Citrus Sinensis ID: 033077

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------13
Protein Sequence
MESSSSCGAKEEEVEVGDYNSSTMKKARLHSTLTALLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVFIAPSIQSCSSV
Secondary Structure (PSIPRED)
cccccccccccHHHHHcccccHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHcccEEEEEEEcccccEEEEEEcccccHHHHHHHHHHHHHHHHHHccccEEEEEccccccEEEccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccEEHcccccHHHHHHHHHHHHHHHHccccHccccccccHHHHHHHHHHHHcccEEEEEEEccccEEEEEEEEcccHHHHHHHHHHHHHHHHHHHcccEEEEHHHEHHcEEEEcccc
Coil and Loop (DISEMBL)
messsscgakeeevevgdynsstmkkARLHSTLTallddpiladvpkkptlsdvdTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDmeqsnlghrhiswqvfiapsiqscssv
Flexible Loop (DISEMBL)
messsscgakeeevevgdynsstmkKARLHSTLTALLddpiladvpkkptlsdVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLghrhiswqvfiapsiqscssv
Low Complexity Region (SEG)
MESSSSCGAKEEEVEVGDYNSSTMKKARLHSTLTALLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVFIAPSIQSCSSV
Disordered region (IsUnstruct)
*******************************TLTALLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVFIAP********
Disordered Region (DISOPRED)
***************************RLHSTLTALLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKK***************SWQVFIAPSIQSCSSV
Disordered Region (DISEMBL)
*******************NSSTMKKARLHSTLTALLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVFIAPSIQSCSSV
Disordered Region (DISPRO)
************EVEVGDYNSSTMKKARLHSTLTALLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVFIAPSIQSCSS*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MESSSSCGAKEEEVEVGDYNSSTMKKARLHSTLTALLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVFIAPSIQSCSSV
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	128	2.2.26 [Sep-21-2011]
Q9BV90	132	U11/U12 small nuclear rib	yes	no	0.671	0.651	0.406	7e-13
Q3ZBQ4	123	U11/U12 small nuclear rib	yes	no	0.617	0.642	0.417	4e-12
Q8VIK1	123	U11/U12 small nuclear rib	yes	no	0.617	0.642	0.417	4e-12

>sp|Q9BV90|SNR25_HUMAN U11/U12 small nuclear ribonucleoprotein 25 kDa protein OS=Homo sapiens GN=SNRNP25 PE=1 SV=1

 Score = 72.4 bits (176), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 35/86 (40%), Positives = 53/86 (61%)

Query: 29  LHSTLTALLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATV 88
               L  ++ DP+L D+P + TL +V++ I+LE G AM + + K+DG    V V+ SATV
Sbjct: 4   FQEGLAMVVQDPLLCDLPIQVTLEEVNSQIALEYGQAMTVRVCKMDGEVMPVVVVQSATV 63

Query: 89  KDLKLAIKKKVNDMEQSNLGHRHISW 114
            DLK AI++ V   ++   G +HISW
Sbjct: 64  LDLKKAIQRYVQLKQEREGGIQHISW 89

Homo sapiens (taxid: 9606)

>sp|Q3ZBQ4|SNR25_BOVIN U11/U12 small nuclear ribonucleoprotein 25 kDa protein OS=Bos taurus GN=SNRNP25 PE=2 SV=2

 Score = 70.1 bits (170), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 33/79 (41%), Positives = 52/79 (65%)

Query: 36  LLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAI 95
           ++ DP+L D+P + TL +V++ I+LE G AM + + K+DG    V V+ +ATV DLK AI
Sbjct: 2   VVQDPLLCDLPIQVTLEEVNSQIALEYGQAMTVRVCKMDGEVMPVVVVQNATVLDLKKAI 61

Query: 96  KKKVNDMEQSNLGHRHISW 114
           ++ V   ++   G +HISW
Sbjct: 62  QRYVQLRQEREGGIQHISW 80

Bos taurus (taxid: 9913)

>sp|Q8VIK1|SNR25_MOUSE U11/U12 small nuclear ribonucleoprotein 25 kDa protein OS=Mus musculus GN=Snrnp25 PE=1 SV=1

 Score = 70.1 bits (170), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 33/79 (41%), Positives = 52/79 (65%)

Query: 36  LLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAI 95
           ++ DP+L D+P + TL +V++ I+LE G AM + + K+DG    V V+ +ATV DLK AI
Sbjct: 2   VVQDPLLCDLPIQVTLEEVNSQIALEYGQAMTVRVCKMDGEVMPVVVVQNATVLDLKKAI 61

Query: 96  KKKVNDMEQSNLGHRHISW 114
           ++ V   ++   G +HISW
Sbjct: 62  QRYVQLKQEREGGVQHISW 80

Mus musculus (taxid: 10090)

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	128
225459779	176	PREDICTED: U11/U12 small nuclear ribonuc	0.867	0.630	0.819	8e-47
224065725	173	predicted protein [Populus trichocarpa]	0.859	0.635	0.782	1e-42
356538591	190	PREDICTED: U11/U12 small nuclear ribonuc	0.929	0.626	0.697	6e-41
356541000	187	PREDICTED: U11/U12 small nuclear ribonuc	0.953	0.652	0.680	7e-41
255638264	190	unknown [Glycine max]	0.953	0.642	0.672	2e-40
356538589	163	PREDICTED: U11/U12 small nuclear ribonuc	0.859	0.674	0.736	6e-40
449455569	181	PREDICTED: U11/U12 small nuclear ribonuc	0.820	0.580	0.773	2e-39
307136304	181	hypothetical protein [Cucumis melo subsp	0.828	0.585	0.747	6e-38
388501190	163	unknown [Lotus japonicus]	0.781	0.613	0.78	1e-37
449519748	209	PREDICTED: U11/U12 small nuclear ribonuc	0.710	0.435	0.824	2e-36

>gi|225459779|ref|XP_002285907.1| PREDICTED: U11/U12 small nuclear ribonucleoprotein 25 kDa protein [Vitis vinifera] gi|302141700|emb|CBI18903.3| unnamed protein product [Vitis vinifera]

 Score =  191 bits (485), Expect = 8e-47,   Method: Compositional matrix adjust.
 Identities = 91/111 (81%), Positives = 103/111 (92%)

Query: 5   SSCGAKEEEVEVGDYNSSTMKKARLHSTLTALLDDPILADVPKKPTLSDVDTLISLEMGS 64
           SS G K EE +VG YNS+ +KKARLHSTLTALLDDPILADVPK+PTLSDVDTLI+LE+GS
Sbjct: 3   SSGGGKREEEDVGSYNSNNVKKARLHSTLTALLDDPILADVPKEPTLSDVDTLINLELGS 62

Query: 65  AMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQ 115
           AMRIS++KLD TSFDVAV+NSATVKDLKLAIKKK+NDMEQS +GHRHISW+
Sbjct: 63  AMRISVIKLDSTSFDVAVLNSATVKDLKLAIKKKINDMEQSKMGHRHISWK 113

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224065725|ref|XP_002301940.1| predicted protein [Populus trichocarpa] gi|222843666|gb|EEE81213.1| predicted protein [Populus trichocarpa]

 Score =  177 bits (450), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 90/115 (78%), Positives = 100/115 (86%), Gaps = 5/115 (4%)

Query: 1   MESSSSCGAKEEEVEVGDYNSSTMKKARLHSTLTALLDDPILADVPKKPTLSDVDTLISL 60
           MESSS       E EVG YNSS +KKA+L STL ALLDDPIL+DVPKKPTLSDVDTLISL
Sbjct: 1   MESSSKG-----EDEVGGYNSSNVKKAKLQSTLAALLDDPILSDVPKKPTLSDVDTLISL 55

Query: 61  EMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQ 115
           EMGSAMRIS+ KLDGTSFDVA+MNSATVKDLKLAIK+K+ +MEQS +GHRHISW+
Sbjct: 56  EMGSAMRISVQKLDGTSFDVALMNSATVKDLKLAIKRKLIEMEQSKMGHRHISWK 110

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356538591|ref|XP_003537786.1| PREDICTED: U11/U12 small nuclear ribonucleoprotein 25 kDa protein-like isoform 2 [Glycine max]

 Score =  172 bits (435), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 83/119 (69%), Positives = 98/119 (82%)

Query: 7   CGAKEEEVEVGDYNSSTMKKARLHSTLTALLDDPILADVPKKPTLSDVDTLISLEMGSAM 66
           C  K   + + +YN S++KKARL+S LT LLDDPIL+DVPK PT +DVDTLI+LE+GSAM
Sbjct: 19  CFGKLGSINMEEYNKSSVKKARLNSLLTTLLDDPILSDVPKNPTFADVDTLINLELGSAM 78

Query: 67  RISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVFIAPSIQSC 125
           RIS+LKLDGT+ DV VMNSATVKDLKLAIKKKVNDMEQS++GHRHISW+   A    SC
Sbjct: 79  RISVLKLDGTTLDVIVMNSATVKDLKLAIKKKVNDMEQSSMGHRHISWKHVWANYCLSC 137

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356541000|ref|XP_003538972.1| PREDICTED: U11/U12 small nuclear ribonucleoprotein 25 kDa protein-like [Glycine max]

 Score =  171 bits (434), Expect = 7e-41,   Method: Compositional matrix adjust.
 Identities = 83/122 (68%), Positives = 99/122 (81%)

Query: 6   SCGAKEEEVEVGDYNSSTMKKARLHSTLTALLDDPILADVPKKPTLSDVDTLISLEMGSA 65
            C  K   + + +YN S++KKARL+S LT LLDDPIL+DVPK PT +DVDTLI+LE+GSA
Sbjct: 15  GCFGKLGSINMEEYNKSSVKKARLNSLLTTLLDDPILSDVPKNPTFADVDTLINLELGSA 74

Query: 66  MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVFIAPSIQSC 125
           MRIS+LKLDGT+ DV VMNSATVKDLKLAIKKKVNDMEQS++GHRHISW+   A    SC
Sbjct: 75  MRISVLKLDGTTLDVIVMNSATVKDLKLAIKKKVNDMEQSSMGHRHISWKHVWANYCLSC 134

Query: 126 SS 127
            +
Sbjct: 135 HN 136

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255638264|gb|ACU19445.1| unknown [Glycine max]

 Score =  170 bits (430), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 82/122 (67%), Positives = 97/122 (79%)

Query: 6   SCGAKEEEVEVGDYNSSTMKKARLHSTLTALLDDPILADVPKKPTLSDVDTLISLEMGSA 65
            C  K   + + +YN S++KKARL+S LT LLDDPIL DVPK PT +DVDT I+LE+GSA
Sbjct: 18  GCFGKLGSINMEEYNKSSVKKARLNSLLTTLLDDPILFDVPKNPTFADVDTFINLELGSA 77

Query: 66  MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVFIAPSIQSC 125
           MRIS+LKLDGT+ DV VMNSATVKDLKLAIKKKVNDMEQS++GHRHISW+   A    SC
Sbjct: 78  MRISVLKLDGTTLDVIVMNSATVKDLKLAIKKKVNDMEQSSMGHRHISWKHVWANYCLSC 137

Query: 126 SS 127
            +
Sbjct: 138 HN 139

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356538589|ref|XP_003537785.1| PREDICTED: U11/U12 small nuclear ribonucleoprotein 25 kDa protein-like isoform 1 [Glycine max]

 Score =  168 bits (426), Expect = 6e-40,   Method: Compositional matrix adjust.
 Identities = 81/110 (73%), Positives = 95/110 (86%)

Query: 18  DYNSSTMKKARLHSTLTALLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTS 77
           +YN S++KKARL+S LT LLDDPIL+DVPK PT +DVDTLI+LE+GSAMRIS+LKLDGT+
Sbjct: 3   EYNKSSVKKARLNSLLTTLLDDPILSDVPKNPTFADVDTLINLELGSAMRISVLKLDGTT 62

Query: 78  FDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVFIAPSIQSCSS 127
            DV VMNSATVKDLKLAIKKKVNDMEQS++GHRHISW+   A    SC +
Sbjct: 63  LDVIVMNSATVKDLKLAIKKKVNDMEQSSMGHRHISWKHVWANYCLSCHN 112

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449455569|ref|XP_004145525.1| PREDICTED: U11/U12 small nuclear ribonucleoprotein 25 kDa protein-like [Cucumis sativus]

 Score =  166 bits (421), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 82/106 (77%), Positives = 95/106 (89%), Gaps = 1/106 (0%)

Query: 10  KEEEVEVGDYNSSTMKKARLHSTLTALLDDPILADVPKKPTLSDVDTLISLEMGSAMRIS 69
           K+EE  VG Y+S+ +KK RL+STL ALLDDPILADVPK PTLS VDTLISLE+GSAMRIS
Sbjct: 14  KDEENAVG-YHSNNVKKVRLNSTLAALLDDPILADVPKNPTLSHVDTLISLELGSAMRIS 72

Query: 70  ILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQ 115
           +LKLDGT+ DV +MNSAT+KDLKLAIKKKVN+MEQS +GHRHISW+
Sbjct: 73  VLKLDGTAIDVVIMNSATLKDLKLAIKKKVNEMEQSKMGHRHISWK 118

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|307136304|gb|ADN34128.1| hypothetical protein [Cucumis melo subsp. melo]

 Score =  162 bits (409), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 80/107 (74%), Positives = 95/107 (88%), Gaps = 1/107 (0%)

Query: 9   AKEEEVEVGDYNSSTMKKARLHSTLTALLDDPILADVPKKPTLSDVDTLISLEMGSAMRI 68
           +K+EE  VG Y+S+ +KK RL+STL ALLDDPILADVPK PTLS VDTLISLE+GSAMRI
Sbjct: 13  SKDEENVVG-YHSNNVKKVRLNSTLAALLDDPILADVPKNPTLSHVDTLISLELGSAMRI 71

Query: 69  SILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQ 115
           S+LKLDGT+ DV +MNSAT+KDLKLAIK+KVN+ EQS +GHRHISW+
Sbjct: 72  SVLKLDGTAIDVLIMNSATLKDLKLAIKQKVNETEQSKMGHRHISWK 118

Source: Cucumis melo subsp. melo

Species: Cucumis melo

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388501190|gb|AFK38661.1| unknown [Lotus japonicus]

 Score =  160 bits (406), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 78/100 (78%), Positives = 86/100 (86%)

Query: 16  VGDYNSSTMKKARLHSTLTALLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLDG 75
           +G+Y     KKAR+ S L ALLDDPIL+DVPK PTL DVDTLI LE+GSAMRISI+KLD 
Sbjct: 1   MGEYEERRDKKARVQSMLKALLDDPILSDVPKNPTLYDVDTLIGLELGSAMRISIIKLDA 60

Query: 76  TSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQ 115
           TSFDV VMNSATVKDLKLAIKKKVNDMEQSN+GHR ISW+
Sbjct: 61  TSFDVTVMNSATVKDLKLAIKKKVNDMEQSNMGHRQISWR 100

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449519748|ref|XP_004166896.1| PREDICTED: U11/U12 small nuclear ribonucleoprotein 25 kDa protein-like [Cucumis sativus]

 Score =  156 bits (395), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 75/91 (82%), Positives = 84/91 (92%)

Query: 25  KKARLHSTLTALLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMN 84
           KK RL+STL ALLDDPILADVPK PTLS VDTLISLE+GSAMRIS+LKLDGT+ DV +MN
Sbjct: 56  KKVRLNSTLAALLDDPILADVPKNPTLSHVDTLISLELGSAMRISVLKLDGTAIDVVIMN 115

Query: 85  SATVKDLKLAIKKKVNDMEQSNLGHRHISWQ 115
           SAT+KDLKLAIKKKVN+MEQS +GHRHISW+
Sbjct: 116 SATLKDLKLAIKKKVNEMEQSKMGHRHISWK 146

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	128
TAIR|locus:2077447	165	AT3G07860 "AT3G07860" [Arabido	0.882	0.684	0.649	7.4e-34
UNIPROTKB|Q9BV90	132	SNRNP25 "U11/U12 small nuclear	0.640	0.621	0.426	7.1e-13
ZFIN|ZDB-GENE-050417-179	173	zgc:112000 "zgc:112000" [Danio	0.648	0.479	0.385	1.2e-12
UNIPROTKB|Q3ZBQ4	123	SNRNP25 "U11/U12 small nuclear	0.617	0.642	0.417	3.1e-12
MGI|MGI:1925622	123	Snrnp25 "small nuclear ribonuc	0.617	0.642	0.417	3.1e-12
RGD|1310922	119	Snrnp25 "small nuclear ribonuc	0.609	0.655	0.410	4.5e-11
TAIR|locus:2145502	208	AT5G25340 "AT5G25340" [Arabido	0.367	0.225	0.510	1.3e-06
TAIR|locus:2116495	239	AT4G32270 "AT4G32270" [Arabido	0.367	0.196	0.387	0.00027

TAIR|locus:2077447 AT3G07860 "AT3G07860" [Arabidopsis thaliana (taxid:3702)]

 Score = 368 (134.6 bits), Expect = 7.4e-34, P = 7.4e-34
 Identities = 74/114 (64%), Positives = 93/114 (81%)

Query:    14 VEVGDYNSSTMKKARLHSTLTALLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKL 73
             +E GDY+  T K+ +L S L+ LL DPILADVP+ PTLSDV TL+SLE GSAMR+S++KL
Sbjct:     1 MESGDYDVET-KREKLKSVLSQLLADPILADVPRNPTLSDVVTLVSLEKGSAMRLSVVKL 59

Query:    74 DGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVFIAPSIQSCSS 127
             DG+S DVAVMNSAT+KDLKL IKKKVN+MEQ+N+GHRHISW+   +    SC++
Sbjct:    60 DGSSLDVAVMNSATLKDLKLLIKKKVNEMEQANMGHRHISWKHVWSNFCLSCNN 113

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0006626 "protein targeting to mitochondrion" evidence=RCA

UNIPROTKB|Q9BV90 SNRNP25 "U11/U12 small nuclear ribonucleoprotein 25 kDa protein" [Homo sapiens (taxid:9606)]

 Score = 170 (64.9 bits), Expect = 7.1e-13, P = 7.1e-13
 Identities = 35/82 (42%), Positives = 53/82 (64%)

Query:    33 LTALLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLK 92
             L  ++ DP+L D+P + TL +V++ I+LE G AM + + K+DG    V V+ SATV DLK
Sbjct:     8 LAMVVQDPLLCDLPIQVTLEEVNSQIALEYGQAMTVRVCKMDGEVMPVVVVQSATVLDLK 67

Query:    93 LAIKKKVNDMEQSNLGHRHISW 114
              AI++ V   ++   G +HISW
Sbjct:    68 KAIQRYVQLKQEREGGIQHISW 89

GO:0006397 "mRNA processing" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005689 "U12-type spliceosomal complex" evidence=IDA

GO:0008380 "RNA splicing" evidence=IC

ZFIN|ZDB-GENE-050417-179 zgc:112000 "zgc:112000" [Danio rerio (taxid:7955)]

 Score = 168 (64.2 bits), Expect = 1.2e-12, P = 1.2e-12
 Identities = 32/83 (38%), Positives = 53/83 (63%)

Query:    33 LTALLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLK 92
             L  ++ DP+L D+P + TL +V++ ++LE G AM + + K DG    + V+ SATV DLK
Sbjct:    49 LALIVQDPLLCDLPIQVTLEEVNSQVALEYGQAMTVRVCKADGEVMPIVVVQSATVLDLK 108

Query:    93 LAIKKKVNDMEQSNLGHRHISWQ 115
              AI++ +   +Q   G +H+SW+
Sbjct:   109 KAIRRYMELKQQREGGVKHVSWK 131

GO:0003674 "molecular_function" evidence=ND

UNIPROTKB|Q3ZBQ4 SNRNP25 "U11/U12 small nuclear ribonucleoprotein 25 kDa protein" [Bos taurus (taxid:9913)]

 Score = 164 (62.8 bits), Expect = 3.1e-12, P = 3.1e-12
 Identities = 33/79 (41%), Positives = 52/79 (65%)

Query:    36 LLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAI 95
             ++ DP+L D+P + TL +V++ I+LE G AM + + K+DG    V V+ +ATV DLK AI
Sbjct:     2 VVQDPLLCDLPIQVTLEEVNSQIALEYGQAMTVRVCKMDGEVMPVVVVQNATVLDLKKAI 61

Query:    96 KKKVNDMEQSNLGHRHISW 114
             ++ V   ++   G +HISW
Sbjct:    62 QRYVQLRQEREGGIQHISW 80

GO:0005689 "U12-type spliceosomal complex" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

MGI|MGI:1925622 Snrnp25 "small nuclear ribonucleoprotein 25 (U11/U12)" [Mus musculus (taxid:10090)]

 Score = 164 (62.8 bits), Expect = 3.1e-12, P = 3.1e-12
 Identities = 33/79 (41%), Positives = 52/79 (65%)

Query:    36 LLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAI 95
             ++ DP+L D+P + TL +V++ I+LE G AM + + K+DG    V V+ +ATV DLK AI
Sbjct:     2 VVQDPLLCDLPIQVTLEEVNSQIALEYGQAMTVRVCKMDGEVMPVVVVQNATVLDLKKAI 61

Query:    96 KKKVNDMEQSNLGHRHISW 114
             ++ V   ++   G +HISW
Sbjct:    62 QRYVQLKQEREGGVQHISW 80

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISS

GO:0005681 "spliceosomal complex" evidence=IEA

GO:0005689 "U12-type spliceosomal complex" evidence=ISO

GO:0006397 "mRNA processing" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0008380 "RNA splicing" evidence=IEA

RGD|1310922 Snrnp25 "small nuclear ribonucleoprotein 25 (U11/U12)" [Rattus norvegicus (taxid:10116)]

 Score = 153 (58.9 bits), Expect = 4.5e-11, P = 4.5e-11
 Identities = 32/78 (41%), Positives = 51/78 (65%)

Query:    36 LLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAI 95
             ++ DP+L D+P + TL +V++ I+LE G AM + + K+DG    V V+ +ATV DLK AI
Sbjct:     2 VVQDPLLCDLPIQVTLEEVNSQIALEYGQAMTVRVCKMDGEVMPVVVVQNATVLDLKKAI 61

Query:    96 KKKVNDMEQSNLGHRHIS 113
             ++ V   ++   G +HIS
Sbjct:    62 QRYVQLKQEREGGVQHIS 79

GO:0005634 "nucleus" evidence=ISO

GO:0005689 "U12-type spliceosomal complex" evidence=ISO

TAIR|locus:2145502 AT5G25340 "AT5G25340" [Arabidopsis thaliana (taxid:3702)]

 Score = 113 (44.8 bits), Expect = 1.3e-06, P = 1.3e-06
 Identities = 25/49 (51%), Positives = 35/49 (71%)

Query:    66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISW 114
             +R+S+LKLDG+SFDV V+ SATV DLK+AI+   + + +   G   ISW
Sbjct:    19 IRLSVLKLDGSSFDVYVLTSATVGDLKVAIETAFSHVPKK--GPSKISW 65

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

TAIR|locus:2116495 AT4G32270 "AT4G32270" [Arabidopsis thaliana (taxid:3702)]

 Score = 94 (38.1 bits), Expect = 0.00027, P = 0.00027
 Identities = 19/49 (38%), Positives = 34/49 (69%)

Query:    66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISW 114
             +++++LKLDG+SF + V+ +ATV +LK+A++   + +  S  G   ISW
Sbjct:    38 IKLTVLKLDGSSFGIQVLKTATVGELKMAVEAAFSHLPISGPGK--ISW 84


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        0.312   0.126   0.340    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      128       128   0.00091  102 3  10 23  0.43    31
                                                     29  0.41    33


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:  609 (65 KB)
  Total size of DFA:  165 KB (2097 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:  18.00u 0.11s 18.11t   Elapsed:  00:00:01
  Total cpu time:  18.00u 0.11s 18.11t   Elapsed:  00:00:01
  Start:  Fri May 10 13:29:58 2013   End:  Fri May 10 13:29:59 2013

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0005886 "plasma membrane" evidence=IDA

---

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!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00015525001 SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (176 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	128
cd01804	78	midnolin_N Ubiquitin-like domain of midnolin. midn	97.51
cd01791	73	Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also know	97.22
cd01806	76	Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also kn	97.11
cd01805	77	RAD23_N Ubiquitin-like domain of RAD23. RAD23 belo	97.09
cd01803	76	Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40	97.06
cd01792	80	ISG15_repeat1 ISG15 ubiquitin-like protein, first	97.01
cd01809	72	Scythe_N Ubiquitin-like domain of Scythe protein.	96.98
cd01807	74	GDX_N ubiquitin-like domain of GDX. GDX contains a	96.9
smart00213	64	UBQ Ubiquitin homologues. Ubiquitin-mediated prote	96.58
cd01810	74	ISG15_repeat2 ISG15 ubiquitin-like protein, second	96.49
cd01812	71	BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-ter	96.36
PTZ00044	76	ubiquitin; Provisional	96.34
cd01790	79	Herp_N Homocysteine-responsive endoplasmic reticul	96.13
cd01802	103	AN1_N ubiquitin-like domain of AN1. AN1 (also know	96.0
cd01813	74	UBP_N UBP ubiquitin processing protease. The UBP (	95.95
cd01769	69	UBL Ubiquitin-like domain of UBL. UBLs function by	95.77
PF11976	72	Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; Inter	95.74
PF00240	69	ubiquitin: Ubiquitin family; InterPro: IPR000626 U	95.74
cd01798	70	parkin_N amino-terminal ubiquitin-like of parkin p	95.49
cd01797	78	NIRF_N amino-terminal ubiquitin-like domain of Np9	95.42
cd01808	71	hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC	95.3
cd01794	70	DC_UbP_C dendritic cell derived ubiquitin-like pro	95.28
cd01796	71	DDI1_N DNA damage inducible protein 1 ubiquitin-li	94.95
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	94.35
cd01800	76	SF3a120_C Ubiquitin-like domain of Mammalian splic	94.0
PLN02560	308	enoyl-CoA reductase	93.69
cd01793	74	Fubi Fubi ubiquitin-like protein. Fubi is a ubiqui	93.47
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	93.02
cd00196	69	UBQ Ubiquitin-like proteins. Ubiquitin homologs; I	92.11
cd01763	87	Sumo Small ubiquitin-related modifier (SUMO). Smal	91.86
PF11543	80	UN_NPL4: Nuclear pore localisation protein NPL4; I	90.89
PF08817	79	YukD: WXG100 protein secretion system (Wss), prote	89.98
PF14560	87	Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2K	88.68
KOG0010	493	consensus Ubiquitin-like protein [Posttranslationa	88.4
PF09379	80	FERM_N: FERM N-terminal domain ; InterPro: IPR0189	87.86
cd01775	97	CYR1_RA Ubiquitin domain of CYR1 adenylate cyclase	87.73
PF14533	213	USP7_C2: Ubiquitin-specific protease C-terminal; P	87.3
PF13881	111	Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB	87.26
cd01795	107	USP48_C USP ubiquitin-specific protease. The USP (	87.13
cd01799	75	Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HO	86.77
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	84.81
smart00666	81	PB1 PB1 domain. Phox and Bem1p domain, present in	84.45
smart00362	72	RRM_2 RNA recognition motif.	84.12
PRK13552	239	frdB fumarate reductase iron-sulfur subunit; Provi	84.05
smart00295	207	B41 Band 4.1 homologues. Also known as ezrin/radix	81.13
PF00788	93	RA: Ras association (RalGDS/AF-6) domain; InterPro	80.95

>cd01804 midnolin_N Ubiquitin-like domain of midnolin

Probab=97.51  E-value=0.00024  Score=48.09  Aligned_cols=36  Identities=33%  Similarity=0.521  Sum_probs=33.7

Q ss_pred             eeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           65 AMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        65 Am~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      +|+|+|.-..|..++|.|+.++||.|||+.|+..+.
T Consensus         1 ~m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~   36 (78)
T cd01804           1 PMNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLK   36 (78)
T ss_pred             CeEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhC
Confidence            489999999999999999999999999999998874

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.

>cd01791 Ubl5 UBL5 ubiquitin-like modifier

Probab=97.22  E-value=0.00088  Score=45.40  Aligned_cols=35  Identities=20%  Similarity=0.193  Sum_probs=32.8

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      |+|+|.-..|..+.+.|+.++||.|||++|+..+.
T Consensus         2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~   36 (73)
T cd01791           2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTG   36 (73)
T ss_pred             EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhC
Confidence            78999999999999999999999999999998874

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.

>cd01806 Nedd8 Nebb8-like ubiquitin protein

Probab=97.11  E-value=0.0012  Score=42.64  Aligned_cols=35  Identities=20%  Similarity=0.385  Sum_probs=32.8

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      |+|+|.-.+|..+.+.|..+.||.+||..|+..+.
T Consensus         1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g   35 (76)
T cd01806           1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEG   35 (76)
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhC
Confidence            78999999999999999999999999999998874

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.

>cd01805 RAD23_N Ubiquitin-like domain of RAD23

Probab=97.09  E-value=0.0013  Score=43.08  Aligned_cols=35  Identities=29%  Similarity=0.421  Sum_probs=32.9

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      |+|+|.-.+|..+.+.|..+.||.+||+.|+..+.
T Consensus         1 m~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~   35 (77)
T cd01805           1 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKG   35 (77)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhC
Confidence            78999999999999999999999999999999874

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).

>cd01803 Ubiquitin Ubiquitin

Probab=97.06  E-value=0.0015  Score=42.20  Aligned_cols=36  Identities=28%  Similarity=0.388  Sum_probs=33.2

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      |+|+|.-.+|..+.+.|..+.||++||+.|+..+..
T Consensus         1 m~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~   36 (76)
T cd01803           1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGI   36 (76)
T ss_pred             CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCC
Confidence            789999999999999999999999999999998743

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

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

Probab=97.01  E-value=0.0017  Score=43.84  Aligned_cols=35  Identities=31%  Similarity=0.475  Sum_probs=33.0

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      |+|+|.-..|..+.+.|..++||+|||+.|+..+.
T Consensus         3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~   37 (80)
T cd01792           3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIG   37 (80)
T ss_pred             eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhC
Confidence            89999999999999999999999999999998874

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.

>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein

Probab=96.98  E-value=0.0021  Score=41.11  Aligned_cols=35  Identities=31%  Similarity=0.414  Sum_probs=32.8

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      |+|+|.-.+|..+++.|..+.||.+||+.|++.+.
T Consensus         1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~g   35 (72)
T cd01809           1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVG   35 (72)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHC
Confidence            78999999999999999999999999999999874

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.

>cd01807 GDX_N ubiquitin-like domain of GDX

Probab=96.90  E-value=0.0025  Score=42.04  Aligned_cols=36  Identities=22%  Similarity=0.341  Sum_probs=33.4

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      |+|+|.-.+|..+++.|..+.||.+||+.|+..+..
T Consensus         1 m~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi   36 (74)
T cd01807           1 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNV   36 (74)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCC
Confidence            789999999999999999999999999999998753

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

>smart00213 UBQ Ubiquitin homologues

Probab=96.58  E-value=0.0062  Score=37.53  Aligned_cols=35  Identities=26%  Similarity=0.337  Sum_probs=31.1

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      |+|+|.-.+ ..+++.|+.+.||++||..|+..+..
T Consensus         1 ~~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~~   35 (64)
T smart00213        1 IELTVKTLD-GTITLEVKPSDTVSELKEKIAELTGI   35 (64)
T ss_pred             CEEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHCC
Confidence            678888888 79999999999999999999998854

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

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

Probab=96.49  E-value=0.0074  Score=39.90  Aligned_cols=33  Identities=24%  Similarity=0.188  Sum_probs=29.8

Q ss_pred             EEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           68 ISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        68 l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      |+|.-.+|.++++.|..++||++||+.|+....
T Consensus         1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~g   33 (74)
T cd01810           1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRER   33 (74)
T ss_pred             CEEECCCCCEEEEEECCcChHHHHHHHHHHHhC
Confidence            468888999999999999999999999998764

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.

>cd01812 BAG1_N Ubiquitin-like domain of BAG1

Probab=96.36  E-value=0.0085  Score=38.41  Aligned_cols=35  Identities=26%  Similarity=0.353  Sum_probs=30.7

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      |+|+|.-. |..+++.|..++||.+||+.|+..+..
T Consensus         1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi   35 (71)
T cd01812           1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGV   35 (71)
T ss_pred             CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCC
Confidence            57788776 899999999999999999999998754

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).

>PTZ00044 ubiquitin; Provisional

Probab=96.34  E-value=0.01  Score=38.77  Aligned_cols=35  Identities=29%  Similarity=0.395  Sum_probs=32.9

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      |.|+|.-.+|.++.+.|..+.||.+||+.|+....
T Consensus         1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~g   35 (76)
T PTZ00044          1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEG   35 (76)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHC
Confidence            68999999999999999999999999999999875

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

Probab=96.13  E-value=0.012  Score=41.19  Aligned_cols=35  Identities=20%  Similarity=0.155  Sum_probs=30.2

Q ss_pred             eeEEEEEcCCCceeeEEE--eCCCcHHHHHHHHHHHH
Q 033077           65 AMRISILKLDGTSFDVAV--MNSATVKDLKLAIKKKV   99 (128)
Q Consensus        65 Am~l~V~k~Dgs~~~VvV--~~~ATV~dLKkAI~~~~   99 (128)
                      +|+|+|...++..+++.|  ..++||+|||..|+..+
T Consensus         1 ~i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~   37 (79)
T cd01790           1 PVTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVY   37 (79)
T ss_pred             CeEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhc
Confidence            489999999999955555  78999999999999876

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.

>cd01802 AN1_N ubiquitin-like domain of AN1

Probab=96.00  E-value=0.02  Score=41.12  Aligned_cols=39  Identities=28%  Similarity=0.338  Sum_probs=35.2

Q ss_pred             cCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           62 MGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        62 ~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      +-..|.|+|.-++|.++.+.|..+.||.+||+.|+....
T Consensus        24 ~~~~M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~g   62 (103)
T cd01802          24 FYDTMELFIETLTGTCFELRVSPFETVISVKAKIQRLEG   62 (103)
T ss_pred             cCCCEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhC
Confidence            345799999999999999999999999999999988753

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.

>cd01813 UBP_N UBP ubiquitin processing protease

Probab=95.95  E-value=0.014  Score=39.43  Aligned_cols=34  Identities=29%  Similarity=0.399  Sum_probs=29.2

Q ss_pred             EEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           67 RISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        67 ~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      +|+| |..|..|+|.|..++||++||+.|+..+.-
T Consensus         2 ~i~v-k~~g~~~~v~v~~~~Tv~~lK~~i~~~tgv   35 (74)
T cd01813           2 PVIV-KWGGQEYSVTTLSEDTVLDLKQFIKTLTGV   35 (74)
T ss_pred             EEEE-EECCEEEEEEECCCCCHHHHHHHHHHHHCC
Confidence            4443 678999999999999999999999999863

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.

>cd01769 UBL Ubiquitin-like domain of UBL

Probab=95.77  E-value=0.019  Score=35.65  Aligned_cols=31  Identities=32%  Similarity=0.483  Sum_probs=28.0

Q ss_pred             EEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           70 ILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        70 V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      |...+|..+.+.++.++||.+||+.|++.+.
T Consensus         2 v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~   32 (69)
T cd01769           2 VKTLTGKTFELEVSPDDTVAELKAKIAAKEG   32 (69)
T ss_pred             eEccCCCEEEEEECCCChHHHHHHHHHHHHC
Confidence            5566899999999999999999999999885

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.

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

Probab=95.74  E-value=0.044  Score=35.43  Aligned_cols=37  Identities=22%  Similarity=0.186  Sum_probs=34.0

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDM  102 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~  102 (128)
                      |+|.|.-.+|..+.+.|..+.||..|..++....+..
T Consensus         1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~   37 (72)
T PF11976_consen    1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIP   37 (72)
T ss_dssp             EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTT
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCC
Confidence            7899999999999999999999999999998887653

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 ....

>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=95.74  E-value=0.019  Score=36.64  Aligned_cols=29  Identities=34%  Similarity=0.452  Sum_probs=26.7

Q ss_pred             CCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           73 LDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        73 ~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      .+|..|+|.|..+.||.+||+.|+..+..
T Consensus         3 ~~g~~~~~~v~~~~tV~~lK~~i~~~~~~   31 (69)
T PF00240_consen    3 LSGKTFTLEVDPDDTVADLKQKIAEETGI   31 (69)
T ss_dssp             TTSEEEEEEEETTSBHHHHHHHHHHHHTS
T ss_pred             CCCcEEEEEECCCCCHHHhhhhccccccc
Confidence            57899999999999999999999999863

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 ....

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

Probab=95.49  E-value=0.03  Score=36.43  Aligned_cols=34  Identities=24%  Similarity=0.331  Sum_probs=30.5

Q ss_pred             EEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           68 ISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        68 l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      |+|.-.+|..+++.|..+.||++||+.|+..+..
T Consensus         1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi   34 (70)
T cd01798           1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGV   34 (70)
T ss_pred             CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCC
Confidence            4678889999999999999999999999998753

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

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

Probab=95.42  E-value=0.033  Score=37.88  Aligned_cols=35  Identities=26%  Similarity=0.403  Sum_probs=30.8

Q ss_pred             eEEEEEcCCCce-eeE-EEeCCCcHHHHHHHHHHHHh
Q 033077           66 MRISILKLDGTS-FDV-AVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        66 m~l~V~k~Dgs~-~~V-vV~~~ATV~dLKkAI~~~~~  100 (128)
                      |+|+|.-..|.. +.+ +|..+.||.+||+.|+....
T Consensus         1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~g   37 (78)
T cd01797           1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFN   37 (78)
T ss_pred             CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhC
Confidence            789999999986 788 57889999999999998764

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.

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

Probab=95.30  E-value=0.047  Score=35.69  Aligned_cols=34  Identities=24%  Similarity=0.447  Sum_probs=29.1

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      |+|+|.-..|. +.+.|..++||.+||+.|+....
T Consensus         1 ~~i~vk~~~g~-~~l~v~~~~TV~~lK~~I~~~~~   34 (71)
T cd01808           1 IKVTVKTPKDK-EEIEIAEDASVKDFKEAVSKKFK   34 (71)
T ss_pred             CEEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhC
Confidence            46788888886 58999999999999999998874

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

>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein

Probab=95.28  E-value=0.035  Score=37.01  Aligned_cols=32  Identities=19%  Similarity=0.239  Sum_probs=28.3

Q ss_pred             EEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           69 SILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        69 ~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      .|.-..|..+++.|..++||++||..|+....
T Consensus         2 ~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~g   33 (70)
T cd01794           2 KVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEG   33 (70)
T ss_pred             eEEcCCCCEEEEEECCcChHHHHHHHHHHHhC
Confidence            46677899999999999999999999998764

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.

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

Probab=94.95  E-value=0.052  Score=35.89  Aligned_cols=33  Identities=15%  Similarity=0.276  Sum_probs=28.3

Q ss_pred             EEEEcC-CCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           68 ISILKL-DGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        68 l~V~k~-Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      |+|.-. +|..++|.|..++||.+||..|+..+.
T Consensus         1 l~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~g   34 (71)
T cd01796           1 ITVYTARSETTFSLDVDPDLELENFKALCEAESG   34 (71)
T ss_pred             CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhC
Confidence            355566 788899999999999999999998875

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

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=94.35  E-value=0.071  Score=46.45  Aligned_cols=35  Identities=26%  Similarity=0.397  Sum_probs=32.6

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      |+|+|.-++|..|.|.|..+.||.+||+.|+....
T Consensus         1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g   35 (378)
T TIGR00601         1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQG   35 (378)
T ss_pred             CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhC
Confidence            78999999999999999999999999999998753

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).

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

Probab=94.00  E-value=0.092  Score=34.97  Aligned_cols=29  Identities=28%  Similarity=0.414  Sum_probs=27.0

Q ss_pred             cCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           72 KLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        72 k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      +++|..++|.|..+.||.+||.-|+..+.
T Consensus         4 ~l~g~~~~l~v~~~~TV~~lK~~i~~~~g   32 (76)
T cd01800           4 KLNGQMLNFTLQLSDPVSVLKVKIHEETG   32 (76)
T ss_pred             ccCCeEEEEEECCCCcHHHHHHHHHHHHC
Confidence            78999999999999999999999998874

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.

>PLN02560 enoyl-CoA reductase

Probab=93.69  E-value=0.1  Score=44.11  Aligned_cols=34  Identities=38%  Similarity=0.576  Sum_probs=28.9

Q ss_pred             eEEEEEcCCCcee---eEEEeCCCcHHHHHHHHHHHH
Q 033077           66 MRISILKLDGTSF---DVAVMNSATVKDLKLAIKKKV   99 (128)
Q Consensus        66 m~l~V~k~Dgs~~---~VvV~~~ATV~dLKkAI~~~~   99 (128)
                      |+|+|.-..|..+   .|.|+.+|||.|||++|++..
T Consensus         1 M~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~   37 (308)
T PLN02560          1 MKVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRK   37 (308)
T ss_pred             CEEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHc
Confidence            5677777777776   789999999999999999875

>cd01793 Fubi Fubi ubiquitin-like protein

Probab=93.47  E-value=0.19  Score=33.14  Aligned_cols=33  Identities=18%  Similarity=0.255  Sum_probs=27.9

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      |+|+|.-  +..+++.|..+.||++||..|+....
T Consensus         1 mqi~vk~--~~~~~l~v~~~~tV~~lK~~i~~~~g   33 (74)
T cd01793           1 MQLFVRA--QNTHTLEVTGQETVSDIKAHVAGLEG   33 (74)
T ss_pred             CEEEEEC--CCEEEEEECCcCcHHHHHHHHHhhhC
Confidence            6777753  47899999999999999999998864

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.

>PF00076 RRM_1: RNA recognition motif

Probab=93.02  E-value=0.82  Score=27.76  Aligned_cols=56  Identities=18%  Similarity=0.310  Sum_probs=47.9

Q ss_pred             ccCCCCCCCHHHHHHhhhhhcCCeeEEEEEc-CCCceeeEEEeCCCcHHHHHHHHHHH
Q 033077           42 LADVPKKPTLSDVDTLISLEMGSAMRISILK-LDGTSFDVAVMNSATVKDLKLAIKKK   98 (128)
Q Consensus        42 L~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k-~Dgs~~~VvV~~~ATV~dLKkAI~~~   98 (128)
                      +++||.++|.++|.....- +|.-..+.+.+ ..+..-......=.+..+-++|++..
T Consensus         3 v~nlp~~~t~~~l~~~f~~-~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l   59 (70)
T PF00076_consen    3 VGNLPPDVTEEELRDFFSQ-FGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEEL   59 (70)
T ss_dssp             EESETTTSSHHHHHHHHHT-TSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHH
T ss_pred             EcCCCCcCCHHHHHHHHHH-hhhcccccccccccccccceEEEEEcCHHHHHHHHHHc
Confidence            5789999999999999998 99999999988 57777777777778889999998754

(a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....

>cd00196 UBQ Ubiquitin-like proteins

Probab=92.11  E-value=0.34  Score=26.92  Aligned_cols=28  Identities=36%  Similarity=0.494  Sum_probs=25.2

Q ss_pred             CCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           73 LDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        73 ~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      .++....+.+..+.|+.+||+.|...+.
T Consensus         5 ~~~~~~~~~~~~~~tv~~l~~~i~~~~~   32 (69)
T cd00196           5 NDGKTVELLVPSGTTVADLKEKLAKKLG   32 (69)
T ss_pred             cCCCEEEEEcCCCCcHHHHHHHHHHHHC
Confidence            3889999999999999999999999874

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.

>cd01763 Sumo Small ubiquitin-related modifier (SUMO)

Probab=91.86  E-value=0.63  Score=31.90  Aligned_cols=42  Identities=17%  Similarity=0.169  Sum_probs=37.4

Q ss_pred             hhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           60 LEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        60 le~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      .+..+-|+|.|.-.+|..+.+.|..+.|+..||.|++.....
T Consensus         6 ~~~~~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi   47 (87)
T cd01763           6 GEISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGL   47 (87)
T ss_pred             CCCCCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCC
Confidence            345678999999999999999999999999999999988753

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.

>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=90.89  E-value=0.53  Score=32.55  Aligned_cols=38  Identities=29%  Similarity=0.357  Sum_probs=27.2

Q ss_pred             CCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           63 GSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        63 GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      .++|-|+|+--||. +.|.|+.++|+.+|+..|+..+..
T Consensus         2 ~~~milRvrS~dG~-~Rie~~~~~t~~~L~~kI~~~l~~   39 (80)
T PF11543_consen    2 ASSMILRVRSKDGM-KRIEVSPSSTLSDLKEKISEQLSI   39 (80)
T ss_dssp             ----EEEEE-SSEE-EEEEE-TTSBHHHHHHHHHHHS--
T ss_pred             CccEEEEEECCCCC-EEEEcCCcccHHHHHHHHHHHcCC
Confidence            46899999988884 678899999999999999998854

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.

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

Probab=89.98  E-value=0.76  Score=30.88  Aligned_cols=39  Identities=15%  Similarity=0.178  Sum_probs=29.8

Q ss_pred             CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhh
Q 033077           64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDM  102 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~  102 (128)
                      +-++|+|.-.+|..+++.+|.+.+|++|--.|-+.+...
T Consensus         1 ~~~rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~   39 (79)
T PF08817_consen    1 QLCRVTVDAGNGRQVDLALPADVPVAELIPELVELLGLP   39 (79)
T ss_dssp             -EEEEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---
T ss_pred             CEEEEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc
Confidence            346888888778999999999999999999999999853

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.

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

Probab=88.68  E-value=1.8  Score=29.26  Aligned_cols=37  Identities=22%  Similarity=0.214  Sum_probs=29.4

Q ss_pred             eEEEEEcCCCc--eeeEEEeCCCcHHHHHHHHHHHHhhh
Q 033077           66 MRISILKLDGT--SFDVAVMNSATVKDLKLAIKKKVNDM  102 (128)
Q Consensus        66 m~l~V~k~Dgs--~~~VvV~~~ATV~dLKkAI~~~~~~~  102 (128)
                      ++|+|.-....  .....++.+.||.|||.-|++.|.--
T Consensus         2 v~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~   40 (87)
T PF14560_consen    2 VKLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIP   40 (87)
T ss_dssp             EEEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS-
T ss_pred             EEEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCC
Confidence            45666665554  88889999999999999999999543

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

Probab=88.40  E-value=0.64  Score=42.44  Aligned_cols=37  Identities=22%  Similarity=0.391  Sum_probs=33.8

Q ss_pred             CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ..++|+|.--++ .++|.|+.++||.+||.+|...|..
T Consensus        14 ~~irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a   50 (493)
T KOG0010|consen   14 SLIRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGA   50 (493)
T ss_pred             ceeEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCC
Confidence            459999999888 9999999999999999999999943

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

Probab=87.86  E-value=1.1  Score=29.16  Aligned_cols=35  Identities=29%  Similarity=0.243  Sum_probs=30.9

Q ss_pred             EEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhhhh
Q 033077           70 ILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQ  104 (128)
Q Consensus        70 V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~~  104 (128)
                      |.=+||+...+.|..++|+.||=..|..+.++.+.
T Consensus         1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~   35 (80)
T PF09379_consen    1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEK   35 (80)
T ss_dssp             EEESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSG
T ss_pred             CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCc
Confidence            45689999999999999999999999999987643

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

>cd01775 CYR1_RA Ubiquitin domain of CYR1 adenylate cyclase

Probab=87.73  E-value=1.3  Score=32.53  Aligned_cols=38  Identities=24%  Similarity=0.223  Sum_probs=34.1

Q ss_pred             eeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhh
Q 033077           65 AMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDM  102 (128)
Q Consensus        65 Am~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~  102 (128)
                      +.-|+|-|.|++.-.+..+-++||.||=..++++|.+-
T Consensus         2 ~y~IRIFr~D~Tf~Tls~~l~tTv~eli~~L~rK~~l~   39 (97)
T cd01775           2 SYCIRVFRSDGTFTTLSCPLNTTVSELIPQLAKKFYLP   39 (97)
T ss_pred             ceEEEEEecCCcEEEEEcCCcCcHHHHHHHHHHhhcCC
Confidence            34688999999999999999999999999999998653

CYR1 is a fungal adenylate cyclase with at least four domains, an N-terminal RA (Ras association) domain, a middle leucine-rich repeat domain, a catalytic domain. The N-terminal RA domain of CYR1 post-translationally modifies a small GTPase called Ras. The Ras-CYR1 pathway has been implicated in the transduction of a glucose-triggered signal to an intracellular environment where a protein phosphorylation cascade is initiated by cyclic AMP.

>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A

Probab=87.30  E-value=1.1  Score=35.48  Aligned_cols=50  Identities=26%  Similarity=0.328  Sum_probs=28.3

Q ss_pred             hhcCCeeEEEEEcCCC---ceeeEEEeCCCcHHHHHHHHHHHHhhhhhhcCCceee
Q 033077           60 LEMGSAMRISILKLDG---TSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHI  112 (128)
Q Consensus        60 le~GqAm~l~V~k~Dg---s~~~VvV~~~ATV~dLKkAI~~~~~~~~~r~~g~~~I  112 (128)
                      +|.=..++++.+....   ..+.+-||+++||.||-.++++++..   .+.+.++|
T Consensus        15 lE~kk~~kv~w~~~~~~~~~~~~~~vpk~~tV~Dll~~l~~k~~~---~~~~~~~l   67 (213)
T PF14533_consen   15 LENKKQFKVTWLNDGLKEEQEYELLVPKTGTVSDLLEELQKKVGF---SEEGTGKL   67 (213)
T ss_dssp             HHSB--EEEEEE-TTS-EE-EEEE--BTT-BHHHHHHHHHTT-------TT----E
T ss_pred             HhCceEEEEEEECCCCcceeEEEEEECCCCCHHHHHHHHHHHcCC---CcCCcCcE
Confidence            3445668999886554   46889999999999999999999987   33455555

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

Probab=87.26  E-value=1.8  Score=31.78  Aligned_cols=35  Identities=26%  Similarity=0.153  Sum_probs=28.9

Q ss_pred             eeEEEEEcCCCc-eeeEEEeCCCcHHHHHHHHHHHH
Q 033077           65 AMRISILKLDGT-SFDVAVMNSATVKDLKLAIKKKV   99 (128)
Q Consensus        65 Am~l~V~k~Dgs-~~~VvV~~~ATV~dLKkAI~~~~   99 (128)
                      .+.|..+..||+ .-+...+.+.||++||.+|-+.-
T Consensus         2 ~i~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~W   37 (111)
T PF13881_consen    2 KIELKFRLADGKDIGPFRFDPSTTVADLKERIWAEW   37 (111)
T ss_dssp             SEEEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSS
T ss_pred             eEEEEEEEeCCCcccccccCccChHHHHHHHHHHHC
Confidence            578899999999 88888999999999999997743

>cd01795 USP48_C USP ubiquitin-specific protease

Probab=87.13  E-value=0.84  Score=34.24  Aligned_cols=34  Identities=18%  Similarity=0.104  Sum_probs=27.5

Q ss_pred             EcCCCceeeEEEeCCCcHHHHHHHHHHHHhhhhh
Q 033077           71 LKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQ  104 (128)
Q Consensus        71 ~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~~  104 (128)
                      +|+.-...++.|..++||.+||.-|+.+|...+.
T Consensus        10 ~r~~~~~~~L~V~~~~TVg~LK~lImQ~f~V~P~   43 (107)
T cd01795          10 HRKVRGEKALLVSANQTLKELKIQIMHAFSVAPF   43 (107)
T ss_pred             hccCCCCceEEeCccccHHHHHHHHHHHhcCCcc
Confidence            3444455678899999999999999999987655

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,

>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1

Probab=86.77  E-value=1.1  Score=30.33  Aligned_cols=28  Identities=18%  Similarity=0.024  Sum_probs=23.9

Q ss_pred             CCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           74 DGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        74 Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      .|.++.+.|..+.||++||.-|+..+..
T Consensus        11 ~~~t~~l~v~~~~TV~~lK~kI~~~~gi   38 (75)
T cd01799          11 HTVTIWLTVRPDMTVAQLKDKVFLDYGF   38 (75)
T ss_pred             CCCeEEEEECCCCcHHHHHHHHHHHHCc
Confidence            3577889999999999999999988754

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.

>PF14259 RRM_6: RNA recognition motif (a

Probab=84.81  E-value=7  Score=24.20  Aligned_cols=56  Identities=21%  Similarity=0.325  Sum_probs=41.2

Q ss_pred             ccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCC-CceeeEEEeCCCcHHHHHHHHHHH
Q 033077           42 LADVPKKPTLSDVDTLISLEMGSAMRISILKLD-GTSFDVAVMNSATVKDLKLAIKKK   98 (128)
Q Consensus        42 L~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~D-gs~~~VvV~~~ATV~dLKkAI~~~   98 (128)
                      +.+||+.+|.++|.....-. |.-..+.+.+.. +..-......=+|..+.++|++..
T Consensus         3 i~nlp~~~~~~~l~~~f~~~-g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~   59 (70)
T PF14259_consen    3 ISNLPPSTTEEDLRNFFSRF-GPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELL   59 (70)
T ss_dssp             EESSTTT--HHHHHHHCTTS-SBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHH
T ss_pred             EeCCCCCCCHHHHHHHHHhc-CCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHC
Confidence            57899999999999987764 876677777653 445555555667999999999885

k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....

>smart00666 PB1 PB1 domain

Probab=84.45  E-value=3.5  Score=26.99  Aligned_cols=26  Identities=19%  Similarity=0.376  Sum_probs=12.4

Q ss_pred             CceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           75 GTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        75 gs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      +....+.|+.++|..||+..|+..|.
T Consensus        10 ~~~~~~~~~~~~s~~dL~~~i~~~~~   35 (81)
T smart00666       10 GETRRLSVPRDISFEDLRSKVAKRFG   35 (81)
T ss_pred             CEEEEEEECCCCCHHHHHHHHHHHhC
Confidence            34444444444555555555554443

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.

>smart00362 RRM_2 RNA recognition motif

Probab=84.12  E-value=6.2  Score=22.88  Aligned_cols=56  Identities=25%  Similarity=0.338  Sum_probs=39.5

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHH
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKK   97 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~   97 (128)
                      ++.+||...|.+||...+. .+|.--.+.+.+..+.........=.+..+.++|++.
T Consensus         3 ~i~~l~~~~~~~~l~~~~~-~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~   58 (72)
T smart00362        3 FVGNLPPDVTEEDLKELFS-KFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEA   58 (72)
T ss_pred             EEcCCCCcCCHHHHHHHHH-hcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHH
Confidence            3578999999999999886 7898777777776533333333444566777777753

>PRK13552 frdB fumarate reductase iron-sulfur subunit; Provisional

Probab=84.05  E-value=1.8  Score=35.23  Aligned_cols=45  Identities=9%  Similarity=0.233  Sum_probs=36.1

Q ss_pred             CCeeEEEEEcCCC---------ceeeEEEeCCCcHHHHHHHHHHHHhhhhhhcCCceeeeccc
Q 033077           63 GSAMRISILKLDG---------TSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQV  116 (128)
Q Consensus        63 GqAm~l~V~k~Dg---------s~~~VvV~~~ATV~dLKkAI~~~~~~~~~r~~g~~~ISWk~  116 (128)
                      |+-|+|.|.|.|.         .+|.|.+....||+|+=..|+...         ...|+|++
T Consensus         2 ~~~~~~~i~R~~p~~~~~~~~~~~y~v~~~~~~tvLdaL~~Ik~~~---------D~sL~fr~   55 (239)
T PRK13552          2 GRTLTFNIFRYNPQDPGSKPHMVTYQLEETPGMTLFIALNRIREEQ---------DPSLQFDF   55 (239)
T ss_pred             CceEEEEEEeeCCCCCCCCcceEEEEecCCCCCCHHHHHHHHHhcC---------CCCeeEec
Confidence            7789999999884         458999999999999999998753         23477764

>smart00295 B41 Band 4

Probab=81.13  E-value=4.9  Score=29.62  Aligned_cols=40  Identities=23%  Similarity=0.304  Sum_probs=36.1

Q ss_pred             CCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhh
Q 033077           63 GSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDM  102 (128)
Q Consensus        63 GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~  102 (128)
                      ++.+.+.|.-.||+...|.+..++||.|+-..|.+.+...
T Consensus         1 ~~~~~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~   40 (207)
T smart00295        1 PKPRVLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIR   40 (207)
T ss_pred             CCcEEEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCC
Confidence            3578899999999999999999999999999999998763

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

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

Probab=80.95  E-value=8.6  Score=25.14  Aligned_cols=35  Identities=17%  Similarity=0.173  Sum_probs=30.1

Q ss_pred             EEEEEcCCCc----eeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           67 RISILKLDGT----SFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        67 ~l~V~k~Dgs----~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      .|.|--.|++    +-.|-|+.++|+.|+=+++-++|..
T Consensus         4 ~lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l   42 (93)
T PF00788_consen    4 VLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGL   42 (93)
T ss_dssp             EEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTT
T ss_pred             EEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCC
Confidence            4666667887    8899999999999999999999976

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

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	128
1v2y_A	105	Solution Structure Of Mouse Hypothetical Gene (Rike		6e-05

>pdb|1V2Y|A Chain A, Solution Structure Of Mouse Hypothetical Gene (Riken Cdna 3300001g02) Product Homologous To Ubiquitin Fold Length = 105

Iteration: 1
 Score = 42.7 bits (99), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 21/51 (41%), Positives = 31/51 (60%)
Query: 64  SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISW 114
           S M + + K+DG    V V+ +ATV DLK AI++ V   ++   G +HISW
Sbjct: 6   SGMTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISW 56

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	128
1v2y_A	105	3300001G02RIK protein; hypothetical protein, ubiqu	2e-20

>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 Length = 105

 Score = 78.5 bits (193), Expect = 2e-20
 Identities = 21/52 (40%), Positives = 31/52 (59%)

Query: 64  SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQ 115
           S M + + K+DG    V V+ +ATV DLK AI++ V   ++   G +HISW 
Sbjct: 6   SGMTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWS 57

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	128
1v2y_A	105	3300001G02RIK protein; hypothetical protein, ubiqu	99.86
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	97.81
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	97.68
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	97.47
4hcn_B	98	Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidas	97.43
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	97.42
3v6c_B	91	Ubiquitin; structural genomics, structural genomic	97.4
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	97.37
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	97.34
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	97.33
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	97.31
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	97.24
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	97.22
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	97.19
3vdz_A	111	Ubiquitin-40S ribosomal protein S27A; gadolinium,	97.18
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	97.11
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	97.08
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	97.08
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	97.04
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	97.03
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	96.99
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	96.94
1wia_A	95	Hypothetical ubiquitin-like protein (riken cDNA 20	96.89
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	96.87
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	96.85
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	96.79
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	96.73
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	96.72
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	96.69
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	96.59
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	96.52
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	96.47
1uh6_A	100	Ubiquitin-like 5; beta-grAsp fold, structural geno	96.43
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	95.43
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	96.36
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	96.33
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	96.28
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	96.21
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	96.21
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	96.2
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	96.11
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	96.1
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	96.09
1we6_A	111	Splicing factor, putative; structural genomics, ub	96.08
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	96.04
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	96.02
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	96.01
2dzm_A	100	FAS-associated factor 1; ubiquitin-like domain, HF	95.97
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	95.96
1wf9_A	107	NPL4 family protein; beta-grAsp fold like domain,	95.92
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	95.87
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	95.84
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	95.83
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	95.82
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	95.79
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	95.76
1wgg_A	96	Ubiquitin carboxyl-terminal hydrolase 14; ubiquiti	95.74
2kzr_A	86	Ubiquitin thioesterase OTU1; structural genomics,	95.69
1v5t_A	90	8430435I17RIK protein; hypothetical protein, ubiqu	95.68
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	95.65
2gow_A	125	HCG-1 protein, ubiquitin-like protein 3; BC059385,	95.62
2kdb_A	99	Homocysteine-responsive endoplasmic reticulum- res	95.55
1wju_A	100	NEDD8 ultimate buster-1; ubiquitin-like domain, st	95.39
1wxv_A	92	BAG-family molecular chaperone regulator-1; struct	95.38
2dzj_A	88	Synaptic glycoprotein SC2; ubiquitin-like fold, st	95.31
1wgh_A	116	Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fo	95.29
4a20_A	98	Ubiquitin-like protein MDY2; protein binding, GET-	94.86
1x1m_A	107	Ubiquitin-like protein SB132; structural genomics,	94.82
3plu_A	93	Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-	94.77
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	94.56
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	94.55
2lxa_A	87	Ubiquitin-like protein MDY2; ubiquitin-like domain	94.39
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	94.36
3u5c_f	152	40S ribosomal protein S31; translation, ribosome,	94.12
1wjn_A	97	Tubulin-folding protein TBCE; ubiquitin-like domai	94.04
4dbg_A	105	Ranbp-type and C3HC4-type zinc finger-containing;	93.18
3shq_A	320	UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila	93.07
2daf_A	118	FLJ35834 protein; hypothetical protein FLJ35834, u	93.04
1v6e_A	95	Cytoskeleton-associated protein 1; tubulin-specifi	92.51
1se9_A	126	Ubiquitin family; ubiquitin-like, cell-free, wheat	92.34
2kjr_A	95	CG11242; UBL, ubiquitin, ubiquitin-like, structura	91.9
1t0y_A	122	Tubulin folding cofactor B; ubiquitin-like, cytosk	91.64
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	91.48
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	90.4
2fnj_B	118	Transcription elongation factor B polypeptide 2; b	90.27
3a4r_A	79	Nfatc2-interacting protein; ubiquitin fold, coiled	90.23
2d07_B	93	Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Ho	89.79
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	89.72
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	89.34
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	88.96
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	88.83
1wm3_A	72	Ubiquitin-like protein SMT3B; ubiquitin fold, half	88.47
2pjh_A	80	Protein NPL4, nuclear protein localization protein	87.88
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	87.86
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	87.78
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	87.4
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	87.24
2kj6_A	97	Tubulin folding cofactor B; methods development, N	86.52
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	86.43
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	84.49
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	84.47
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	84.29
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	84.17
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	83.6
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	83.49
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	83.32
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	83.25
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	83.09
3au4_A	555	Myosin-X; protein-protein complex, motor protein c	82.96
2al3_A	90	TUG long isoform; TUG UBL1 insulin, endocytosis/ex	82.94
2bps_A	81	YUKD protein; ubiquitin-like protein, ubiquitin; 2	82.88
2eke_C	106	Ubiquitin-like protein SMT3; UBC9, SUMO binding mo	81.9
4b6w_A	86	Tubulin-specific chaperone; CAP-Gly, ubiquitin-lik	81.77
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	81.67
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	81.58
4ajy_B	118	Transcription elongation factor B polypeptide 2; E	80.17

>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=99.86  E-value=3.1e-22  Score=143.65  Aligned_cols=66  Identities=32%  Similarity=0.431  Sum_probs=63.7

Q ss_pred             cCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhhhhhcCCceeeeccccccceeeecCC
Q 033077           62 MGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVFIAPSIQSCSS  127 (128)
Q Consensus        62 ~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~~r~~g~~~ISWk~VW~~fcL~f~~  127 (128)
                      .|+||+|+|.+++|++|+|.|+.++||+|||++|++++...+++++|+++|||+|+|++|||+|.|
T Consensus         4 ~~~~M~I~Vk~l~g~~~~v~V~~~~TV~dLK~~I~~~~~i~~~~q~g~~~isw~~~w~q~~Li~~G   69 (105)
T 1v2y_A            4 GSSGMTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAG   69 (105)
T ss_dssp             CCCSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSS
T ss_pred             CCCcEEEEEEecCCCEEEEEECCCChHHHHHHHHHHHhCCCcccccCcceeeeeecceeEEEEeCC
Confidence            589999999999999999999999999999999999999888888999999999999999999987

>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=97.81  E-value=4.2e-05  Score=49.02  Aligned_cols=39  Identities=31%  Similarity=0.427  Sum_probs=35.0

Q ss_pred             CCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           63 GSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        63 GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      |..|+|+|.-.+|..+.|.|..++||.+||..|+..+..
T Consensus         1 gs~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~i   39 (85)
T 3mtn_B            1 GSHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGI   39 (85)
T ss_dssp             --CEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCC
T ss_pred             CCeEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCc
Confidence            678999999999999999999999999999999998854

>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=97.68  E-value=4.4e-05  Score=49.10  Aligned_cols=39  Identities=33%  Similarity=0.409  Sum_probs=33.9

Q ss_pred             CCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           63 GSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        63 GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      |..|+|+|.-.+|.+++|.|..++||.+||.+|+..+..
T Consensus         1 gs~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~i   39 (85)
T 3n3k_B            1 GSHMRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGI   39 (85)
T ss_dssp             ---CEEEEECGGGCEEEEECCTTCBHHHHHHHHHHHHCC
T ss_pred             CCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCC
Confidence            578999999999999999999999999999999998754

>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=97.47  E-value=0.00027  Score=45.70  Aligned_cols=40  Identities=20%  Similarity=0.361  Sum_probs=36.6

Q ss_pred             cCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           62 MGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        62 ~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      .+..|+|+|.-.+|..|.|.|..++||.+||..|+..+..
T Consensus         9 ~~~~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi   48 (88)
T 3dbh_I            9 SGGSMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGI   48 (88)
T ss_dssp             CCCCEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCC
T ss_pred             CCCcEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCc
Confidence            4678999999999999999999999999999999998753

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

Probab=97.43  E-value=0.0002  Score=48.45  Aligned_cols=42  Identities=26%  Similarity=0.349  Sum_probs=34.9

Q ss_pred             hhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           60 LEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        60 le~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ...+..|+|+|.-.+|..|.|.|..+.||.+||+.|+..+..
T Consensus        17 ~~~~~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gi   58 (98)
T 4hcn_B           17 YFQGRPMQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGI   58 (98)
T ss_dssp             -----CCEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCC
T ss_pred             CCCCCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCC
Confidence            356788999999999999999999999999999999998753

>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=97.42  E-value=0.00024  Score=44.26  Aligned_cols=36  Identities=28%  Similarity=0.388  Sum_probs=33.1

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      |+|+|.-.+|..+.+.|+.++||.+||+.|+..+..
T Consensus         1 M~i~vk~~~g~~~~i~v~~~~tv~~lK~~i~~~~~i   36 (76)
T 3a9j_A            1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGI   36 (76)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCC
T ss_pred             CEEEEEcCCCCEEEEEECCCCcHHHHHHHHHHHHCc
Confidence            789999999999999999999999999999998743

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

Probab=97.40  E-value=0.00035  Score=46.28  Aligned_cols=42  Identities=29%  Similarity=0.333  Sum_probs=37.8

Q ss_pred             hhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           60 LEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        60 le~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      -+.+..|+|+|.-.+|..|.|.|..+.||.+||..|+..+..
T Consensus        12 ~~~~~~m~i~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gi   53 (91)
T 3v6c_B           12 LVPRGSMQIFVNTLTGTHITLEVEPSDTIENVKAKIQDKEGI   53 (91)
T ss_dssp             CCCCCSEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCC
T ss_pred             CCCCCeEEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCC
Confidence            355778999999999999999999999999999999998754

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

Probab=97.37  E-value=0.00027  Score=46.95  Aligned_cols=40  Identities=28%  Similarity=0.360  Sum_probs=34.1

Q ss_pred             cCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           62 MGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        62 ~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      +=|-|.|.|...+|..+.|.|+.++||.+||.+|+..+..
T Consensus         6 ~~~~~~i~v~~~~G~~~~l~v~~~~TV~~LK~~I~~~~gi   45 (88)
T 1sif_A            6 HLQGLQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGI   45 (88)
T ss_dssp             ----CEEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCC
T ss_pred             cccceEEEEEeCCCCEEEEEECCCChHHHHHHHHHHHHCc
Confidence            3478999999999999999999999999999999998753

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

Probab=97.34  E-value=0.00043  Score=43.99  Aligned_cols=37  Identities=27%  Similarity=0.437  Sum_probs=33.9

Q ss_pred             CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      ..|+|+|.-.+|..+.|.|..++||.+||+.|+..+.
T Consensus         6 ~~m~i~vk~~~g~~~~~~v~~~~tV~~LK~~i~~~~~   42 (81)
T 2dzi_A            6 SGMQLTVKALQGRECSLQVPEDELVSTLKQLVSEKLN   42 (81)
T ss_dssp             SSEEEEEEETTSCEEEEEECSSCBHHHHHHHHHHHTC
T ss_pred             CcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHC
Confidence            4599999989999999999999999999999998874

>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=97.33  E-value=0.00037  Score=43.42  Aligned_cols=36  Identities=19%  Similarity=0.339  Sum_probs=33.1

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      |+|+|.-.+|..+.+.|+.++||.+||..|+.....
T Consensus         1 M~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~~i   36 (76)
T 1ndd_A            1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGI   36 (76)
T ss_dssp             CEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHCC
T ss_pred             CEEEEECCCCCEEEEEECCCChHHHHHHHHHHHHCc
Confidence            789999999999999999999999999999998743

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

Probab=97.31  E-value=0.0006  Score=44.54  Aligned_cols=42  Identities=21%  Similarity=0.237  Sum_probs=36.2

Q ss_pred             hhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           60 LEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        60 le~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ++....|+|+|.-.+|..+.+.|..+.||.+||..|+..+..
T Consensus        12 ~~~~~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi   53 (88)
T 4eew_A           12 VEEPDSLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSI   53 (88)
T ss_dssp             ---CCEEEEEEEETTSCEEEEEEETTCBHHHHHHHHHHHHTC
T ss_pred             ecCCCeEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCC
Confidence            455678999999999999999999999999999999998754

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

Probab=97.24  E-value=0.00073  Score=43.18  Aligned_cols=38  Identities=21%  Similarity=0.141  Sum_probs=34.9

Q ss_pred             CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ..|.|+|.-.+|..+.+.|..++||.+||..|+.....
T Consensus         3 ~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi   40 (79)
T 3phx_B            3 EPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGV   40 (79)
T ss_dssp             CCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTC
T ss_pred             CCEEEEEEeCCCCEEEEEECCcChHHHHHHHHHhhcCC
Confidence            46999999999999999999999999999999988753

>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=97.22  E-value=0.00049  Score=45.51  Aligned_cols=36  Identities=28%  Similarity=0.388  Sum_probs=33.7

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      |+|+|.-.+|..|.|.|..++||.+||..|+..+..
T Consensus         2 m~i~vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~gi   37 (96)
T 3k9o_B            2 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGI   37 (96)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCC
T ss_pred             cEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCC
Confidence            899999999999999999999999999999998754

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

Probab=97.19  E-value=0.00085  Score=44.65  Aligned_cols=40  Identities=25%  Similarity=0.321  Sum_probs=36.7

Q ss_pred             cCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           62 MGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        62 ~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      +-.-|+|+|..+.|..+.+.|..++||.+||..|+.....
T Consensus         7 ~~~~~~i~vk~l~g~~~~l~v~~~~TV~~LK~~I~~~~gi   46 (84)
T 2kk8_A            7 HHSHMKFLVENLNGSSFELEVDYRDTLLVVKQKIERSQHI   46 (84)
T ss_dssp             CCCCEEEEEEETTSCEEEEEECTTSBHHHHHHHHHHHHTC
T ss_pred             ccCceEEEEEecCCcEEEEEECCCChHHHHHHHHHHHHCc
Confidence            4567999999999999999999999999999999998753

>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=97.18  E-value=0.00032  Score=48.83  Aligned_cols=41  Identities=27%  Similarity=0.314  Sum_probs=36.5

Q ss_pred             hcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           61 EMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        61 e~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      +...+|+|+|.-.+|..|.|.|..++||.+||..|+..+..
T Consensus        31 ~~~~~m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~gi   71 (111)
T 3vdz_A           31 DELLAMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGI   71 (111)
T ss_dssp             GGGGCEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCC
T ss_pred             CCCccEEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCC
Confidence            33457999999999999999999999999999999998754

>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=97.11  E-value=0.00074  Score=44.79  Aligned_cols=36  Identities=19%  Similarity=0.339  Sum_probs=33.2

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      |+|+|.-.+|..|+|.|..++||.+||..|+..+..
T Consensus         1 M~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gi   36 (88)
T 4fbj_B            1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGI   36 (88)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCC
T ss_pred             CEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCc
Confidence            789999999999999999999999999999988753

>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=97.08  E-value=0.0014  Score=42.98  Aligned_cols=38  Identities=21%  Similarity=0.246  Sum_probs=35.0

Q ss_pred             CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ..|+|+|.-++|..|.|.|..+.||.+||+.|+..+..
T Consensus         4 ~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi   41 (90)
T 4dwf_A            4 DSLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSI   41 (90)
T ss_dssp             CEEEEEEEETTCCEEEEEEETTCBHHHHHHHHHHHHTC
T ss_pred             cEEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCC
Confidence            57999999999999999999999999999999998753

>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=97.08  E-value=0.00098  Score=43.19  Aligned_cols=37  Identities=22%  Similarity=0.338  Sum_probs=34.0

Q ss_pred             CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      ..|+|+|.-.+|..+.+.|..++||.+||+.|+....
T Consensus         6 ~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~g   42 (87)
T 1wh3_A            6 SGIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQG   42 (87)
T ss_dssp             SSEEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTC
T ss_pred             CCEEEEEEcCCCCEEEEEeCCCChHHHHHHHHHHHhC
Confidence            3699999999999999999999999999999998864

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

Probab=97.04  E-value=0.0013  Score=41.28  Aligned_cols=36  Identities=28%  Similarity=0.309  Sum_probs=32.4

Q ss_pred             eeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           65 AMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        65 Am~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      +|+|+|.- +|..+.+.|+.++||.+||..|+..+..
T Consensus         4 ~m~i~vk~-~g~~~~~~v~~~~tV~~LK~~i~~~~~i   39 (77)
T 2bwf_A            4 SLNIHIKS-GQDKWEVNVAPESTVLQFKEAINKANGI   39 (77)
T ss_dssp             EEEEEEEE-TTEEEEEEECTTCBHHHHHHHHHHHHCC
T ss_pred             EEEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHhCC
Confidence            48899988 9999999999999999999999998753

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

Probab=97.03  E-value=0.00084  Score=44.99  Aligned_cols=35  Identities=29%  Similarity=0.435  Sum_probs=32.7

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      |+|+|.-.+|..+.|.|..++||.+||..|+..+.
T Consensus         1 M~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~g   35 (98)
T 1yx5_B            1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG   35 (98)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHTC
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHC
Confidence            78999999999999999999999999999999874

>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=96.99  E-value=0.0015  Score=41.99  Aligned_cols=35  Identities=29%  Similarity=0.375  Sum_probs=32.9

Q ss_pred             eeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHH
Q 033077           65 AMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKV   99 (128)
Q Consensus        65 Am~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~   99 (128)
                      .|+|+|.-.+|..+.+.|..++||.+||..|+..+
T Consensus         5 ~m~i~vk~~~g~~~~~~v~~~~TV~~lK~~i~~~~   39 (85)
T 2wyq_A            5 AVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEK   39 (85)
T ss_dssp             CEEEEEEETTSCEEEEEECTTSBHHHHHHHHHHHH
T ss_pred             eEEEEEEECCCCEEEEEECCCCCHHHHHHHHHhhc
Confidence            58999999999999999999999999999999984

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

Probab=96.94  E-value=0.0021  Score=42.45  Aligned_cols=37  Identities=22%  Similarity=0.170  Sum_probs=34.2

Q ss_pred             CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      ..|+|+|.-.+|..+.+.|..++||.+||..|+....
T Consensus         3 ~~m~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~g   39 (88)
T 2hj8_A            3 EPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEG   39 (88)
T ss_dssp             CEEEEEEEETTSCEEEEEEESSSBHHHHHHHHHHHTC
T ss_pred             ccEEEEEECCCCCEEEEEECCCCcHHHHHHHHHHHhC
Confidence            4699999999999999999999999999999998864

>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=96.89  E-value=0.0011  Score=44.14  Aligned_cols=36  Identities=19%  Similarity=0.065  Sum_probs=32.9

Q ss_pred             CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHH
Q 033077           64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKV   99 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~   99 (128)
                      ..|+|+|.-.+|..+.|.|..+.||.+||+.|+...
T Consensus         6 ~~m~i~Vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~   41 (95)
T 1wia_A            6 SGINVRLKFLNDTEELAVARPEDTVGTLKSKYFPGQ   41 (95)
T ss_dssp             CSEEEEEEETTTEEEEEEECSSSBHHHHHHHHSSST
T ss_pred             CeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHhhC
Confidence            469999999999999999999999999999998764

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

Probab=96.87  E-value=0.0021  Score=44.42  Aligned_cols=38  Identities=29%  Similarity=0.371  Sum_probs=34.8

Q ss_pred             CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ..|+|+|.-.+|..+.|.|..++||.+||++|+..+..
T Consensus        34 ~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gi   71 (111)
T 2ojr_A           34 LAMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGI   71 (111)
T ss_dssp             SCEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCC
T ss_pred             CeEEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHHHCc
Confidence            46999999999999999999999999999999998753

>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=96.85  E-value=0.0016  Score=43.70  Aligned_cols=34  Identities=26%  Similarity=0.431  Sum_probs=32.2

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHH
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKV   99 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~   99 (128)
                      |+|+|.-.+|..|.|.|..++||.+||..|+..+
T Consensus         1 M~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~   34 (95)
T 1uel_A            1 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEK   34 (95)
T ss_dssp             CEEEEEETTCCEEEEECCTTSBHHHHHHHHHHHH
T ss_pred             CEEEEEeCCCCEEEEEECCCCHHHHHHHHHHhhc
Confidence            7899999999999999999999999999999985

>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=96.79  E-value=0.0029  Score=40.34  Aligned_cols=38  Identities=13%  Similarity=0.234  Sum_probs=34.6

Q ss_pred             CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ..|+|+|.-.+|..+.+.|..+.||.+||++|+.....
T Consensus         2 ~~m~i~vk~~~g~~~~~~v~~~~tv~~lk~~i~~~~gi   39 (79)
T 2uyz_B            2 EYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGV   39 (79)
T ss_dssp             CEEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTC
T ss_pred             CeEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHHCC
Confidence            46999999999999999999999999999999998643

>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=96.73  E-value=0.003  Score=41.08  Aligned_cols=37  Identities=24%  Similarity=0.409  Sum_probs=33.3

Q ss_pred             CeeEEEEEcCCC-ceeeE-EEeCCCcHHHHHHHHHHHHh
Q 033077           64 SAMRISILKLDG-TSFDV-AVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        64 qAm~l~V~k~Dg-s~~~V-vV~~~ATV~dLKkAI~~~~~  100 (128)
                      ..|+|+|.-.+| ..+.| .|..+.||.+||..|+....
T Consensus         6 ~~m~i~Vk~~~g~~~~~l~~v~~~~tV~~lK~~i~~~~g   44 (89)
T 1wy8_A            6 SGMWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFD   44 (89)
T ss_dssp             SCEEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSC
T ss_pred             CcEEEEEEECCCCceEEEEecCCCCCHHHHHHHHHHHHC
Confidence            469999999999 79999 59999999999999998864

>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=96.72  E-value=0.0034  Score=39.80  Aligned_cols=37  Identities=22%  Similarity=0.341  Sum_probs=33.0

Q ss_pred             eeEEEEEcCCCcee-eEE-EeCCCcHHHHHHHHHHHHhh
Q 033077           65 AMRISILKLDGTSF-DVA-VMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        65 Am~l~V~k~Dgs~~-~Vv-V~~~ATV~dLKkAI~~~~~~  101 (128)
                      .|+|+|.-.+|..+ .+. |..+.||.+||..|+.....
T Consensus         2 ~m~i~Vk~~~g~~~~~l~~v~~~~tv~~lK~~i~~~~gi   40 (78)
T 2faz_A            2 SMWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHV   40 (78)
T ss_dssp             CEEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCC
T ss_pred             cEEEEEEECCCCEEEEEeccCCCCCHHHHHHHHHHHHCc
Confidence            58999999999885 998 99999999999999998743

>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=96.69  E-value=0.0024  Score=44.52  Aligned_cols=36  Identities=28%  Similarity=0.388  Sum_probs=33.3

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      |+|+|.-.+|..+++.|..++||.+||++|+..+..
T Consensus         1 M~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi   36 (152)
T 3b08_A            1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGI   36 (152)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCC
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHHHHHCc
Confidence            789999899999999999999999999999998754

>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=96.59  E-value=0.0027  Score=43.58  Aligned_cols=40  Identities=15%  Similarity=0.223  Sum_probs=35.0

Q ss_pred             hcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           61 EMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        61 e~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      .-|..|+|+|.-.+|..+.+.|..+.||.+||..|+....
T Consensus        19 ~~~~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~g   58 (106)
T 1ttn_A           19 NSGYECQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEG   58 (106)
T ss_dssp             --CCSEEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTC
T ss_pred             CCCCeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHHC
Confidence            3567799999999999999999999999999999998764

>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=96.52  E-value=0.0057  Score=40.61  Aligned_cols=36  Identities=17%  Similarity=0.290  Sum_probs=32.9

Q ss_pred             CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      ..|+|+|.-. |..+.+.|..+.||.+||+.|+....
T Consensus        16 ~~m~i~Vk~~-g~~~~~~v~~~~TV~~LK~~I~~~~g   51 (96)
T 1wx8_A           16 RIIRVSVKTP-QDCHEFFLAENSNVRRFKKQISKYLH   51 (96)
T ss_dssp             CEEEEEEECS-SSEEEEEEETTCCHHHHHHHHHHHTC
T ss_pred             CcEEEEEEEC-CeEEEEEECCCCCHHHHHHHHHHHhC
Confidence            4599999988 99999999999999999999999874

>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=96.47  E-value=0.0054  Score=41.47  Aligned_cols=37  Identities=24%  Similarity=0.240  Sum_probs=32.9

Q ss_pred             CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ..|+|+|. ..+..+.|.|+.++||.+||..|+..+..
T Consensus        16 ~~~~i~Vk-~~g~~~~i~v~~~~TV~~LK~~I~~~tgi   52 (95)
T 1v86_A           16 ELVDLKII-WNKTKHDVKVPLDSTGSELKQKIHSITGL   52 (95)
T ss_dssp             CCEEEEEE-ETTEEEEEEECTTSBHHHHHHHHHHHHCS
T ss_pred             ceEEEEEE-ECCEEEEEEECCCCcHHHHHHHHHHHHCc
Confidence            45899996 67899999999999999999999999864

>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=96.43  E-value=0.0068  Score=42.81  Aligned_cols=40  Identities=18%  Similarity=0.170  Sum_probs=35.3

Q ss_pred             cCCe-eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           62 MGSA-MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        62 ~GqA-m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      .|.. |.|+|.-+.|.++.|.|..++||.+||+.|+.....
T Consensus        24 ~~~~mm~I~VKtl~Gk~i~lev~p~dTV~~lK~~Ia~k~Gi   64 (100)
T 1uh6_A           24 GAATMIEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGT   64 (100)
T ss_dssp             SCCCEEEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCC
T ss_pred             CCCCeEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCC
Confidence            3444 999999999999999999999999999999999754

>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=95.43  E-value=0.0005  Score=43.44  Aligned_cols=35  Identities=20%  Similarity=0.216  Sum_probs=32.1

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      |+|+|.-.+|..+.+.|..++||.+||..|+....
T Consensus         1 M~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~g   35 (76)
T 3b1l_X            1 MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKQQG   35 (76)
Confidence            78899988999999999999999999999998764

>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=96.36  E-value=0.0078  Score=40.61  Aligned_cols=41  Identities=15%  Similarity=0.264  Sum_probs=35.9

Q ss_pred             hcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           61 EMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        61 e~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ..+..|+|+|.-++|..+.+.|..+.||.+||.+|+.....
T Consensus        17 ~~~~~m~I~Vk~~~g~~~~l~v~~~~tv~~lK~~i~~~~gi   57 (97)
T 1wyw_B           17 KEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGV   57 (97)
T ss_dssp             --CCEEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTC
T ss_pred             CCCCcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCC
Confidence            35678999999999999999999999999999999988743

>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=96.33  E-value=0.0052  Score=40.79  Aligned_cols=36  Identities=11%  Similarity=0.147  Sum_probs=30.9

Q ss_pred             CeeEEEEEcCCCc--eeeEEEeCCCcHHHHHHHHHHHH
Q 033077           64 SAMRISILKLDGT--SFDVAVMNSATVKDLKLAIKKKV   99 (128)
Q Consensus        64 qAm~l~V~k~Dgs--~~~VvV~~~ATV~dLKkAI~~~~   99 (128)
                      ..|+|+|.-.++.  .+.|.|..++||.+||+.|+..+
T Consensus         6 ~~m~i~Vk~~~~~~~~~~v~v~~~~TV~~lK~~I~~~~   43 (93)
T 1wgd_A            6 SGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVY   43 (93)
T ss_dssp             CCCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEEEEeCCCCeEEEEEecCCCCcHHHHHHHHHHHh
Confidence            4699999999998  56666669999999999999986

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

Probab=96.28  E-value=0.0079  Score=39.78  Aligned_cols=40  Identities=28%  Similarity=0.291  Sum_probs=34.4

Q ss_pred             cCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           62 MGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        62 ~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      +..+....+.+.+|..+.|.|+.++||.+||+.|+.....
T Consensus         8 ~~~~~~~~~~~~~g~~~~l~v~~~~TV~~LK~~I~~~~gi   47 (85)
T 2kd0_A            8 HSHSTIKLTVKFGGKSIPLSVSPDCTVKDLKSQLQPITNV   47 (85)
T ss_dssp             CSCCCEEEEEEETTEEEEEEECTTSBHHHHHHHHHHHHCC
T ss_pred             ccCCcEEEEEEECCEEEEEEECCCCcHHHHHHHHHHHHCc
Confidence            3456667788899999999999999999999999998753

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

Probab=96.21  E-value=0.0033  Score=43.28  Aligned_cols=36  Identities=8%  Similarity=0.184  Sum_probs=32.4

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      |+|+|.-++|..|.|.|..+.||.+||+.|+..+..
T Consensus         2 m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gi   37 (106)
T 3m62_B            2 VSLTFKNFKKEKVPLDLEPSNTILETKTKLAQSISC   37 (106)
T ss_dssp             -CEEEECTTCCEEEECCCTTSBHHHHHHHHHHTTTS
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCC
Confidence            789999999999999999999999999999998753

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

Probab=96.21  E-value=0.011  Score=40.32  Aligned_cols=39  Identities=18%  Similarity=0.275  Sum_probs=33.9

Q ss_pred             cCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           62 MGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        62 ~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ....|+|+|.-. |..+.|.|..+.||.+||..|+.....
T Consensus        22 ~~~~m~I~Vk~~-g~~~~l~v~~~~TV~~LK~~I~~~~gi   60 (101)
T 2klc_A           22 HPKIMKVTVKTP-KEKEEFAVPENSSVQQFKEEISKRFKS   60 (101)
T ss_dssp             -CCCEEEEEECS-SCEEEEEECSCCCHHHHHHHHHHHHTC
T ss_pred             CCCeEEEEEEeC-CcEEEEEECCCCCHHHHHHHHHHHHCc
Confidence            346799999888 889999999999999999999998753

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

Probab=96.20  E-value=0.0082  Score=43.73  Aligned_cols=41  Identities=29%  Similarity=0.388  Sum_probs=35.3

Q ss_pred             hcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           61 EMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        61 e~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      +....|+|+|.-.+|..+.|.|..+.||.+||+.|+..+..
T Consensus        16 ~~~~~m~i~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi   56 (172)
T 3u30_A           16 PRGSHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGI   56 (172)
T ss_dssp             ---CCEEEEEEETTTEEEEEEECTTCBHHHHHHHHHHHHCC
T ss_pred             CCCCcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCc
Confidence            34567999999999999999999999999999999998753

>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=96.11  E-value=0.013  Score=40.76  Aligned_cols=38  Identities=26%  Similarity=0.400  Sum_probs=33.7

Q ss_pred             CCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           63 GSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        63 GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      ...|+|+|.-.+|..+.+.|..++||.+||+.|+....
T Consensus        74 ~~~~~i~Vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~g  111 (152)
T 3b08_A           74 RGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG  111 (152)
T ss_dssp             TTCEEEEEEESSSCEEEEEECTTCBHHHHHHHHHHHHC
T ss_pred             ccccceeeeecCCCEEEEEeCCCCcHHHHHHHHHHHhC
Confidence            34588889889999999999999999999999998764

>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=96.10  E-value=0.012  Score=40.08  Aligned_cols=37  Identities=16%  Similarity=0.346  Sum_probs=33.0

Q ss_pred             CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ..|+|+|.-.+|. +.+.|..+.||.+||..|+.....
T Consensus        21 ~~m~I~Vk~~~g~-~~l~v~~~~TV~~LK~~I~~~~gi   57 (100)
T 1yqb_A           21 HLIKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKA   57 (100)
T ss_dssp             TEEEEEEECSSCE-EEEEEETTCBHHHHHHHHHHHHTC
T ss_pred             CeEEEEEEcCCCc-EEEEECCCCcHHHHHHHHHHHHCc
Confidence            5699999998886 799999999999999999998753

>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=96.09  E-value=0.0081  Score=42.90  Aligned_cols=37  Identities=27%  Similarity=0.471  Sum_probs=33.8

Q ss_pred             eeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           65 AMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        65 Am~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      +|+|+|.-++|..+++.|..++||.+||..|+..+..
T Consensus         2 ~m~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi   38 (159)
T 3rt3_B            2 GWDLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGV   38 (159)
T ss_dssp             -CEEEEEETTSCEEEEECCTTCCHHHHHHHHHHHHCC
T ss_pred             ceEEEEEECCCCEEEEEeCCCCcHHHHHHHHHHHhCC
Confidence            4899999899999999999999999999999999854

>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=96.08  E-value=0.013  Score=40.30  Aligned_cols=39  Identities=26%  Similarity=0.338  Sum_probs=34.6

Q ss_pred             cCCeeEEEEEcC---CCceeeEEEeC-CCcHHHHHHHHHHHHh
Q 033077           62 MGSAMRISILKL---DGTSFDVAVMN-SATVKDLKLAIKKKVN  100 (128)
Q Consensus        62 ~GqAm~l~V~k~---Dgs~~~VvV~~-~ATV~dLKkAI~~~~~  100 (128)
                      +...|+|+|.-.   +|..+.+.|.. ++||.+||..|+..+.
T Consensus        24 ~~~~i~i~Vk~~~~~~g~~~~l~v~~l~~TV~~LK~~I~~~~g   66 (111)
T 1we6_A           24 HPGPATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQ   66 (111)
T ss_dssp             CCSCEEEEECCTTCSSSCCEEEEESCSSSBHHHHHHHHHHHTT
T ss_pred             CCCcEEEEEEecccCCCcEEEEEecCCCCcHHHHHHHHHHHHC
Confidence            345799999988   88999999997 9999999999999874

>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=96.04  E-value=0.014  Score=39.75  Aligned_cols=37  Identities=16%  Similarity=0.346  Sum_probs=32.6

Q ss_pred             CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ..|+|+|.-.++. +.|.|..+.||.+||+.|+..+..
T Consensus        16 ~~m~I~Vk~~~g~-~~l~v~~~~TV~~LK~~I~~~~gi   52 (106)
T 1wx7_A           16 HLIKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKA   52 (106)
T ss_dssp             SEEEEEEECSSCE-EEEEEETTCCHHHHHHHHHHHHTC
T ss_pred             ceEEEEEEeCCCc-EEEEECCCCcHHHHHHHHHHHHCc
Confidence            4599999988886 799999999999999999998753

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

Probab=96.02  E-value=0.014  Score=39.47  Aligned_cols=39  Identities=23%  Similarity=0.196  Sum_probs=34.3

Q ss_pred             cCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           62 MGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        62 ~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ....|+|+|.-+.+ .+.|.|..+.||.+||..|+.....
T Consensus        12 ~~~~~~I~Vk~~~~-~~~l~v~~~~TV~~LK~~I~~~~gi   50 (94)
T 2kan_A           12 AVRKIHVTVKFPSK-QFTVEVDRTETVSSLKDKIHIVENT   50 (94)
T ss_dssp             SSCCEEEEEECSSC-EEEEEECTTCBHHHHHHHHHHHSSS
T ss_pred             CCCCEEEEEEcCCc-EEEEEECCCCcHHHHHHHHHHHHCc
Confidence            45679999999888 8999999999999999999998643

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

Probab=96.01  E-value=0.0036  Score=42.97  Aligned_cols=42  Identities=24%  Similarity=0.245  Sum_probs=31.6

Q ss_pred             hhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           59 SLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        59 ale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      -++-|..|+|+|.- +|..|.|.|..+.||.+||+.|+..+..
T Consensus        22 ~l~~~m~i~I~Vk~-~g~~~~l~v~~~~TV~~LK~~I~~~~gi   63 (101)
T 3m63_B           22 YFQGAMSLNIHIKS-GQDKWEVNVAPESTVLQFKEAINKANGI   63 (101)
T ss_dssp             -------CCEEEEC-SSCCCCBCCCTTSBHHHHHHHHHHHHSC
T ss_pred             cccCCcEEEEEEEE-CCEEEEEEeCCCCCHHHHHHHHHHHHCc
Confidence            34556678888886 8999999999999999999999998753

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

Probab=95.97  E-value=0.015  Score=40.58  Aligned_cols=39  Identities=15%  Similarity=0.178  Sum_probs=34.7

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhhhh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQ  104 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~~  104 (128)
                      |.+.+.+..|..++|.|..++||.+||..|+..+.--+.
T Consensus         9 m~~~~vk~~Gk~~~v~v~~~~TV~~LK~~I~~~tgIpp~   47 (100)
T 2dzm_A            9 MLDFRVEYRDRNVDVVLEDTCTVGEIKQILENELQIPVS   47 (100)
T ss_dssp             EEEEEEECSSCEEEEEEETTSBHHHHHHHHHHHHCCCTT
T ss_pred             eEEEEEEeCCeEEEEEECCCCcHHHHHHHHHHHHCCChh
Confidence            778888999999999999999999999999999865433

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

Probab=95.96  E-value=0.013  Score=39.27  Aligned_cols=38  Identities=13%  Similarity=0.093  Sum_probs=30.9

Q ss_pred             cCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           62 MGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        62 ~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ....|+|+|.-  |..+.+.|..++||.+||..|+.....
T Consensus        16 ~~~~m~I~Vk~--g~~~~l~v~~~~TV~~LK~~I~~~~gi   53 (93)
T 2l7r_A           16 PRGSMQLFVRA--QELHTFEVTGQETVAQIKAHVASLEGI   53 (93)
T ss_dssp             ----CEEEEES--SSEEEEECCSSCBHHHHHHHHHHHHTC
T ss_pred             CCCcEEEEEEC--CCEEEEEeCCCCcHHHHHHHHHHHhCc
Confidence            34569999987  899999999999999999999998753

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

Probab=95.92  E-value=0.013  Score=40.38  Aligned_cols=36  Identities=28%  Similarity=0.338  Sum_probs=32.0

Q ss_pred             CeeEEEEEcCCCceeeEEEe-CCCcHHHHHHHHHHHHh
Q 033077           64 SAMRISILKLDGTSFDVAVM-NSATVKDLKLAIKKKVN  100 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~VvV~-~~ATV~dLKkAI~~~~~  100 (128)
                      ..|.|+|.-.+|.. .|.|. .++||.|||..|+..+.
T Consensus         6 ~~M~irvrs~~G~~-~v~v~~~~~Tv~~LK~kI~~~~g   42 (107)
T 1wf9_A            6 SGTMLRVRSRDGLE-RVSVDGPHITVSQLKTLIQDQLQ   42 (107)
T ss_dssp             CCEEEEEECSSCEE-EEEECCTTSBHHHHHHHHHHHSC
T ss_pred             CeEEEEEECCCCCE-EEEECCCCCcHHHHHHHHHHHhC
Confidence            45999999999966 78898 89999999999999885

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

Probab=95.87  E-value=0.011  Score=44.12  Aligned_cols=35  Identities=29%  Similarity=0.437  Sum_probs=32.9

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      |.|+|.-++|..+.+.|..+.||.+||+.|+....
T Consensus         1 MqI~Vk~~~Gk~~~l~v~~~~TV~~LK~~I~~~~g   35 (169)
T 3l0w_B            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEG   35 (169)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHC
T ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHHC
Confidence            78999999999999999999999999999999875

>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=95.84  E-value=0.019  Score=38.97  Aligned_cols=37  Identities=11%  Similarity=0.209  Sum_probs=31.5

Q ss_pred             eeEEEEEcCCC----ceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           65 AMRISILKLDG----TSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        65 Am~l~V~k~Dg----s~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      .|+|+|.-..+    ..|.|.|..++||.+||..|+..+..
T Consensus         7 ~m~I~Vk~~~~~~~~~~~~i~v~~~~TV~~LK~~I~~~~gi   47 (102)
T 1v5o_A            7 GMLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGV   47 (102)
T ss_dssp             CEEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTCC
T ss_pred             eEEEEEEECCCCcCceEEEEEcCCCCCHHHHHHHHHHHHCc
Confidence            48898877533    79999999999999999999998754

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

Probab=95.83  E-value=0.015  Score=44.89  Aligned_cols=37  Identities=24%  Similarity=0.312  Sum_probs=34.2

Q ss_pred             eeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           65 AMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        65 Am~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      +|.|+|.-++|.+++|.|..+.||.+||..|+.....
T Consensus       105 eMqI~VKtl~Gkt~~l~V~~s~TV~~LK~kI~~~~gI  141 (189)
T 3q3f_A          105 GGQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGI  141 (189)
T ss_dssp             CEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCC
T ss_pred             ceeeeeecCCCCEEEEEeCCCCcHHHHHHHHHhccCC
Confidence            4999999999999999999999999999999998743

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

Probab=95.82  E-value=0.019  Score=40.90  Aligned_cols=37  Identities=19%  Similarity=0.302  Sum_probs=33.6

Q ss_pred             CCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           63 GSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        63 GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      ...|+|+|.-. |..|.|.|..+.||.+||..|+..+.
T Consensus        30 ~~~m~I~Vk~~-g~~~~l~v~~~~TV~~LK~~I~~~~g   66 (125)
T 1j8c_A           30 PKIIKVTVKTP-KEKEEFAVPENSSVQQFKEAISKRFK   66 (125)
T ss_dssp             CCCEEEEEECS-SCEEEEEECTTCCHHHHHHHHHHHHC
T ss_pred             CCcEEEEEEeC-CeEEEEEECCCCcHHHHHHHHHHHHC
Confidence            35699999988 89999999999999999999999875

>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=95.79  E-value=0.019  Score=40.92  Aligned_cols=39  Identities=21%  Similarity=0.138  Sum_probs=34.2

Q ss_pred             CCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           63 GSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        63 GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ...|.|+|.-.+|..+++.|..+.||.+||..|+.....
T Consensus        79 ~~~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi  117 (159)
T 3rt3_B           79 DEPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGV  117 (159)
T ss_dssp             CCCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTC
T ss_pred             CCcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHHHHCC
Confidence            456888888889999999999999999999999988743

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

Probab=95.76  E-value=0.017  Score=40.29  Aligned_cols=39  Identities=23%  Similarity=0.296  Sum_probs=35.0

Q ss_pred             CCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           63 GSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        63 GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      -....|+|..++|..+.+.|..++||.+||..|+.....
T Consensus         7 ~~~~~i~vk~l~G~~~~l~v~~~~TV~~LK~~I~~~~gi   45 (114)
T 2kdi_A            7 HGEFQIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGI   45 (114)
T ss_dssp             CCCCEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCC
T ss_pred             CCcEEEEEEeCCCcEEEEEECCCCcHHHHHHHHHHHHCc
Confidence            345789999999999999999999999999999998753

>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=95.74  E-value=0.019  Score=38.96  Aligned_cols=37  Identities=11%  Similarity=0.089  Sum_probs=32.4

Q ss_pred             CeeEEEEEcCCCcee-eEEEeCCCcHHHHHHHHHHHHhh
Q 033077           64 SAMRISILKLDGTSF-DVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~-~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ..|+|+|. ..|..+ +|.|..++||.+||..|+.....
T Consensus         6 ~~m~i~Vk-~~g~~~~~l~v~~~~TV~~lK~~I~~~tgi   43 (96)
T 1wgg_A            6 SGYSVTVK-WGKEKFEGVELNTDEPPMVFKAQLFALTGV   43 (96)
T ss_dssp             CEEEEEEE-ETTEEEEEEEEESSSCHHHHHHHHHHHTCC
T ss_pred             cEEEEEEE-ECCEEEEEEEECCCCcHHHHHHHHHHHHCc
Confidence            46899997 578999 69999999999999999999854

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

Probab=95.69  E-value=0.0063  Score=40.13  Aligned_cols=35  Identities=14%  Similarity=0.200  Sum_probs=30.1

Q ss_pred             eEEEEEcCCCceeeEE-EeCCCcHHHHHHHHHHHHhh
Q 033077           66 MRISILKLDGTSFDVA-VMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        66 m~l~V~k~Dgs~~~Vv-V~~~ATV~dLKkAI~~~~~~  101 (128)
                      |+|+|.-.+|... |. |..++||.|||.+|+.....
T Consensus         1 m~i~vr~~~G~~~-v~~l~~~~Tv~~Lk~~I~~~~gi   36 (86)
T 2kzr_A            1 WRVRCKAKGGTHL-LQGLSSRTRLRELQGQIAAITGI   36 (86)
T ss_dssp             CCEEEEETTEEEE-ECSCCTTCBHHHHHHHHHHHTCC
T ss_pred             CEEEEEcCCCCEE-eeecCCCCCHHHHHHHHHHHhCC
Confidence            7889998999654 77 88899999999999998753

>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=95.68  E-value=0.0081  Score=40.02  Aligned_cols=37  Identities=27%  Similarity=0.347  Sum_probs=32.3

Q ss_pred             CeeEEEEEcCCCceeeE-EEeCCCcHHHHHHHHHHHHhh
Q 033077           64 SAMRISILKLDGTSFDV-AVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~V-vV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ..|+|+|. ..|..++| .|+.++||.+||..|+.....
T Consensus         6 ~~m~i~Vk-~~g~~~~i~~v~~~~TV~~lK~~I~~~~gi   43 (90)
T 1v5t_A            6 SGLPIIVK-WGGQEYSVTTLSEDDTVLDLKQFLKTLTGV   43 (90)
T ss_dssp             CSCCEEEE-ETTEEEEECSCCSSSBHHHHHHHHHHHTCC
T ss_pred             ceEEEEEE-ECCEEEEEEEeCCCCCHHHHHHHHHHHHCc
Confidence            35889986 47899999 999999999999999999864

>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=95.65  E-value=0.0019  Score=45.79  Aligned_cols=36  Identities=28%  Similarity=0.390  Sum_probs=0.0

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      |+|+|.-.+|..++|.|..++||.+||..|+..+..
T Consensus         1 M~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~gi   36 (128)
T 3u5e_m            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGI   36 (128)
T ss_dssp             ------------------------------------
T ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCc
Confidence            788999999999999999999999999999987643

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

Probab=95.62  E-value=0.019  Score=41.58  Aligned_cols=37  Identities=5%  Similarity=0.202  Sum_probs=33.7

Q ss_pred             cCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHH
Q 033077           62 MGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKK   98 (128)
Q Consensus        62 ~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~   98 (128)
                      .+..|.|+|.-++|..+++.|..+.||++||..|+..
T Consensus        14 ~~~~m~I~vktl~G~~~~lev~~s~TV~~lK~~I~~~   50 (125)
T 2gow_A           14 PADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDN   50 (125)
T ss_dssp             CTTCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHSS
T ss_pred             CCCeEEEEEEeCCCCEEEEEeCCccHHHHHHHHHHHH
Confidence            4566999999999999999999999999999999873

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

Probab=95.55  E-value=0.022  Score=39.43  Aligned_cols=36  Identities=14%  Similarity=0.116  Sum_probs=31.4

Q ss_pred             CeeEEEEEcCCCc--eeeEEEeCCCcHHHHHHHHHHHH
Q 033077           64 SAMRISILKLDGT--SFDVAVMNSATVKDLKLAIKKKV   99 (128)
Q Consensus        64 qAm~l~V~k~Dgs--~~~VvV~~~ATV~dLKkAI~~~~   99 (128)
                      ..|+|+|.-+++.  .++|.|+.+.||.+||..|+..+
T Consensus        22 ~~m~I~VK~~~g~~~~i~l~v~~~~TV~~LK~~I~~~~   59 (99)
T 2kdb_A           22 HPVTLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVY   59 (99)
T ss_dssp             -CEEEEEECTTSSSCCEEEEECTTSBHHHHHHHHHHHS
T ss_pred             CeEEEEEEcCCCCEEEEEEEcCCCCHHHHHHHHHHHHh
Confidence            4699999999998  56888899999999999999875

>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=95.39  E-value=0.028  Score=39.67  Aligned_cols=38  Identities=16%  Similarity=0.094  Sum_probs=32.5

Q ss_pred             CCeeEEEEEcCC----CceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           63 GSAMRISILKLD----GTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        63 GqAm~l~V~k~D----gs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      |-| ||.|..-+    +..|+|.|..+.||.+||..|+..+..
T Consensus        14 g~a-ti~V~~~~~~~~~~~~~lev~~~~TV~~lK~kI~~k~gi   55 (100)
T 1wju_A           14 GIA-TIEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGL   55 (100)
T ss_dssp             CEE-EEEEECCTTTCCSSSEEEEEESSSBHHHHHHHHHHHTTC
T ss_pred             ceE-EEEEEecCCCCCCcEEEEEeCCcCHHHHHHHHHHHHHCc
Confidence            444 78887777    789999999999999999999999853

>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=95.38  E-value=0.032  Score=36.72  Aligned_cols=36  Identities=17%  Similarity=0.390  Sum_probs=30.7

Q ss_pred             CeeEEEEEcCCCceeeEEEeCC-----CcHHHHHHHHHHHHh
Q 033077           64 SAMRISILKLDGTSFDVAVMNS-----ATVKDLKLAIKKKVN  100 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~VvV~~~-----ATV~dLKkAI~~~~~  100 (128)
                      ..|+|+|.- .+..+.|.|+.+     +||.+||+.|+....
T Consensus         6 ~~~~v~Vk~-~~~~~~i~v~~~~~~~~~TV~~LK~~i~~~~g   46 (92)
T 1wxv_A            6 SGLTVTVTH-SNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIG   46 (92)
T ss_dssp             SSEEEEEEC-SSSEEEEEECCCSSSSSCBHHHHHHHHHHHTC
T ss_pred             CeEEEEEEE-CCEEEEEEECCCcCcccCcHHHHHHHHHHHHC
Confidence            358999976 588999999874     999999999999874

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

Probab=95.31  E-value=0.025  Score=38.02  Aligned_cols=34  Identities=21%  Similarity=0.184  Sum_probs=29.6

Q ss_pred             eEEEEEcCCCcee--eE-EEeCCCcHHHHHHHHHHHH
Q 033077           66 MRISILKLDGTSF--DV-AVMNSATVKDLKLAIKKKV   99 (128)
Q Consensus        66 m~l~V~k~Dgs~~--~V-vV~~~ATV~dLKkAI~~~~   99 (128)
                      |.|+|.-+.|..+  .| .|..++||.+||+.|+...
T Consensus        11 M~I~Vk~~~g~~~~~~l~~v~~~~TV~~lK~~I~~~~   47 (88)
T 2dzj_A           11 YEVEILDAKTREKLCFLDKVEPHATIAEIKNLFTKTH   47 (88)
T ss_dssp             EEEEEEESSSCCCCEEEEEECSSCBHHHHHHHHHHHC
T ss_pred             EEEEEECCCCCEEeeEEeEcCCCCcHHHHHHHHHHHh
Confidence            8999998887665  58 8999999999999999853

>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=95.29  E-value=0.034  Score=39.91  Aligned_cols=35  Identities=6%  Similarity=0.231  Sum_probs=32.5

Q ss_pred             CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHH
Q 033077           64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKK   98 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~   98 (128)
                      ..|.|+|.-+.|..+++.|..+.||++||..|+..
T Consensus        15 ~~m~I~vKtl~G~t~~lev~~s~TV~~lK~kI~~~   49 (116)
T 1wgh_A           15 DMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDN   49 (116)
T ss_dssp             SSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHS
T ss_pred             CeEEEEEEeCCCCEEEEEECCcCHHHHHHHHHHHh
Confidence            45999999999999999999999999999999984

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

Probab=94.86  E-value=0.048  Score=37.70  Aligned_cols=36  Identities=17%  Similarity=0.390  Sum_probs=30.2

Q ss_pred             CCeeEEEEEcCCCceeeE--EEeCCCcHHHHHHHH-HHH
Q 033077           63 GSAMRISILKLDGTSFDV--AVMNSATVKDLKLAI-KKK   98 (128)
Q Consensus        63 GqAm~l~V~k~Dgs~~~V--vV~~~ATV~dLKkAI-~~~   98 (128)
                      ...|+|+|.-+.|..|++  .|..+.||.+||..| +..
T Consensus        17 ~~~m~I~VKtl~g~~~~i~v~v~~~~TV~~lK~~I~~~~   55 (98)
T 4a20_A           17 NAAVHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEE   55 (98)
T ss_dssp             -CCEEEEEEECSSSCEEEEEEECTTCBHHHHHHHHHHTT
T ss_pred             CCCEEEEEEcCCCCEEEEEEecCCCChHHHHHHHHHHHh
Confidence            467999999999998877  456999999999999 654

>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=94.82  E-value=0.022  Score=39.11  Aligned_cols=35  Identities=14%  Similarity=0.101  Sum_probs=30.8

Q ss_pred             eeEEEEEcCCC---ceeeEEEeC---------CCcHHHHHHHHHHHH
Q 033077           65 AMRISILKLDG---TSFDVAVMN---------SATVKDLKLAIKKKV   99 (128)
Q Consensus        65 Am~l~V~k~Dg---s~~~VvV~~---------~ATV~dLKkAI~~~~   99 (128)
                      .|+|+|.-.++   ..+.|.|+.         +.||.+||+.|+...
T Consensus        12 ~~~i~Vk~~~~~~~~~~~l~v~~~~~~~v~~~~~TV~~LK~~i~~~~   58 (107)
T 1x1m_A           12 DWHLAVKLADQPLAPKSILQLPETELGEYSLGGYSISFLKQLIAGKL   58 (107)
T ss_dssp             SCCEEEEETTCTTSCCEEECCCCCSSCSSCCCCCBHHHHHHHHHHHC
T ss_pred             ceEEEEEeCCCCCccEEEEEecCccccccCcccCCHHHHHHHHHHHh
Confidence            48899999999   899999665         599999999999876

>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=94.77  E-value=0.067  Score=37.54  Aligned_cols=40  Identities=13%  Similarity=0.215  Sum_probs=34.6

Q ss_pred             cCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           62 MGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        62 ~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ...-|.|+|.-..|.++.|.|..+.||.+||+.|+.+...
T Consensus        18 ~~~mIqI~Vk~~~Gkk~~v~v~p~DTI~~LK~~I~~k~Gi   57 (93)
T 3plu_A           18 GSHMIEVVVNDRLGKKVRVKCLGEDSVGDFKKVLSLQIGT   57 (93)
T ss_dssp             --CEEEEEEECTTSCEEEEEEETTSBHHHHHHHHHHHHTC
T ss_pred             CCceEEEEEECCCCCEEEEEECCcCHHHHHHHHHHHHhCC
Confidence            4556889999899999999999999999999999988754

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

Probab=94.56  E-value=0.069  Score=38.76  Aligned_cols=38  Identities=26%  Similarity=0.376  Sum_probs=33.2

Q ss_pred             CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ..|+|+|.-.+|..+++.|..+.||.+||+.|+.....
T Consensus        95 gg~~i~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi  132 (172)
T 3u30_A           95 GGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGI  132 (172)
T ss_dssp             CCEEEEEEESSCCEEEEEECTTCBHHHHHHHHHHHHCC
T ss_pred             ccccceeecccCcceeEEecCCCCHHHHHHHHHHHhCC
Confidence            45777788889999999999999999999999998743

>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=94.55  E-value=0.056  Score=37.37  Aligned_cols=37  Identities=14%  Similarity=0.219  Sum_probs=31.4

Q ss_pred             CeeEEEEEcC----------CCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           64 SAMRISILKL----------DGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        64 qAm~l~V~k~----------Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      ..++|.|.--          +|..+.+.|..+.||.+||..|+....
T Consensus        24 ~~i~l~V~~p~~~~~~~~~L~G~~~~l~v~~~~TV~~LK~~I~~~~g   70 (115)
T 1we7_A           24 GPVSIKVQVPNMQDKTEWKLNGQGLVFTLPLTDQVSVIKVKIHEATG   70 (115)
T ss_dssp             SCEEEEEEECCCSSSCSSCCSSEEEEEEECSCSBTHHHHHHHHHHSS
T ss_pred             CCEEEEEEcCCCccccccccCCeEEEEEECCCCCHHHHHHHHHHHHC
Confidence            4788888763          578999999999999999999998764

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

Probab=94.39  E-value=0.037  Score=37.44  Aligned_cols=34  Identities=15%  Similarity=0.325  Sum_probs=29.2

Q ss_pred             eEEEEEcCCCceeeEEEe--CCCcHHHHHHHH-HHHH
Q 033077           66 MRISILKLDGTSFDVAVM--NSATVKDLKLAI-KKKV   99 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~--~~ATV~dLKkAI-~~~~   99 (128)
                      |+|+|.-+.|.+|+|.|.  .+.||.+||..| +...
T Consensus         2 mqI~VKtl~g~~~~i~v~v~~~~TV~~lK~~I~~~~~   38 (87)
T 2lxa_A            2 VHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEK   38 (87)
T ss_dssp             CEEEEEECSSSCEECCEECCTTCBHHHHHHHHHHTTS
T ss_pred             EEEEEEcCCCCEEEEEEcCCCCCcHHHHHHHHHHHhc
Confidence            789999999988877755  999999999999 6554

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

Probab=94.36  E-value=0.067  Score=44.16  Aligned_cols=40  Identities=25%  Similarity=0.374  Sum_probs=36.2

Q ss_pred             cCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           62 MGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        62 ~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ....|+|+|.-++|..+.|.|..+.||.+||+.|+.....
T Consensus       230 ~~~~MqI~VKtl~Gk~~~leV~~s~TV~dLK~kI~~~~GI  269 (307)
T 3ai5_A          230 ITGSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGI  269 (307)
T ss_dssp             SCCCEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCC
T ss_pred             CCCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCc
Confidence            4578999999999999999999999999999999998753

>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=94.12  E-value=0.0088  Score=44.51  Aligned_cols=35  Identities=29%  Similarity=0.437  Sum_probs=0.0

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      |.|+|.-++|..+.|.|..+.||.+||..|+..+.
T Consensus         1 MqI~VK~l~G~~~~l~V~~~~TV~~LK~~I~~~~g   35 (152)
T 3u5c_f            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEG   35 (152)
T ss_dssp             -----------------------------------
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHHHHhC
Confidence            67889889999999999999999999999998774

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

Probab=94.04  E-value=0.075  Score=35.57  Aligned_cols=38  Identities=13%  Similarity=0.156  Sum_probs=32.7

Q ss_pred             CeeEEEEEc---CCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           64 SAMRISILK---LDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        64 qAm~l~V~k---~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ..++|+|..   .++..+.+.++.+.||.+||.-|++.|..
T Consensus         8 ~~v~l~I~~~~~~~~~~~e~~l~~~~TV~~LK~~i~~~~gi   48 (97)
T 1wjn_A            8 QLLTLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKV   48 (97)
T ss_dssp             CEEEEEEEESSCSSSCCEEEEEETTSBHHHHHHHHHTTTTC
T ss_pred             ccEEEEEEecCCCCCcEEEEECCCCCCHHHHHHHHHHHHCC
Confidence            347887754   68899999999999999999999999964

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

Probab=93.18  E-value=0.18  Score=35.76  Aligned_cols=38  Identities=16%  Similarity=0.023  Sum_probs=31.6

Q ss_pred             eeEEEEEcCCC--ceeeEEEeCCCcHHHHHHHHHHHHhhh
Q 033077           65 AMRISILKLDG--TSFDVAVMNSATVKDLKLAIKKKVNDM  102 (128)
Q Consensus        65 Am~l~V~k~Dg--s~~~VvV~~~ATV~dLKkAI~~~~~~~  102 (128)
                      .|+++|.-..+  .++.+.|..++||.+||..|+..+..-
T Consensus        24 ~l~v~v~d~~s~~~~i~l~V~ps~TV~~LK~~I~~k~Gip   63 (105)
T 4dbg_A           24 RLWVSVEDAQMHTVTIWLTVRPDMTVASLKDMVFLDYGFP   63 (105)
T ss_dssp             EEEEEEEESSSCCEEEEEEECTTCBHHHHHHHHHHHHCCC
T ss_pred             EEEEEEEccCCCCceEEEEECCcChHHHHHHHHHHHhCCC
Confidence            46777777775  688889999999999999999998543

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

Probab=93.07  E-value=0.15  Score=41.74  Aligned_cols=40  Identities=18%  Similarity=0.230  Sum_probs=33.9

Q ss_pred             CCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhhh
Q 033077           63 GSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDME  103 (128)
Q Consensus        63 GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~  103 (128)
                      ...|+|+|. ..|..++|.|..++||.+||+.|+..+.--+
T Consensus         3 ~~~i~i~Vk-~~g~~~~v~v~~~~Tv~~lK~~I~~~tgVpp   42 (320)
T 3shq_A            3 VKEVVVIVK-WSGKEYPVDLTDQDTVEVLRHEIFRKTQVRP   42 (320)
T ss_dssp             -CEEEEEEE-ETTEEEEEEEETTSBHHHHHHHHHHHHCCCG
T ss_pred             CceEEEEEE-ECCEEEEEEECCCCcHHHHHHHHHHHHCcCH
Confidence            456888887 6899999999999999999999999886433

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

Probab=93.04  E-value=0.15  Score=37.32  Aligned_cols=36  Identities=11%  Similarity=0.098  Sum_probs=32.5

Q ss_pred             eeEEEEE-cCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           65 AMRISIL-KLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        65 Am~l~V~-k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      .+++.|. .-++..+.|.+..++||+|||.+|...+.
T Consensus        15 ~itvkv~l~~~~~k~tv~v~~d~TV~dLKe~ls~~~~   51 (118)
T 2daf_A           15 LATVKVVLIPVGQEIVIPFKVDTILKYLKDHFSHLLG   51 (118)
T ss_dssp             CEEEEEEETTTCCEEEEEECSSSCSHHHHHHHHHHHT
T ss_pred             cEEEEEEEcCCCcEEEEEeCCCCcHHHHHHHHHhhhC
Confidence            4788886 88899999999999999999999999884

>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=92.51  E-value=0.25  Score=32.92  Aligned_cols=36  Identities=14%  Similarity=0.094  Sum_probs=29.5

Q ss_pred             eEEEEEcCCCc-eeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           66 MRISILKLDGT-SFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        66 m~l~V~k~Dgs-~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ++|.|..-..+ .+.+.|+.+.||.+||..|+..+..
T Consensus         8 v~l~I~~~~~~~~~~~~v~~~~TV~~lK~ki~~~~gi   44 (95)
T 1v6e_A            8 VMVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGS   44 (95)
T ss_dssp             EEEEEEETTSSSCEEEEECTTSBHHHHHHHHHHHTCS
T ss_pred             EEEEEEECCCCeeEEEEcCccCHHHHHHHHHHHHHCC
Confidence            67777754443 6899999999999999999999853

>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=92.34  E-value=0.29  Score=35.75  Aligned_cols=38  Identities=24%  Similarity=0.318  Sum_probs=33.8

Q ss_pred             hcCCeeEEEEEcCCCcee-eEEEeCCCcHHHHHHHHHHH
Q 033077           61 EMGSAMRISILKLDGTSF-DVAVMNSATVKDLKLAIKKK   98 (128)
Q Consensus        61 e~GqAm~l~V~k~Dgs~~-~VvV~~~ATV~dLKkAI~~~   98 (128)
                      |-...|.|+|.-++|+.| ++.+..+.||.+||..|...
T Consensus        12 ~~~~~~~i~~kt~~G~~i~~l~v~psdTV~~lK~kI~~~   50 (126)
T 1se9_A           12 EVHNQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISE   50 (126)
T ss_dssp             SSCCCEEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHH
T ss_pred             hhcccEEEEEEECCCCEEEeeecCccCHHHHHHHHHHhh
Confidence            345789999999999999 79999999999999999764

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

Probab=91.90  E-value=0.4  Score=32.67  Aligned_cols=36  Identities=17%  Similarity=0.321  Sum_probs=29.1

Q ss_pred             eeEEEEEcCCC--ceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           65 AMRISILKLDG--TSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        65 Am~l~V~k~Dg--s~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      -++|.|.-..+  ..+++.|+.+.||.+||.-|+..+.
T Consensus        15 ~v~l~It~s~~~~~~~~~~v~~~~TV~~LK~kI~~~~G   52 (95)
T 2kjr_A           15 FIKVNVSNSHNDAVAFEVKLAKDLTVAQLKTKLEILTG   52 (95)
T ss_dssp             EEEEEEEESSCSCEEEEEEEETTCBHHHHHHHHHHHHC
T ss_pred             eEEEEEEECCCCceEEEEEeCccCHHHHHHHHHHHHHC
Confidence            45666665444  3899999999999999999999985

>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=91.64  E-value=0.39  Score=33.68  Aligned_cols=37  Identities=14%  Similarity=0.155  Sum_probs=30.5

Q ss_pred             eeEEEEEcCCCc-eeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           65 AMRISILKLDGT-SFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        65 Am~l~V~k~Dgs-~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      .++|.|.-..++ .+.+.|+.+.||.+||..|+.++..
T Consensus         6 ~v~l~V~~~~~~~~~e~~v~~~~TV~~lK~ki~~~~Gi   43 (122)
T 1t0y_A            6 VYDLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGT   43 (122)
T ss_dssp             EEEEEEEESSCCSCEEEEEETTSBHHHHHHHHHHHHCC
T ss_pred             EEEEEEEECCCCccEEEEeCCCCcHHHHHHHHHHHhCC
Confidence            478888765443 6899999999999999999999853

>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=91.48  E-value=0.13  Score=43.25  Aligned_cols=36  Identities=31%  Similarity=0.385  Sum_probs=33.1

Q ss_pred             CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHH
Q 033077           64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKV   99 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~   99 (128)
                      ..|+|+|.-++|..|.|.|..+.||.+||+.|+..+
T Consensus         6 ~~M~I~VKtl~Gk~~~leV~~~~TV~~LK~~I~~~~   41 (368)
T 1oqy_A            6 SAVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEK   41 (368)
T ss_dssp             CCCCEEEEETTTEEEEECCCTTCBHHHHHHHHHHHT
T ss_pred             ceEEEEEEeCCCCEEEEEeCCCChHHHHHHHHHHHh
Confidence            359999999999999999999999999999999864

>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=90.40  E-value=1.7  Score=27.96  Aligned_cols=57  Identities=9%  Similarity=0.113  Sum_probs=45.8

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHH
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKK   98 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~   98 (128)
                      ++..||.++|-++|....+ .+|.-..+.+.+..+.+-......=.+..+-.+||+..
T Consensus        19 ~V~nlp~~~t~~~l~~~F~-~~G~i~~v~i~~~~g~~~g~afV~f~~~~~A~~A~~~l   75 (103)
T 2d9p_A           19 YVKNLDDGIDDERLRKAFS-PFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTEM   75 (103)
T ss_dssp             EEECCCTTCCHHHHHHTTT-TTSCEEEEEEEECSSSEEEEEEEEESSHHHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHH-hcCCEEEEEEEcCCCCcCEEEEEEECCHHHHHHHHHHh
Confidence            4668999999999998887 79999899998876666555555667888888998753

>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=90.27  E-value=0.6  Score=33.72  Aligned_cols=35  Identities=20%  Similarity=0.182  Sum_probs=30.5

Q ss_pred             eeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           65 AMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        65 Am~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      .|.|+|++.. +++.+.|..+.||.+||.-|+....
T Consensus         2 ~mfl~ir~~k-tti~lev~~sdTV~~lK~kI~~~eg   36 (118)
T 2fnj_B            2 DVFLMIRRHK-TTIFTDAKESSTVFELKRIVEGILK   36 (118)
T ss_dssp             EEEEEEEEBT-EEEEEEEETTSBHHHHHHHHHHHHC
T ss_pred             cEEEEEecCC-EEEEEEeCCcChHHHHHHHHHHHhC
Confidence            5788888754 7799999999999999999999874

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

Probab=90.23  E-value=1.4  Score=28.63  Aligned_cols=40  Identities=8%  Similarity=0.140  Sum_probs=34.9

Q ss_pred             cCCeeEEEEEcCCCc-eeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           62 MGSAMRISILKLDGT-SFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        62 ~GqAm~l~V~k~Dgs-~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      .+..|+|.|.-.+|. .+.+-|.++.++..|+.|+......
T Consensus         4 ~~~~i~ikV~~~~g~~~i~~~i~~~t~l~kl~~~y~~~~gi   44 (79)
T 3a4r_A            4 GSQELRLRVQGKEKHQMLEISLSPDSPLKVLMSHYEEAMGL   44 (79)
T ss_dssp             CCCCEEEEEECSSTTCEEEEEECTTSCHHHHHHHHHHHHTC
T ss_pred             CCCEEEEEEEeCCCCEEEEEEECCCChHHHHHHHHHHHhCC
Confidence            457799999999996 8999999999999999999877643

>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=89.79  E-value=1.7  Score=29.28  Aligned_cols=40  Identities=13%  Similarity=0.219  Sum_probs=34.9

Q ss_pred             hcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           61 EMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        61 e~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      +.+..|+|.|.-.+|..+.+-|.++.++..|+.|+.....
T Consensus        13 ~~~~~i~ikV~~~~g~~i~~~v~~~t~l~kl~~~y~~~~g   52 (93)
T 2d07_B           13 ENNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQG   52 (93)
T ss_dssp             --CCEEEEEEECTTSCEEEEEEETTSCHHHHHHHHHHHHT
T ss_pred             CCCCeEEEEEECCCCCEEEEEEccCCHHHHHHHHHHHHhC
Confidence            4578899999999999999999999999999999987764

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

Probab=89.72  E-value=0.062  Score=41.77  Aligned_cols=35  Identities=23%  Similarity=0.376  Sum_probs=0.0

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      |.|+|.-++|.+|.+.|..+.||.+||..|+....
T Consensus         1 MqI~VKtL~GktitLeV~~sdTV~~LK~kI~~keG   35 (189)
T 2xzm_9            1 MQVQVKTLEGETKIYTLEQGTSVLDLKSQISQDMG   35 (189)
T ss_dssp             -----------------------------------
T ss_pred             CEEEEEcCCCCEEEEEECCcChHHHHHHHHHHHhC
Confidence            78899999999999999999999999999998753

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A

Probab=89.34  E-value=2.4  Score=26.44  Aligned_cols=57  Identities=16%  Similarity=0.144  Sum_probs=45.4

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHH
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKK   98 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~   98 (128)
                      ++..||.++|-++|....+ .+|.-..+.+.+..|.+-......=.+..+-.+||+..
T Consensus        12 ~V~nlp~~~t~~~l~~~f~-~~G~v~~~~i~~~~g~~~g~afV~f~~~~~a~~a~~~l   68 (92)
T 2dgv_A           12 FVRNLPFDFTWKMLKDKFN-ECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRMM   68 (92)
T ss_dssp             EECSCCTTCCHHHHHHHHH-TTSCEEEEEEEESSSCEEEEEEEEESSHHHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHH-hcCCEEEEEEEccCCCcceEEEEEECCHHHHHHHHHHh
Confidence            3568999999999998776 58998899998866665555556667888999998863

>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens}

Probab=88.96  E-value=2.7  Score=25.85  Aligned_cols=56  Identities=16%  Similarity=0.176  Sum_probs=43.8

Q ss_pred             ccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcC--CCceeeEEEeCCCcHHHHHHHHHHH
Q 033077           42 LADVPKKPTLSDVDTLISLEMGSAMRISILKL--DGTSFDVAVMNSATVKDLKLAIKKK   98 (128)
Q Consensus        42 L~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~--Dgs~~~VvV~~~ATV~dLKkAI~~~   98 (128)
                      +..||.++|-++|....+ .+|.-..+.+.+.  .|.+-......=.+..+-.+||+..
T Consensus        11 v~nlp~~~t~~~l~~~F~-~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l   68 (87)
T 3bs9_A           11 VGDLSPEITTAAIAAAFA-PFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM   68 (87)
T ss_dssp             EESCCTTCCHHHHHHHHG-GGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHH
T ss_pred             EeCCCCCCCHHHHHHHHH-hcCCEeEEEEEecCCCCccceEEEEEECCHHHHHHHHHHc
Confidence            568999999999999888 7899888888775  4555445555567888888998754

>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=88.83  E-value=0.9  Score=30.82  Aligned_cols=39  Identities=13%  Similarity=0.249  Sum_probs=34.1

Q ss_pred             cCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           62 MGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        62 ~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      .+..|+|.|.-.+|..+.+-|..+.++..|+.|++....
T Consensus         4 ~~~~i~ikVk~~~g~~i~~~v~~~t~l~kl~~~y~~~~g   42 (94)
T 2io1_B            4 MNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQG   42 (94)
T ss_dssp             --CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHHT
T ss_pred             CCCeEEEEEECCCCCEEEEEECCCCHHHHHHHHHHHHhC
Confidence            356799999999999999999999999999999988764

>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=88.47  E-value=1.4  Score=27.90  Aligned_cols=35  Identities=11%  Similarity=0.235  Sum_probs=31.8

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      |+|.|.-.+|..+.+-|..+.++..|+.|+.....
T Consensus         2 i~lkV~~~~g~~v~~~v~~~t~l~kl~~~y~~~~g   36 (72)
T 1wm3_A            2 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQG   36 (72)
T ss_dssp             EEEEEECTTSCEEEEEECTTSCTHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhC
Confidence            78999999999999999999999999999987654

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

Probab=87.88  E-value=0.28  Score=32.46  Aligned_cols=37  Identities=14%  Similarity=0.161  Sum_probs=31.5

Q ss_pred             CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      .+|.|+|+--+| .+-|.|..++||.||+..|+..+..
T Consensus         3 ~~m~lRvrs~~G-~~Ri~v~~~~t~~~L~~~I~~~~~i   39 (80)
T 2pjh_A            3 ESIIIRVQSPDG-VKRITATKRETAATFLKKVAKEFGF   39 (80)
T ss_dssp             CCCCCEEECSSE-EEECCCCSSCCHHHHHHHHHHHTCC
T ss_pred             CcEEEEEECCCC-CEEEEcCCcChHHHHHHHHHHHcCC
Confidence            468899988887 5667788999999999999999864

>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A

Probab=87.86  E-value=3  Score=27.28  Aligned_cols=56  Identities=18%  Similarity=0.219  Sum_probs=43.5

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcC--CCceeeEEEeCCCcHHHHHHHHHH
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKL--DGTSFDVAVMNSATVKDLKLAIKK   97 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~--Dgs~~~VvV~~~ATV~dLKkAI~~   97 (128)
                      ++..||.++|-++|....+ .+|.-..+.|.+.  .+.+--.....=.+..+-.+||+.
T Consensus        19 ~V~nlp~~~t~~~l~~~F~-~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~   76 (115)
T 2dgo_A           19 FVGDLSPEITTEDIKAAFA-PFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQ   76 (115)
T ss_dssp             EEESCCTTCCHHHHHHHHG-GGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHH-hcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHH
Confidence            4568999999999999888 8899888888875  555544555555778888888875

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

Probab=87.78  E-value=1.8  Score=30.45  Aligned_cols=40  Identities=18%  Similarity=0.228  Sum_probs=35.7

Q ss_pred             hcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           61 EMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        61 e~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      ..+..|+|.|.-.+|..+.+-|..+.++..|+.|+.....
T Consensus        22 ~~~~~I~IkVk~~~g~~i~fkVk~~t~l~kL~~ay~ek~g   61 (110)
T 2k8h_A           22 EETALVAVKVVNADGAEMFFRIKSRTALKKLIDTYCKKQG   61 (110)
T ss_dssp             CCCCCEEEEEEETTSCCEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCCCeEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhC
Confidence            3567899999999999999999999999999999988754

>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=87.40  E-value=3.4  Score=26.40  Aligned_cols=57  Identities=11%  Similarity=0.007  Sum_probs=43.6

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcC-CCceeeEEEeCCCcHHHHHHHHHH
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKL-DGTSFDVAVMNSATVKDLKLAIKK   97 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~-Dgs~~~VvV~~~ATV~dLKkAI~~   97 (128)
                      ++.+||.++|-++|....+-.+|.-..+.|.+. .|.+--.....=.+..+-++||+.
T Consensus        13 ~V~nLp~~~t~~~l~~~F~~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~   70 (104)
T 2dhg_A           13 FVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTE   70 (104)
T ss_dssp             EEECCCTTCCHHHHHHHHHHHCTTEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHHH
Confidence            356899999999999988866999888888765 444444455556788888889873

>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=87.24  E-value=1.3  Score=29.96  Aligned_cols=38  Identities=11%  Similarity=0.218  Sum_probs=33.7

Q ss_pred             CCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           63 GSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        63 GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      +..|+|.|.-.||..+.+-|.++.++..|+.|+.....
T Consensus         3 ~~~i~ikVk~~~g~~v~~~vk~~t~l~kl~~~y~~~~g   40 (91)
T 2io0_B            3 NDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQG   40 (91)
T ss_dssp             -CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHTT
T ss_pred             CCeEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhC
Confidence            67899999999999999999999999999999987653

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

Probab=86.52  E-value=1.2  Score=30.44  Aligned_cols=36  Identities=19%  Similarity=0.219  Sum_probs=28.6

Q ss_pred             eeEEEEEcCC--CceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           65 AMRISILKLD--GTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        65 Am~l~V~k~D--gs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      -++|.|.--.  ...+++.|+.+.||.+||.-|+..+.
T Consensus        14 ~v~l~It~s~~~~~~~e~~v~~~~TV~~LK~kIe~~~G   51 (97)
T 2kj6_A           14 SVHLHITHANLKSFSADARFSPQMSVEAVKEKLWKKCG   51 (97)
T ss_dssp             CEEEEEEETTSSCCCEEEEECTTCCHHHHHHHHHHHHC
T ss_pred             eEEEEEEECCCCceEEEEEeCCCChHHHHHHHHHHHHC
Confidence            3566666433  34799999999999999999999985

>2cpz_A CUG triplet repeat RNA-binding protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2rq4_A 2rqc_A

Probab=86.43  E-value=3.5  Score=26.99  Aligned_cols=57  Identities=11%  Similarity=0.106  Sum_probs=44.1

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcC--CCceeeEEEeCCCcHHHHHHHHHHH
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKL--DGTSFDVAVMNSATVKDLKLAIKKK   98 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~--Dgs~~~VvV~~~ATV~dLKkAI~~~   98 (128)
                      ++..||.++|-++|..... .+|.-..+.|.+.  .+.+--.....=.+..+-.+||+..
T Consensus        29 ~V~nLp~~~t~~~l~~~F~-~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l   87 (115)
T 2cpz_A           29 FIYHLPQEFGDQDLLQMFM-PFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSM   87 (115)
T ss_dssp             EEESCCSSCCHHHHHHHHG-GGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHH-hcCCeEEEEEEECCCCCCcCccEEEEECCHHHHHHHHHHc
Confidence            4668999999999999888 7898777777765  4555555556667888999998753

>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=84.49  E-value=4.2  Score=26.01  Aligned_cols=56  Identities=23%  Similarity=0.269  Sum_probs=43.0

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcC--CCceeeEEEeCCCcHHHHHHHHHH
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKL--DGTSFDVAVMNSATVKDLKLAIKK   97 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~--Dgs~~~VvV~~~ATV~dLKkAI~~   97 (128)
                      ++..||.++|-++|....+ .+|.-..+.+.+.  .+.+-......=.+..+-.+||+.
T Consensus        19 ~V~nlp~~~t~~~l~~~f~-~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~   76 (103)
T 2cq0_A           19 RVTNLSEDTRETDLQELFR-PFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAG   76 (103)
T ss_dssp             EEESCCTTCCHHHHHTTST-TTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHH-hCCCeEEEEEeecCCCCceeeEEEEEECCHHHHHHHHHH
Confidence            4668999999999998776 6898888888765  455544555566788888999885

>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation, RNA-binding, EIF4G-binding translation; 1.90A {Homo sapiens} PDB: 4f26_A 2k8g_A

Probab=84.47  E-value=4.2  Score=27.03  Aligned_cols=57  Identities=14%  Similarity=0.135  Sum_probs=44.8

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHH
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKK   98 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~   98 (128)
                      +..+||.++|-++|..... .+|.-..+.|.+..+.+-......=.+..+-.+||+..
T Consensus         9 fV~nLp~~~te~~L~~~F~-~~G~v~~v~i~~d~~~~kg~afV~f~~~~~A~~Ai~~l   65 (115)
T 4f25_A            9 FIKNLDKSIDNKALYDTFS-AFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKM   65 (115)
T ss_dssp             EEESCCTTCCHHHHHHHHG-GGSCEEEEEEEEETTEEEEEEEEEESCHHHHHHHHHHH
T ss_pred             EECCCCCCCCHHHHHHHHh-ccCCEEEEEEeecCCCCCceEEEEECCHHHHHHHHHHc
Confidence            4568999999999998876 68998888888877765445555667888889999763

>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A 2dno_A

Probab=84.29  E-value=5.5  Score=25.45  Aligned_cols=56  Identities=21%  Similarity=0.274  Sum_probs=41.9

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcC-CCceeeEEEeCCCcHHHHHHHHHH
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKL-DGTSFDVAVMNSATVKDLKLAIKK   97 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~-Dgs~~~VvV~~~ATV~dLKkAI~~   97 (128)
                      ++..||.++|-++|..... .+|.-..+.|.+. +|.+-......=.+..+-.+||+.
T Consensus        19 ~v~nLp~~~t~~~l~~~F~-~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~   75 (105)
T 2dnh_A           19 FVGMLNKQQSEEDVLRLFQ-PFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHA   75 (105)
T ss_dssp             EEESCCTTCCHHHHHHHHT-TTSCEEEEEEEECSSSCEEEEEEEEESSHHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHH-hcCCeEEEEEEECCCCCcCcEEEEEeCCHHHHHHHHHH
Confidence            3568999999999998887 7898888888765 343333444455778888888874

>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=84.17  E-value=4.4  Score=25.92  Aligned_cols=57  Identities=14%  Similarity=0.201  Sum_probs=41.8

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHH
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKK   98 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~   98 (128)
                      ++..||.++|-++|....+ .+|.-..+.|.+..+.+-......=.+..+-.+||+..
T Consensus        19 ~V~nlp~~~t~~~l~~~f~-~~G~v~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l   75 (103)
T 2cq3_A           19 HVSNIPFRFRDPDLRQMFG-QFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKL   75 (103)
T ss_dssp             EEESCCTTCCHHHHHHHGG-GTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHH-hcCCeEEEEEEecCCCCcEEEEEEECCHHHHHHHHHHh
Confidence            4568999999999998876 68988888888765543333334446678888888743

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=83.60  E-value=5  Score=25.51  Aligned_cols=56  Identities=14%  Similarity=0.114  Sum_probs=39.0

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHH
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKK   98 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~   98 (128)
                      ++.+||.++|-++|..... .++ .+++...+..+.+--.....=.+..+-.+||+..
T Consensus        19 ~V~nLp~~~t~~~l~~~F~-~~~-~~~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l   74 (102)
T 2fc8_A           19 FVKGLSEDTTEETLKESFD-GSV-RARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAM   74 (102)
T ss_dssp             EEECCCTTCCHHHHHHTST-TCS-EEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHH
T ss_pred             EEeCCCCccCHHHHHHHhc-CCe-EEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHh
Confidence            4668999999999998887 443 3444444445555555555667888889998753

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=83.49  E-value=4.3  Score=25.65  Aligned_cols=56  Identities=14%  Similarity=0.204  Sum_probs=41.4

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCC-----ceeeEEEeCCCcHHHHHHHHHH
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKLDG-----TSFDVAVMNSATVKDLKLAIKK   97 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dg-----s~~~VvV~~~ATV~dLKkAI~~   97 (128)
                      ++.+||.++|-++|....+ .+|.-..+.+.+...     .+-......=.+..+-.+||+.
T Consensus         9 ~V~nLp~~~t~~~l~~~F~-~~G~i~~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~   69 (98)
T 2cpf_A            9 FIKNLNFSTTEETLKGVFS-KVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQ   69 (98)
T ss_dssp             EEESCCTTCCHHHHHHHHH-TTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHH-hcCCeEEEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHH
Confidence            3568999999999998887 789888888876533     3333444455678888888874

>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=83.32  E-value=3.7  Score=26.80  Aligned_cols=51  Identities=18%  Similarity=0.372  Sum_probs=39.6

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHH
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKK   97 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~   97 (128)
                      +...||.++|.++|..... .+|.-..+.|.+. |  |..  ..=++..+.++||+.
T Consensus        19 ~V~nLp~~~t~~~l~~~F~-~~G~i~~~~i~~~-g--~af--V~f~~~~~a~~Ai~~   69 (108)
T 1x4c_A           19 VVSGLPPSGSWQDLKDHMR-EAGDVCYADVYRD-G--TGV--VEFVRKEDMTYAVRK   69 (108)
T ss_dssp             EEESCCSSCCHHHHHHHHG-GGSCEEEEEEETT-T--EEE--EEESSHHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHH-hcCCEeEEEEecC-C--EEE--EEECCHHHHHHHHHH
Confidence            4568999999999998877 7898888888876 2  333  344668888999975

>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural genomi center for structural genomics, JCSG, protein structure INI PSI-biology; 2.54A {Homo sapiens} PDB: 1no8_A

Probab=83.25  E-value=6.6  Score=25.12  Aligned_cols=57  Identities=18%  Similarity=0.236  Sum_probs=42.7

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcC-CCceeeEEEeCCCcHHHHHHHHHHH
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKL-DGTSFDVAVMNSATVKDLKLAIKKK   98 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~-Dgs~~~VvV~~~ATV~dLKkAI~~~   98 (128)
                      ++..||.++|-++|..... .+|.-..+.+.+. .|.+-......=.+..+-++||+..
T Consensus        33 ~V~nlp~~~t~~~l~~~F~-~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l   90 (107)
T 3ulh_A           33 LVSNLDFGVSDADIQELFA-EFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQY   90 (107)
T ss_dssp             EEESCCTTCCHHHHHHHHH-TTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHH-hcCCeEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHh
Confidence            3558999999999998887 7898777777754 4444445555567888999998854

>4fxv_A ELAV-like protein 1; RNA recognition motif, putative RNA-binding domain, transcri structural genomics, joint center for structural genomics; 1.90A {Homo sapiens}

Probab=83.09  E-value=6.6  Score=25.63  Aligned_cols=57  Identities=25%  Similarity=0.377  Sum_probs=42.9

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcC--CCceeeEEEeCCCcHHHHHHHHHHH
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKL--DGTSFDVAVMNSATVKDLKLAIKKK   98 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~--Dgs~~~VvV~~~ATV~dLKkAI~~~   98 (128)
                      +...||.++|-++|..... .+|.-..+.|.+.  .|.+--.....=.+..+-.+||+..
T Consensus        23 fV~nLp~~~te~~L~~~F~-~~G~I~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~l   81 (99)
T 4fxv_A           23 IVNYLPQNMTQDELRSLFS-SIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL   81 (99)
T ss_dssp             EEESCCTTCCHHHHHHHHH-TTSCEEEEEEEECSSSCCEEEEEEEEESSHHHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHH-hcCCEEEeEeeecCCCCcccccEEEEECCHHHHHHHHHHh
Confidence            5678999999999998876 6898888888764  3555444445557788888998763

>3au4_A Myosin-X; protein-protein complex, motor protein cargo transportation, protein-apoptosis complex; 1.90A {Homo sapiens} PDB: 3au5_A 3pzd_A

Probab=82.96  E-value=3.3  Score=35.16  Aligned_cols=54  Identities=11%  Similarity=0.180  Sum_probs=46.5

Q ss_pred             CCCCHHHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhhh
Q 033077           47 KKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDME  103 (128)
Q Consensus        47 ~~vT~~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~  103 (128)
                      ..|+..||.+   +..|+.+.+.|.-+||+...|.|..++|+.||-..|.+++.+.+
T Consensus       201 ~~Ps~~Ei~a---~~~~~~~~~~V~l~dg~~~~~~v~~~tt~~el~~~v~~~lgL~e  254 (555)
T 3au4_A          201 FVPSRDEIEA---LIHRQEMTSTVYCHGGGSCKITINSHTTAGEVVEKLIRGLAMED  254 (555)
T ss_dssp             SCCCHHHHHH---HHTTCCEEEEEEETTSCEEEEEECTTCBHHHHHHHHHHHTTCTT
T ss_pred             CCCCHHHHHH---HHhCCCcceEEEecCCCeEEEEeCCCCcHHHHHHHHHHHcCCCC
Confidence            3457788765   55688999999999999999999999999999999999987753

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

Probab=82.94  E-value=1  Score=31.54  Aligned_cols=39  Identities=21%  Similarity=0.285  Sum_probs=28.4

Q ss_pred             hhhcCCeeEEEEEcCCCceeeEEEeCCCcHHH-HHHHHHH
Q 033077           59 SLEMGSAMRISILKLDGTSFDVAVMNSATVKD-LKLAIKK   97 (128)
Q Consensus        59 ale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~d-LKkAI~~   97 (128)
                      |..-|.+|.|+|+.-++....|-|..+.|+.| |+.|.++
T Consensus         3 ~~~~~~~m~v~Vl~~n~rr~~VKvtp~t~L~~VL~eaC~K   42 (90)
T 2al3_A            3 APAGGGGSAVSVLAPNGRRHTVKVTPSTVLLQVLEDTCRR   42 (90)
T ss_dssp             -------CCEEEECTTSCEEEECCCTTSBHHHHHHHHHHH
T ss_pred             ccccCCccEEEEEcCCCcEEEEEECCCCCHHHHHHHHHHH
Confidence            34568899999999999999999999999999 5666553

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

Probab=82.88  E-value=2.1  Score=29.03  Aligned_cols=44  Identities=20%  Similarity=0.213  Sum_probs=36.0

Q ss_pred             cCCeeEEEEE--cCCCceeeEEEeCCCcHHHHHHHHHHHHhhhhhh
Q 033077           62 MGSAMRISIL--KLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQS  105 (128)
Q Consensus        62 ~GqAm~l~V~--k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~~r  105 (128)
                      +|.-+.||+.  .-.+..||+.||..-||++|.+++...++....+
T Consensus         1 ~~~yI~ITidl~~y~~~~~DLRIP~~~tvK~Li~~l~ea~~l~~~~   46 (81)
T 2bps_A            1 HGSYIDITIDLKHYNGSVFDLRLSDYHPVKKVIDIAWQAQSVSMPP   46 (81)
T ss_dssp             CCCEEEEEEECTTTTCCEEEEEEETTSBTTHHHHHHHHHSCCCSCC
T ss_pred             CCcEEEEEEEeeccCCceEEEECCCchhHHHHHHHHHHHhCCCcCC
Confidence            3555666666  5688999999999999999999999999876543

>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=81.90  E-value=4.6  Score=28.26  Aligned_cols=40  Identities=8%  Similarity=0.190  Sum_probs=35.2

Q ss_pred             hhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           60 LEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        60 le~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      ...+..|+|.|.- +|..+.+-|.++.++.-|+.|+.....
T Consensus        26 ~~~~~~I~IkV~~-~g~~i~fkIk~tt~l~kL~~ay~ek~g   65 (106)
T 2eke_C           26 VKPETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQG   65 (106)
T ss_dssp             CCCCSEEEEEEEC-SSCEEEEEEETTSCTHHHHHHHHHHHT
T ss_pred             CCCCCeEEEEEec-CCcEEEEEeCCCCHHHHHHHHHHHHhC
Confidence            3467889999999 999999999999999999999887664

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

Probab=81.77  E-value=1.5  Score=29.15  Aligned_cols=36  Identities=8%  Similarity=0.039  Sum_probs=28.0

Q ss_pred             eEEEEE--cCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           66 MRISIL--KLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        66 m~l~V~--k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ++|+|-  -.+...+++.++.+.||.+||..|+..+.-
T Consensus         3 V~v~iths~~~~~~~E~r~~~s~TI~~lK~ki~~~~Gi   40 (86)
T 4b6w_A            3 VKVSLTHSASRMRVPEKRYGLAQTIESIKENVFTHFAT   40 (86)
T ss_dssp             EEEEEEETTCSCCEEEEEEETTSBHHHHHHHHHTTSCC
T ss_pred             EEEEEEEcCCCCeEEEEEcCccCcHHHHHHHHHHHHCC
Confidence            344443  345667899999999999999999988743

>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=81.67  E-value=7.9  Score=25.02  Aligned_cols=57  Identities=21%  Similarity=0.226  Sum_probs=42.1

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcC-CCceeeEEEeCCCcHHHHHHHHHHH
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKL-DGTSFDVAVMNSATVKDLKLAIKKK   98 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~-Dgs~~~VvV~~~ATV~dLKkAI~~~   98 (128)
                      ++..||.++|-++|..... .+|.-..+.|.+. ++.+--.....=.+..+-.+||+..
T Consensus        19 ~V~nlp~~~~~~~l~~~f~-~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l   76 (114)
T 2do0_A           19 FVANLDYKVGWKKLKEVFS-MAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMF   76 (114)
T ss_dssp             EEESCCTTCCHHHHHHHHT-TTSCEEEEEEEECTTCSEEEEEEEEESSHHHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHH-hcCCeEEEEEEECCCCCeeeEEEEEECCHHHHHHHHHHh
Confidence            4568999999999998887 7898777777664 3444444445556788888998754

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

Probab=81.58  E-value=4.1  Score=28.22  Aligned_cols=41  Identities=12%  Similarity=0.181  Sum_probs=36.1

Q ss_pred             hcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           61 EMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        61 e~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      +.+..|+|.|.-.+|..+.+-|.++.++..|+.|+......
T Consensus        20 ~~~~~I~IkVk~~~g~~i~~kVk~~t~l~kL~~~y~ek~gi   60 (104)
T 1wz0_A           20 ENNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGL   60 (104)
T ss_dssp             SCSCCEEEEEECSSSCEEEEEECTTSCHHHHHHHHHHHHTC
T ss_pred             CCCCeEEEEEECCCCCEEEEEEcCCChHHHHHHHHHHHhCC
Confidence            35678999999999999999999999999999999877643

>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=80.17  E-value=3.9  Score=29.59  Aligned_cols=35  Identities=20%  Similarity=0.167  Sum_probs=28.2

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      |=|.|.|. .+++.+.|..+.||.+||+.|+.....
T Consensus         3 vFl~Ikr~-ktTI~ldve~sdTV~~lK~kI~~~~gi   37 (118)
T 4ajy_B            3 VFLMIRRH-KTTIFTDAKESSTVFELKRIVEGILKR   37 (118)
T ss_dssp             EEEEEEEB-TEEEEEEEETTSBHHHHHHHHHHHHCC
T ss_pred             eEEEEecC-CEEEEEEcCCCChHHHHHHHHHHHHCC
Confidence            44555554 778889999999999999999998753

---

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	128
d1v2ya_	105	d.15.1.1 (A:) Ubiquitin-like protein 3300001g02rik	4e-08

>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 = 45.8 bits (108), Expect = 4e-08
 Identities = 21/54 (38%), Positives = 31/54 (57%)

Query: 63  GSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQV 116
            S M + + K+DG    V V+ +ATV DLK AI++ V   ++   G +HISW  
Sbjct: 5   SSGMTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSY 58

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	128
d1v2ya_	105	Ubiquitin-like protein 3300001g02rik {Mouse (Mus m	99.68
d1bt0a_	73	Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxI	97.46
d1ttna1	80	Dendritic cell-derived ubiquitin-like protein {Hum	97.24
d1wx9a1	73	Large proline-rich protein BAT3 {Human (Homo sapie	97.24
d1z2ma2	76	Interferon-induced 15 kDa protein {Human (Homo sap	97.22
d1m94a_	73	Ubiquitin-like modifier protein hub1 {Baker's yeas	97.21
d1v5oa_	102	1700011n24rik protein {Mouse (Mus musculus) [TaxId	97.18
d1oqya4	77	Ubiquitin-like domain of Rad23 homolog A (Hhr23a)	97.15
d1ogwa_	76	Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}	97.14
d1uela_	95	Ubiquitin-like domain of Rad23 homolog B (Hhr23B)	97.13
d1wh3a_	87	2'-5'-oligoadenylate synthetase-like protein, OASL	97.12
d2faza1	76	Ubiquitin-like PHD and RING finger domain-containi	97.09
d2zeqa1	78	Ubiquitin-like domain of parkin {Mouse (Mus muscul	97.07
d1wy8a1	76	Ubiquitin-like PHD and RING finger domain-containi	96.81
d1v86a_	95	hypothetical D7wsu128e protein {Mouse (Mus musculu	96.64
d1z2ma1	76	Interferon-induced 15 kDa protein {Human (Homo sap	96.63
d1wxva1	81	Bag-family molecular chaperone regulator-1 {Human	96.3
d1zkha1	86	Splicing factor 3 subunit 1, C-terminal domain {Hu	96.26
d2bwfa1	73	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	96.21
d1wgda_	93	Homocysteine-responsive endoplasmic reticulum-resi	96.0
d1wiaa_	95	Ubiquitin-like protein bab25500 (2010008E23Rik) {M	96.0
d1yqba1	84	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	95.91
d1se9a_	101	Hypothetical protein At3g01050 {Thale cress (Arabi	95.55
d1uh6a_	100	Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculu	95.54
d1wgga_	96	Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (M	95.5
d1j8ca_	103	Ubiquitin-like N-terminal domain of PLIC-2 {Human	95.42
d1wjna_	97	Tubulin-folding protein TbcE {Mouse (Mus musculus)	94.92
d1v5ta_	90	8430435i17rik protein {Mouse (Mus musculus) [TaxId	94.81
d1euvb_	79	SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomy	94.78
d1wx8a1	83	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	94.76
d1wjua_	100	NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens	94.48
d1wgha_	116	Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculu	94.25
d2uyzb1	77	SUMO-1 (smt3 homologue) {Human (Homo sapiens) [Tax	94.11
d1we6a_	111	Splicing factor 3 subunit 1, C-terminal domain {Th	92.35
d2c9wb1	103	Elongin B {Human (Homo sapiens) [TaxId: 9606]}	89.79
d1ef1a3	84	Moesin {Human (Homo sapiens) [TaxId: 9606]}	88.8
d1v6ea_	95	Ubiquitin-like domain of tubulin folding cofactor	88.78
d1wf9a1	94	NPL4-like protein 1 {Thale cress (Arabidopsis thal	87.53
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	86.06
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	85.97
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	85.35
d1gg3a3	81	Erythroid membrane protein 4.1R {Human (Homo sapie	84.81
d1t0ya_	90	Ubiquitin-like domain of tubulin folding cofactor	84.76
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	84.22
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	82.95
d1h4ra3	84	Merlin {Human (Homo sapiens) [TaxId: 9606]}	82.71
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	82.5
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	82.19
d1wgya_	104	Rap guanine nucleotide exchange factor 5, RapGEF5	81.85
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	81.69
d1vjka_	88	Molybdopterin synthase subunit MoaD {Pyrococcus fu	81.39
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	81.26
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	80.88
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	80.65
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	80.28

>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=99.68  E-value=2.8e-17  Score=114.92  Aligned_cols=65  Identities=32%  Similarity=0.455  Sum_probs=62.5

Q ss_pred             CCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhhhhhcCCceeeeccccccceeeecCC
Q 033077           63 GSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVFIAPSIQSCSS  127 (128)
Q Consensus        63 GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~~r~~g~~~ISWk~VW~~fcL~f~~  127 (128)
                      ...|+|+|...||..|+|.|..++||+|||++|++.+...+.++.++++|||+|+|++|||.|.|
T Consensus         5 ss~M~v~Vk~~~G~~~~v~V~~~~TV~~LK~~I~~~~~ip~~~Qr~~~~~~~~~~~~~~~Li~~G   69 (105)
T d1v2ya_           5 SSGMTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAG   69 (105)
T ss_dssp             CCSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSS
T ss_pred             CCcEEEEEEeCCCCEEEEEECCCChHHHHHHHHHHHHCcCHHHhcccccccccccccceEEEECC
Confidence            46799999999999999999999999999999999999999999999999999999999999987

>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=97.46  E-value=0.00014  Score=45.69  Aligned_cols=36  Identities=19%  Similarity=0.352  Sum_probs=33.5

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      |.|+|.-++|.+|++.|..+.||++||+.|+....-
T Consensus         1 M~I~Vk~~~G~~~~l~V~~~~tV~~lK~~i~~~~gi   36 (73)
T d1bt0a_           1 MLIKVKTLTGKEIEIDIEPTDTIDRIKERVEEKEGI   36 (73)
T ss_dssp             CEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHCC
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCC
Confidence            789999999999999999999999999999998754

>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=97.24  E-value=0.00018  Score=46.14  Aligned_cols=38  Identities=16%  Similarity=0.239  Sum_probs=35.8

Q ss_pred             CCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           63 GSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        63 GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      |+-|+|+|.-.+|.+|++.|..+.||.+||+.|+....
T Consensus         1 g~e~qi~Vk~~~G~~~~l~V~~~~tV~~lK~~I~~~~~   38 (80)
T d1ttna1           1 GYECQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEG   38 (80)
T ss_dssp             CCSEEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTC
T ss_pred             CCeEEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhC
Confidence            78899999999999999999999999999999998764

>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=97.24  E-value=0.00028  Score=44.49  Aligned_cols=35  Identities=23%  Similarity=0.288  Sum_probs=33.2

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      |+|+|.-++|..+++.|..+.||++||..|+....
T Consensus         1 m~I~Vk~~~g~~~~l~V~~~~tV~~lK~~I~~~~g   35 (73)
T d1wx9a1           1 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVS   35 (73)
T ss_dssp             EEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHC
T ss_pred             CEEEEEcCCCCEEEEEECCCChHHHHHHHHHHHhC
Confidence            78999999999999999999999999999999875

>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=97.22  E-value=0.00035  Score=43.96  Aligned_cols=38  Identities=21%  Similarity=0.141  Sum_probs=35.2

Q ss_pred             CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      .+|+|+|.-.+|.++++.|..+.||.+||+.|+....-
T Consensus         2 ~~~qi~Vk~~~G~~~~l~v~~~~tV~~lK~~I~~~~gi   39 (76)
T d1z2ma2           2 EPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGV   39 (76)
T ss_dssp             CCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTC
T ss_pred             CCEEEEEEcCCCCEEEEEECCCCcHHHHHHHHHHHhcC
Confidence            47999999999999999999999999999999998754

>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=97.21  E-value=0.00046  Score=43.58  Aligned_cols=36  Identities=14%  Similarity=0.269  Sum_probs=33.5

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      |.|+|.-..|.+++|.|..+.||.+||+.|+..+..
T Consensus         2 i~i~vk~~~Gk~~~v~V~~~~tV~~lK~~I~~~~~i   37 (73)
T d1m94a_           2 IEVVVNDRLGKKVRVKCLAEDSVGDFKKVLSLQIGT   37 (73)
T ss_dssp             EEEEEEETTTEEEEEEECTTSBHHHHHHHHHHHHCC
T ss_pred             eEEEEECCCCCEEEEEECCcCcHHHHHHHHHHhhcc
Confidence            689999999999999999999999999999998854

>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=97.18  E-value=0.00025  Score=47.98  Aligned_cols=37  Identities=16%  Similarity=0.289  Sum_probs=32.8

Q ss_pred             CeeEEEE----EcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           64 SAMRISI----LKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        64 qAm~l~V----~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      .-|+|+|    ..+++.+|+|.|..++||.+||+.|+..+.
T Consensus         6 ~~m~itV~~~~~~~~~~t~~l~V~~~~tV~~LK~~Ie~~~g   46 (102)
T d1v5oa_           6 SGMLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESG   46 (102)
T ss_dssp             CCEEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTC
T ss_pred             CCEEEEEEecccCCCCCEEEEEECCcccHHHHHHHHHHHhC
Confidence            4588888    567899999999999999999999998775

>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=97.15  E-value=0.00016  Score=45.95  Aligned_cols=35  Identities=29%  Similarity=0.375  Sum_probs=33.2

Q ss_pred             eeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHH
Q 033077           65 AMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKV   99 (128)
Q Consensus        65 Am~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~   99 (128)
                      +|+|+|.-++|..|+|.|..+.||++||+.|+...
T Consensus         2 ~~~i~vk~l~g~~~~l~v~~~~TV~~lK~~i~~~~   36 (77)
T d1oqya4           2 AVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEK   36 (77)
T ss_dssp             CCCEEEEETTTEEEEECCCTTCBHHHHHHHHHHHT
T ss_pred             cEEEEEECCCCCEEEEEECCCCcHHHHHHHHHHhc
Confidence            68999999999999999999999999999998875

>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=97.14  E-value=0.00033  Score=44.22  Aligned_cols=36  Identities=28%  Similarity=0.388  Sum_probs=33.5

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      |+|+|.-++|.+|++.|..+.||.+||..|+.....
T Consensus         1 MqI~Vk~l~G~~~~l~v~~~~tV~~lK~~I~~~~gi   36 (76)
T d1ogwa_           1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGI   36 (76)
T ss_dssp             CEEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCC
T ss_pred             CEEEEEcCCCCEEEEEECCCCcHHHHHHhhhhhcCC
Confidence            789999999999999999999999999999988754

>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=97.13  E-value=0.00031  Score=46.01  Aligned_cols=35  Identities=26%  Similarity=0.423  Sum_probs=32.8

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      |.|+|.-++|.+|.|.|..+.||.+||+.|+....
T Consensus         1 M~I~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~   35 (95)
T d1uela_           1 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKG   35 (95)
T ss_dssp             CEEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHC
T ss_pred             CEEEEEeCCCCEEEEEECCCccHHHHHHHHHhhhc
Confidence            88999999999999999999999999999998763

>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=97.12  E-value=0.00041  Score=44.95  Aligned_cols=38  Identities=21%  Similarity=0.333  Sum_probs=35.2

Q ss_pred             CCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           63 GSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        63 GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      ...|+|+|.-++|.+|++.|..+.||.+||..|+....
T Consensus         5 s~~mqI~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~g   42 (87)
T d1wh3a_           5 SSGIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQG   42 (87)
T ss_dssp             SSSEEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTC
T ss_pred             CCcEEEEEECCCCCEEEEEECCcCcHHHHHHHHHHHHC
Confidence            56899999999999999999999999999999998764

>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=97.09  E-value=0.00077  Score=43.06  Aligned_cols=36  Identities=22%  Similarity=0.372  Sum_probs=32.1

Q ss_pred             eEEEEEcCCCc-eeeEE-EeCCCcHHHHHHHHHHHHhh
Q 033077           66 MRISILKLDGT-SFDVA-VMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        66 m~l~V~k~Dgs-~~~Vv-V~~~ATV~dLKkAI~~~~~~  101 (128)
                      |+|+|.-++|. ++.+. |+.+.||++||..|+.....
T Consensus         1 M~I~Vktl~Gk~t~~l~~v~~~~tV~~lK~~I~~~~gi   38 (76)
T d2faza1           1 MWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHV   38 (76)
T ss_dssp             EEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCC
T ss_pred             CEEEEEeCCCCcEEEEecCCCCCCHHHHHHHHHHHHCc
Confidence            89999999994 88885 89999999999999998854

>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=97.07  E-value=0.00052  Score=43.91  Aligned_cols=37  Identities=19%  Similarity=0.194  Sum_probs=34.5

Q ss_pred             eeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           65 AMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        65 Am~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      +|.|+|.=.+|.+|+|.|..+.||++||..|+.....
T Consensus         2 ~M~I~Vk~~~g~t~~l~v~~~~tV~~lK~~i~~~~gi   38 (78)
T d2zeqa1           2 GMIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKRQGV   38 (78)
T ss_dssp             CEEEEEESSSSSCEEEEECTTCBHHHHHHHHHHHHTC
T ss_pred             ceEEEEEcCCCCEEEEEEcccccHHHHHHHHHHHHCc
Confidence            6999999999999999999999999999999998754

>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=96.81  E-value=0.001  Score=42.43  Aligned_cols=35  Identities=23%  Similarity=0.410  Sum_probs=31.4

Q ss_pred             eEEEEEcCCC-ceeeEE-EeCCCcHHHHHHHHHHHHh
Q 033077           66 MRISILKLDG-TSFDVA-VMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        66 m~l~V~k~Dg-s~~~Vv-V~~~ATV~dLKkAI~~~~~  100 (128)
                      |+|+|.-++| .++.+. |..++||++||..|+....
T Consensus         1 M~I~Vk~l~G~~t~~~~~v~~~~TV~~lK~~I~~~~g   37 (76)
T d1wy8a1           1 MWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFD   37 (76)
T ss_dssp             EEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSC
T ss_pred             CEEEEEeCCCCceEEEeccCCCChHHHHHHHHHHHHC
Confidence            8999999999 578874 9999999999999999874

>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=96.64  E-value=0.0014  Score=43.27  Aligned_cols=37  Identities=24%  Similarity=0.240  Sum_probs=33.3

Q ss_pred             CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ..|+|+|. .++..|+|.|+.++||++||+.|+..+.-
T Consensus        16 ~~i~v~V~-~~~k~~~i~v~~~~TV~~LK~~I~~~tgv   52 (95)
T d1v86a_          16 ELVDLKII-WNKTKHDVKVPLDSTGSELKQKIHSITGL   52 (95)
T ss_dssp             CCEEEEEE-ETTEEEEEEECTTSBHHHHHHHHHHHHCS
T ss_pred             cEEEEEEE-ECCEEEEEEECCCCcHHHHHHHHHHHhCC
Confidence            46899985 79999999999999999999999998864

>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=96.63  E-value=0.0014  Score=41.50  Aligned_cols=35  Identities=29%  Similarity=0.503  Sum_probs=31.9

Q ss_pred             EEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           67 RISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        67 ~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      .|+|.-++|..|+|.|..++||.+||..|+....-
T Consensus         2 ~l~Vk~l~G~~~~v~V~~~~tV~~lK~~I~~~~gi   36 (76)
T d1z2ma1           2 DLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGV   36 (76)
T ss_dssp             EEEEEESSSCEEEEECCSSCCHHHHHHHHHHHHCC
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhcc
Confidence            47888899999999999999999999999998854

>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=96.30  E-value=0.0033  Score=40.33  Aligned_cols=37  Identities=14%  Similarity=0.302  Sum_probs=31.3

Q ss_pred             eeEEEEEcCCCceeeEEEe-----CCCcHHHHHHHHHHHHhhh
Q 033077           65 AMRISILKLDGTSFDVAVM-----NSATVKDLKLAIKKKVNDM  102 (128)
Q Consensus        65 Am~l~V~k~Dgs~~~VvV~-----~~ATV~dLKkAI~~~~~~~  102 (128)
                      +|+|+| +-.+..++|.|+     .++||+|||+.|+..+..-
T Consensus         1 gi~i~V-~~~~~~~~i~v~~~~~~~~~Tv~~LK~~I~~~tgvp   42 (81)
T d1wxva1           1 GLTVTV-THSNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVP   42 (81)
T ss_dssp             SEEEEE-ECSSSEEEEEECCCSSSSSCBHHHHHHHHHHHTCCC
T ss_pred             CEEEEE-EECCeeEEEEEecCCCCCccHHHHHHHHHHHHHCcC
Confidence            488888 778899999995     5799999999999998643

>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=96.26  E-value=0.004  Score=40.48  Aligned_cols=29  Identities=21%  Similarity=0.303  Sum_probs=26.7

Q ss_pred             cCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           72 KLDGTSFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        72 k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      +++|.++++.|..+.||++||+.|+..+.
T Consensus        18 ~L~G~~~~l~v~~~~tV~~lK~~I~~~~~   46 (86)
T d1zkha1          18 KLNGQVLVFTLPLTDQVSVIKVKIHEATG   46 (86)
T ss_dssp             SCSSCEEEEEECTTSBHHHHHHHHHHHTC
T ss_pred             ccCCeEEEEEECCCChHHHHHHHHHhhhc
Confidence            38999999999999999999999999874

>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=96.21  E-value=0.0037  Score=39.02  Aligned_cols=36  Identities=28%  Similarity=0.267  Sum_probs=30.9

Q ss_pred             eeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           65 AMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        65 Am~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      +|+|+|.-. +..|+|.|..+.||.+||+.|+..+..
T Consensus         1 si~I~Vk~~-~~~~~i~v~~~~tV~~lK~~I~~~~gi   36 (73)
T d2bwfa1           1 SLNIHIKSG-QDKWEVNVAPESTVLQFKEAINKANGI   36 (73)
T ss_dssp             EEEEEEEET-TEEEEEEECTTCBHHHHHHHHHHHHCC
T ss_pred             CEEEEEEeC-CeEEEEEECCCChHHHHHHHHHHHHCc
Confidence            588999865 457999999999999999999998843

>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=96.00  E-value=0.0044  Score=40.79  Aligned_cols=38  Identities=11%  Similarity=0.135  Sum_probs=32.7

Q ss_pred             CCeeEEEEEcCCCc--eeeEEEeCCCcHHHHHHHHHHHHh
Q 033077           63 GSAMRISILKLDGT--SFDVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        63 GqAm~l~V~k~Dgs--~~~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      ...|+|+|.-.++.  .|.|.|+.+.||.+||+.|+..+.
T Consensus         5 s~~i~l~Ik~~~~~~~~~~~~v~~~~TV~~LK~~I~~~~~   44 (93)
T d1wgda_           5 SSGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYP   44 (93)
T ss_dssp             SCCCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHST
T ss_pred             CCcEEEEEECCCCCceeEEEEcCCCCcHHHHHHHHHHHcC
Confidence            35699999988875  488999999999999999999873

>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=96.00  E-value=0.004  Score=41.47  Aligned_cols=34  Identities=21%  Similarity=0.104  Sum_probs=31.3

Q ss_pred             CCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHH
Q 033077           63 GSAMRISILKLDGTSFDVAVMNSATVKDLKLAIK   96 (128)
Q Consensus        63 GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~   96 (128)
                      +.-|+|+|.-++|..+.|.|..++||.+||+.|+
T Consensus         5 ~s~m~i~vK~l~~~~~~v~v~~~~TV~~lK~~i~   38 (95)
T d1wiaa_           5 SSGINVRLKFLNDTEELAVARPEDTVGTLKSKYF   38 (95)
T ss_dssp             CCSEEEEEEETTTEEEEEEECSSSBHHHHHHHHS
T ss_pred             CCcEEEEEEcCCCCEEEEEECCcCcHHHHHHHHh
Confidence            4679999999999999999999999999998775

>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=95.91  E-value=0.0079  Score=38.43  Aligned_cols=37  Identities=16%  Similarity=0.336  Sum_probs=32.1

Q ss_pred             eeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhh
Q 033077           65 AMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDM  102 (128)
Q Consensus        65 Am~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~  102 (128)
                      .|+|+|.-.++ .+.+.|..+.||.+||..|+..+..-
T Consensus         7 ~i~I~Vkt~~~-~~~~~V~~~~tV~~lK~~i~~~~gi~   43 (84)
T d1yqba1           7 LIKVTVKTPKD-KEDFSVTDTCTIQQLKEEISQRFKAH   43 (84)
T ss_dssp             EEEEEEECSSC-EEEEEEETTCBHHHHHHHHHHHHTCC
T ss_pred             EEEEEEEcCCC-cEEEEECCCCcHHHHHHHHHHHHCcC
Confidence            49999988766 58999999999999999999988553

>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=95.55  E-value=0.012  Score=40.11  Aligned_cols=40  Identities=23%  Similarity=0.273  Sum_probs=35.9

Q ss_pred             hcCCeeEEEEEcCCCcee-eEEEeCCCcHHHHHHHHHHHHh
Q 033077           61 EMGSAMRISILKLDGTSF-DVAVMNSATVKDLKLAIKKKVN  100 (128)
Q Consensus        61 e~GqAm~l~V~k~Dgs~~-~VvV~~~ATV~dLKkAI~~~~~  100 (128)
                      +-+..|.|+|+-.||+.+ ++.|..+.||.+||..|++.+.
T Consensus         3 ~~~~~i~I~~r~~~G~~i~~~~v~~s~TV~~lK~~I~~~~~   43 (101)
T d1se9a_           3 EVHNQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWP   43 (101)
T ss_dssp             SSCCCEEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSC
T ss_pred             CccceEEEEEEeCCCCeecceecCccCHHHHHHHHHHHhcc
Confidence            457789999999999987 7999999999999999998763

>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=95.54  E-value=0.015  Score=39.00  Aligned_cols=38  Identities=18%  Similarity=0.198  Sum_probs=34.1

Q ss_pred             CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ..|.|.|.=..|..|.|.|..+.||++||+-|+..+..
T Consensus        27 ~~i~V~V~~~~Gk~~~v~V~p~~TV~~LK~~I~~~~gi   64 (100)
T d1uh6a_          27 TMIEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGT   64 (100)
T ss_dssp             CEEEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCC
T ss_pred             ceEEEEEECCCCCEEEEEECCcChHHHHHHHHHHHHCC
Confidence            44788888888999999999999999999999998854

>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=95.50  E-value=0.011  Score=38.82  Aligned_cols=39  Identities=8%  Similarity=-0.083  Sum_probs=34.6

Q ss_pred             CCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           63 GSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        63 GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ...|+|+|.-.++..+.|.|..+.||.+||..|+..+.-
T Consensus         5 s~~~~I~VK~~~~~~~~v~v~~~~tV~~lK~~i~~~~gv   43 (96)
T d1wgga_           5 SSGYSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGV   43 (96)
T ss_dssp             CCEEEEEEEETTEEEEEEEEESSSCHHHHHHHHHHHTCC
T ss_pred             CCceEEEEEeCCCCEEEEEECCCCcHHHHHHHhhhhcCc
Confidence            356899998888988999999999999999999998753

>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=95.42  E-value=0.015  Score=38.32  Aligned_cols=40  Identities=18%  Similarity=0.275  Sum_probs=33.7

Q ss_pred             hcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           61 EMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        61 e~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ...+.|+|+|.-.++ .++|.|..+.||.+||+.|+..+.-
T Consensus        28 ~~~~~i~V~Vk~~~~-~~~i~V~~~~tV~~LK~~I~~~~gi   67 (103)
T d1j8ca_          28 AEPKIIKVTVKTPKE-KEEFAVPENSSVQQFKEAISKRFKS   67 (103)
T ss_dssp             CCCCCEEEEEECSSC-EEEEEECTTCCHHHHHHHHHHHHCS
T ss_pred             CCCCeEEEEEECCCc-cEEEEECCCChHHHHHHHHHHHHCc
Confidence            345569999987766 5899999999999999999998853

>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=94.92  E-value=0.018  Score=37.87  Aligned_cols=39  Identities=15%  Similarity=0.209  Sum_probs=33.6

Q ss_pred             CCeeEEEEEc---CCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           63 GSAMRISILK---LDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        63 GqAm~l~V~k---~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      |+-++|+|..   .++..+.+.|+.+.||.+||..|++.|..
T Consensus         7 ~~~iti~i~~~~~~~~~~~~~kv~~~~TV~~LK~~i~~~~gi   48 (97)
T d1wjna_           7 GQLLTLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKV   48 (97)
T ss_dssp             SCEEEEEEEESSCSSSCCEEEEEETTSBHHHHHHHHHTTTTC
T ss_pred             CCeEEEEEEeCCCCCCceEEEEcCCCCCHHHHHHHHHHHHCc
Confidence            5667888874   56789999999999999999999999954

>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=94.81  E-value=0.01  Score=38.19  Aligned_cols=37  Identities=27%  Similarity=0.347  Sum_probs=31.2

Q ss_pred             CeeEEEEEcCCCceeeE-EEeCCCcHHHHHHHHHHHHhh
Q 033077           64 SAMRISILKLDGTSFDV-AVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        64 qAm~l~V~k~Dgs~~~V-vV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ..|+|+|- ..+..+++ .|..+.||.+||+.|+..+.-
T Consensus         6 ~~~~i~Vk-~~~~~~~i~~v~~~~tV~~LK~~i~~~t~v   43 (90)
T d1v5ta_           6 SGLPIIVK-WGGQEYSVTTLSEDDTVLDLKQFLKTLTGV   43 (90)
T ss_dssp             CSCCEEEE-ETTEEEEECSCCSSSBHHHHHHHHHHHTCC
T ss_pred             CcEEEEEE-ECCeEEEEEEeCCCCcHHHHHHHHHHHHcC
Confidence            46888885 67778888 489999999999999999864

>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=94.78  E-value=0.047  Score=34.13  Aligned_cols=38  Identities=8%  Similarity=0.179  Sum_probs=32.8

Q ss_pred             CCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           63 GSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        63 GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ...|+|.| +.+|+.+.+-|..+.++..|+.++......
T Consensus         2 ~~~I~ikv-~~~~~~~~f~v~~~~~~~~l~~~~~~~~~i   39 (79)
T d1euvb_           2 ETHINLKV-SDGSSEIFFKIKKTTPLRRLMEAFAKRQGK   39 (79)
T ss_dssp             CSEEEEEE-ESSSCEEEEEEETTSCTHHHHHHHHHHTTC
T ss_pred             CcEEEEEE-CCCCeEEEEEECCCCcHHHHHHHHHHHhCC
Confidence            35688898 568999999999999999999999988754

>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=94.76  E-value=0.031  Score=35.40  Aligned_cols=38  Identities=16%  Similarity=0.268  Sum_probs=32.6

Q ss_pred             CCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           63 GSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        63 GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      ...|+|+|.-.++ .+++.|..++||.+||+.|+..+.-
T Consensus         8 ~~~i~v~Vk~~~~-~~~i~v~~~~tV~~lK~~I~~~~~v   45 (83)
T d1wx8a1           8 SRIIRVSVKTPQD-CHEFFLAENSNVRRFKKQISKYLHC   45 (83)
T ss_dssp             SCEEEEEEECSSS-EEEEEEETTCCHHHHHHHHHHHTCS
T ss_pred             CCeEEEEEEcCCC-cEEEEECCCChHHHHHHHHHHHhCC
Confidence            4679999998765 5799999999999999999998854

>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=94.48  E-value=0.021  Score=37.99  Aligned_cols=36  Identities=8%  Similarity=-0.004  Sum_probs=29.6

Q ss_pred             eEEEE--EcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           66 MRISI--LKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        66 m~l~V--~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      |.|+|  ....|..|++.|..+.||++||+.|+..+..
T Consensus        18 i~V~~~~~~~~g~~~~lev~~~~TV~~LK~~I~~~~gi   55 (100)
T d1wjua_          18 IEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGL   55 (100)
T ss_dssp             EEEECCTTTCCSSSEEEEEESSSBHHHHHHHHHHHTTC
T ss_pred             EEEEEeeccCCCeEEEEEECCCcHHHHHHHHHHHHHCC
Confidence            44444  3357899999999999999999999998864

>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=94.25  E-value=0.036  Score=38.03  Aligned_cols=37  Identities=5%  Similarity=0.200  Sum_probs=33.3

Q ss_pred             CCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHH
Q 033077           63 GSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKV   99 (128)
Q Consensus        63 GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~   99 (128)
                      ...|.|+|+=++|..+++.|..+.||.+||+.|.+.+
T Consensus        14 ~~~i~i~v~~l~Gk~~~~~v~p~~TV~~lK~~I~~~~   50 (116)
T d1wgha_          14 ADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNW   50 (116)
T ss_dssp             SSSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSS
T ss_pred             CCeEEEEEEEcCCCEEEEEECCcchHHHHHHHHHhhc
Confidence            4569999999999999999999999999999996554

>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=94.11  E-value=0.094  Score=32.59  Aligned_cols=37  Identities=14%  Similarity=0.239  Sum_probs=34.1

Q ss_pred             eeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           65 AMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        65 Am~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      .|+|.|.-.||+.+.+-|.++.++..|+.|+......
T Consensus         2 ~I~ikv~~~dg~~v~f~v~~~t~l~kl~~~y~~~~~~   38 (77)
T d2uyzb1           2 YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGV   38 (77)
T ss_dssp             EEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTC
T ss_pred             EEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCC
Confidence            5899999999999999999999999999999887764

>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=92.35  E-value=0.11  Score=34.99  Aligned_cols=38  Identities=26%  Similarity=0.318  Sum_probs=31.3

Q ss_pred             CCeeEEEEEc---CCCceeeEEEe-CCCcHHHHHHHHHHHHh
Q 033077           63 GSAMRISILK---LDGTSFDVAVM-NSATVKDLKLAIKKKVN  100 (128)
Q Consensus        63 GqAm~l~V~k---~Dgs~~~VvV~-~~ATV~dLKkAI~~~~~  100 (128)
                      -.++++.|+-   .||..+++.|. -+.||.+||..|+..+.
T Consensus        25 ~g~~ti~V~v~~~~~G~~i~l~v~~~sdtV~~lK~~I~~~~g   66 (111)
T d1we6a_          25 PGPATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQ   66 (111)
T ss_dssp             CSCEEEEECCTTCSSSCCEEEEESCSSSBHHHHHHHHHHHTT
T ss_pred             CCCEEEEEEcccCCCCeEEEEEecCCccHHHHHHHHHHHHHC
Confidence            3467788864   57899999995 59999999999999874

>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=89.79  E-value=0.27  Score=32.92  Aligned_cols=35  Identities=20%  Similarity=0.167  Sum_probs=28.7

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      |-|.|++. .++|.+.|..+.||.+||..|+.....
T Consensus         2 ifv~i~~~-k~Ti~l~v~~~~TV~~lK~~I~~~~gi   36 (103)
T d2c9wb1           2 VFLMIRRH-KTTIFTDAKESSTVFELKRIVEGILKR   36 (103)
T ss_dssp             EEEEEEEB-TEEEEEEECTTSBHHHHHHHHHHHHCC
T ss_pred             EEEEEeCC-CEEEEEEeCCCCcHHHHHHHHHHHhCC
Confidence            55777774 456889999999999999999998754

>d1ef1a3 d.15.1.4 (A:4-87) Moesin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: First domain of FERM
domain: Moesin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.80  E-value=0.3  Score=31.34  Aligned_cols=39  Identities=18%  Similarity=0.257  Sum_probs=34.9

Q ss_pred             eeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhhhh
Q 033077           65 AMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQ  104 (128)
Q Consensus        65 Am~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~~  104 (128)
                      .|++.|.-+|++ +.+.|..+|+..||=..|-+++++.+.
T Consensus         1 t~~v~V~~LD~~-~~~~v~~~a~G~~l~~~Vc~~l~L~E~   39 (84)
T d1ef1a3           1 TISVRVTTMDAE-LEFAIQPNTTGKQLFDQVVKTIGLREV   39 (84)
T ss_dssp             CEEEEEEETTEE-EEEEECTTCBHHHHHHHHHHHHTCCCG
T ss_pred             CEEEEEEEcCCE-EEEEEcCCChHHHHHHHHHHHcCCccc
Confidence            489999999975 999999999999999999999987644

>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=88.78  E-value=0.4  Score=31.08  Aligned_cols=38  Identities=18%  Similarity=0.188  Sum_probs=30.1

Q ss_pred             CeeEEEEEc-CCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           64 SAMRISILK-LDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        64 qAm~l~V~k-~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      .-|+|+|.- ++...+...++.+.||.+||..|++++.-
T Consensus         6 s~v~v~I~s~~~~~~~E~r~~~~~TV~~LK~kle~~tGi   44 (95)
T d1v6ea_           6 SGVMVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGS   44 (95)
T ss_dssp             CCEEEEEEETTSSSCEEEEECTTSBHHHHHHHHHHHTCS
T ss_pred             CcEEEEEEECCCCcEEEEEeCCCCCHHHHHHHHHHHhCc
Confidence            346777776 34455788899999999999999999843

>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=87.53  E-value=0.35  Score=32.77  Aligned_cols=32  Identities=28%  Similarity=0.346  Sum_probs=25.4

Q ss_pred             EEEEcCCCceeeEEEeC-CCcHHHHHHHHHHHHh
Q 033077           68 ISILKLDGTSFDVAVMN-SATVKDLKLAIKKKVN  100 (128)
Q Consensus        68 l~V~k~Dgs~~~VvV~~-~ATV~dLKkAI~~~~~  100 (128)
                      |+|+.-||. --|.|+. ++||.|||..|+..++
T Consensus         3 iRiRsrdG~-eRv~v~~~~~Tl~~LK~~Ie~~L~   35 (94)
T d1wf9a1           3 LRVRSRDGL-ERVSVDGPHITVSQLKTLIQDQLQ   35 (94)
T ss_dssp             EEEECSSCE-EEEEECCTTSBHHHHHHHHHHHSC
T ss_pred             EEEEecCCc-eEEEecCCCCcHHHHHHHHHHHhC
Confidence            667777774 3677765 7999999999999884

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.06  E-value=1.3  Score=27.20  Aligned_cols=72  Identities=10%  Similarity=0.108  Sum_probs=47.7

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhhhhhcCCceeeecc
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQ  115 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~~r~~g~~~ISWk  115 (128)
                      ++.+||.++|-++|..+.. .+|.-..+.+.+...+.=......=.|..+-.+||+..=.....  +.+=+|+|.
T Consensus        12 ~V~nLp~~~te~~l~~~F~-~~G~i~~v~i~~d~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~--g~~i~v~~a   83 (90)
T d2cqia1          12 YVGNLSRDVTEVLILQLFS-QIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKIL--GKEVKVNWA   83 (90)
T ss_dssp             EEESCCTTCCHHHHHHHHH-HHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEET--TEEEEEEEC
T ss_pred             EEECCCCCCCHHHHHHHHH-hcCCceeeeeecccCccceeeEEEECCHHHHHHHHHHcCCCEEC--CEEEEEEEc
Confidence            4568999999999998776 68988888887654432223334456788888998865332222  334455553

>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=85.97  E-value=0.84  Score=27.45  Aligned_cols=54  Identities=17%  Similarity=0.220  Sum_probs=44.8

Q ss_pred             ccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHH
Q 033077           42 LADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIK   96 (128)
Q Consensus        42 L~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~   96 (128)
                      ...||.++|.++|....+ .+|.-..+.+.+..+.........=.+-.+.++|++
T Consensus         5 V~nlp~~~t~~~l~~~F~-~~G~I~~v~~~~~~~~~~~~afV~F~~~~~a~~Al~   58 (75)
T d2ghpa2           5 VKNLPKSYNQNKVYKYFK-HCGPIIHVDVADSLKKNFRFARIEFARYDGALAAIT   58 (75)
T ss_dssp             EEEECTTCCHHHHHHHHG-GGSCEEEEEEEECTTSSSEEEEEEESSHHHHHHHHT
T ss_pred             EECCCCCCCHHHHHHHHh-cCCceEEEEEEeeccccceEEEEEEcchHHhHHHHH
Confidence            457999999999999887 589998899988877666666666678888888875

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.35  E-value=1.8  Score=25.81  Aligned_cols=55  Identities=18%  Similarity=0.207  Sum_probs=43.1

Q ss_pred             ccCCCCCCCHHHHHHhhhhhcCCeeEEEEEc--CCCceeeEEEeCCCcHHHHHHHHHH
Q 033077           42 LADVPKKPTLSDVDTLISLEMGSAMRISILK--LDGTSFDVAVMNSATVKDLKLAIKK   97 (128)
Q Consensus        42 L~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k--~Dgs~~~VvV~~~ATV~dLKkAI~~   97 (128)
                      ..+||+++|-++|..... .+|.-..+.|.+  ..|.+-...-..=++..+-++||+.
T Consensus         5 V~nL~~~~te~~l~~~F~-~~G~i~~v~i~~d~~tg~~~g~aFV~f~~~~~a~~ai~~   61 (80)
T d1cvja1           5 VGDLHPDVTEAMLYEKFS-PAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDT   61 (80)
T ss_dssp             EESCCTTCCHHHHHHHHG-GGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHTT
T ss_pred             EeCCCCcCCHHHHHHHHH-HhCCEeEEEEEecccccCCCCceEEEECCHHHHHHHHHH
Confidence            568999999999998885 899878888875  4465555665666788888899864

>d1gg3a3 d.15.1.4 (A:1-81) Erythroid membrane protein 4.1R {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: First domain of FERM
domain: Erythroid membrane protein 4.1R
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.81  E-value=1.2  Score=28.14  Aligned_cols=47  Identities=23%  Similarity=0.290  Sum_probs=38.6

Q ss_pred             eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhhhhhcCCceee
Q 033077           66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHI  112 (128)
Q Consensus        66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~~r~~g~~~I  112 (128)
                      |..+|.=+||+.+.+.|..+|+..||=..|-+++++.+..==|=+..
T Consensus         1 ~~C~V~lLD~~~~~~~v~~~~~G~~l~~~Vc~~l~l~E~~YFGL~y~   47 (81)
T d1gg3a3           1 MHCKVSLLDDTVYECVVEKHAKGQDLLKRVCEHLNLLEEDYFGLAIW   47 (81)
T ss_dssp             CEEEEECTTSCEEEEECCTTCCHHHHHHHHHHHHTTCSCCSSSCEEE
T ss_pred             CEEEEEecCCCEEEEEECCCCcHHHHHHHHHHHcCCcccccceEEEE
Confidence            56789999999999999999999999999999998775443343333

>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=84.76  E-value=1  Score=28.55  Aligned_cols=35  Identities=17%  Similarity=0.242  Sum_probs=26.3

Q ss_pred             eEEEEEcCCCce--eeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           66 MRISILKLDGTS--FDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        66 m~l~V~k~Dgs~--~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      +.|.|. -+.+.  ++.-++.+.||.+||.-|++.+..
T Consensus         5 ~~l~it-~~~t~~~~E~r~~~~~TV~~LK~kle~~~Gi   41 (90)
T d1t0ya_           5 YDLEIT-TNATDFPMEKKYPAGMSLNDLKKKLELVVGT   41 (90)
T ss_dssp             EEEEEE-ESSCCSCEEEEEETTSBHHHHHHHHHHHHCC
T ss_pred             EEEEEE-ECCCccEEEEecCCCCCHHHHHHHHHHHHCC
Confidence            345555 34444  566679999999999999999954

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 8
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=84.22  E-value=2.7  Score=25.53  Aligned_cols=73  Identities=12%  Similarity=0.114  Sum_probs=49.5

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEc--CCCceeeEEEeCCCcHHHHHHHHHHHHhhhhhhcCCceeeeccc
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILK--LDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQV  116 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k--~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~~r~~g~~~ISWk~  116 (128)
                      +..+||.++|-++|..... .+|.-..+.|.+  ..|.+-......=.+..+-++|++..=....  .+..=+|+|.+
T Consensus        11 ~V~nL~~~~t~~~l~~~F~-~~G~i~~v~i~~d~~tg~~~g~afV~f~~~~~A~~A~~~lng~~l--~g~~l~V~~a~   85 (88)
T d1rk8a_          11 FVTSIHEEAQEDEIQEKFC-DYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEI--MGQTIQVDWCF   85 (88)
T ss_dssp             EEESCCTTCCHHHHHHHHG-GGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEE--TTEECEEEESE
T ss_pred             EEeCCCCCCCHHHHHHHHH-HcCCcccccccccccccccccceeEEECCHHHHHHHHHHcCCCEE--CCEEEEEEEec
Confidence            3568999999999998875 799877777765  3455555555555688888999976422211  13345566653

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.95  E-value=3.3  Score=25.65  Aligned_cols=57  Identities=12%  Similarity=0.240  Sum_probs=43.0

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEc--CCCceeeEEEeCCCcHHHHHHHHHHH
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILK--LDGTSFDVAVMNSATVKDLKLAIKKK   98 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k--~Dgs~~~VvV~~~ATV~dLKkAI~~~   98 (128)
                      ++.+||.++|-+||....+ .+|.-..+.|.+  ..|.+--.....=++..+..+||+..
T Consensus        12 ~V~nLp~~~te~~l~~~f~-~~G~i~~v~i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l   70 (104)
T d1p1ta_          12 FVGNIPYEATEEQLKDIFS-EVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL   70 (104)
T ss_dssp             EEESCCTTSCHHHHHHHHH-TTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHS
T ss_pred             EEECCCCcCCHHHHHHhhh-ccccccccccccccceeccCCceEEEECCHHHHHHHHHHc
Confidence            4678999999999999887 689766766655  44555445555668899999999873

>d1h4ra3 d.15.1.4 (A:20-103) Merlin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: First domain of FERM
domain: Merlin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.71  E-value=1.4  Score=28.01  Aligned_cols=39  Identities=15%  Similarity=0.160  Sum_probs=34.8

Q ss_pred             eeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhhhh
Q 033077           65 AMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQ  104 (128)
Q Consensus        65 Am~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~~  104 (128)
                      .+++.|.-+|++ +.+.|..+|+-.||=.+|-+++++.+.
T Consensus         2 ~~~v~V~lLD~~-le~~v~~~a~G~~L~d~Vc~~L~L~E~   40 (84)
T d1h4ra3           2 TFTVRIVTMDAE-MEFNCEMKWKGKDLFDLVCRTLGLRET   40 (84)
T ss_dssp             EEEEEEECSSCE-EEEEEETTCBHHHHHHHHHHHHTCCCG
T ss_pred             eEEEEEEEcCCc-EEEEEcCCChHHHHHHHHHHHcCCccc
Confidence            578999999985 899999999999999999999987643

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.50  E-value=2.6  Score=25.40  Aligned_cols=57  Identities=12%  Similarity=0.173  Sum_probs=42.4

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCC--ceeeEEEeCCCcHHHHHHHHHHH
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKLDG--TSFDVAVMNSATVKDLKLAIKKK   98 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dg--s~~~VvV~~~ATV~dLKkAI~~~   98 (128)
                      +..+||.++|-++|..... .+|.-..+.+.+.+.  .+-......=++..+-++||+..
T Consensus         9 fV~nLp~~~t~~~l~~~F~-~~G~i~~~~~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~l   67 (90)
T d1x5sa1           9 FVGGLSFDTNEQSLEQVFS-KYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM   67 (90)
T ss_dssp             EEESCCTTCCHHHHHHHHH-HHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHH
T ss_pred             EEECCCCcCCHHHHHHhhh-ccccccceeeccccccccccceEEEEECCHHHHHHHHHHc
Confidence            4678999999999999887 689887777666443  33224444557888999999864

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=82.19  E-value=3.5  Score=24.67  Aligned_cols=57  Identities=23%  Similarity=0.335  Sum_probs=44.7

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcC--CCceeeEEEeCCCcHHHHHHHHHHH
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKL--DGTSFDVAVMNSATVKDLKLAIKKK   98 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~--Dgs~~~VvV~~~ATV~dLKkAI~~~   98 (128)
                      ++.+||.++|-++|..+.+ .+|.-..+.+.+.  .|.+--.....=.+..+-.+||+..
T Consensus        10 fV~nlp~~~te~~l~~~F~-~~G~i~~~~~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l   68 (85)
T d1b7fa2          10 YVTNLPRTITDDQLDTIFG-KYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL   68 (85)
T ss_dssp             EEESCCTTCCHHHHHHHHT-SSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHH-hhCCEeeeeeecccccccCceeEEEEECCHHHHHHHHHHH
Confidence            4578999999999999887 5898778888764  4555555556667888999999875

>d1wgya_ d.15.1.5 (A:) Rap guanine nucleotide exchange factor 5, RapGEF5 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ras-binding domain, RBD
domain: Rap guanine nucleotide exchange factor 5, RapGEF5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.85  E-value=0.57  Score=32.04  Aligned_cols=39  Identities=10%  Similarity=0.167  Sum_probs=35.0

Q ss_pred             CCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077           63 GSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND  101 (128)
Q Consensus        63 GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~  101 (128)
                      |..+-..|-+.|.+++.|.++-+|||.|+++++..++.+
T Consensus         7 ~dei~~~VY~~Dhsy~tlr~~v~~sa~eI~~~vaeKl~~   45 (104)
T d1wgya_           7 GEEIFCHVYITEHSYVSVKAKVSSIAQEILKVVAEKIQY   45 (104)
T ss_dssp             SSCCCEEEECSSSCEEEECCCTTCBSHHHHHHHHHHHTS
T ss_pred             CCeEEEEEEecCCcEEEEEeeccCcHHHHHHHHHHHhCC
Confidence            556677899999999999999999999999999999864

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=81.69  E-value=2.1  Score=25.52  Aligned_cols=57  Identities=18%  Similarity=0.232  Sum_probs=41.5

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCC-CceeeEEEeCCCcHHHHHHHHHHH
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKLD-GTSFDVAVMNSATVKDLKLAIKKK   98 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~D-gs~~~VvV~~~ATV~dLKkAI~~~   98 (128)
                      +..+||+++|-++|..+.. .+|.-..+.|.+.. |.+--.....=.|..+-++||+..
T Consensus         4 ~V~nLp~~~~~~~l~~~F~-~~G~v~~~~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l   61 (78)
T d1no8a_           4 LVSNLDFGVSDADIQELFA-EFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQY   61 (78)
T ss_dssp             EEESCCTTCCHHHHHHHHH-HHSCEEEEEESCSSCCCSCCEEEEEESCHHHHHHHHHHH
T ss_pred             EEECCCCCCCHHHHHHHHH-HhCCCeEEEEEEeeccccceeEEEEECCHHHHHHHHHHh
Confidence            3568999999999998776 78988888887653 322223334456788889999863

>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=81.39  E-value=1.6  Score=26.73  Aligned_cols=38  Identities=18%  Similarity=0.283  Sum_probs=28.8

Q ss_pred             eeEEEEEc-------CCCceeeEEEeCCCcHHHHHHHHHHHHhhh
Q 033077           65 AMRISILK-------LDGTSFDVAVMNSATVKDLKLAIKKKVNDM  102 (128)
Q Consensus        65 Am~l~V~k-------~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~  102 (128)
                      +|+|+|.=       .+.+...+.++.++||.||.+++...+...
T Consensus         1 smkI~v~~Fa~lre~~G~~~~~~~~~~~~Tv~~l~~~L~~~~~~~   45 (88)
T d1vjka_           1 SVKVKVKYFARFRQLAGVDEEEIELPEGARVRDLIEEIKKRHEKF   45 (88)
T ss_dssp             CEEEEEEECTHHHHHHSSSEEEEEECTTCBHHHHHHHHHHHCGGG
T ss_pred             CeEEEEEEhHHHHHHhCCCeEEEECCCCCCHHHHHHHHHHHChHH
Confidence            46677653       244677888999999999999998877543

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.26  E-value=3.5  Score=25.27  Aligned_cols=57  Identities=14%  Similarity=0.096  Sum_probs=42.6

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCC--CceeeEEEeCCCcHHHHHHHHHHH
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKLD--GTSFDVAVMNSATVKDLKLAIKKK   98 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~D--gs~~~VvV~~~ATV~dLKkAI~~~   98 (128)
                      ++++||.++|-++|..... .+|.-..+.+.+.-  |.+--.....=.|..+..+||+..
T Consensus        11 fV~nlp~~~te~~l~~~F~-~~G~i~~v~i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l   69 (93)
T d1h2vz_          11 YVGNLSFYTTEEQIYELFS-KSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYI   69 (93)
T ss_dssp             EEESCCTTCCHHHHHHHHG-GGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHT
T ss_pred             EEeCCCCCCCHHHHHHHHH-HHCCcceeccccccccccccceEEEEECCHHHHHHHHHHh
Confidence            4678999999999988876 78988788887643  333334444556889999999863

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.88  E-value=4.1  Score=24.57  Aligned_cols=55  Identities=13%  Similarity=0.202  Sum_probs=41.0

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcC--CCceeeEEEeCCCcHHHHHHHHH
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKL--DGTSFDVAVMNSATVKDLKLAIK   96 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~--Dgs~~~VvV~~~ATV~dLKkAI~   96 (128)
                      ++.+||.++|-++|....+ .+|.-..+.|.+.  .|.+--.....=++-.+.++||+
T Consensus        10 fV~nlp~~~te~~l~~~F~-~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~a~~ai~   66 (84)
T d1l3ka1          10 FIGGLSFETTDESLRSHFE-QWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN   66 (84)
T ss_dssp             EEESCCTTCCHHHHHHHHG-GGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH
T ss_pred             EEECCCCCCCHHHHHHHHH-hhccccceeecccccCCCcccEEEEEEcCHHHHHHHHH
Confidence            4578999999999999997 7999988888764  34444344444456677788886

>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 9 (SFRS9)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=80.65  E-value=2.8  Score=26.26  Aligned_cols=51  Identities=20%  Similarity=0.422  Sum_probs=40.3

Q ss_pred             cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHH
Q 033077           41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKK   97 (128)
Q Consensus        41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~   97 (128)
                      +..+||.++|.+||..+. =++|.-..+.|.+ +|  |.  ...=+|..+.++||++
T Consensus        19 ~V~Nlp~~~~~~~L~~~F-~~~G~v~~~~i~~-~g--~a--fV~f~~~~~a~~Ai~~   69 (98)
T d1wg4a_          19 LVSGLPPSGSWQDLKDHM-REAGDVCYADVQK-DG--MG--MVEYLRKEDMEYALRK   69 (98)
T ss_dssp             EEECCCSSCCHHHHHHHH-TTSSCEEEEEEET-TT--EE--EEEESSHHHHHHHHHH
T ss_pred             EEECCCCCCCHHHHHHHH-Hhhcccccccccc-cc--eE--EEEECCHHHHHHHHHH
Confidence            456899999999999887 4899888888876 44  22  2356899999999986

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein L-like
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=80.28  E-value=4.1  Score=25.38  Aligned_cols=68  Identities=6%  Similarity=0.093  Sum_probs=48.1

Q ss_pred             ccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhhhhhcCCceeeec
Q 033077           42 LADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISW  114 (128)
Q Consensus        42 L~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~~r~~g~~~ISW  114 (128)
                      +.+||.++|-++|..+.. .+|.-.++.+.|.-+.    ...+=.++.+-..||+..-..-..-.+.+-+|+|
T Consensus        20 v~nlp~~~te~~l~~~F~-~fG~I~~~~~~~~k~~----AfV~f~~~e~A~~ai~~~~~~~~~~~g~~l~v~~   87 (104)
T d1wexa_          20 VRGLCESVVEADLVEALE-KFGTICYVMMMPFKRQ----ALVEFENIDSAKECVTFAADVPVYIAGQQAFFNY   87 (104)
T ss_dssp             EESCCSSCCHHHHHHHHT-TTSCEEEEEEETTTTE----EEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEE
T ss_pred             EeCCCCCCCHHHHHHhhh-hcccceEEEEEeccee----EEEEeCCHHHHHHHHHHHcCCCcEEeeEEEEEEE
Confidence            578999999999998875 6899999999986553    2234588889999998654322222233455555