    G+ P +QRL+F GK+ ED   L    +
Sbjct: 3   IFVKTLT-GKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 61

Query: 131 RDKDKVLLL 139
           + +  + L+
Sbjct: 62  QKESTLHLV 70

>d1v5ta_ d.15.1.1 (A:) 8430435i17rik protein {Mouse (Mus musculus) [TaxId: 10090]} Length = 90

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 8430435i17rik protein
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 41.9 bits (98), Expect = 2e-06
 Identities = 19/84 (22%), Positives = 39/84 (46%), Gaps = 4/84 (4%)

Query: 64  GCEGEGSITIRVSTVSKWHDIS-IKATSTFGELKMILSMVSGLEPREQRLL---FKGKER 119
           G  G   + I V    + + ++ +    T  +LK  L  ++G+ P  Q+LL    KGK  
Sbjct: 1   GSSGSSGLPIIVKWGGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPA 60

Query: 120 EDNEFLHMVGVRDKDKVLLLEDPA 143
           E++  L  + ++   K++++    
Sbjct: 61  ENDVKLGALKLKPNTKIMMMGTRE 84

>d1wgda_ d.15.1.1 (A:) Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein, HERPUD1 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein, HERPUD1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.2 bits (94), Expect = 8e-06
 Identities = 19/76 (25%), Positives = 35/76 (46%), Gaps = 5/76 (6%)

Query: 64  GCEGEGSITIRVSTVS-KWHDISIKA--TSTFGELKMILSMVSG--LEPREQRLLFKGKE 118
           G  G   +T+ V + + +  D+ +      + G LK  LS V      P +QRL++ GK 
Sbjct: 1   GSSGSSGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKL 60

Query: 119 REDNEFLHMVGVRDKD 134
             D++ L  +  + + 
Sbjct: 61  LLDHQCLRDLLPKQEK 76

>d1wiaa_ d.15.1.1 (A:) Ubiquitin-like protein bab25500 (2010008E23Rik) {Mouse (Mus musculus) [TaxId: 10090]} Length = 95

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein bab25500 (2010008E23Rik)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 39.5 bits (92), Expect = 1e-05
 Identities = 11/78 (14%), Positives = 28/78 (35%), Gaps = 5/78 (6%)

Query: 64  GCEGEGSITIRVSTVS-KWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKER-ED 121
           G  G   I +R+  ++        +   T G LK         +  + +L+++G+   + 
Sbjct: 1   GSSGSSGINVRLKFLNDTEELAVARPEDTVGTLKS---KYFPGQESQMKLIYQGRLLQDP 57

Query: 122 NEFLHMVGVRDKDKVLLL 139
              L  + + +   +   
Sbjct: 58  ARTLSSLNITNNCVIHCH 75

>d1se9a_ d.15.1.1 (A:) Hypothetical protein At3g01050 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 101

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Hypothetical protein At3g01050
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 38.8 bits (90), Expect = 3e-05
 Identities = 12/80 (15%), Positives = 27/80 (33%), Gaps = 7/80 (8%)

Query: 62  ESGCEGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSG-------LEPREQRLLF 114
           E+    +  I  R++  S     +    +T   LK  +               +E +L+ 
Sbjct: 1   EAEVHNQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLIS 60

Query: 115 KGKEREDNEFLHMVGVRDKD 134
            GK  E+++ +        +
Sbjct: 61  AGKVLENSKTVKDYRSPVSN 80

>d1zkha1 d.15.1.1 (A:1-86) Splicing factor 3 subunit 1, C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 86

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Splicing factor 3 subunit 1, C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.3 bits (89), Expect = 4e-05
 Identities = 12/78 (15%), Positives = 32/78 (41%), Gaps = 9/78 (11%)

Query: 70  SITIRVSTV---------SKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKERE 120
           SI ++V  +          +    ++  T     +K+ +   +G+   +Q+L ++G   +
Sbjct: 3   SIKVQVPNMQDKTEWKLNGQVLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIK 62

Query: 121 DNEFLHMVGVRDKDKVLL 138
           D+  L    + +   + L
Sbjct: 63  DSNSLAYYNMANGAVIHL 80

>d2uyzb1 d.15.1.1 (B:20-96) SUMO-1 (smt3 homologue) {Human (Homo sapiens) [TaxId: 9606]} Length = 77

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: SUMO-1 (smt3 homologue)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.8 bits (88), Expect = 5e-05
 Identities = 16/65 (24%), Positives = 28/65 (43%), Gaps = 1/65 (1%)

Query: 71  ITIRVSTV-SKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVG 129
           I ++V    S      +K T+   +LK       G+     R LF+G+   DN     +G
Sbjct: 3   IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELG 62

Query: 130 VRDKD 134
           + ++D
Sbjct: 63  MEEED 67

>d1wx9a1 d.15.1.1 (A:8-80) Large proline-rich protein BAT3 {Human (Homo sapiens) [TaxId: 9606]} Length = 73

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Large proline-rich protein BAT3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.5 bits (87), Expect = 6e-05
 Identities = 15/73 (20%), Positives = 32/73 (43%), Gaps = 1/73 (1%)

Query: 71  ITIRVSTVS-KWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVG 129
           + + V T+  +     + A     E K  ++    +   +QRL+++G+  +D++ L    
Sbjct: 1   LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYN 60

Query: 130 VRDKDKVLLLEDP 142
           V  K   L+   P
Sbjct: 61  VGGKVIHLVERAP 73

>d1bt0a_ d.15.1.1 (A:) Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 73

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Rub1
species: Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 36.8 bits (85), Expect = 9e-05
 Identities = 17/69 (24%), Positives = 33/69 (47%), Gaps = 1/69 (1%)

Query: 71  ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGV 130
           I ++  T  K  +I I+ T T   +K  +    G+ P +QRL++ GK+  D++      +
Sbjct: 3   IKVKTLT-GKEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADDKTAKDYNI 61

Query: 131 RDKDKVLLL 139
                + L+
Sbjct: 62  EGGSVLHLV 70

>d1wjna_ d.15.1.1 (A:) Tubulin-folding protein TbcE {Mouse (Mus musculus) [TaxId: 10090]} Length = 97

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Tubulin-folding protein TbcE
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 37.2 bits (86), Expect = 1e-04
 Identities = 13/88 (14%), Positives = 34/88 (38%), Gaps = 12/88 (13%)

Query: 63  SGCEGEGSITIRVSTVS----KWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKE 118
           S       +T+++   +    +  +  +  + T  ++K +LS +  +   E  L ++  +
Sbjct: 2   SSGSSGQLLTLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSK 61

Query: 119 RE--------DNEFLHMVGVRDKDKVLL 138
                     D + L    V + D +L+
Sbjct: 62  MPGREIELENDLQPLQFYSVENGDCLLV 89

>d1wjua_ d.15.1.1 (A:) NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens) [TaxId: 9606]} Length = 100

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: NEDD8 ultimate buster-1, NUB1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.9 bits (85), Expect = 2e-04
 Identities = 14/70 (20%), Positives = 31/70 (44%), Gaps = 1/70 (1%)

Query: 71  ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGV 130
           +  R+    K + +  +   T  EL+  ++   GL+    +++   K+ +  + L   GV
Sbjct: 22  LPPRLKKDRK-NLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEEQGV 80

Query: 131 RDKDKVLLLE 140
               K ++LE
Sbjct: 81  AHNVKAMVLE 90

>d1wgha_ d.15.1.1 (A:) Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculus) [TaxId: 10090]} Length = 116

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 3, Ubl3
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.9 bits (85), Expect = 2e-04
 Identities = 11/80 (13%), Positives = 26/80 (32%), Gaps = 9/80 (11%)

Query: 68  EGSITIRVSTVS-KWHDISIKATSTFGELK-MILSMV-------SGLEPREQRLLFKGKE 118
              I +R+  VS K  +       +  ++   +               P   RL+++G+ 
Sbjct: 14  ADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRF 73

Query: 119 REDNEFLHMVGVRDKDKVLL 138
              N  L  + +      ++
Sbjct: 74  LHGNVTLGALKLPFGKTTVM 93

>d1z2ma1 d.15.1.1 (A:3-78) Interferon-induced 15 kDa protein {Human (Homo sapiens) [TaxId: 9606]} Length = 76

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Interferon-induced 15 kDa protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.6 bits (82), Expect = 3e-04
 Identities = 16/71 (22%), Positives = 32/71 (45%), Gaps = 3/71 (4%)

Query: 71  ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFK--GKEREDNEFLHMV 128
           +T+++        +S+ ++ +  ELK  ++   G+   +QRL     G   +D   L   
Sbjct: 3   LTVKMLA-GNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQ 61

Query: 129 GVRDKDKVLLL 139
           G+     VLL+
Sbjct: 62  GLGPGSTVLLV 72

>d1v2ya_ d.15.1.1 (A:) Ubiquitin-like protein 3300001g02rik {Mouse (Mus musculus) [TaxId: 10090]} Length = 105

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 3300001g02rik
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 35.8 bits (82), Expect = 5e-04
 Identities = 14/86 (16%), Positives = 31/86 (36%), Gaps = 3/86 (3%)

Query: 64  GCEGEGSITIRVSTVS-KWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDN 122
           G  G   +T+RV  +  +   + +   +T  +LK  +     L+   +  +         
Sbjct: 1   GSSGSSGMTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVW 60

Query: 123 EFLHMV--GVRDKDKVLLLEDPAIKD 146
              H+   G +  +    L D  I++
Sbjct: 61  RTYHLTSAGEKLTEDRKKLRDYGIRN 86

>d1t0ya_ d.15.1.1 (A:) Ubiquitin-like domain of tubulin folding cofactor B {Nematode (Caenorhabditis elegans) [TaxId: 6239]} Length = 90

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of tubulin folding cofactor B
species: Nematode (Caenorhabditis elegans) [TaxId: 6239]

 Score = 35.2 bits (81), Expect = 6e-04
 Identities = 16/90 (17%), Positives = 30/90 (33%), Gaps = 10/90 (11%)

Query: 70  SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVG 129
            + I  +      +    A  +  +LK  L +V G      R+     + +    L    
Sbjct: 6   DLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGEL---- 61

Query: 130 VRDKDKVLLLEDPAIKD---MKLHGLRGGQ 156
             D  K   L+D  ++D   +    + GG 
Sbjct: 62  -TDGAK--SLKDLGVRDGYRIHAVDVTGGN 88

>d1v5oa_ d.15.1.1 (A:) 1700011n24rik protein {Mouse (Mus musculus) [TaxId: 10090]} Length = 102

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 1700011n24rik protein
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 35.4 bits (81), Expect = 7e-04
 Identities = 16/82 (19%), Positives = 35/82 (42%), Gaps = 6/82 (7%)

Query: 64  GCEGEGSITIRVSTVSKWHD-----ISIKATSTFGELKMILSMVSGLEPREQRLLFKGKE 118
           G  G   + I V  V +        + +         +++  + SG+   E ++++  + 
Sbjct: 1   GSSGSSGMLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQL 60

Query: 119 R-EDNEFLHMVGVRDKDKVLLL 139
             +D+  L   G++D D V+LL
Sbjct: 61  LTDDHCSLGSYGLKDGDMVVLL 82

>d1uela_ d.15.1.1 (A:) Ubiquitin-like domain of Rad23 homolog B (Hhr23B) {Human (Homo sapiens) [TaxId: 9606]} Length = 95

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of Rad23 homolog B (Hhr23B)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.6 bits (79), Expect = 0.001
 Identities = 14/72 (19%), Positives = 29/72 (40%), Gaps = 4/72 (5%)

Query: 71  ITIRVSTVSKWHDISIKATSTFGELKMILSM---VSGLEPREQRLLFKGKEREDNEFLHM 127
           +T++     +   I I    T   LK  +             Q+L++ GK   D+  L  
Sbjct: 3   VTLKTLQ-QQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKE 61

Query: 128 VGVRDKDKVLLL 139
             + +K+ V+++
Sbjct: 62  YKIDEKNFVVVM 73

>d2c9wb1 d.15.1.1 (B:2-104) Elongin B {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Elongin B
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.4 bits (79), Expect = 0.001
 Identities = 15/49 (30%), Positives = 21/49 (42%)

Query: 84  ISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRD 132
              K +ST  ELK I+  +    P EQRL    +  +D + L   G   
Sbjct: 15  TDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECGFTS 63

>d1x1ma1 d.15.1.1 (A:8-101) Ubiquitin-like protein 7 {Mouse (Mus musculus) [TaxId: 10090]} Length = 94

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 7
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 33.7 bits (77), Expect = 0.002
 Identities = 11/78 (14%), Positives = 29/78 (37%), Gaps = 3/78 (3%)

Query: 65  CEGEGSITIRVSTVSKWHDISIKATSTFGELKMILS---MVSGLEPREQRLLFKGKERED 121
            +   +    +               +   LK +++     S  +P    L++ G++ +D
Sbjct: 13  ADQPLAPKSILQLPETELGEYSLGGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKD 72

Query: 122 NEFLHMVGVRDKDKVLLL 139
           ++ L   G++    V +L
Sbjct: 73  DQTLDFYGIQPGSTVHVL 90

>d1v6ea_ d.15.1.1 (A:) Ubiquitin-like domain of tubulin folding cofactor B {Mouse (Mus musculus) [TaxId: 10090]} Length = 95

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of tubulin folding cofactor B
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 33.3 bits (76), Expect = 0.003
 Identities = 17/83 (20%), Positives = 28/83 (33%), Gaps = 8/83 (9%)

Query: 63  SGCEGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKE---- 118
           SG  G   + I  S  S   +     + T  E K  L +V G       L   G +    
Sbjct: 3   SGSSGV-MVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGSPASCMELELYGADDKFY 61

Query: 119 ---REDNEFLHMVGVRDKDKVLL 138
               +++  L    V D  ++ +
Sbjct: 62  SKLDQEDALLGSYPVDDGCRIHV 84

>d1z2ma2 d.15.1.1 (A:79-154) Interferon-induced 15 kDa protein {Human (Homo sapiens) [TaxId: 9606]} Length = 76

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Interferon-induced 15 kDa protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 32.9 bits (75), Expect = 0.003
 Identities = 17/69 (24%), Positives = 30/69 (43%), Gaps = 1/69 (1%)

Query: 71  ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGV 130
           I +R +   +     ++ T T   LK  +S + G++     L F+GK  ED   L   G+
Sbjct: 6   ILVRNNK-GRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGL 64

Query: 131 RDKDKVLLL 139
           +    V + 
Sbjct: 65  KPLSTVFMN 73

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	167
d2bwfa1	73	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.86
d1yqba1	84	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	99.86
d1j8ca_	103	Ubiquitin-like N-terminal domain of PLIC-2 {Human	99.84
d1wx8a1	83	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	99.83
d1wh3a_	87	2'-5'-oligoadenylate synthetase-like protein, OASL	99.83
d2zeqa1	78	Ubiquitin-like domain of parkin {Mouse (Mus muscul	99.83
d1v5ta_	90	8430435i17rik protein {Mouse (Mus musculus) [TaxId	99.82
d1z2ma2	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.82
d1bt0a_	73	Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxI	99.82
d1wgga_	96	Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (M	99.82
d1wxva1	81	Bag-family molecular chaperone regulator-1 {Human	99.82
d1ogwa_	76	Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}	99.82
d1m94a_	73	Ubiquitin-like modifier protein hub1 {Baker's yeas	99.81
d1v86a_	95	hypothetical D7wsu128e protein {Mouse (Mus musculu	99.81
d1ttna1	80	Dendritic cell-derived ubiquitin-like protein {Hum	99.81
d1z2ma1	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.79
d1wy8a1	76	Ubiquitin-like PHD and RING finger domain-containi	99.79
d2faza1	76	Ubiquitin-like PHD and RING finger domain-containi	99.79
d1oqya4	77	Ubiquitin-like domain of Rad23 homolog A (Hhr23a)	99.79
d1wx9a1	73	Large proline-rich protein BAT3 {Human (Homo sapie	99.79
d1uh6a_	100	Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculu	99.78
d1uela_	95	Ubiquitin-like domain of Rad23 homolog B (Hhr23B)	99.77
d1wgha_	116	Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculu	99.73
d1v5oa_	102	1700011n24rik protein {Mouse (Mus musculus) [TaxId	99.73
d1zkha1	86	Splicing factor 3 subunit 1, C-terminal domain {Hu	99.72
d1wiaa_	95	Ubiquitin-like protein bab25500 (2010008E23Rik) {M	99.7
d1wjua_	100	NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens	99.7
d1v2ya_	105	Ubiquitin-like protein 3300001g02rik {Mouse (Mus m	99.7
d1we6a_	111	Splicing factor 3 subunit 1, C-terminal domain {Th	99.7
d1se9a_	101	Hypothetical protein At3g01050 {Thale cress (Arabi	99.68
d2c9wb1	103	Elongin B {Human (Homo sapiens) [TaxId: 9606]}	99.62
d1wgda_	93	Homocysteine-responsive endoplasmic reticulum-resi	99.61
d1v6ea_	95	Ubiquitin-like domain of tubulin folding cofactor	99.6
d1euvb_	79	SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomy	99.54
d1wjna_	97	Tubulin-folding protein TbcE {Mouse (Mus musculus)	99.48
d1t0ya_	90	Ubiquitin-like domain of tubulin folding cofactor	99.45
d1x1ma1	94	Ubiquitin-like protein 7 {Mouse (Mus musculus) [Ta	99.39
d2uyzb1	77	SUMO-1 (smt3 homologue) {Human (Homo sapiens) [Tax	99.3
d1wm3a_	72	SUMO-2 {Human (Homo sapiens) [TaxId: 9606]}	98.61
d1wf9a1	94	NPL4-like protein 1 {Thale cress (Arabidopsis thal	98.58
d2al3a1	76	Tether containing UBX domain for GLUT4 (Tug) {Mous	97.45
d1h8ca_	82	Fas-associated factor 1, Faf1 {Human (Homo sapiens	96.95
d1wj4a_	124	Hypothetical protein KIAA0794 {Human (Homo sapiens	96.61
d1i42a_	89	p47 {Rat (Rattus norvegicus) [TaxId: 10116]}	95.85
d2cr5a1	96	UBX domain-containing protein 6 (Reproduction 8) {	95.76
d1vjka_	88	Molybdopterin synthase subunit MoaD {Pyrococcus fu	95.6
d1ip9a_	85	Bud emergence mediator Bemp1 {Baker's yeast (Sacch	95.01
d1xo3a_	101	C9orf74 homolog {Mouse (Mus musculus) [TaxId: 1009	92.31
d2bkfa1	85	Next to BRCA1 gene 1 protein, NBR1 (KIAA0049) {Hum	92.22
d1oeya_	82	Neutrophil cytosol factor 2 (p67phox component of	87.05
d1wmha_	83	Protein kinase C, iota type {Human (Homo sapiens)	83.63
d1wgra_	100	Growth factor receptor-bound protein 7, GRB-7 {Hum	81.65
d1zud21	65	Thiamin biosynthesis sulfur carrier protein ThiS {	80.33
d1y8xb1	92	UBA3 {Human (Homo sapiens) [TaxId: 9606]}	80.1

>d2bwfa1 d.15.1.1 (A:2-74) DSK2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: DSK2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.86  E-value=8.7e-22  Score=134.92  Aligned_cols=72  Identities=21%  Similarity=0.374  Sum_probs=69.2

Q ss_pred             eEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           70 SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        70 ~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      +|+|+|++++..++++|++++||.+||++|+..+|+||++|+|+|+|++|+|+.+|++|||++|++|||+..
T Consensus         1 si~I~Vk~~~~~~~i~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~I~~g~~i~lV~~   72 (73)
T d2bwfa1           1 SLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKS   72 (73)
T ss_dssp             EEEEEEEETTEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEEeCCeEEEEEECCCChHHHHHHHHHHHHCcChHHeEEEECCeEccCCCcHHHCCCCCCCEEEEEee
Confidence            589999998888999999999999999999999999999999999999999999999999999999999863

>d1yqba1 d.15.1.1 (A:15-98) Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquilin-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.86  E-value=8.7e-22  Score=138.35  Aligned_cols=79  Identities=29%  Similarity=0.291  Sum_probs=73.5

Q ss_pred             CCCceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecCCch
Q 031040           66 EGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDPAI  144 (167)
Q Consensus        66 ~~~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~p~~  144 (167)
                      +++.+|+|+|++.+..+.++|++++||++||++|++.+|+||++|+|+|+|++|+|+.+|++|||++|++|+|+..+.+
T Consensus         3 ~~~~~i~I~Vkt~~~~~~~~V~~~~tV~~lK~~i~~~~gi~~~~qrL~~~Gk~L~D~~tL~~y~i~~gsti~lv~r~~~   81 (84)
T d1yqba1           3 GSPHLIKVTVKTPKDKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIKRQH   81 (84)
T ss_dssp             CCTTEEEEEEECSSCEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBHHHHTCCTTCEEEEEECCCC
T ss_pred             CCCCEEEEEEEcCCCcEEEEECCCCcHHHHHHHHHHHHCcCchhEEEEEeeeeccccCcHHHcCCCCCCEEEEEECCCC
Confidence            4567899999997778999999999999999999999999999999999999999999999999999999999876544

>d1j8ca_ d.15.1.1 (A:) Ubiquitin-like N-terminal domain of PLIC-2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like N-terminal domain of PLIC-2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=5e-21  Score=138.95  Aligned_cols=74  Identities=22%  Similarity=0.245  Sum_probs=70.0

Q ss_pred             CCceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           67 GEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        67 ~~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      .+..|+|+|++.+..|+|+|++++||.+||++|++.+|+|+++|+|+|+|++|+|+.+|++|||++|++|||+.
T Consensus        29 ~~~~i~V~Vk~~~~~~~i~V~~~~tV~~LK~~I~~~~gi~~~~qrLi~~Gk~L~D~~tL~~~~I~~g~~I~lvl  102 (103)
T d1j8ca_          29 EPKIIKVTVKTPKEKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVI  102 (103)
T ss_dssp             CCCCEEEEEECSSCEEEEEECTTCCHHHHHHHHHHHHCSCSSSEEEEETTEEESTTSCGGGTTCSSSEEEEEEE
T ss_pred             CCCeEEEEEECCCccEEEEECCCChHHHHHHHHHHHHCcCHHHeeeeeeeecccCCCcHHHcCCCCCCEEEEEE
Confidence            45689999999777899999999999999999999999999999999999999999999999999999999974

>d1wx8a1 d.15.1.1 (A:8-90) 4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 4931431F19Rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.83  E-value=5.5e-21  Score=133.95  Aligned_cols=75  Identities=21%  Similarity=0.273  Sum_probs=70.8

Q ss_pred             CCCceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           66 EGEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        66 ~~~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ++++.|+|+|++.+..++++|++++||.+||++|++.+|+||++|+|+|+||.|+|+.+|++|||++|++|+|+.
T Consensus         6 ~~~~~i~v~Vk~~~~~~~i~v~~~~tV~~lK~~I~~~~~v~~~~qrL~f~Gk~L~d~~tL~~~gI~~gs~I~lv~   80 (83)
T d1wx8a1           6 PSSRIIRVSVKTPQDCHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQRGILDGSTVHVVV   80 (83)
T ss_dssp             CCSCEEEEEEECSSSEEEEEEETTCCHHHHHHHHHHHTCSCTTTBCCEETTEECCTTSCHHHHTCCTTEEEECCB
T ss_pred             CCCCeEEEEEEcCCCcEEEEECCCChHHHHHHHHHHHhCCChhHEEEEEEhhccccCCcHHHcCCCCCCEEEEEE
Confidence            456789999999777789999999999999999999999999999999999999999999999999999999975

>d1wh3a_ d.15.1.1 (A:) 2'-5'-oligoadenylate synthetase-like protein, OASL {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 2'-5'-oligoadenylate synthetase-like protein, OASL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=2e-20  Score=131.88  Aligned_cols=74  Identities=26%  Similarity=0.317  Sum_probs=70.3

Q ss_pred             CCceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           67 GEGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        67 ~~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      +...|+|+|++ .++++.|+|++++||.+||++|++.+|+|+++|+|+|+||+|+|+.+|++|+|+++++|+|+.
T Consensus         4 ~s~~mqI~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~stl~l~~   78 (87)
T d1wh3a_           4 GSSGIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYGIQDSDTLILSK   78 (87)
T ss_dssp             CSSSEEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTCCCTTTEEEEETTEECCSSSBHHHHTCCTTEEEEEEE
T ss_pred             CCCcEEEEEECCCCCEEEEEECCcCcHHHHHHHHHHHHCcChHHeEEEeeceEcCCCCcHHHcCCCCCCEEEEEe
Confidence            46789999998 568999999999999999999999999999999999999999999999999999999999985

>d2zeqa1 d.15.1.1 (A:1-78) Ubiquitin-like domain of parkin {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of parkin
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.83  E-value=1.3e-20  Score=131.03  Aligned_cols=72  Identities=17%  Similarity=0.309  Sum_probs=68.1

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecCC
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDP  142 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~p  142 (167)
                      |.|+|++ .+++++|+|++++||.+||++|++.+|+||++|+|+|+|++|+|+.+|++|||+++++|||+..|
T Consensus         3 M~I~Vk~~~g~t~~l~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lv~R~   75 (78)
T d2zeqa1           3 MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKRQGVPADQLRVIFAGKELPNHLTVQNCDLEQQSIVHIVQRP   75 (78)
T ss_dssp             EEEEEESSSSSCEEEEECTTCBHHHHHHHHHHHHTCCGGGEEEEETTEEECTTCBGGGSSCCTTCEEEEEESS
T ss_pred             eEEEEEcCCCCEEEEEEcccccHHHHHHHHHHHHCcChhHeEEEEeeeEcCCCCCHHHcCCCCCCEEEEEecc
Confidence            6889996 55899999999999999999999999999999999999999999999999999999999998754

>d1v5ta_ d.15.1.1 (A:) 8430435i17rik protein {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 8430435i17rik protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.82  E-value=7.5e-21  Score=134.88  Aligned_cols=79  Identities=23%  Similarity=0.374  Sum_probs=73.5

Q ss_pred             CCCceEEEEEeeCCEEEEE-EEcCCCCHHHHHHHHHhhhCCCCCceEEE---EcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           66 EGEGSITIRVSTVSKWHDI-SIKATSTFGELKMILSMVSGLEPREQRLL---FKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        66 ~~~p~I~I~Vk~g~~~~~V-eV~~t~TV~eLK~~Ia~~TGVppe~QKLi---fkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      ++.+.|+|+|+|+++.|++ +|++++||.+||++|++.+|+||++|||+   |+|+.|+|+.+|++|||++|++|+|+..
T Consensus         3 s~s~~~~i~Vk~~~~~~~i~~v~~~~tV~~LK~~i~~~t~vp~~~QkLi~~~~~Gk~L~D~~tL~~~~i~~g~~i~lv~s   82 (90)
T d1v5ta_           3 SGSSGLPIIVKWGGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLGALKLKPNTKIMMMGT   82 (90)
T ss_dssp             CCCCSCCEEEEETTEEEEECSCCSSSBHHHHHHHHHHHTCCCTTTCEEESCEETTEECCTTSBHHHHTCCTTEEEEEECC
T ss_pred             CCCCcEEEEEEECCeEEEEEEeCCCCcHHHHHHHHHHHHcCCHHHhhhhhhccCCcCCCCcCcHHHcCCCCCCEEEEEee
Confidence            3567899999999999988 69999999999999999999999999999   6999999999999999999999999987


Q ss_pred             Cch
Q 031040          142 PAI  144 (167)
Q Consensus       142 p~~  144 (167)
                      |.+
T Consensus        83 ~~~   85 (90)
T d1v5ta_          83 RES   85 (90)
T ss_dssp             CSS
T ss_pred             CCC
Confidence            654

>d1z2ma2 d.15.1.1 (A:79-154) Interferon-induced 15 kDa protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Interferon-induced 15 kDa protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=2.3e-20  Score=128.07  Aligned_cols=72  Identities=24%  Similarity=0.269  Sum_probs=68.2

Q ss_pred             ceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           69 GSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        69 p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ..|+|+|++ .++++.++|++++||.+||++|++.+|+||++|+|+|+|++|+|+.+|++|||++|++|+|+.
T Consensus         2 ~~~qi~Vk~~~G~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~qrL~~~gk~L~d~~tL~~y~I~~~sti~l~l   74 (76)
T d1z2ma2           2 EPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNL   74 (76)
T ss_dssp             CCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEE
T ss_pred             CCEEEEEEcCCCCEEEEEECCCCcHHHHHHHHHHHhcCChhHeEEEECCeECCCCCcHHHcCCCCCCEEEEEE
Confidence            468999997 558999999999999999999999999999999999999999999999999999999999974

>d1bt0a_ d.15.1.1 (A:) Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Rub1
species: Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.82  E-value=1.5e-20  Score=128.26  Aligned_cols=70  Identities=26%  Similarity=0.387  Sum_probs=66.2

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      |.|+|++ .++++.++|++++||.+||++|++.+|+||++|+|+|+||+|+|+.+|++|||+++++|+|+-
T Consensus         1 M~I~Vk~~~G~~~~l~V~~~~tV~~lK~~i~~~~gi~~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lvl   71 (73)
T d1bt0a_           1 MLIKVKTLTGKEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADDKTAKDYNIEGGSVLHLVL   71 (73)
T ss_dssp             CEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEE
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCCChHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEe
Confidence            5788997 558999999999999999999999999999999999999999999999999999999999974

>d1wgga_ d.15.1.1 (A:) Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin carboxyl-terminal hydrolase 14
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.82  E-value=1.2e-20  Score=135.79  Aligned_cols=78  Identities=15%  Similarity=0.263  Sum_probs=70.5

Q ss_pred             CCCceEEEEEeeCCEE-EEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecCCch
Q 031040           66 EGEGSITIRVSTVSKW-HDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDPAI  144 (167)
Q Consensus        66 ~~~p~I~I~Vk~g~~~-~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~p~~  144 (167)
                      ++...|+|+|||.+.. +.|+|++++||.+||++|++.+|+||++|+|+|+|++|+|+ +|++|||++|++|+||..+..
T Consensus         3 s~s~~~~I~VK~~~~~~~~v~v~~~~tV~~lK~~i~~~~gvp~~~QkLi~~Gk~L~d~-tL~~~gi~~g~~i~lv~t~~~   81 (96)
T d1wgga_           3 SGSSGYSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD-DWGNIKMKNGMTVLMMGSADA   81 (96)
T ss_dssp             SCCCEEEEEEEETTEEEEEEEEESSSCHHHHHHHHHHHTCCCTTTSCCEETTEECCSS-CCCSCCCCSSCEEECCCCCCC
T ss_pred             CCCCceEEEEEeCCCCEEEEEECCCCcHHHHHHHhhhhcCccceeeEEeecCcccCCC-cHHHCCCCCCCEEEEEeeCCc
Confidence            3567899999996655 57999999999999999999999999999999999999985 799999999999999976443

>d1wxva1 d.15.1.1 (A:7-87) Bag-family molecular chaperone regulator-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Bag-family molecular chaperone regulator-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=2.1e-20  Score=130.86  Aligned_cols=73  Identities=25%  Similarity=0.446  Sum_probs=67.5

Q ss_pred             EEEEEeeCCEEEEEEE-----cCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecC-CcchhhhcCCCCCCEEEEecCCc
Q 031040           71 ITIRVSTVSKWHDISI-----KATSTFGELKMILSMVSGLEPREQRLLFKGKERE-DNEFLHMVGVRDKDKVLLLEDPA  143 (167)
Q Consensus        71 I~I~Vk~g~~~~~VeV-----~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~Ld-D~~tL~~~GIkdgskL~Lv~~p~  143 (167)
                      |+|+|++++..|+++|     ++++||++||++|++.+|+||++|+|+|+|++|. |+.+|++|||++|++|+|+..+.
T Consensus         2 i~i~V~~~~~~~~i~v~~~~~~~~~Tv~~LK~~I~~~tgvp~~~QkL~~~G~~L~~d~~tL~~~gi~~g~~i~lv~~~~   80 (81)
T d1wxva1           2 LTVTVTHSNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLIGKKN   80 (81)
T ss_dssp             EEEEEECSSSEEEEEECCCSSSSSCBHHHHHHHHHHHTCCCTTTCEEEETTEEECCSSSBHHHHTCCSSEEEEEESCCS
T ss_pred             EEEEEEECCeeEEEEEecCCCCCccHHHHHHHHHHHHHCcCHHHEEeeecCeEeCcCCCChHHCCCCCCCEEEEEEecC
Confidence            7899999999999999     4688999999999999999999999999999995 66899999999999999998653

>d1ogwa_ d.15.1.1 (A:) Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=2.6e-20  Score=128.01  Aligned_cols=70  Identities=26%  Similarity=0.410  Sum_probs=66.5

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      |+|+|++ .++++.++|++++||.+||++|+..+|+||++|+|+|+|++|+|+.+|++|||+++++|+|+.
T Consensus         1 MqI~Vk~l~G~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~qrL~~~Gk~L~d~~tL~~y~i~~~s~I~L~~   71 (76)
T d1ogwa_           1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL   71 (76)
T ss_dssp             CEEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEE
T ss_pred             CEEEEEcCCCCEEEEEECCCCcHHHHHHhhhhhcCCChHHEEeEECCeEcCCCCCHHHcCCCCCCEEEEEE
Confidence            6789997 458999999999999999999999999999999999999999999999999999999999975

>d1m94a_ d.15.1.1 (A:) Ubiquitin-like modifier protein hub1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like modifier protein hub1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.81  E-value=2.7e-20  Score=127.69  Aligned_cols=70  Identities=24%  Similarity=0.295  Sum_probs=66.7

Q ss_pred             eEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEe
Q 031040           70 SITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        70 ~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      +|+|+|++ .|+++.|+|++++||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++|||++|++|+|.
T Consensus         1 mi~i~vk~~~Gk~~~v~V~~~~tV~~lK~~I~~~~~i~~~~q~Li~~Gk~L~d~~tL~~y~I~~gstl~L~   71 (73)
T d1m94a_           1 MIEVVVNDRLGKKVRVKCLAEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLEDYEVHDQTNLELY   71 (73)
T ss_dssp             CEEEEEEETTTEEEEEEECTTSBHHHHHHHHHHHHCCTTTSEEEESSSCEECTTSBHHHHTCCTTEEEEEE
T ss_pred             CeEEEEECCCCCEEEEEECCcCcHHHHHHHHHHhhcccccEEEEEEEeEEecccCcHHHcCCCCCCEEEEE
Confidence            57899998 46999999999999999999999999999999999999999999999999999999999984

>d1v86a_ d.15.1.1 (A:) hypothetical D7wsu128e protein {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: hypothetical D7wsu128e protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.81  E-value=2.5e-20  Score=133.93  Aligned_cols=74  Identities=22%  Similarity=0.391  Sum_probs=70.3

Q ss_pred             CceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecCC
Q 031040           68 EGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDP  142 (167)
Q Consensus        68 ~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~p  142 (167)
                      .+.|+|+|+|++++|+|+|++++||.+||++|++.+|+|+++|+|+|+|+ |+|+.+|++|+|+++++|+||..+
T Consensus        15 ~~~i~v~V~~~~k~~~i~v~~~~TV~~LK~~I~~~tgvp~~~q~Li~~g~-l~D~~tL~~~~I~~gs~i~lvgs~   88 (95)
T d1v86a_          15 KELVDLKIIWNKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGL-VPEDKTLREIKVTSGAKIMVVGST   88 (95)
T ss_dssp             CCCEEEEEEETTEEEEEEECTTSBHHHHHHHHHHHHCSCSTTCCCBSSSB-CCSSSBHHHHCCCTTEEEEECCSS
T ss_pred             ccEEEEEEEECCEEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEeccc-ccCCCcHHHCCCCCCCEEEEEecC
Confidence            46899999999999999999999999999999999999999999999997 889999999999999999999754

>d1ttna1 d.15.1.1 (A:21-100) Dendritic cell-derived ubiquitin-like protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Dendritic cell-derived ubiquitin-like protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=7.5e-20  Score=127.11  Aligned_cols=73  Identities=21%  Similarity=0.279  Sum_probs=68.2

Q ss_pred             ceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           69 GSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        69 p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      .+|+|+|++ .++++.++|++++||++||++|++.+|+|+++|+|+|+|++|+|+.+|++|||+++++|+|+..
T Consensus         2 ~e~qi~Vk~~~G~~~~l~V~~~~tV~~lK~~I~~~~~ip~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lvi~   75 (80)
T d1ttna1           2 YECQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELKIPKDYVVQVIVS   75 (80)
T ss_dssp             CSEEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTCCCSTTCEEEETTEECCTTSHHHHCCCSSSCEEEEECC
T ss_pred             CeEEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCcccEEEEECceEcCCCCcHHHcCCCCCCEEEEEec
Confidence            467888887 5589999999999999999999999999999999999999999999999999999999999753

>d1z2ma1 d.15.1.1 (A:3-78) Interferon-induced 15 kDa protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Interferon-induced 15 kDa protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=1.4e-19  Score=124.94  Aligned_cols=70  Identities=24%  Similarity=0.320  Sum_probs=64.7

Q ss_pred             EEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEE--cCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           72 TIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLF--KGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        72 ~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLif--kGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      .|+|+. +++.+.|+|++++||.+||++|++.+|+||++|+|+|  +||.|+|+.+|++|||++|++|+|+..
T Consensus         2 ~l~Vk~l~G~~~~v~V~~~~tV~~lK~~I~~~~gip~~~QrLi~~~~Gk~L~D~~tL~~y~i~~g~~i~lv~~   74 (76)
T d1z2ma1           2 DLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVD   74 (76)
T ss_dssp             EEEEEESSSCEEEEECCSSCCHHHHHHHHHHHHCCCGGGEEEEEETTCCBCCSSSCSGGGTCCTTCEEEEEEC
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhccCCccEEEEEcCCCeeccCCCcHHHcCCCCCCEEEEEEE
Confidence            466775 4578999999999999999999999999999999999  799999999999999999999999865

>d1wy8a1 d.15.1.1 (A:8-83) Ubiquitin-like PHD and RING finger domain-containing protein 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like PHD and RING finger domain-containing protein 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=2.2e-19  Score=124.38  Aligned_cols=72  Identities=31%  Similarity=0.357  Sum_probs=65.6

Q ss_pred             EEEEEee--CCEEEEE-EEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecCC
Q 031040           71 ITIRVST--VSKWHDI-SIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLEDP  142 (167)
Q Consensus        71 I~I~Vk~--g~~~~~V-eV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~p  142 (167)
                      |+|+|++  |.+++.+ +|++++||.+||++|++.+|+|+++|+|+|+|++|+|+.+|++|||+++++|+|+..|
T Consensus         1 M~I~Vk~l~G~~t~~~~~v~~~~TV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~s~i~lv~rp   75 (76)
T d1wy8a1           1 MWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDYDVGLNDIIQLLVRP   75 (76)
T ss_dssp             EEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCCTTTEEEEETTEECCSSSBHHHHTCCTTCEEEEEECC
T ss_pred             CEEEEEeCCCCceEEEeccCCCChHHHHHHHHHHHHCCCchhcEEEEEeeEecCCCCHHHcCCCCCCEEEEEEcc
Confidence            4566665  5567777 6999999999999999999999999999999999999999999999999999998776

>d2faza1 d.15.1.1 (A:1-76) Ubiquitin-like PHD and RING finger domain-containing protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like PHD and RING finger domain-containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=1.9e-19  Score=124.73  Aligned_cols=70  Identities=30%  Similarity=0.405  Sum_probs=64.6

Q ss_pred             EEEEEee--CCEEEEEE-EcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           71 ITIRVST--VSKWHDIS-IKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        71 I~I~Vk~--g~~~~~Ve-V~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      |+|+|++  |.+++.++ +++++||++||++|++.+|+||++|+|+|+||+|+|+.+|++|||+++++|||+.
T Consensus         1 M~I~Vktl~Gk~t~~l~~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~y~I~~~sti~lv~   73 (76)
T d2faza1           1 MWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQLLV   73 (76)
T ss_dssp             EEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTTTTTCCTTCEEEEEE
T ss_pred             CEEEEEeCCCCcEEEEecCCCCCCHHHHHHHHHHHHCcChHHeEEEEeeEeccCCCcHHHcCCCCCCEEEEEE
Confidence            5778885  54688885 9999999999999999999999999999999999999999999999999999985

>d1oqya4 d.15.1.1 (A:1-77) Ubiquitin-like domain of Rad23 homolog A (Hhr23a) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of Rad23 homolog A (Hhr23a)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=6.7e-20  Score=126.35  Aligned_cols=71  Identities=21%  Similarity=0.307  Sum_probs=66.6

Q ss_pred             eEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhC---CCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           70 SITIRVST-VSKWHDISIKATSTFGELKMILSMVSG---LEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        70 ~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TG---Vppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      .|+|+|++ .++++.|+|++++||++||++|++..|   +||++|+|+|+||+|+|+.+|++|||+++++|+||.
T Consensus         2 ~~~i~vk~l~g~~~~l~v~~~~TV~~lK~~i~~~~g~~~i~~~~qrLi~~Gk~L~D~~tL~~y~I~~~s~i~~~v   76 (77)
T d1oqya4           2 AVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMV   76 (77)
T ss_dssp             CCCEEEEETTTEEEEECCCTTCBHHHHHHHHHHHTCSSSCCSTEEEEESSSSEECSSSBTTTTCCCTTSCEEEEE
T ss_pred             cEEEEEECCCCCEEEEEECCCCcHHHHHHHHHHhcCCCCCChHHEEeEECCcCccCCCcHHHcCCCCCCEEEEEE
Confidence            57899997 559999999999999999999999988   999999999999999999999999999999998874

>d1wx9a1 d.15.1.1 (A:8-80) Large proline-rich protein BAT3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Large proline-rich protein BAT3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=8.8e-20  Score=124.96  Aligned_cols=70  Identities=21%  Similarity=0.317  Sum_probs=65.2

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      |+|+|++ +++++.++|++++||.+||++|++.+|+|+++|+|+|+|++|+|+.+|++|+| ++++|||+..
T Consensus         1 m~I~Vk~~~g~~~~l~V~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~tL~dy~i-~~~ti~lv~r   71 (73)
T d1wx9a1           1 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLVER   71 (73)
T ss_dssp             EEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHCCCTTTCCCEETTEECCSSSBHHHHTC-TTEEEBCCCS
T ss_pred             CEEEEEcCCCCEEEEEECCCChHHHHHHHHHHHhCCChHHEEEEECCeEccCCCCHHHhCC-CCCEEEEEec
Confidence            6899997 55899999999999999999999999999999999999999999999999999 5799998754

>d1uh6a_ d.15.1.1 (A:) Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 5, ubl5
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.78  E-value=2.6e-19  Score=130.62  Aligned_cols=73  Identities=16%  Similarity=0.111  Sum_probs=68.8

Q ss_pred             CCceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEe
Q 031040           67 GEGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        67 ~~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv  139 (167)
                      +..+|+|+|++ .++++.|+|+|++||++||++|++.+|+|+++|+|+|+|++|+|+.+|++|||++|++|+|.
T Consensus        25 ~~~~i~V~V~~~~Gk~~~v~V~p~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~dygI~~GstI~L~   98 (100)
T d1uh6a_          25 AATMIEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDYEIHDGMNLELY   98 (100)
T ss_dssp             CCCEEEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCSSCBHHHHTCCTTEEEEEE
T ss_pred             CCceEEEEEECCCCCEEEEEECCcChHHHHHHHHHHHHCCCcceEEEEEEeecccCcCCHHHcCCCCCCEEEEE
Confidence            45678999998 56889999999999999999999999999999999999999999999999999999999985

>d1uela_ d.15.1.1 (A:) Ubiquitin-like domain of Rad23 homolog B (Hhr23B) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of Rad23 homolog B (Hhr23B)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=9.1e-19  Score=124.71  Aligned_cols=71  Identities=21%  Similarity=0.324  Sum_probs=65.6

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhC---CCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSG---LEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TG---Vppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      |+|+|++ .++++.|+|++++||.+||++|++.+|   +|+++|+|+|+||.|+|+.+|++|||+++++|+|+..
T Consensus         1 M~I~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~~~~i~~~~qrLi~~Gk~L~d~~tL~~y~I~~~s~i~lv~~   75 (95)
T d1uela_           1 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKNFVVVMVT   75 (95)
T ss_dssp             CEEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECCTTSBGGGGTCCSSSEEEEEES
T ss_pred             CEEEEEeCCCCEEEEEECCCccHHHHHHHHHhhhcccCCCccceEEEECCeEccCCCcHHHcCCCCCCEEEEEEC
Confidence            5788887 558899999999999999999999886   8999999999999999999999999999999998753

>d1wgha_ d.15.1.1 (A:) Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 3, Ubl3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.73  E-value=6.5e-18  Score=126.11  Aligned_cols=75  Identities=13%  Similarity=0.160  Sum_probs=67.4

Q ss_pred             CceEEEEEee-CCEEEEEEEcCCCCHHHHHHHH--------HhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCE--E
Q 031040           68 EGSITIRVST-VSKWHDISIKATSTFGELKMIL--------SMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDK--V  136 (167)
Q Consensus        68 ~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~I--------a~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgsk--L  136 (167)
                      ..+|.|+|++ .++++.+.|++++||.+||++|        ++..++||++|||||.||.|+|+.+|++|+|++|++  |
T Consensus        14 ~~~i~i~v~~l~Gk~~~~~v~p~~TV~~lK~~I~~~~p~~~~e~~~~~~~~qRLiy~Gk~L~D~~tL~~~~i~~g~~~~l   93 (116)
T d1wgha_          14 ADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTTVM   93 (116)
T ss_dssp             SSSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTCCSSCEEEE
T ss_pred             CCeEEEEEEEcCCCEEEEEECCcchHHHHHHHHHhhcccccccccCCChHHeEEEECCEEecCCCCHHHcCCCCCCEEEE
Confidence            4678999996 4588999999999999999999        578999999999999999999999999999999987  6


Q ss_pred             EEecCC
Q 031040          137 LLLEDP  142 (167)
Q Consensus       137 ~Lv~~p  142 (167)
                      ||+..+
T Consensus        94 hlv~r~   99 (116)
T d1wgha_          94 HLVARE   99 (116)
T ss_dssp             EEEECS
T ss_pred             EEEeCC
Confidence            666553

>d1v5oa_ d.15.1.1 (A:) 1700011n24rik protein {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 1700011n24rik protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.73  E-value=5.3e-18  Score=123.56  Aligned_cols=73  Identities=18%  Similarity=0.339  Sum_probs=64.0

Q ss_pred             ceEEEEE----ee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecC-CcchhhhcCCCCCCEEEEecC
Q 031040           69 GSITIRV----ST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKERE-DNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        69 p~I~I~V----k~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~Ld-D~~tL~~~GIkdgskL~Lv~~  141 (167)
                      .-|+|+|    +. .+.++.|+|++++||.+||++|+.++|+|+++|+|+|+|++|. |..+|++|||++|++|+|+..
T Consensus         6 ~~m~itV~~~~~~~~~~t~~l~V~~~~tV~~LK~~Ie~~~gip~~~Q~Li~~Gk~L~dd~~tL~~~gI~~g~~i~l~~r   84 (102)
T d1v5oa_           6 SGMLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVLLQK   84 (102)
T ss_dssp             CCEEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTCCCGGGBCEEETTEEECCSSSBHHHHTCCTTEEEEECBC
T ss_pred             CCEEEEEEecccCCCCCEEEEEECCcccHHHHHHHHHHHhCCCcceEEEEeCCeEeecccCCHHHcCCCCCCEEEEEEC
Confidence            4456666    33 3479999999999999999999999999999999999999995 667999999999999999853

>d1zkha1 d.15.1.1 (A:1-86) Splicing factor 3 subunit 1, C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Splicing factor 3 subunit 1, C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=1e-17  Score=118.42  Aligned_cols=63  Identities=14%  Similarity=0.189  Sum_probs=60.6

Q ss_pred             CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           78 VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        78 g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      .++++.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||++|++|+|+.
T Consensus        20 ~G~~~~l~v~~~~tV~~lK~~I~~~~~ip~~~q~Li~~Gk~L~D~~tL~dY~I~~gsti~l~~   82 (86)
T d1zkha1          20 NGQVLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMANGAVIHLAL   82 (86)
T ss_dssp             SSCEEEEEECTTSBHHHHHHHHHHHTCCCTTTEEEEETTEEECTTSBHHHHTCCTTEEEEEEE
T ss_pred             CCeEEEEEECCCChHHHHHHHHHhhhcCChHHEEEEeCCcCcCCCCCHHHcCCCCCCEEEEEE
Confidence            457899999999999999999999999999999999999999999999999999999999975

>d1wiaa_ d.15.1.1 (A:) Ubiquitin-like protein bab25500 (2010008E23Rik) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein bab25500 (2010008E23Rik)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.70  E-value=2.7e-17  Score=118.56  Aligned_cols=73  Identities=14%  Similarity=0.186  Sum_probs=65.5

Q ss_pred             CCCceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecC-CcchhhhcCCCCCCEEEEecC
Q 031040           66 EGEGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKERE-DNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        66 ~~~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~Ld-D~~tL~~~GIkdgskL~Lv~~  141 (167)
                      ++...|+|+||+ .++.+.|+|++++||.+||++|+   .+++++|||+|+|++|. |..+|++|+|++|++|||+..
T Consensus         3 ~~~s~m~i~vK~l~~~~~~v~v~~~~TV~~lK~~i~---~~~~~~qrLi~~Gk~L~dd~~tL~~y~i~~g~~v~l~~~   77 (95)
T d1wiaa_           3 SGSSGINVRLKFLNDTEELAVARPEDTVGTLKSKYF---PGQESQMKLIYQGRLLQDPARTLSSLNITNNCVIHCHRS   77 (95)
T ss_dssp             CCCCSEEEEEEETTTEEEEEEECSSSBHHHHHHHHS---SSTTTTCEEEETTEECCCSSCBTTTTTCCTTEEEEEECC
T ss_pred             CCCCcEEEEEEcCCCCEEEEEECCcCcHHHHHHHHh---cCCcceeEEEECCEEcccCCCCHHHcCCCCCCEEEEEEc
Confidence            356789999998 55899999999999999999986   56899999999999995 668999999999999999864

>d1wjua_ d.15.1.1 (A:) NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: NEDD8 ultimate buster-1, NUB1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.70  E-value=1.1e-17  Score=121.38  Aligned_cols=75  Identities=19%  Similarity=0.209  Sum_probs=68.7

Q ss_pred             CCceEEEEEee---CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           67 GEGSITIRVST---VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        67 ~~p~I~I~Vk~---g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      +.++|.|++..   .++++.|+|.+++||.+||++|++.+|+||++|+|+|+|+.|+|+.+|++|||+++++|+++..
T Consensus        14 g~ati~V~~~~~~~~g~~~~lev~~~~TV~~LK~~I~~~~gi~~~~qkLi~~Gk~L~d~~tL~~~gI~~~s~i~vi~~   91 (100)
T d1wjua_          14 GIATIEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEEQGVAHNVKAMVLEL   91 (100)
T ss_dssp             CEEEEEEECCTTTCCSSSEEEEEESSSBHHHHHHHHHHHTTCCSTTCEEEETTEECCTTSBHHHHTCCSSEEEEEECC
T ss_pred             ceEEEEEEEeeccCCCeEEEEEECCCcHHHHHHHHHHHHHCCCCeeEEEEEcccCcCCCcCHHHcCCCCCCEEEEEEc
Confidence            45688888842   4478999999999999999999999999999999999999999999999999999999999863

>d1v2ya_ d.15.1.1 (A:) Ubiquitin-like protein 3300001g02rik {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 3300001g02rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.70  E-value=3.8e-18  Score=124.66  Aligned_cols=76  Identities=20%  Similarity=0.336  Sum_probs=69.0

Q ss_pred             CCCceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceE---------------EEEcCeecCCc-chhhhc
Q 031040           66 EGEGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQR---------------LLFKGKEREDN-EFLHMV  128 (167)
Q Consensus        66 ~~~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QK---------------LifkGK~LdD~-~tL~~~  128 (167)
                      ++...|+|+|++ .+..++|+|++++||.+||++|++.+++|+++|+               |+|+|+.|.|+ .+|.+|
T Consensus         3 sgss~M~v~Vk~~~G~~~~v~V~~~~TV~~LK~~I~~~~~ip~~~Qr~~~~~~~~~~~~~~~Li~~G~~L~d~~~tL~~~   82 (105)
T d1v2ya_           3 SGSSGMTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKLRDY   82 (105)
T ss_dssp             CCCCSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSBHHHH
T ss_pred             CCCCcEEEEEEeCCCCEEEEEECCCChHHHHHHHHHHHHCcCHHHhcccccccccccccceEEEECCEECcccCCCHHHc
Confidence            346789999997 5589999999999999999999999999999998               99999999765 589999


Q ss_pred             CCCCCCEEEEecC
Q 031040          129 GVRDKDKVLLLED  141 (167)
Q Consensus       129 GIkdgskL~Lv~~  141 (167)
                      ||++|++|+|+..
T Consensus        83 gI~~g~~l~lv~r   95 (105)
T d1v2ya_          83 GIRNRDEVSFIKK   95 (105)
T ss_dssp             TCCSSEEEEEEEC
T ss_pred             CCCCCCEEEEEEe
Confidence            9999999999853

>d1we6a_ d.15.1.1 (A:) Splicing factor 3 subunit 1, C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Splicing factor 3 subunit 1, C-terminal domain
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.70  E-value=1.2e-17  Score=123.66  Aligned_cols=73  Identities=18%  Similarity=0.187  Sum_probs=66.6

Q ss_pred             CceEEEEEee--CCEEEEEEEcC-CCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           68 EGSITIRVST--VSKWHDISIKA-TSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        68 ~p~I~I~Vk~--g~~~~~VeV~~-t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      +.+|+|+|++  .+++++++|.+ ++||.+||++|++.+|+|+++|+|+|+||.|+|+.+|++|+|++|++|+|+.
T Consensus        27 ~~ti~V~v~~~~~G~~i~l~v~~~sdtV~~lK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~ynI~~gsti~L~l  102 (111)
T d1we6a_          27 PATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAHYNVGAGEILTLSL  102 (111)
T ss_dssp             CEEEEECCTTCSSSCCEEEEESCSSSBHHHHHHHHHHHTTCCTTTSEEECSSSBCCTTSBTTTTTCSSSCEEEEEC
T ss_pred             CEEEEEEcccCCCCeEEEEEecCCccHHHHHHHHHHHHHCCCccceEEEEeeEEccccCCHHHcCCCCCCEEEEEe
Confidence            4567777764  46899999987 9999999999999999999999999999999999999999999999999985

>d1se9a_ d.15.1.1 (A:) Hypothetical protein At3g01050 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Hypothetical protein At3g01050
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.68  E-value=6.6e-17  Score=118.47  Aligned_cols=76  Identities=13%  Similarity=0.109  Sum_probs=65.9

Q ss_pred             CceEEEEEee--CCEEEEEEEcCCCCHHHHHHHHHhh-----hCCC--CCceEEEEcCeecCCcchhhhcCCCCCC----
Q 031040           68 EGSITIRVST--VSKWHDISIKATSTFGELKMILSMV-----SGLE--PREQRLLFKGKEREDNEFLHMVGVRDKD----  134 (167)
Q Consensus        68 ~p~I~I~Vk~--g~~~~~VeV~~t~TV~eLK~~Ia~~-----TGVp--pe~QKLifkGK~LdD~~tL~~~GIkdgs----  134 (167)
                      ...|.|+|++  |...+.+.|++++||.+||++|++.     .|+|  |++|||||+||+|+|+.+|.+|+|.+|+    
T Consensus         5 ~~~i~I~~r~~~G~~i~~~~v~~s~TV~~lK~~I~~~~~~~k~~iP~~~~~qRLIf~Gk~L~D~~tL~dy~i~~g~~~~~   84 (101)
T d1se9a_           5 HNQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVSNLAGA   84 (101)
T ss_dssp             CCCEEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCTTSCTTC
T ss_pred             cceEEEEEEeCCCCeecceecCccCHHHHHHHHHHHhccccccCCCCCcccEEEEECCeEecCCCCHHHcCCCCCCcCCC
Confidence            4566666665  5456689999999999999999875     7898  8899999999999999999999999998    


Q ss_pred             --EEEEecCCc
Q 031040          135 --KVLLLEDPA  143 (167)
Q Consensus       135 --kL~Lv~~p~  143 (167)
                        +|||+..|.
T Consensus        85 ~~tmHlVvrpp   95 (101)
T d1se9a_          85 VTTMHVIIQAP   95 (101)
T ss_dssp             CEEEEEEECCC
T ss_pred             ceEEEEEeCCC
Confidence              999987553

>d2c9wb1 d.15.1.1 (B:2-104) Elongin B {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Elongin B
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.62  E-value=5.8e-16  Score=113.49  Aligned_cols=65  Identities=23%  Similarity=0.194  Sum_probs=61.1

Q ss_pred             eEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCC
Q 031040           70 SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKD  134 (167)
Q Consensus        70 ~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgs  134 (167)
                      .|+|++++++.++.++|++++||.+||++|++.+|+|+++|+|+|+|++|+|+.+|++|||.+.+
T Consensus         1 qifv~i~~~k~Ti~l~v~~~~TV~~lK~~I~~~~gip~~~QrLi~~Gk~L~D~~TL~dYgI~~~~   65 (103)
T d2c9wb1           1 DVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECGFTSQT   65 (103)
T ss_dssp             CEEEEEEEBTEEEEEEECTTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBHHHHTCCTTT
T ss_pred             CEEEEEeCCCEEEEEEeCCCCcHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCccc
Confidence            37899999888889999999999999999999999999999999999999999999999996654

>d1wgda_ d.15.1.1 (A:) Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein, HERPUD1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein, HERPUD1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.61  E-value=9.8e-16  Score=109.47  Aligned_cols=76  Identities=25%  Similarity=0.308  Sum_probs=64.1

Q ss_pred             CCceEEEEEeeC--C-EEEEEEEcCCCCHHHHHHHHHhhh--CCCCCceEEEEcCeecCCcchhhhcCCCCC--CEEEEe
Q 031040           67 GEGSITIRVSTV--S-KWHDISIKATSTFGELKMILSMVS--GLEPREQRLLFKGKEREDNEFLHMVGVRDK--DKVLLL  139 (167)
Q Consensus        67 ~~p~I~I~Vk~g--~-~~~~VeV~~t~TV~eLK~~Ia~~T--GVppe~QKLifkGK~LdD~~tL~~~GIkdg--skL~Lv  139 (167)
                      +...|+|+|++.  . ..+.+++++++||.+||++|++..  .+|+++|||||+||+|+|+.+|++|.++.+  .+|||+
T Consensus         4 gs~~i~l~Ik~~~~~~~~~~~~v~~~~TV~~LK~~I~~~~~~~~~~~~qrLIy~Gk~L~D~~~L~d~~~~~~~~~viHLV   83 (93)
T d1wgda_           4 GSSGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDLLPKQEKRHVLHLV   83 (93)
T ss_dssp             CSCCCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECCSSSCHHHHSCSSSCSEEEEEE
T ss_pred             CCCcEEEEEECCCCCceeEEEEcCCCCcHHHHHHHHHHHcCCCCChHHEEEEECCeEccCCCCHHHhCcccCCCCEEEEE
Confidence            345688888862  2 457899999999999999999985  499999999999999999999999976544  499998


Q ss_pred             cCC
Q 031040          140 EDP  142 (167)
Q Consensus       140 ~~p  142 (167)
                      ..+
T Consensus        84 ~~~   86 (93)
T d1wgda_          84 CNV   86 (93)
T ss_dssp             CCC
T ss_pred             ecC
Confidence            654

>d1v6ea_ d.15.1.1 (A:) Ubiquitin-like domain of tubulin folding cofactor B {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of tubulin folding cofactor B
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.60  E-value=1.2e-15  Score=109.53  Aligned_cols=75  Identities=17%  Similarity=0.239  Sum_probs=66.8

Q ss_pred             CCceEEEEEeeCC--EEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCe-------ecCCcchhhhcCCCCCCEEE
Q 031040           67 GEGSITIRVSTVS--KWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGK-------EREDNEFLHMVGVRDKDKVL  137 (167)
Q Consensus        67 ~~p~I~I~Vk~g~--~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK-------~LdD~~tL~~~GIkdgskL~  137 (167)
                      +...|.|+|++..  ..++..++++.||.+||++|+..+|+||++|+|+|.|+       .++|+.+|.+|+|++|++||
T Consensus         4 gss~v~v~I~s~~~~~~~E~r~~~~~TV~~LK~kle~~tGip~~~qrL~~~~~~~~~~~~l~~d~~~L~~y~i~dg~~ih   83 (95)
T d1v6ea_           4 GSSGVMVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQEDALLGSYPVDDGCRIH   83 (95)
T ss_dssp             CCCCEEEEEEETTSSSCEEEEECTTSBHHHHHHHHHHHTCSCTTTCBCEEECSSSCEEEECCCSSSBTTSSSCCTTCEEE
T ss_pred             CCCcEEEEEEECCCCcEEEEEeCCCCCHHHHHHHHHHHhCcCchhEEEEEeCCCCceeecccCCcCCHHHCCCCCCCEEE
Confidence            4567888888743  45788899999999999999999999999999999998       47899999999999999999


Q ss_pred             EecC
Q 031040          138 LLED  141 (167)
Q Consensus       138 Lv~~  141 (167)
                      |+..
T Consensus        84 lvd~   87 (95)
T d1v6ea_          84 VIDH   87 (95)
T ss_dssp             EBCC
T ss_pred             EEeC
Confidence            9864

>d1euvb_ d.15.1.1 (B:) SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomyces cerevisiae), smt3 [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: SUMO-1 (smt3 homologue)
species: Baker's yeast (Saccharomyces cerevisiae), smt3 [TaxId: 4932]

Probab=99.54  E-value=1e-14  Score=100.46  Aligned_cols=73  Identities=22%  Similarity=0.228  Sum_probs=68.5

Q ss_pred             CceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           68 EGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        68 ~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ...|+|+|++++..+.+.|.+++++..|++.+++..|+++++|+|+|+|+.|++++|+++|+|++||+|+++.
T Consensus         2 ~~~I~ikv~~~~~~~~f~v~~~~~~~~l~~~~~~~~~i~~~~~~l~f~G~~l~~~~T~~~~~i~dgd~I~v~~   74 (79)
T d1euvb_           2 ETHINLKVSDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHR   74 (79)
T ss_dssp             CSEEEEEEESSSCEEEEEEETTSCTHHHHHHHHHHTTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEE
T ss_pred             CcEEEEEECCCCeEEEEEECCCCcHHHHHHHHHHHhCCChHhEEEEECCEEeCCCCCHHHCCCCCCCEEEEEE
Confidence            3569999998777778999999999999999999999999999999999999999999999999999999875

>d1wjna_ d.15.1.1 (A:) Tubulin-folding protein TbcE {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Tubulin-folding protein TbcE
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.48  E-value=4.8e-14  Score=100.96  Aligned_cols=72  Identities=18%  Similarity=0.218  Sum_probs=61.7

Q ss_pred             CceEEEEEee----CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCee-------cC-CcchhhhcCCCCCCE
Q 031040           68 EGSITIRVST----VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKE-------RE-DNEFLHMVGVRDKDK  135 (167)
Q Consensus        68 ~p~I~I~Vk~----g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~-------Ld-D~~tL~~~GIkdgsk  135 (167)
                      ...|+|+|+.    .++.+++.|++++||.+||.+|+..+|+|+++|+|+|.|+.       |+ |+.+|..|||++|++
T Consensus         7 ~~~iti~i~~~~~~~~~~~~~kv~~~~TV~~LK~~i~~~~gip~~~qrL~y~~~~~~~~~~~l~~d~~tL~~YgI~dg~~   86 (97)
T d1wjna_           7 GQLLTLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSKMPGREIELENDLQPLQFYSVENGDC   86 (97)
T ss_dssp             SCEEEEEEEESSCSSSCCEEEEEETTSBHHHHHHHHHTTTTCCTTTCEEEEECTTSCSCEEECCCSSSBSGGGTCCTTCE
T ss_pred             CCeEEEEEEeCCCCCCceEEEEcCCCCCHHHHHHHHHHHHCcChHHeEEEecCCCCCcccceecCCCcCHhhccCCCCCE
Confidence            4456666663    23678899999999999999999999999999999999973       44 678999999999999


Q ss_pred             EEEe
Q 031040          136 VLLL  139 (167)
Q Consensus       136 L~Lv  139 (167)
                      |+|.
T Consensus        87 I~V~   90 (97)
T d1wjna_          87 LLVR   90 (97)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            9975

>d1t0ya_ d.15.1.1 (A:) Ubiquitin-like domain of tubulin folding cofactor B {Nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of tubulin folding cofactor B
species: Nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=99.45  E-value=1.1e-13  Score=98.03  Aligned_cols=72  Identities=18%  Similarity=0.220  Sum_probs=61.7

Q ss_pred             eEEEEEeeCCEE--EEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCe-------ecCCcchhhhcCCCCCCEEEEec
Q 031040           70 SITIRVSTVSKW--HDISIKATSTFGELKMILSMVSGLEPREQRLLFKGK-------EREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        70 ~I~I~Vk~g~~~--~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK-------~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      .+.|.|.+....  .+..++++.||.+||++|+..+|+||+.|+|+|.|+       ..+|+.+|.+|||+||++|||+.
T Consensus         4 ~~~l~it~~~t~~~~E~r~~~~~TV~~LK~kle~~~Gip~~~q~L~~~~~~~~~~~~l~dd~~~L~~ygi~dG~~Ihvvd   83 (90)
T d1t0ya_           4 VYDLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRIHAVD   83 (90)
T ss_dssp             EEEEEEEESSCCSCEEEEEETTSBHHHHHHHHHHHHCCCTTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSEEEEEEE
T ss_pred             EEEEEEEECCCccEEEEecCCCCCHHHHHHHHHHHHCCChhheEEEEeCCCCCcccccccCCCCHHHCCCCCCCEEEEEe
Confidence            456777764433  467789999999999999999999999999999987       35688999999999999999986


Q ss_pred             C
Q 031040          141 D  141 (167)
Q Consensus       141 ~  141 (167)
                      .
T Consensus        84 ~   84 (90)
T d1t0ya_          84 V   84 (90)
T ss_dssp             C
T ss_pred             C
Confidence            4

>d1x1ma1 d.15.1.1 (A:8-101) Ubiquitin-like protein 7 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 7
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.39  E-value=1.1e-13  Score=99.99  Aligned_cols=56  Identities=18%  Similarity=0.305  Sum_probs=50.2

Q ss_pred             EcCCCCHHHHHHHHHhhh--CCC-CCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           86 IKATSTFGELKMILSMVS--GLE-PREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        86 V~~t~TV~eLK~~Ia~~T--GVp-pe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      +..+.||.+||++|+...  ++| |++|+|||+||+|+|+.+|++|||++|++|||+..
T Consensus        34 ~~~~~tV~~lK~~i~~~~~~~~P~p~~~rLIy~Gk~L~D~~tL~~y~I~~gstihLV~r   92 (94)
T d1x1ma1          34 SLGGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQTLDFYGIQPGSTVHVLRK   92 (94)
T ss_dssp             CCCCCBHHHHHHHHHHHCTTTCCCSSSEEEEETTEECCTTCBHHHHTCCTTCEEEEEES
T ss_pred             CCCccCHHHHHHHHHHHcccCCCChhheEEEECCeEECCCccHHHcCCCCCCEEEEEEe
Confidence            456889999999999874  454 79999999999999999999999999999999863

>d2uyzb1 d.15.1.1 (B:20-96) SUMO-1 (smt3 homologue) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: SUMO-1 (smt3 homologue)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.30  E-value=3.9e-12  Score=87.03  Aligned_cols=72  Identities=22%  Similarity=0.330  Sum_probs=66.9

Q ss_pred             eEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           70 SITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        70 ~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      .|+|+|++ .++.+.+.|.++.++..|+...++..|+|+.+++|+|+|+.|.+++|+++++++|||+|.++..
T Consensus         2 ~I~ikv~~~dg~~v~f~v~~~t~l~kl~~~y~~~~~~~~~~~~f~fdG~~l~~~~T~~~l~~edgD~Idv~~~   74 (77)
T d2uyzb1           2 YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE   74 (77)
T ss_dssp             EEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCHHHHTCCTTEEEEEEEC
T ss_pred             EEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCChhHEEEEECCEECCCCCCHHHcCCCCCCEEEEEEe
Confidence            57889987 5578889999999999999999999999999999999999999999999999999999988753

>d1wm3a_ d.15.1.1 (A:) SUMO-2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: SUMO-2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.61  E-value=1.1e-07  Score=63.91  Aligned_cols=68  Identities=19%  Similarity=0.304  Sum_probs=63.0

Q ss_pred             EEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEE
Q 031040           71 ITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLL  138 (167)
Q Consensus        71 I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~L  138 (167)
                      |+|+|.. .++.+.+.|.++.++..|....++..|+++...+++|.|..+..++|.+++++++||.|-+
T Consensus         2 I~lkv~~~~g~~v~f~vk~~t~l~kl~~~y~~~~~~~~~~~~f~fdG~~i~~~~Tp~~l~med~D~Idv   70 (72)
T d1wm3a_           2 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDV   70 (72)
T ss_dssp             EEEEEECTTSCEEEEEECTTSCTHHHHHHHHHHHTCCTTTCEEEETTEECCTTCCTTTTTCCTTEEEEE
T ss_pred             EEEEEECCCCCEEEEEEcCCChHHHHHHHHHHHhCCCccceEEEECCEEcCCCCCHHHcCCCCCCEEEE
Confidence            6778886 4577889999999999999999999999999999999999999999999999999999965

>d1wf9a1 d.15.1.1 (A:8-101) NPL4-like protein 1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: NPL4-like protein 1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.58  E-value=3e-08  Score=71.07  Aligned_cols=69  Identities=14%  Similarity=0.152  Sum_probs=54.8

Q ss_pred             EEEEEeeCCEEEEEEEc-CCCCHHHHHHHHHhhhCCCCCceEEEEc--------------Ceec-CCcchhhhcCCCCCC
Q 031040           71 ITIRVSTVSKWHDISIK-ATSTFGELKMILSMVSGLEPREQRLLFK--------------GKER-EDNEFLHMVGVRDKD  134 (167)
Q Consensus        71 I~I~Vk~g~~~~~VeV~-~t~TV~eLK~~Ia~~TGVppe~QKLifk--------------GK~L-dD~~tL~~~GIkdgs  134 (167)
                      |+|+...|  +..|+|+ +.+|+.+||.+|++..+||.++|.|-.+              -..+ +|..+|++|||..|+
T Consensus         3 iRiRsrdG--~eRv~v~~~~~Tl~~LK~~Ie~~L~VPv~~Q~LSl~~~llL~k~P~~~~~~~~l~d~~~~L~sl~i~hGs   80 (94)
T d1wf9a1           3 LRVRSRDG--LERVSVDGPHITVSQLKTLIQDQLQIPIHNQTLSTNRNLLLAKSPSDFLAFTDMADPNLRISSLNLAHGS   80 (94)
T ss_dssp             EEEECSSC--EEEEEECCTTSBHHHHHHHHHHHSCCCTTTCCCBSSGGGGTCCSHHHHTTCCSSCCTTCBGGGTCCCTTC
T ss_pred             EEEEecCC--ceEEEecCCCCcHHHHHHHHHHHhCCCcccceeecChhhhccCCccccchhhhccCCccCHHHcCccCce
Confidence            56666666  5678886 4789999999999999999999999332              1224 455779999999999


Q ss_pred             EEEEecC
Q 031040          135 KVLLLED  141 (167)
Q Consensus       135 kL~Lv~~  141 (167)
                      .|+|.-+
T Consensus        81 ivyL~y~   87 (94)
T d1wf9a1          81 MVYLAYE   87 (94)
T ss_dssp             EEECCCS
T ss_pred             EEEEEee
Confidence            9998753

>d2al3a1 d.15.1.2 (A:10-85) Tether containing UBX domain for GLUT4 (Tug) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: Tether containing UBX domain for GLUT4 (Tug)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.45  E-value=0.00029  Score=48.15  Aligned_cols=64  Identities=9%  Similarity=0.128  Sum_probs=60.2

Q ss_pred             CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEecC
Q 031040           78 VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLED  141 (167)
Q Consensus        78 g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~~  141 (167)
                      .++...|.|.|++|+.|+-+.....+|+.+++--|.|++|.++-+..+.-.|+..|++|.|+..
T Consensus         9 ~~rR~~VKvtP~t~l~~VL~eaC~k~~~~~~~~~Lkh~~k~ldLsl~~R~sgLpnnakLELv~~   72 (76)
T d2al3a1           9 NGRRHTVKVTPSTVLLQVLEDTCRRQDFNPSEYDLKFQRTVLDLSLQWRFANLPNNAKLEMVPV   72 (76)
T ss_dssp             TSCEEEECCCTTSBHHHHHHHHHHHTTCCGGGCEEEETTEEESSSCBHHHHCCCSSCEEEEECS
T ss_pred             CCcEEEEEeCCCcCHHHHHHHHHHHhCCChhHceeeeCCEEcCccceeeecCCCCCCEEEEEEc
Confidence            3467899999999999999999999999999999999999999999999999999999999864

>d1h8ca_ d.15.1.2 (A:) Fas-associated factor 1, Faf1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: Fas-associated factor 1, Faf1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.95  E-value=0.0024  Score=42.60  Aligned_cols=71  Identities=18%  Similarity=0.250  Sum_probs=55.3

Q ss_pred             CceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEE--EcCeec---CCcchhhhcCCCCCCEEEEe
Q 031040           68 EGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLL--FKGKER---EDNEFLHMVGVRDKDKVLLL  139 (167)
Q Consensus        68 ~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLi--fkGK~L---dD~~tL~~~GIkdgskL~Lv  139 (167)
                      ++..+|.|+. +|....-...+++|+.+|..-|.. .+.+++...|+  |-.+.+   +++.+|.++|+-+.++|+|=
T Consensus         3 e~~~~i~iRlPdG~~~~~~F~~~~tl~~v~~~v~~-~~~~~~~~~l~~~~Pr~~l~~~d~~~TL~e~gL~p~~~L~vq   79 (82)
T d1h8ca_           3 EPVSKLRIRTPSGEFLERRFLASNKLQIVFDFVAS-KGFPWDEYKLLSTFPRRDVTQLDPNKSLLEVKLFPQETLFLE   79 (82)
T ss_dssp             CCCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHH-HTCCSSSEEEEETTTTEETTTCCTTSBHHHHCCCSEEEEEEE
T ss_pred             CCcEEEEEECCCCCEEEEEECCCCcHHHHHHHHHh-cCCCCCceEEEecCcccccccccccCCHHHCCCCCCCEEEEE
Confidence            4555666664 335667899999999999999987 47888888887  456666   34679999999999998864

>d1wj4a_ d.15.1.2 (A:) Hypothetical protein KIAA0794 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: Hypothetical protein KIAA0794
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.61  E-value=0.0085  Score=42.94  Aligned_cols=74  Identities=14%  Similarity=0.148  Sum_probs=55.2

Q ss_pred             CCceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEE--cCeec---CCcchhhhcCCCCCCEEEEec
Q 031040           67 GEGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLF--KGKER---EDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        67 ~~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLif--kGK~L---dD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ..|+.+|.|+. ++..+......++||.+|...|... +.++..-.|+.  --+.|   +.+.+|.++|+-+..+|+|-+
T Consensus        40 ~~p~~~l~iRlPdG~r~~r~F~~~~tl~~l~~~v~~~-~~~~~~~~L~~~fPr~~l~~~d~~~TL~e~gL~P~~~L~vee  118 (124)
T d1wj4a_          40 NGPKAQLMLRYPDGKREQITLPEQAKLLALVKHVQSK-GYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQE  118 (124)
T ss_dssp             SSCEEEEEEECTTSCEEEEEEETTSCHHHHHHHHHHH-HCCTTTEEEECSSSCCEETSSCSSSCTTTTTCCSSBCCEEEE
T ss_pred             CCCceEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-ccCCcceEEeecccccccccccccCcHHHcCCCCCCEEEEEe
Confidence            45666666664 3356788999999999999999775 56667777763  33455   346799999999999998765


Q ss_pred             C
Q 031040          141 D  141 (167)
Q Consensus       141 ~  141 (167)
                      .
T Consensus       119 ~  119 (124)
T d1wj4a_         119 S  119 (124)
T ss_dssp             C
T ss_pred             c
Confidence            4

>d1i42a_ d.15.1.2 (A:) p47 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: p47
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.85  E-value=0.021  Score=38.42  Aligned_cols=69  Identities=10%  Similarity=0.182  Sum_probs=51.0

Q ss_pred             CCceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhh-hCCCCCceEEEEc--Ceec-CCcchhhhcCCCCCCEE
Q 031040           67 GEGSITIRVST-VSKWHDISIKATSTFGELKMILSMV-SGLEPREQRLLFK--GKER-EDNEFLHMVGVRDKDKV  136 (167)
Q Consensus        67 ~~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~-TGVppe~QKLifk--GK~L-dD~~tL~~~GIkdgskL  136 (167)
                      +.|+.+|.|+. +|..+.....+++||.+|.+-|... .+.+.....|+..  -|.+ +++.+|.++|+.+. .|
T Consensus        11 ~~p~t~I~iRlPdG~~~~~~F~~~~tl~dv~~~v~~~~~~~~~~~f~L~t~~Prr~l~d~~~TL~e~gL~~s-~v   84 (89)
T d1i42a_          11 AEPTTNIQIRLADGGRLVQKFNHSHRISDIRLFIVDARPAMAATSFVLMTTFPNKELADENQTLKEANLLNA-VI   84 (89)
T ss_dssp             TSCCEEEEEEETTTCCEEEEECSSSCGGGHHHHHHHHCTTTSSCCEEEEETTTTEECCCCSSCSGGGTTCCS-EE
T ss_pred             CCCcEEEEEEcCCCCEEEEEECCchhHHHHHHHHHHhCccCCCCCEEEecCCCCcccCCCcCcHHHCCCcCc-eE
Confidence            34555555554 3356788999999999999999875 4677777888765  4566 45689999999864 44

>d2cr5a1 d.15.1.2 (A:8-103) UBX domain-containing protein 6 (Reproduction 8) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: UBX domain-containing protein 6 (Reproduction 8)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.76  E-value=0.032  Score=37.62  Aligned_cols=73  Identities=15%  Similarity=0.048  Sum_probs=54.1

Q ss_pred             CCceEEEEEee-CCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcC--eec--CCcchhhhcCCCCCCEEEEec
Q 031040           67 GEGSITIRVST-VSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFKG--KER--EDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        67 ~~p~I~I~Vk~-g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkG--K~L--dD~~tL~~~GIkdgskL~Lv~  140 (167)
                      .++.++|.|+. .|..+.-...+++|+.+|..-|+.. +..+..-.|+..-  +.+  +++.||.++|+.+..+|+|-+
T Consensus        13 ~~~~~~i~iRlPdG~r~~r~F~~~dtl~~l~~fv~~~-~~~~~~f~l~~~~Pr~~~~~d~~~TL~e~gl~p~~~L~v~~   90 (96)
T d2cr5a1          13 AEEVVTVALRCPNGRVLRRRFFKSWNSQVLLDWMMKV-GYHKSLYRLSTSFPRRALEVEGGSSLEDIGITVDTVLNVEE   90 (96)
T ss_dssp             CSSEEEEEEECTTSCEEEEEEESSSBTHHHHHHHHHH-TCCTTTEEEECSSSCCBCCCCSSCBHHHHTCSSCEEEEEEE
T ss_pred             CCCeEEEEEECCCCCEEEEEECCcccHHHHHHHHHHh-ccCcccceeecCCCceecCccCCCcHHHCCCCCCCEEEEec
Confidence            44567777775 4466778899999999999999765 4566667776432  444  346799999999998887754

>d1vjka_ d.15.3.1 (A:) Molybdopterin synthase subunit MoaD {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: MoaD
domain: Molybdopterin synthase subunit MoaD
species: Pyrococcus furiosus [TaxId: 2261]

Probab=95.60  E-value=0.048  Score=35.79  Aligned_cols=65  Identities=14%  Similarity=0.149  Sum_probs=46.7

Q ss_pred             eEEEEEee--------CCEEEEEEEcCCCCHHHHHHHHHhhhCC-----------CCCceEEEEcCeecCCcchhhhcCC
Q 031040           70 SITIRVST--------VSKWHDISIKATSTFGELKMILSMVSGL-----------EPREQRLLFKGKEREDNEFLHMVGV  130 (167)
Q Consensus        70 ~I~I~Vk~--------g~~~~~VeV~~t~TV~eLK~~Ia~~TGV-----------ppe~QKLifkGK~LdD~~tL~~~GI  130 (167)
                      +|+|+|++        |.....++++...||.+|.+.|.+...-           ....-++..+|+..+++     +-|
T Consensus         1 smkI~v~~Fa~lre~~G~~~~~~~~~~~~Tv~~l~~~L~~~~~~~~~~l~~~~~~~~~~i~iavN~~~~~~d-----~~L   75 (88)
T d1vjka_           1 SVKVKVKYFARFRQLAGVDEEEIELPEGARVRDLIEEIKKRHEKFKEEVFGEGYDEDADVNIAVNGRYVSWD-----EEL   75 (88)
T ss_dssp             CEEEEEEECTHHHHHHSSSEEEEEECTTCBHHHHHHHHHHHCGGGGGSCBCSSSCTTSSBEEEETTBCCCTT-----CBC
T ss_pred             CeEEEEEEhHHHHHHhCCCeEEEECCCCCCHHHHHHHHHHHChHHHHHhhhccccccccEEEEEcceEcCCC-----cCc
Confidence            47788874        3456788999999999999999876431           12334566677766543     458


Q ss_pred             CCCCEEEEe
Q 031040          131 RDKDKVLLL  139 (167)
Q Consensus       131 kdgskL~Lv  139 (167)
                      ++||.|-++
T Consensus        76 ~~gDevai~   84 (88)
T d1vjka_          76 KDGDVVGVF   84 (88)
T ss_dssp             CTTCEEEEE
T ss_pred             CCCCEEEEe
Confidence            999999876

>d1ip9a_ d.15.2.2 (A:) Bud emergence mediator Bemp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: CAD & PB1 domains
family: PB1 domain
domain: Bud emergence mediator Bemp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.01  E-value=0.035  Score=37.34  Aligned_cols=47  Identities=17%  Similarity=0.215  Sum_probs=40.2

Q ss_pred             CCceEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEc
Q 031040           67 GEGSITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFK  115 (167)
Q Consensus        67 ~~p~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifk  115 (167)
                      +...|+|++.+++..+.+.|+++.|+.+|+++|+..+++.  ..+|-|.
T Consensus         9 ~~~~ikVKv~~~~D~~~~~l~~~it~~dL~~kI~~rf~~~--~~~lkY~   55 (85)
T d1ip9a_           9 GLKTTKIKFYYKDDIFALMLKGDTTYKELRSKIAPRIDTD--NFKLQTK   55 (85)
T ss_dssp             CCCCEEEEECBTTCCEEEEECSCCCHHHHHHHHHHHHTSS--CEEEEEC
T ss_pred             CCCCEEEEEEECCcEEEEEeCCCCCHHHHHHHHHHHhCCC--ceEEEEE
Confidence            3567999999988899999999999999999999999865  4666665

>d1xo3a_ d.15.3.3 (A:) C9orf74 homolog {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: C9orf74 homolog
domain: C9orf74 homolog
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.31  E-value=0.23  Score=33.71  Aligned_cols=69  Identities=17%  Similarity=0.245  Sum_probs=42.7

Q ss_pred             ceEEEEEeeCC---------EEEEEEEcC---CCCHHHHHHHHHhhhCCCCCc-----------eEEEEcCeecCCcchh
Q 031040           69 GSITIRVSTVS---------KWHDISIKA---TSTFGELKMILSMVSGLEPRE-----------QRLLFKGKEREDNEFL  125 (167)
Q Consensus        69 p~I~I~Vk~g~---------~~~~VeV~~---t~TV~eLK~~Ia~~TGVppe~-----------QKLifkGK~LdD~~tL  125 (167)
                      +.|+|+|++.+         +.|.++++.   ..||.+|-+.|.+...-...+           -.++.+|.-.   ..|
T Consensus         3 ~~m~V~V~F~g~L~~lf~~~r~~~v~l~~~~~~~TV~dll~~L~~~~p~~~~~l~~~~~~lr~~v~v~vN~~di---~~l   79 (101)
T d1xo3a_           3 APLCVKVEFGGGAELLFDGVKKHQVALPGQEEPWDIRNLLVWIKKNLLKERPELFIQGDSVRPGILVLINDADW---ELL   79 (101)
T ss_dssp             SSCEEEEEECSSGGGGGTTCCCEEEECCSSSCCCCHHHHHHHHHHHHCCSCGGGSCCTTSCCSSEEEEETTEEH---HHH
T ss_pred             CCeEEEEEEechHHHHhCCcceEEEEcCCCCCCcCHHHHHHHHHHhCCcchhhhhccCcCeeeeEEEEEcCcce---ecc
Confidence            45667777522         566787754   479999999998875433221           1233344321   233


Q ss_pred             h--hcCCCCCCEEEEec
Q 031040          126 H--MVGVRDKDKVLLLE  140 (167)
Q Consensus       126 ~--~~GIkdgskL~Lv~  140 (167)
                      .  ++-|++||.|.++-
T Consensus        80 ~gl~t~l~dgDeV~~~p   96 (101)
T d1xo3a_          80 GELDYQLQDQDSILFIS   96 (101)
T ss_dssp             TTTSCCCCTTCEEEEEE
T ss_pred             CCCccCcCCCCEEEEeC
Confidence            3  56799999998873

>d2bkfa1 d.15.2.2 (A:1-85) Next to BRCA1 gene 1 protein, NBR1 (KIAA0049) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: CAD & PB1 domains
family: PB1 domain
domain: Next to BRCA1 gene 1 protein, NBR1 (KIAA0049)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.22  E-value=0.11  Score=35.42  Aligned_cols=39  Identities=13%  Similarity=0.319  Sum_probs=32.9

Q ss_pred             CceEEEEEeeCCEEEEEEE--cCCCCHHHHHHHHHhhhCCC
Q 031040           68 EGSITIRVSTVSKWHDISI--KATSTFGELKMILSMVSGLE  106 (167)
Q Consensus        68 ~p~I~I~Vk~g~~~~~VeV--~~t~TV~eLK~~Ia~~TGVp  106 (167)
                      +|.|+|++.+++.+....+  +...|+.+|.++|+..++++
T Consensus         2 ep~vtvKvtf~~dt~RF~ls~~~~~~~~~L~~~i~~rf~l~   42 (85)
T d2bkfa1           2 EPQVTLNVTFKNEIQSFLVSDPENTTWADIEAMVKVSFDLN   42 (85)
T ss_dssp             CCCEEEEEEETTEEEEEEESCGGGCCHHHHHHHHHHHHTCS
T ss_pred             CccEEEEEEECCceEEEEecCCCCCcHHHHHHHHHHhcCcc
Confidence            4789999999887765544  56789999999999999996

>d1oeya_ d.15.2.2 (A:) Neutrophil cytosol factor 2 (p67phox component of NADPH oxidase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: CAD & PB1 domains
family: PB1 domain
domain: Neutrophil cytosol factor 2 (p67phox component of NADPH oxidase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.05  E-value=0.93  Score=30.49  Aligned_cols=43  Identities=7%  Similarity=0.172  Sum_probs=37.6

Q ss_pred             eEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEc
Q 031040           70 SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLFK  115 (167)
Q Consensus        70 ~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifk  115 (167)
                      +++|++++   ++.|.+.+.....+|.++|+++..++|+.-+|-|+
T Consensus         7 ~vkVh~~f---TVal~v~~G~~y~~L~~lvs~KL~l~~~~~~LSY~   49 (82)
T d1oeya_           7 TLKVHYKY---TVVMKTQPGLPYSQVRDMVSKKLELRLEHTKLSYR   49 (82)
T ss_dssp             EEEEESSS---EEEEEECTTCCHHHHHHHHHHHTTCCGGGCCEEEC
T ss_pred             EEEEEEEE---EEEEEccCCCCHHHHHHHHHHHhCCChhheEEEec
Confidence            45555553   57899999999999999999999999999999996

>d1wmha_ d.15.2.2 (A:) Protein kinase C, iota type {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: CAD & PB1 domains
family: PB1 domain
domain: Protein kinase C, iota type
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.63  E-value=1.8  Score=29.11  Aligned_cols=40  Identities=5%  Similarity=0.057  Sum_probs=36.1

Q ss_pred             EEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCce
Q 031040           71 ITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQ  110 (167)
Q Consensus        71 I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~Q  110 (167)
                      |+|++.++|......++++.|+.+|-+.+.+..+++.++-
T Consensus         2 iriK~~y~G~i~it~~~~~it~e~l~~evr~~C~f~~~q~   41 (83)
T d1wmha_           2 VRVKAYYRGDIMITHFEPSISFEGLCNEVRDMCSFDNEQL   41 (83)
T ss_dssp             EEEEEEETTEEEEEEECTTCCHHHHHHHHHHHTTCCTTCC
T ss_pred             eEEEEEecCeEEEEecCCCccHHHHHHHHHHHhCCCcCCc
Confidence            6788889999999999999999999999999999987653

>d1wgra_ d.15.1.5 (A:) Growth factor receptor-bound protein 7, GRB-7 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ras-binding domain, RBD
domain: Growth factor receptor-bound protein 7, GRB-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.65  E-value=1.1  Score=30.07  Aligned_cols=53  Identities=15%  Similarity=0.098  Sum_probs=39.6

Q ss_pred             eEEEEEeeCCEEEEEEEcCCCCHHHHHHHHHhhhCCCCCceEEEE-----cC--eecCCcc
Q 031040           70 SITIRVSTVSKWHDISIKATSTFGELKMILSMVSGLEPREQRLLF-----KG--KEREDNE  123 (167)
Q Consensus        70 ~I~I~Vk~g~~~~~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLif-----kG--K~LdD~~  123 (167)
                      .|+|....| .+..|.|++++|+.|+=++|.++.++.....-.||     .|  +.|.|.+
T Consensus        11 vvkv~~~dg-~~k~l~V~~~tTa~eV~~~l~~K~~~~~~~~f~L~E~~~~~~leR~L~d~E   70 (100)
T d1wgra_          11 VVKVYSEDG-ACRSVEVAAGATARHVCEMLVQRAHALSDETWGLVECHPHLALERGLEDHE   70 (100)
T ss_dssp             EEEEEETTS-CEEEEEECTTCCHHHHHHHHHCSSSCCCCCCCCEEEEETTTTEEEEECSSS
T ss_pred             EEEEEecCC-CEEEEEECCCCcHHHHHHHHHHHhCCCCCCCeEEEEecCCCcceeecCchH
Confidence            466666665 57789999999999999999999998776544444     23  4566654

>d1zud21 d.15.3.2 (2:2-66) Thiamin biosynthesis sulfur carrier protein ThiS {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: ThiS
domain: Thiamin biosynthesis sulfur carrier protein ThiS
species: Escherichia coli [TaxId: 562]

Probab=80.33  E-value=3.6  Score=25.49  Aligned_cols=53  Identities=21%  Similarity=0.132  Sum_probs=42.0

Q ss_pred             EEEEcCCCCHHHHHHHHHhhhCCCCCceEEEEcCeecCCcchhhhcCCCCCCEEEEec
Q 031040           83 DISIKATSTFGELKMILSMVSGLEPREQRLLFKGKEREDNEFLHMVGVRDKDKVLLLE  140 (167)
Q Consensus        83 ~VeV~~t~TV~eLK~~Ia~~TGVppe~QKLifkGK~LdD~~tL~~~GIkdgskL~Lv~  140 (167)
                      ..++++..|+.+|-+.    .+++++.--+-.++..+.- +...+.-+++||.|.++.
T Consensus         8 ~~~~~~~~tl~~ll~~----l~~~~~~vaV~vN~~ivpk-~~~~~~~L~~gD~ieIv~   60 (65)
T d1zud21           8 AMQCAAGQTVHELLEQ----LDQRQAGAALAINQQIVPR-EQWAQHIVQDGDQILLFQ   60 (65)
T ss_dssp             EECCCTTCBHHHHHHH----HTCCCTTEEEEETTEECCG-GGTTTCBCCTTCEEEEEE
T ss_pred             EEEcCCCCcHHHHHHH----cCCCCCcEEEEECCEEcCH-HHHhhccCCCCCEEEEEE
Confidence            4667888999998876    5889888888899987653 455667799999998874

>d1y8xb1 c.111.1.2 (B:349-440) UBA3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Activating enzymes of the ubiquitin-like proteins
superfamily: Activating enzymes of the ubiquitin-like proteins
family: Ubiquitin activating enzymes (UBA)
domain: UBA3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.10  E-value=1.6  Score=29.85  Aligned_cols=60  Identities=18%  Similarity=0.308  Sum_probs=42.7

Q ss_pred             EEEEcCCCCHHHHHHHHHhhhCCCCCc----------eEEEEcCee--cCC------cchhhhcCCCCCCEEEEecCCc
Q 031040           83 DISIKATSTFGELKMILSMVSGLEPRE----------QRLLFKGKE--RED------NEFLHMVGVRDKDKVLLLEDPA  143 (167)
Q Consensus        83 ~VeV~~t~TV~eLK~~Ia~~TGVppe~----------QKLifkGK~--LdD------~~tL~~~GIkdgskL~Lv~~p~  143 (167)
                      .++|+++.|..+|-+.|.+.-.+.-..          +|-+|--.+  |+.      ..+|.++|+.||+.|++. ||+
T Consensus         4 ~l~~~~~~TL~~li~~L~e~p~~qlk~Psltt~~~g~~ktLYm~~pp~Lee~Tr~NL~k~L~eLgl~dG~ei~Vt-D~t   81 (92)
T d1y8xb1           4 NIQFSPSAKLQEVLDYLTNSASLQMKSPAITATLEGKNRTLYMQSVTSIEERTRPNLSKTLKELGLVDGQELAVA-DVT   81 (92)
T ss_dssp             CEECCTTCBHHHHHHHHHHCTTCCCSSCEEEEEETTEEEEEECSSCHHHHHHHHHHHHSBSGGGTCCTTCEEEEE-CTT
T ss_pred             eEEcCCCCcHHHHHHHHhhChHhhccCCceeeecCCCccEEEecCcHHHHHHhhhccccCHHHhCCcCCCEEEEe-cCC
Confidence            578999999999999999864443332          444554333  322      357999999999999866 444