Citrus Sinensis ID: 034926

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------
Protein Sequence
MSGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAWAVI
Secondary Structure (PSIPRED)
cccccccccccccccccccccEEEEEEcccccEEEEEEccccHHHHHHHHHHHHccccccEEEEEEccEEEEEEEEEc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccEEEEEEEcccccEEEEEEEccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHc
Coil and Loop (DISEMBL)
msgvtntpqeedkkpndqsahinlkvkgqdgneVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAWAVI
Flexible Loop (DISEMBL)
msgvtntpqeedkkpndqsahinlkvkgqdgnevFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAWAVI
Low Complexity Region (SEG)
MSGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAWAVI
Disordered region (IsUnstruct)
*****************************DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAWAV*
Disordered Region (DISOPRED)
**********************NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAWAVI
Disordered Region (DISEMBL)
*****************QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAWAVI
Disordered Region (DISPRO)
******************SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAWAVI
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAWAVI
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	78	2.2.26 [Sep-21-2011]
P55852	100	Small ubiquitin-related m	yes	no	0.743	0.58	0.896	2e-25
Q9FLP6	103	Small ubiquitin-related m	no	no	0.782	0.592	0.857	4e-24
P55857	100	Small ubiquitin-related m	yes	no	0.730	0.57	0.816	3e-22
O13351	117	Ubiquitin-like protein pm	yes	no	0.807	0.538	0.492	2e-11
Q9FLP5	111	Small ubiquitin-related m	no	no	0.782	0.549	0.475	4e-11
Q6DK72	94	Small ubiquitin-related m	yes	no	0.717	0.595	0.559	2e-10
Q7SZ22	94	Small ubiquitin-related m	N/A	no	0.717	0.595	0.559	2e-10
Q17QV3	104	Small ubiquitin-related m	yes	no	0.717	0.538	0.542	4e-10
P55854	103	Small ubiquitin-related m	yes	no	0.717	0.543	0.542	5e-10
Q5XIF4	110	Small ubiquitin-related m	yes	no	0.717	0.509	0.542	5e-10

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

 Score =  114 bits (285), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 52/58 (89%), Positives = 55/58 (94%)

Query: 9  QEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          QEEDKKP D  AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV++NSIAFL+
Sbjct: 5  QEEDKKPGDGGAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDMNSIAFLF 62

Ubiquitin-like protein which can be covalently attached to target lysines as a monomer. Does not seem to be involved in protein degradation and may function as an antagonist of ubiquitin in the degradation process. Required for the massive protein sumoylation in the nucleus induced by heat shock and controlled by SIZ1. Involved in the regulation of the heat stress transcription factor HSFA2 in acquired thermotolerance.
Arabidopsis thaliana (taxid: 3702)

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

 Score =  109 bits (273), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 54/63 (85%), Positives = 58/63 (92%), Gaps = 2/63 (3%)

Query: 4  VTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIA 63
          ++ TP EEDKKP DQ AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV+ NSIA
Sbjct: 1  MSATP-EEDKKP-DQGAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDFNSIA 58

Query: 64 FLY 66
          FL+
Sbjct: 59 FLF 61

Ubiquitin-like protein which can be covalently attached to target lysines as a monomer. Does not seem to be involved in protein degradation and may function as an antagonist of ubiquitin in the degradation process. Required for the massive protein sumoylation in the nucleus induced by heat shock and controlled by SIZ1.

Arabidopsis thaliana (taxid: 3702)

>sp|P55857|SUMO1_ORYSJ Small ubiquitin-related modifier 1 OS=Oryza sativa subsp. japonica GN=SUMO1 PE=1 SV=1

 Score =  103 bits (257), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 49/60 (81%), Positives = 53/60 (88%), Gaps = 3/60 (5%)

Query: 10 EEDKKP---NDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          EEDKKP       AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV++N+IAFL+
Sbjct: 6  EEDKKPAGGEGGGAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDMNAIAFLF 65

Ubiquitin-like protein which can be covalently attached to target lysines as a monomer. Does not seem to be involved in protein degradation and may function as an antagonist of ubiquitin in the degradation process.

Oryza sativa subsp. japonica (taxid: 39947)

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

 Score = 67.8 bits (164), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 32/65 (49%), Positives = 44/65 (67%), Gaps = 2/65 (3%)

Query: 1  MSGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN 60
          ++  T    ++D KP+  + HINLKV GQD NEVFF+IK++T+  KLM  YC RQ   +N
Sbjct: 17 ITPTTGDTSQQDVKPS--TEHINLKVVGQDNNEVFFKIKKTTEFSKLMKIYCARQGKSMN 74

Query: 61 SIAFL 65
          S+ FL
Sbjct: 75 SLRFL 79

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

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

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

 Score = 66.6 bits (161), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 29/61 (47%), Positives = 44/61 (72%)

Query: 6  NTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFL 65
          + PQ++     +Q AH+ LKVK QDG+EV F+ K+S  LKKLM  YCDR+ ++L++ AF+
Sbjct: 2  SNPQDDKPIDQEQEAHVILKVKSQDGDEVLFKNKKSAPLKKLMYVYCDRRGLKLDAFAFI 61

Query: 66 Y 66
          +
Sbjct: 62 F 62

Ubiquitin-like protein which can be covalently attached to target lysines as a monomer. Does not seem to be involved in protein degradation and may function as an antagonist of ubiquitin in the degradation process.

Arabidopsis thaliana (taxid: 3702)

>sp|Q6DK72|SUMO3_XENTR Small ubiquitin-related modifier 3 OS=Xenopus tropicalis GN=sumo3 PE=3 SV=1

 Score = 64.3 bits (155), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 33/59 (55%), Positives = 39/59 (66%), Gaps = 3/59 (5%)

Query: 8  PQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          P+E  K  ND   HINLKV GQDG+ V F+IKR T L KLM AYCDRQ + +  I F +
Sbjct: 6  PKEGVKTEND---HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCDRQGLSMRQIRFRF 61

Ubiquitin-like protein which can be covalently attached to target lysines either as a monomer or as a lysine-linked polymer. Does not seem to be involved in protein degradation and may function as an antagonist of ubiquitin in the degradation process. Plays a role in a number of cellular processes such as nuclear transport, DNA replication and repair, mitosis and signal transduction. Covalent attachment to its substrates requires prior activation by the E1 complex sae1-sae2 and linkage to the E2 enzyme ube2i.

Xenopus tropicalis (taxid: 8364)

>sp|Q7SZ22|SUMO3_XENLA Small ubiquitin-related modifier 3 OS=Xenopus laevis GN=sumo3 PE=3 SV=1

 Score = 64.3 bits (155), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 33/59 (55%), Positives = 39/59 (66%), Gaps = 3/59 (5%)

Query: 8  PQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          P+E  K  ND   HINLKV GQDG+ V F+IKR T L KLM AYCDRQ + +  I F +
Sbjct: 6  PKEGVKTEND---HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCDRQGLSMRQIRFRF 61

Ubiquitin-like protein which can be covalently attached to target lysines either as a monomer or as a lysine-linked polymer. Does not seem to be involved in protein degradation and may function as an antagonist of ubiquitin in the degradation process. Plays a role in a number of cellular processes such as nuclear transport, DNA replication and repair, mitosis and signal transduction. Covalent attachment to its substrates requires prior activation by the E1 complex sae1-sae2 and linkage to the E2 enzyme ube2i.

Xenopus laevis (taxid: 8355)

>sp|Q17QV3|SUMO3_BOVIN Small ubiquitin-related modifier 3 OS=Bos taurus GN=SUMO3 PE=3 SV=1

 Score = 63.2 bits (152), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 32/59 (54%), Positives = 39/59 (66%), Gaps = 3/59 (5%)

Query: 8  PQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          P+E  K  ND   HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct: 6  PKEGVKTEND---HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 61

Ubiquitin-like protein which can be covalently attached to target lysines either as a monomer or as a lysine-linked polymer. Does not seem to be involved in protein degradation and may function as an antagonist of ubiquitin in the degradation process. Plays a role in a number of cellular processes such as nuclear transport, DNA replication and repair, mitosis and signal transduction. Covalent attachment to its substrates requires prior activation by the E1 complex SAE1-SAE2 and linkage to the E2 enzyme UBE2I, and can be promoted by an E3 ligase such as PIAS1-4, RANBP2 or CBX4.

Bos taurus (taxid: 9913)

>sp|P55854|SUMO3_HUMAN Small ubiquitin-related modifier 3 OS=Homo sapiens GN=SUMO3 PE=1 SV=2

 Score = 63.2 bits (152), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 32/59 (54%), Positives = 39/59 (66%), Gaps = 3/59 (5%)

Query: 8  PQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          P+E  K  ND   HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct: 6  PKEGVKTEND---HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 61

Ubiquitin-like protein which can be covalently attached to target lysines either as a monomer or as a lysine-linked polymer. Does not seem to be involved in protein degradation and may function as an antagonist of ubiquitin in the degradation process. Plays a role in a number of cellular processes such as nuclear transport, DNA replication and repair, mitosis and signal transduction. Covalent attachment to its substrates requires prior activation by the E1 complex SAE1-SAE2 and linkage to the E2 enzyme UBE2I, and can be promoted by an E3 ligase such as PIAS1-4, RANBP2 or CBX4.

Homo sapiens (taxid: 9606)

>sp|Q5XIF4|SUMO3_RAT Small ubiquitin-related modifier 3 OS=Rattus norvegicus GN=Sumo3 PE=2 SV=1

 Score = 63.2 bits (152), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 32/59 (54%), Positives = 39/59 (66%), Gaps = 3/59 (5%)

Query: 8  PQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          P+E  K  ND   HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct: 6  PKEGVKTEND---HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 61

Ubiquitin-like protein which can be covalently attached to target lysines either as a monomer or as a lysine-linked polymer. Does not seem to be involved in protein degradation and may function as an antagonist of ubiquitin in the degradation process. Plays a role in a number of cellular processes such as nuclear transport, DNA replication and repair, mitosis and signal transduction. Covalent attachment to its substrates requires prior activation by the E1 complex SAE1-SAE2 and linkage to the E2 enzyme UBE2I, and can be promoted by an E3 ligase such as PIAS1-4, RANBP2 or CBX4.

Rattus norvegicus (taxid: 10116)

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	78
449466075	100	PREDICTED: small ubiquitin-related modif	0.846	0.66	0.954	4e-30
224131676	103	predicted protein [Populus trichocarpa]	0.846	0.640	0.939	9e-30
224064888	103	predicted protein [Populus trichocarpa]	0.846	0.640	0.924	3e-29
224064886	105	predicted protein [Populus trichocarpa]	0.846	0.628	0.909	2e-28
449463252	100	PREDICTED: small ubiquitin-related modif	0.820	0.64	0.924	2e-27
225447135	101	PREDICTED: uncharacterized protein LOC10	0.846	0.653	0.880	8e-27
255577173	99	conserved hypothetical protein [Ricinus	0.820	0.646	0.910	4e-26
351722771	99	uncharacterized protein LOC100500241 [Gl	0.833	0.656	0.863	3e-25
147862318	104	hypothetical protein VITISV_032072 [Viti	0.833	0.625	0.830	7e-25
225470236	103	PREDICTED: small ubiquitin-related modif	0.833	0.631	0.830	8e-25

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

 Score =  135 bits (339), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 63/66 (95%), Positives = 65/66 (98%)

Query: 1  MSGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN 60
          MSGVTNT QEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV+LN
Sbjct: 1  MSGVTNTQQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDLN 60

Query: 61 SIAFLY 66
          SIAFL+
Sbjct: 61 SIAFLF 66

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  134 bits (336), Expect = 9e-30,   Method: Compositional matrix adjust.
 Identities = 62/66 (93%), Positives = 63/66 (95%)

Query: 1  MSGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN 60
          MSGVT  PQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVE N
Sbjct: 1  MSGVTGQPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEFN 60

Query: 61 SIAFLY 66
          SIAFL+
Sbjct: 61 SIAFLF 66

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  132 bits (332), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 61/66 (92%), Positives = 62/66 (93%)

Query: 1  MSGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN 60
          MSG T  PQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVE N
Sbjct: 1  MSGATGQPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEFN 60

Query: 61 SIAFLY 66
          SIAFL+
Sbjct: 61 SIAFLF 66

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  129 bits (325), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 60/66 (90%), Positives = 62/66 (93%)

Query: 1  MSGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN 60
          MS  T  PQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVE+N
Sbjct: 1  MSEATGQPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEIN 60

Query: 61 SIAFLY 66
          SIAFL+
Sbjct: 61 SIAFLF 66

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  126 bits (317), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 61/66 (92%), Positives = 63/66 (95%), Gaps = 2/66 (3%)

Query: 1  MSGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN 60
          MSGVTN  QEEDKKP DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV+LN
Sbjct: 1  MSGVTN--QEEDKKPTDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDLN 58

Query: 61 SIAFLY 66
          SIAFL+
Sbjct: 59 SIAFLF 64

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  124 bits (310), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 59/67 (88%), Positives = 63/67 (94%), Gaps = 1/67 (1%)

Query: 1  MSGVTN-TPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL 59
          MSGV N + Q+EDKKPNDQS HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV+L
Sbjct: 1  MSGVANPSSQDEDKKPNDQSGHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDL 60

Query: 60 NSIAFLY 66
          NSIAFL+
Sbjct: 61 NSIAFLF 67

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255577173|ref|XP_002529470.1| conserved hypothetical protein [Ricinus communis] gi|223531086|gb|EEF32936.1| conserved hypothetical protein [Ricinus communis]

 Score =  121 bits (304), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 61/67 (91%), Positives = 62/67 (92%), Gaps = 3/67 (4%)

Query: 1  MSGVTNTPQEEDKKPNDQSA-HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL 59
          MSGVTN  QEEDKKP DQSA HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVE 
Sbjct: 1  MSGVTN--QEEDKKPTDQSAAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEF 58

Query: 60 NSIAFLY 66
          NSIAFL+
Sbjct: 59 NSIAFLF 65

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351722771|ref|NP_001235208.1| uncharacterized protein LOC100500241 [Glycine max] gi|255629810|gb|ACU15255.1| unknown [Glycine max]

 Score =  119 bits (298), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 57/66 (86%), Positives = 60/66 (90%), Gaps = 1/66 (1%)

Query: 1  MSGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN 60
          MSGVTN   EEDKKP +Q AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV+ N
Sbjct: 1  MSGVTNN-NEEDKKPTEQGAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDFN 59

Query: 61 SIAFLY 66
          SIAFL+
Sbjct: 60 SIAFLF 65

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  117 bits (294), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 54/65 (83%), Positives = 58/65 (89%)

Query: 2  SGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNS 61
          +G     QEEDKKP DQ AHINLKVKGQDGNEVFFRIKRSTQL+KLM+AYCDRQSVELNS
Sbjct: 4  TGGAAGGQEEDKKPTDQGAHINLKVKGQDGNEVFFRIKRSTQLRKLMSAYCDRQSVELNS 63

Query: 62 IAFLY 66
          IAFL+
Sbjct: 64 IAFLF 68

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  117 bits (293), Expect = 8e-25,   Method: Compositional matrix adjust.
 Identities = 54/65 (83%), Positives = 58/65 (89%)

Query: 2  SGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNS 61
          +G     QEEDKKP DQ AHINLKVKGQDGNEVFFRIKRSTQL+KLM+AYCDRQSVELNS
Sbjct: 4  TGGAAGGQEEDKKPTDQGAHINLKVKGQDGNEVFFRIKRSTQLRKLMSAYCDRQSVELNS 63

Query: 62 IAFLY 66
          IAFL+
Sbjct: 64 IAFLF 68

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	78
TAIR|locus:2116332	100	SUMO1 "AT4G26840" [Arabidopsis	0.743	0.58	0.896	8.7e-24
TAIR|locus:2161675	116	SUMO2 "small ubiquitin-like mo	0.743	0.5	0.739	1.2e-19
POMBASE|SPBC365.06	117	pmt3 "SUMO" [Schizosaccharomyc	0.756	0.504	0.524	1.9e-12
TAIR|locus:2161695	111	SUMO3 "small ubiquitin-like mo	0.782	0.549	0.475	5e-12
UNIPROTKB|Q5ZHQ1	94	SUMO3 "Small ubiquitin-related	0.717	0.595	0.542	7.4e-11
UNIPROTKB|Q17QV3	104	SUMO3 "Small ubiquitin-related	0.717	0.538	0.542	7.4e-11
UNIPROTKB|A8MU27	147	SUMO3 "Small ubiquitin-related	0.717	0.380	0.542	7.4e-11
UNIPROTKB|A8MUA9	135	SUMO3 "Small ubiquitin-related	0.717	0.414	0.542	7.4e-11
UNIPROTKB|P55854	103	SUMO3 "Small ubiquitin-related	0.717	0.543	0.542	7.4e-11
UNIPROTKB|I3LLG3	104	SUMO3 "Uncharacterized protein	0.717	0.538	0.542	7.4e-11

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

 Score = 273 (101.2 bits), Expect = 8.7e-24, P = 8.7e-24
 Identities = 52/58 (89%), Positives = 55/58 (94%)

Query:     9 QEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
             QEEDKKP D  AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV++NSIAFL+
Sbjct:     5 QEEDKKPGDGGAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVDMNSIAFLF 62

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0016925 "protein sumoylation" evidence=IEP;RCA;IDA

GO:0031386 "protein tag" evidence=IDA

GO:0009408 "response to heat" evidence=IEP

GO:0005515 "protein binding" evidence=IPI

GO:0010286 "heat acclimation" evidence=IMP

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

GO:0005829 "cytosol" evidence=IDA

GO:0006094 "gluconeogenesis" evidence=RCA

GO:0007010 "cytoskeleton organization" evidence=RCA

GO:0010498 "proteasomal protein catabolic process" evidence=RCA

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

 Score = 234 (87.4 bits), Expect = 1.2e-19, P = 1.2e-19
 Identities = 54/73 (73%), Positives = 56/73 (76%)

Query:     7 TPQEEDKKPNDQSAHINLKVKGQ-------------DGNEVFFRIKRSTQLKKLMNAYCD 53
             TP EEDKKP DQ AHINLKVKGQ             DGNEVFFRIKRSTQLKKLMNAYCD
Sbjct:     4 TP-EEDKKP-DQGAHINLKVKGQAFFVVGTWLVIDTDGNEVFFRIKRSTQLKKLMNAYCD 61

Query:    54 RQSVELNSIAFLY 66
             RQSV+ NSIAFL+
Sbjct:    62 RQSVDFNSIAFLF 74

GO:0005737 "cytoplasm" evidence=ISM;IDA

GO:0005634 "nucleus" evidence=IDA

GO:0016925 "protein sumoylation" evidence=IEP;RCA;IDA

GO:0031386 "protein tag" evidence=IDA

GO:0009408 "response to heat" evidence=IEP

GO:0005515 "protein binding" evidence=IPI

GO:0000394 "RNA splicing, via endonucleolytic cleavage and ligation" evidence=RCA

GO:0006094 "gluconeogenesis" evidence=RCA

GO:0007010 "cytoskeleton organization" evidence=RCA

GO:0009086 "methionine biosynthetic process" evidence=RCA

GO:0010498 "proteasomal protein catabolic process" evidence=RCA

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

 Score = 166 (63.5 bits), Expect = 1.9e-12, P = 1.9e-12
 Identities = 32/61 (52%), Positives = 42/61 (68%)

Query:     5 TNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAF 64
             T    ++D KP+ +  HINLKV GQD NEVFF+IK++T+  KLM  YC RQ   +NS+ F
Sbjct:    21 TGDTSQQDVKPSTE--HINLKVVGQDNNEVFFKIKKTTEFSKLMKIYCARQGKSMNSLRF 78

Query:    65 L 65
             L
Sbjct:    79 L 79

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

GO:0000723 "telomere maintenance" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0005816 "spindle pole body" evidence=IDA

GO:0016925 "protein sumoylation" evidence=TAS

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

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

GO:0030998 "linear element" evidence=IDA

GO:0031386 "protein tag" evidence=TAS

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

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

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

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

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

 Score = 162 (62.1 bits), Expect = 5.0e-12, P = 5.0e-12
 Identities = 29/61 (47%), Positives = 44/61 (72%)

Query:     6 NTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFL 65
             + PQ++     +Q AH+ LKVK QDG+EV F+ K+S  LKKLM  YCDR+ ++L++ AF+
Sbjct:     2 SNPQDDKPIDQEQEAHVILKVKSQDGDEVLFKNKKSAPLKKLMYVYCDRRGLKLDAFAFI 61

Query:    66 Y 66
             +
Sbjct:    62 F 62

GO:0005634 "nucleus" evidence=ISM

GO:0016925 "protein sumoylation" evidence=IEP;IDA

GO:0031386 "protein tag" evidence=IDA

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

UNIPROTKB|Q5ZHQ1 SUMO3 "Small ubiquitin-related modifier 3" [Gallus gallus (taxid:9031)]

 Score = 151 (58.2 bits), Expect = 7.4e-11, P = 7.4e-11
 Identities = 32/59 (54%), Positives = 39/59 (66%)

Query:     8 PQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
             P+E  K  ND   HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct:     6 PKEGVKTEND---HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 61

GO:0005737 "cytoplasm" evidence=IEA

GO:0016604 "nuclear body" evidence=IEA

GO:0016925 "protein sumoylation" evidence=IEA

GO:0019789 "SUMO ligase activity" evidence=IEA

GO:0034504 "protein localization to nucleus" evidence=IEA

GO:2000060 "positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=IEA

UNIPROTKB|Q17QV3 SUMO3 "Small ubiquitin-related modifier 3" [Bos taurus (taxid:9913)]

 Score = 151 (58.2 bits), Expect = 7.4e-11, P = 7.4e-11
 Identities = 32/59 (54%), Positives = 39/59 (66%)

Query:     8 PQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
             P+E  K  ND   HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct:     6 PKEGVKTEND---HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 61

GO:0005737 "cytoplasm" evidence=IEA

GO:2000060 "positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0034504 "protein localization to nucleus" evidence=IEA

GO:0019789 "SUMO ligase activity" evidence=IEA

GO:0016604 "nuclear body" evidence=IEA

GO:0016925 "protein sumoylation" evidence=IEA

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

 Score = 151 (58.2 bits), Expect = 7.4e-11, P = 7.4e-11
 Identities = 32/59 (54%), Positives = 39/59 (66%)

Query:     8 PQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
             P+E  K  ND   HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct:     6 PKEGVKTEND---HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 61

GO:0005634 "nucleus" evidence=IEA

GO:0016925 "protein sumoylation" evidence=IEA

UNIPROTKB|A8MUA9 SUMO3 "Small ubiquitin-related modifier 3" [Homo sapiens (taxid:9606)]

 Score = 151 (58.2 bits), Expect = 7.4e-11, P = 7.4e-11
 Identities = 32/59 (54%), Positives = 39/59 (66%)

Query:     8 PQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
             P+E  K  ND   HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct:     6 PKEGVKTEND---HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 61

GO:0005634 "nucleus" evidence=IEA

GO:0016925 "protein sumoylation" evidence=IEA

UNIPROTKB|P55854 SUMO3 "Small ubiquitin-related modifier 3" [Homo sapiens (taxid:9606)]

 Score = 151 (58.2 bits), Expect = 7.4e-11, P = 7.4e-11
 Identities = 32/59 (54%), Positives = 39/59 (66%)

Query:     8 PQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
             P+E  K  ND   HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct:     6 PKEGVKTEND---HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 61

GO:0016604 "nuclear body" evidence=IEA

GO:0019789 "SUMO ligase activity" evidence=IEA

GO:0034504 "protein localization to nucleus" evidence=IEA

GO:2000060 "positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0016925 "protein sumoylation" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0000776 "kinetochore" evidence=TAS

UNIPROTKB|I3LLG3 SUMO3 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 151 (58.2 bits), Expect = 7.4e-11, P = 7.4e-11
 Identities = 32/59 (54%), Positives = 39/59 (66%)

Query:     8 PQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
             P+E  K  ND   HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct:     6 PKEGVKTEND---HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 61

GO:2000060 "positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0034504 "protein localization to nucleus" evidence=IEA

GO:0019789 "SUMO ligase activity" evidence=IEA

GO:0016925 "protein sumoylation" evidence=IEA

GO:0016604 "nuclear body" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P55852	SUMO1_ARATH	No assigned EC number	0.8965	0.7435	0.58	yes	no
Q6NV25	SMO3L_DANRE	No assigned EC number	0.5245	0.7435	0.6170	yes	no
P55857	SUMO1_ORYSJ	No assigned EC number	0.8166	0.7307	0.57	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: estExt_fgenesh4_pm.C_LG_XIV0441 hypothetical protein (103 aa) (Populus trichocarpa)

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

ID	Length	Definition	E-value
Query	78
cd01763	87	cd01763, Sumo, Small ubiquitin-related modifier (S	2e-28
COG5227	103	COG5227, SMT3, Ubiquitin-like protein (sentrin) [P	3e-16
pfam11976	72	pfam11976, Rad60-SLD, Ubiquitin-2 like Rad60 SUMO-	1e-12
smart00213	72	smart00213, UBQ, Ubiquitin homologues	7e-07
pfam00240	69	pfam00240, ubiquitin, Ubiquitin family	0.004

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

 Score = 96.9 bits (242), Expect = 2e-28
 Identities = 37/56 (66%), Positives = 43/56 (76%)

Query: 11 EDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          E     + S HINLKVKGQDGNEVFF+IKRST LKKLM AYC RQ + +NS+ FL+
Sbjct: 1  EKSGKGEISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLF 56

Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases. Length = 87

>gnl|CDD|227552 COG5227, SMT3, Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]

 Score = 66.5 bits (162), Expect = 3e-16
 Identities = 27/55 (49%), Positives = 38/55 (69%), Gaps = 2/55 (3%)

Query: 12 DKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
            KP   + HINLKV  QDG E+FF+IK++T  KKLM+A+  RQ   ++S+ FL+
Sbjct: 17 LVKP--ITKHINLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLF 69

Length = 103

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

 Score = 56.4 bits (137), Expect = 1e-12
 Identities = 17/46 (36%), Positives = 30/46 (65%), Gaps = 1/46 (2%)

Query: 22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV-ELNSIAFLY 66
          I +K+KG+DG EVF ++K +T L KL+NAY  ++ +     +  ++
Sbjct: 1  IRIKLKGKDGKEVFIKVKPTTTLSKLINAYRKKRGIPADQQVRLIF 46

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

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

 Score = 41.9 bits (99), Expect = 7e-07
 Identities = 10/45 (22%), Positives = 17/45 (37%)

Query: 22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          I L VK  DG  +   +K S  + +L     +   +       +Y
Sbjct: 1  IELTVKTLDGKTITLEVKPSDTVSELKEKIAELTGIPPEQQRLIY 45

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

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

 Score = 32.2 bits (74), Expect = 0.004
 Identities = 6/40 (15%), Positives = 17/40 (42%)

Query: 27 KGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          K  DG  +   +  S  + +L     D++ + ++    ++
Sbjct: 1  KTLDGKTITLEVDPSDTVSELKEKIEDKEGIPVDQQRLIF 40

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	78
KOG1769	99	consensus Ubiquitin-like proteins [Posttranslation	99.94
COG5227	103	SMT3 Ubiquitin-like protein (sentrin) [Posttransla	99.91
cd01763	87	Sumo Small ubiquitin-related modifier (SUMO). Smal	99.7
PF11976	72	Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; Inter	99.6
cd01806	76	Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also kn	98.38
cd01809	72	Scythe_N Ubiquitin-like domain of Scythe protein.	98.04
smart00213	64	UBQ Ubiquitin homologues. Ubiquitin-mediated prote	97.83
cd01812	71	BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-ter	97.6
cd01807	74	GDX_N ubiquitin-like domain of GDX. GDX contains a	97.56
cd01803	76	Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40	97.55
PTZ00044	76	ubiquitin; Provisional	97.52
cd01769	69	UBL Ubiquitin-like domain of UBL. UBLs function by	97.48
PF11470	65	TUG-UBL1: GLUT4 regulating protein TUG; InterPro:	97.44
cd01798	70	parkin_N amino-terminal ubiquitin-like of parkin p	97.41
PF00240	69	ubiquitin: Ubiquitin family; InterPro: IPR000626 U	97.31
cd01805	77	RAD23_N Ubiquitin-like domain of RAD23. RAD23 belo	97.18
cd01791	73	Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also know	97.15
cd01804	78	midnolin_N Ubiquitin-like domain of midnolin. midn	97.03
cd00196	69	UBQ Ubiquitin-like proteins. Ubiquitin homologs; I	96.97
cd01792	80	ISG15_repeat1 ISG15 ubiquitin-like protein, first	96.8
cd01810	74	ISG15_repeat2 ISG15 ubiquitin-like protein, second	96.77
cd01808	71	hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC	96.59
cd01802	103	AN1_N ubiquitin-like domain of AN1. AN1 (also know	96.55
cd01794	70	DC_UbP_C dendritic cell derived ubiquitin-like pro	96.22
cd01796	71	DDI1_N DNA damage inducible protein 1 ubiquitin-li	96.11
cd06409	86	PB1_MUG70 The MUG70 protein is a product of the me	96.1
cd01793	74	Fubi Fubi ubiquitin-like protein. Fubi is a ubiqui	96.06
cd01797	78	NIRF_N amino-terminal ubiquitin-like domain of Np9	95.51
cd01799	75	Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HO	95.09
smart00455	70	RBD Raf-like Ras-binding domain.	94.31
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	94.08
smart00666	81	PB1 PB1 domain. Phox and Bem1p domain, present in	93.96
cd01790	79	Herp_N Homocysteine-responsive endoplasmic reticul	93.74
PF11543	80	UN_NPL4: Nuclear pore localisation protein NPL4; I	93.49
cd06407	82	PB1_NLP A PB1 domain is present in NIN like protei	92.53
PF02196	71	RBD: Raf-like Ras-binding domain; InterPro: IPR003	92.19
cd01800	76	SF3a120_C Ubiquitin-like domain of Mammalian splic	92.02
KOG0005	70	consensus Ubiquitin-like protein [Cell cycle contr	91.97
cd01777	87	SNX27_RA Ubiquitin domain of SNX27 (sorting nexin	91.92
PF00564	84	PB1: PB1 domain; InterPro: IPR000270 The Phox and	91.89
KOG0010	493	consensus Ubiquitin-like protein [Posttranslationa	91.85
KOG0006	446	consensus E3 ubiquitin-protein ligase (Parkin prot	91.77
cd01760	72	RBD Ubiquitin-like domain of RBD-like S/T kinases.	90.93
cd06396	81	PB1_NBR1 The PB1 domain is an essential part of NB	90.9
cd06408	86	PB1_NoxR The PB1 domain is present in the Epichloe	90.22
cd05992	81	PB1 The PB1 domain is a modular domain mediating s	89.86
cd01813	74	UBP_N UBP ubiquitin processing protease. The UBP (	89.71
smart00295	207	B41 Band 4.1 homologues. Also known as ezrin/radix	89.58
PF00789	82	UBX: UBX domain; InterPro: IPR001012 The UBX domai	89.54
smart00166	80	UBX Domain present in ubiquitin-regulatory protein	88.68
cd01814	113	NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and AT	88.26
cd06406	80	PB1_P67 A PB1 domain is present in p67 proteins wh	85.34
PF09379	80	FERM_N: FERM N-terminal domain ; InterPro: IPR0189	85.3
PF00788	93	RA: Ras association (RalGDS/AF-6) domain; InterPro	84.76
cd01789	84	Alp11_N Ubiquitin-like domain of Alp11 tubulin-fol	84.68
cd01818	77	TIAM1_RBD Ubiquitin domain of Tiam1 guanine nucleo	83.79
PHA01623	56	hypothetical protein	83.74
PLN02560	308	enoyl-CoA reductase	81.67

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

Probab=99.94  E-value=3.2e-27  Score=151.49  Aligned_cols=56  Identities=57%  Similarity=0.861  Sum_probs=54.2

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      ..||+|||++|+|++++|+||++|||+|||+|||+|+|+++++|||+|||+||...
T Consensus        18 ~~hi~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~rI~~~   73 (99)
T KOG1769|consen   18 SEHINLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQRIRET   73 (99)
T ss_pred             cceEEEEEecCCCCEEEEEeecCChHHHHHHHHHHHcCCccceEEEEECCcCcCCC
Confidence            68999999999999999999999999999999999999999999999999999865

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

Probab=99.91  E-value=1.8e-24  Score=137.91  Aligned_cols=61  Identities=46%  Similarity=0.693  Sum_probs=56.3

Q ss_pred             CCCCCCCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           12 DKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        12 ~~kp~~~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      ++||  ...||+|||.||||++++|+||++|+|+|||+|||.++|.+++++||||||.||.+-
T Consensus        17 ~vkp--~t~hinLkvv~qd~telfFkiKktT~f~klm~af~~rqGK~m~slRfL~dG~rI~~d   77 (103)
T COG5227          17 LVKP--ITKHINLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRIDLD   77 (103)
T ss_pred             cccc--cccccceEEecCCCCEEEEEEeccchHHHHHHHHHHHhCcCcceeEEEEcceecCCC
Confidence            4445  357999999999999999999999999999999999999999999999999999863

>cd01763 Sumo Small ubiquitin-related modifier (SUMO)

Probab=99.70  E-value=1e-16  Score=99.34  Aligned_cols=57  Identities=63%  Similarity=0.918  Sum_probs=54.3

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           18 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        18 ~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      ++.+|+|+|++++|..+.|+|+++++|++||++||++.|++++.+||+|||.+|...
T Consensus         8 ~~~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L~~~   64 (87)
T cd01763           8 ISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIRDN   64 (87)
T ss_pred             CCCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeECCCC
Confidence            467999999999999999999999999999999999999999999999999999764

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

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

Probab=99.60  E-value=3.5e-15  Score=88.25  Aligned_cols=54  Identities=30%  Similarity=0.554  Sum_probs=50.8

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCC-CeEEEEECCEeeccee
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL-NSIAFLYVHISAFLAW   75 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~-~s~rFlfdG~rI~~~~   75 (78)
                      |+|+|++++|..+.|+|++++++++||++||++.|++. ++++|.|||.+|.+..
T Consensus         1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~   55 (72)
T PF11976_consen    1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPND   55 (72)
T ss_dssp             EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTS
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCC
Confidence            78999999999999999999999999999999999999 9999999999998754

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

>cd01806 Nedd8 Nebb8-like ubiquitin protein

Probab=98.38  E-value=2.1e-06  Score=50.39  Aligned_cols=53  Identities=13%  Similarity=0.236  Sum_probs=48.8

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      +.|.|+..+|..+.+.|.++.....|...++++.|++++..|+.|+|..+...
T Consensus         1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~g~~L~d~   53 (76)
T cd01806           1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDD   53 (76)
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCeEccCC
Confidence            36788888999999999999999999999999999999999999999988654

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

>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein

Probab=98.04  E-value=2.7e-05  Score=45.09  Aligned_cols=53  Identities=15%  Similarity=0.212  Sum_probs=48.8

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      |+|.|+..+|..+.+.+.++.+...|.+..+++.|++++..++.|+|..+...
T Consensus         1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~   53 (72)
T cd01809           1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDD   53 (72)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCEECCCc
Confidence            57888889999999999999999999999999999999999999999987643

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.

>smart00213 UBQ Ubiquitin homologues

Probab=97.83  E-value=0.0001  Score=41.22  Aligned_cols=52  Identities=17%  Similarity=0.231  Sum_probs=45.1

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      +.|.|+..+ ....+.|..++....|....+++.|++.+..+++|+|..+...
T Consensus         1 ~~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~~g~~L~d~   52 (64)
T smart00213        1 IELTVKTLD-GTITLEVKPSDTVSELKEKIAELTGIPVEQQRLIYKGKVLEDD   52 (64)
T ss_pred             CEEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEECCCC
Confidence            356677766 5778999999999999999999999999999999999987643

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

>cd01812 BAG1_N Ubiquitin-like domain of BAG1

Probab=97.60  E-value=0.00022  Score=41.27  Aligned_cols=51  Identities=16%  Similarity=0.146  Sum_probs=45.6

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      |+|+|+.. |....+.+.++.....|.+..+++.|++++..|++|+|..+..
T Consensus         1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~l~d   51 (71)
T cd01812           1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDD   51 (71)
T ss_pred             CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCcccCc
Confidence            67788874 7777899999999999999999999999999999999988753

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

>cd01807 GDX_N ubiquitin-like domain of GDX

Probab=97.56  E-value=0.00042  Score=41.00  Aligned_cols=51  Identities=16%  Similarity=0.143  Sum_probs=46.4

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           23 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        23 ~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      .|.|+..+|..+.+.|.+++....|....|++.|++.+..|++|+|+.+.-
T Consensus         2 ~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~G~~L~d   52 (74)
T cd01807           2 FLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALAD   52 (74)
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCC
Confidence            466677789999999999999999999999999999999999999999854

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

>cd01803 Ubiquitin Ubiquitin

Probab=97.55  E-value=0.00047  Score=40.19  Aligned_cols=52  Identities=10%  Similarity=0.191  Sum_probs=47.3

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           23 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        23 ~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      .|.|+..+|..+.+.+.++.....|.+..+++.|++.+..|+.|+|..+..+
T Consensus         2 ~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~~g~~L~d~   53 (76)
T cd01803           2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG   53 (76)
T ss_pred             EEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEECCEECCCC
Confidence            5677888899999999999999999999999999999999999999887654

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

>PTZ00044 ubiquitin; Provisional

Probab=97.52  E-value=0.00055  Score=40.30  Aligned_cols=52  Identities=12%  Similarity=0.270  Sum_probs=47.5

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           23 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        23 ~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      .|.|+..+|....+.+.++.....|....+++.|++.+..|+.|+|..+...
T Consensus         2 ~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~   53 (76)
T PTZ00044          2 QILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDD   53 (76)
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEEccCC
Confidence            5677788999999999999999999999999999999999999999988643

>cd01769 UBL Ubiquitin-like domain of UBL

Probab=97.48  E-value=0.00046  Score=38.98  Aligned_cols=48  Identities=13%  Similarity=0.137  Sum_probs=43.1

Q ss_pred             EEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           26 VKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        26 V~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      |...+|....+.+..++++..|.+.++++.|++.+.+++.|+|+.+..
T Consensus         2 v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~~g~~l~d   49 (69)
T cd01769           2 VKTLTGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKD   49 (69)
T ss_pred             eEccCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCcCCCC
Confidence            455578899999999999999999999999999999999999987753

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.

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

Probab=97.44  E-value=0.00057  Score=40.82  Aligned_cols=50  Identities=12%  Similarity=0.140  Sum_probs=38.3

Q ss_pred             EEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeeccee
Q 034926           26 VKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAW   75 (78)
Q Consensus        26 V~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~   75 (78)
                      |...+++...++|.+++.|..+.+.-|++.|++.+...+.++++.|.+|-
T Consensus         1 vi~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h~~k~ldlsl   50 (65)
T PF11470_consen    1 VICYNFRRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLKHNNKPLDLSL   50 (65)
T ss_dssp             EE-TTS-EEEE---TTSBHHHHHHHHHHHTT--GGG-EEEETTEEESSS-
T ss_pred             CCccCCcEEEEEECCCCCHHHHHHHHHHHcCCCccceEEEECCEEecccc
Confidence            45678899999999999999999999999999999999999999998874

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

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

Probab=97.41  E-value=0.00067  Score=39.66  Aligned_cols=49  Identities=16%  Similarity=0.247  Sum_probs=45.0

Q ss_pred             EEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           25 KVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        25 kV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      .|+..+|..+.+.+.++.....|.+..+++.|++.+..|+.|.|+.+.-
T Consensus         2 ~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li~~G~~L~d   50 (70)
T cd01798           2 YVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGKELRN   50 (70)
T ss_pred             EEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEEECCeECCC
Confidence            4667789999999999999999999999999999999999999999854

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.

>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=97.31  E-value=0.0013  Score=37.89  Aligned_cols=46  Identities=7%  Similarity=0.102  Sum_probs=42.3

Q ss_pred             cCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           29 QDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        29 qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      .+|..+.+.|..++....|.+..+++.|++++..++.|+|+.+...
T Consensus         3 ~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L~d~   48 (69)
T PF00240_consen    3 LSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKELDDD   48 (69)
T ss_dssp             TTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEESTT
T ss_pred             CCCcEEEEEECCCCCHHHhhhhcccccccccccceeeeeeecccCc
Confidence            4678899999999999999999999999999999999999998543

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

>cd01805 RAD23_N Ubiquitin-like domain of RAD23

Probab=97.18  E-value=0.0028  Score=37.24  Aligned_cols=51  Identities=6%  Similarity=0.042  Sum_probs=45.6

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCC--CCCeEEEEECCEeecc
Q 034926           23 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV--ELNSIAFLYVHISAFL   73 (78)
Q Consensus        23 ~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl--~~~s~rFlfdG~rI~~   73 (78)
                      .|.|...+|....+.+..++....|....+++.|+  +++..++.|+|..+..
T Consensus         2 ~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G~~L~d   54 (77)
T cd01805           2 KITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKD   54 (77)
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCEEccC
Confidence            45666678899999999999999999999999999  9999999999998863

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

>cd01791 Ubl5 UBL5 ubiquitin-like modifier

Probab=97.15  E-value=0.0027  Score=38.19  Aligned_cols=51  Identities=10%  Similarity=0.057  Sum_probs=47.2

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeec
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAF   72 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~   72 (78)
                      +.|.|.+..|..+.+.+.+++....|.+..+++.|++++..|+.|.|..+.
T Consensus         2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~Gk~L~   52 (73)
T cd01791           2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFK   52 (73)
T ss_pred             EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEeCCcCCC
Confidence            678899888999889999999999999999999999999999999998765

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.

>cd01804 midnolin_N Ubiquitin-like domain of midnolin

Probab=97.03  E-value=0.0042  Score=37.35  Aligned_cols=52  Identities=15%  Similarity=0.209  Sum_probs=47.2

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      ++|.|+...|....+.+.+++....|.+..+++.|++....|+.|.|..+.-
T Consensus         2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d   53 (78)
T cd01804           2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSS   53 (78)
T ss_pred             eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCC
Confidence            5778888889998999999999999999999999999999999999987653

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.

>cd00196 UBQ Ubiquitin-like proteins

Probab=96.97  E-value=0.0036  Score=32.43  Aligned_cols=46  Identities=13%  Similarity=0.088  Sum_probs=41.7

Q ss_pred             cCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           29 QDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        29 qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      .+|....+.+..++++..|.+..+++.|.+.+.+++.++|..+...
T Consensus         5 ~~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~~   50 (69)
T cd00196           5 NDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDS   50 (69)
T ss_pred             cCCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECCCC
Confidence            3788889999999999999999999999999999999999887654

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.

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

Probab=96.80  E-value=0.0045  Score=37.22  Aligned_cols=51  Identities=22%  Similarity=0.209  Sum_probs=46.4

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEE--EECCEeec
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAF--LYVHISAF   72 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rF--lfdG~rI~   72 (78)
                      +.|.|+...|..+.+.+.++.....|.+..+++.|++.+..|+  .|+|..+.
T Consensus         3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~   55 (80)
T cd01792           3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQ   55 (80)
T ss_pred             eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCC
Confidence            7788888889998889999999999999999999999999999  88898765

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.

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

Probab=96.77  E-value=0.007  Score=35.74  Aligned_cols=50  Identities=10%  Similarity=0.206  Sum_probs=45.5

Q ss_pred             EEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           24 LKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        24 lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      |.|+...|..+.+.|.++.....|....+++.|++....++.|+|+.+.-
T Consensus         1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~D   50 (74)
T cd01810           1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGRPMED   50 (74)
T ss_pred             CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCEECCC
Confidence            35677789999999999999999999999999999999999999998864

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.

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

Probab=96.59  E-value=0.014  Score=34.16  Aligned_cols=51  Identities=14%  Similarity=0.188  Sum_probs=44.0

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      |+|.|+...|.. .+.|.++.....|.+..+++.|++...+|+.|+|+-+.-
T Consensus         1 ~~i~vk~~~g~~-~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li~~Gk~L~d   51 (71)
T cd01808           1 IKVTVKTPKDKE-EIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGKILKD   51 (71)
T ss_pred             CEEEEEcCCCCE-EEEECCCChHHHHHHHHHHHhCCCHHHEEEEECCeEcCC
Confidence            356666777764 799999999999999999999999999999999997753

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.

>cd01802 AN1_N ubiquitin-like domain of AN1

Probab=96.55  E-value=0.019  Score=36.58  Aligned_cols=55  Identities=5%  Similarity=0.067  Sum_probs=50.6

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           20 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      +.+.|.|+...|..+.+.|.+++....|...-+++.|++.+..|+.|.|+.+.-.
T Consensus        26 ~~M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~~Gk~L~D~   80 (103)
T cd01802          26 DTMELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDE   80 (103)
T ss_pred             CCEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEECCEECCCC
Confidence            4688999999999999999999999999999999999999999999999988543

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.

>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein

Probab=96.22  E-value=0.022  Score=33.74  Aligned_cols=51  Identities=14%  Similarity=0.161  Sum_probs=45.7

Q ss_pred             EEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           24 LKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        24 lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      |||+...|+.+.+.+.+++....|...-+++.|++....|++|.|+.+.-.
T Consensus         1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~~L~D~   51 (70)
T cd01794           1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGKLLTDK   51 (70)
T ss_pred             CeEEcCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCC
Confidence            467777899999999999999999999999999999999999999987643

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=96.11  E-value=0.026  Score=33.25  Aligned_cols=49  Identities=6%  Similarity=0.051  Sum_probs=42.9

Q ss_pred             EEEcc-CCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           25 KVKGQ-DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        25 kV~~q-dg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      .|+-. .|..+.+.|.++.....|...-+++.|++.+..|++|+|+.+.-
T Consensus         2 ~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~~Gk~L~D   51 (71)
T cd01796           2 TVYTARSETTFSLDVDPDLELENFKALCEAESGIPASQQQLIYNGRELVD   51 (71)
T ss_pred             EEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEECCeEccC
Confidence            34445 67788899999999999999999999999999999999999854

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.

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

Probab=96.10  E-value=0.033  Score=34.95  Aligned_cols=52  Identities=21%  Similarity=0.237  Sum_probs=46.1

Q ss_pred             EEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCC---CeEEEEE---CCEeeccee
Q 034926           24 LKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL---NSIAFLY---VHISAFLAW   75 (78)
Q Consensus        24 lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~---~s~rFlf---dG~rI~~~~   75 (78)
                      +|.+++.|..++|++.++..+..|+.+-++|.|.+.   +.+.+.|   ||..+.+++
T Consensus         3 FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~YlDDEgD~VllT~   60 (86)
T cd06409           3 FKFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSYVDDEGDIVLITS   60 (86)
T ss_pred             EEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEEEcCCCCEEEEec
Confidence            678899999999999999999999999999999986   6888888   677776664

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

>cd01793 Fubi Fubi ubiquitin-like protein

Probab=96.06  E-value=0.039  Score=32.46  Aligned_cols=50  Identities=8%  Similarity=0.131  Sum_probs=43.1

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           23 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        23 ~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      .|.|++  ++...+.|.++.....|...-+++.|++.+..|+.|.|+.+.-.
T Consensus         2 qi~vk~--~~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~Gk~L~D~   51 (74)
T cd01793           2 QLFVRA--QNTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDD   51 (74)
T ss_pred             EEEEEC--CCEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCeECCCC
Confidence            456665  35678999999999999999999999999999999999988543

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

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

Probab=95.51  E-value=0.073  Score=32.10  Aligned_cols=52  Identities=19%  Similarity=0.193  Sum_probs=44.3

Q ss_pred             EEEEEccCCCE-EEEE-EeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           23 NLKVKGQDGNE-VFFR-IKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        23 ~lkV~~qdg~~-v~Fk-IK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      .|.|+...|.. ..+. +.++.....|...-+++.|++.+..|++|.|+.+...
T Consensus         2 ~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk~L~D~   55 (78)
T cd01797           2 WIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQMEDG   55 (78)
T ss_pred             EEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCEECCCC
Confidence            46667778887 4674 7899999999999999999999999999999988654

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.

>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1

Probab=95.09  E-value=0.1  Score=31.36  Aligned_cols=42  Identities=2%  Similarity=0.020  Sum_probs=38.3

Q ss_pred             CCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeec
Q 034926           30 DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAF   72 (78)
Q Consensus        30 dg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~   72 (78)
                      .|..+.+.|.++.....|...-+++.|++++..|+ |+|.++.
T Consensus        11 ~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~~G~~L~   52 (75)
T cd01799          11 HTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-VIGQRLA   52 (75)
T ss_pred             CCCeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-EcCCeeC
Confidence            36778899999999999999999999999999999 9999874

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.

>smart00455 RBD Raf-like Ras-binding domain

Probab=94.31  E-value=0.23  Score=29.65  Aligned_cols=50  Identities=8%  Similarity=0.102  Sum_probs=42.5

Q ss_pred             EEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           24 LKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        24 lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      .+|.=+||..+..++|++.++.-+...-|++.|+++.......-|..-.+
T Consensus         2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~l~~~~~~v~~~g~~k~l   51 (70)
T smart00455        2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKKRGLNPECCVVRLRGEKKPL   51 (70)
T ss_pred             eEEECCCCCEEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCcce
Confidence            46777899999999999999999999999999999998888775643333

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=94.08  E-value=0.22  Score=38.41  Aligned_cols=52  Identities=12%  Similarity=0.081  Sum_probs=46.0

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcC---CCCCeEEEEECCEeecce
Q 034926           23 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQS---VELNSIAFLYVHISAFLA   74 (78)
Q Consensus        23 ~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~g---l~~~s~rFlfdG~rI~~~   74 (78)
                      +|.|+.-+|..+.+.|..+.....|.+..++..|   ++....|++|.|+.|.-.
T Consensus         2 kItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd   56 (378)
T TIGR00601         2 TLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDD   56 (378)
T ss_pred             EEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCC
Confidence            5677777888888999999999999999999998   899999999999988643

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).

>smart00666 PB1 PB1 domain

Probab=93.96  E-value=0.42  Score=28.09  Aligned_cols=53  Identities=15%  Similarity=0.211  Sum_probs=42.3

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEE---CCEeeccee
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY---VHISAFLAW   75 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlf---dG~rI~~~~   75 (78)
                      +++||.- .|....|.+.++..+..|...=+++.++....+++.|   ||.-|.+++
T Consensus         2 ~~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~s   57 (81)
T smart00666        2 VDVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTS   57 (81)
T ss_pred             ccEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecC
Confidence            5677765 5556689999999999999999999999877888888   566665543

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.

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

Probab=93.74  E-value=0.6  Score=28.71  Aligned_cols=54  Identities=7%  Similarity=-0.095  Sum_probs=44.8

Q ss_pred             cEEEEEEccCCCEEEEEE--eCCchHHHHHHHHHhhcC--CCCCeEEEEECCEeecce
Q 034926           21 HINLKVKGQDGNEVFFRI--KRSTQLKKLMNAYCDRQS--VELNSIAFLYVHISAFLA   74 (78)
Q Consensus        21 ~I~lkV~~qdg~~v~FkI--K~~t~l~KLm~aYc~r~g--l~~~s~rFlfdG~rI~~~   74 (78)
                      .|+|.|+..++....|.|  ..+.....|.+.-++..+  -++...|+.|-|+-+.-.
T Consensus         1 ~i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~   58 (79)
T cd01790           1 PVTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDH   58 (79)
T ss_pred             CeEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccch
Confidence            388999999999877777  789999999998888775  457999999999977543

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.

>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=93.49  E-value=0.12  Score=31.57  Aligned_cols=46  Identities=20%  Similarity=0.294  Sum_probs=31.6

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEE
Q 034926           20 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY   66 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlf   66 (78)
                      +.+-|||+++||.. ++.+.++..+..|++..++..+++..++.+..
T Consensus         3 ~~milRvrS~dG~~-Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~   48 (80)
T PF11543_consen    3 SSMILRVRSKDGMK-RIEVSPSSTLSDLKEKISEQLSIPDSSQSLSK   48 (80)
T ss_dssp             ---EEEEE-SSEEE-EEEE-TTSBHHHHHHHHHHHS---TTT---BS
T ss_pred             ccEEEEEECCCCCE-EEEcCCcccHHHHHHHHHHHcCCCCcceEEEe
Confidence            46889999999976 88999999999999999999999988766543

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.

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

Probab=92.53  E-value=0.95  Score=27.79  Aligned_cols=53  Identities=15%  Similarity=0.214  Sum_probs=41.7

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCC-CeEEEEE---CCEeeccee
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL-NSIAFLY---VHISAFLAW   75 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~-~s~rFlf---dG~rI~~~~   75 (78)
                      ++||+.- .|..+.|++.++..+..|.+.-+++.+++. ..+.+.|   +|..+.+++
T Consensus         1 ~~vK~~~-~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~lts   57 (82)
T cd06407           1 VRVKATY-GEEKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTC   57 (82)
T ss_pred             CEEEEEe-CCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeec
Confidence            3566654 566789999999999999999999999875 7888887   565555543

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

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

Probab=92.19  E-value=0.83  Score=27.15  Aligned_cols=52  Identities=12%  Similarity=0.325  Sum_probs=40.9

Q ss_pred             EEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeeccee
Q 034926           24 LKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAW   75 (78)
Q Consensus        24 lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~   75 (78)
                      ++|.=++|+.....++++..++-....-|++.|+++.......-|..-.+.|
T Consensus         3 ~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~~~~V~~~~~~k~l~~   54 (71)
T PF02196_consen    3 CRVHLPNGQRTVVQVRPGMTIRDALSKACKKRGLNPECCDVRLVGEKKPLDW   54 (71)
T ss_dssp             EEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT--CCCEEEEEEEEEEEE-T
T ss_pred             EEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCccccC
Confidence            5677789999999999999999999999999999999887777665555544

It is found in association with the PE-bind and pkinase domains.; GO: 0005057 receptor signaling protein activity, 0007165 signal transduction; PDB: 1RFA_A 1C1Y_B 3KUD_B 1GUA_B 3KUC_B 2L05_A 3NY5_D 1RRB_A 1WFY_A 1WXM_A.

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

Probab=92.02  E-value=0.58  Score=27.61  Aligned_cols=43  Identities=14%  Similarity=0.149  Sum_probs=38.6

Q ss_pred             CCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeec
Q 034926           30 DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAF   72 (78)
Q Consensus        30 dg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~   72 (78)
                      +|..+.+.+.++.....|...-....|++.+..++.|.|..+.
T Consensus         6 ~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~   48 (76)
T cd01800           6 NGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIK   48 (76)
T ss_pred             CCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcC
Confidence            5677789999999999999999999999999999999998764

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.

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

Probab=91.97  E-value=0.28  Score=29.52  Aligned_cols=49  Identities=14%  Similarity=0.296  Sum_probs=45.5

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEee
Q 034926           23 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISA   71 (78)
Q Consensus        23 ~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI   71 (78)
                      .|||+.-.|.++.+.|-++.+..++.+--.++-|+++..-|+.|.|+..
T Consensus         2 ~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp~qqrli~~gkqm   50 (70)
T KOG0005|consen    2 LIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYAGKQM   50 (70)
T ss_pred             eeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhhhccccc
Confidence            4677778899999999999999999999999999999999999999876

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

Probab=91.92  E-value=0.35  Score=30.53  Aligned_cols=42  Identities=12%  Similarity=0.288  Sum_probs=38.0

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEE
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIA   63 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~r   63 (78)
                      +.|+|.=+||..+..+|+++..-..++++-|.+.|++....+
T Consensus         2 V~L~V~Lpdg~~i~V~v~~s~~a~~Vleav~~kl~L~~e~~~   43 (87)
T cd01777           2 VELRIALPDKATVTVRVRKNATTDQVYQALVAKAGMDSYTQN   43 (87)
T ss_pred             eEEEEEccCCCEEEEEEEEcccHHHHHHHHHHHhCCCHHHHh
Confidence            678888899999999999999999999999999999976644

SNX27_RA SNX27 (sorting nexin protein 27) belongs to a large family of endosome-localized proteins related to sorting nexin1 which is implicated in regulating membrane traffic. The domain architecture of SNX27 includes an amino-terminal PDZ domain, a PX (PhoX homologous) domain, and a carboxy-terminal RA (RAS-associated) domain.

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

Probab=91.89  E-value=1.4  Score=25.84  Aligned_cols=54  Identities=7%  Similarity=0.058  Sum_probs=42.2

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEE---CCEeeccee
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY---VHISAFLAW   75 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlf---dG~rI~~~~   75 (78)
                      +.||+.-.++....|.+..+..+..|...=+++.+.....+++.|   ||..|.+++
T Consensus         2 ~~vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D~dgD~V~i~s   58 (84)
T PF00564_consen    2 VRVKVRYGGDIRRIISLPSDVSFDDLRSKIREKFGLLDEDFQLKYKDEDGDLVTISS   58 (84)
T ss_dssp             EEEEEEETTEEEEEEEECSTSHHHHHHHHHHHHHTTSTSSEEEEEEETTSSEEEESS
T ss_pred             EEEEEEECCeeEEEEEcCCCCCHHHHHHHHHHHhCCCCccEEEEeeCCCCCEEEeCC
Confidence            667777644333238999999999999999999999888888888   676766653

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

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

Probab=91.85  E-value=0.74  Score=36.94  Aligned_cols=52  Identities=12%  Similarity=0.159  Sum_probs=47.6

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeec
Q 034926           20 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAF   72 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~   72 (78)
                      ..|.|+|+..+. ...|.|-.+...+-|.+.-+.+.+.+.+.++++|.|+-++
T Consensus        14 ~~irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrILK   65 (493)
T KOG0010|consen   14 SLIRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGRILK   65 (493)
T ss_pred             ceeEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCcccc
Confidence            468899988777 6699999999999999999999999999999999999876

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

Probab=91.77  E-value=0.57  Score=36.45  Aligned_cols=45  Identities=13%  Similarity=0.157  Sum_probs=41.0

Q ss_pred             EEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecceeec
Q 034926           33 EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAWAV   77 (78)
Q Consensus        33 ~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~~~   77 (78)
                      .+.+.|+-+|.+..|.+.-+.++|++.+.||..|-|+.++-+|.+
T Consensus        15 ~l~v~v~~~t~I~~lke~Vak~~gvp~D~L~viFaGKeLs~~ttv   59 (446)
T KOG0006|consen   15 GLPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELSNDTTV   59 (446)
T ss_pred             ceeEEEecCCCHHHHHHHHHHhhCCChhheEEEEeccccccCcee
Confidence            356778999999999999999999999999999999999988764

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

Probab=90.93  E-value=1.1  Score=27.04  Aligned_cols=45  Identities=7%  Similarity=0.282  Sum_probs=38.2

Q ss_pred             EEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECC
Q 034926           24 LKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVH   68 (78)
Q Consensus        24 lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG   68 (78)
                      ++|.=+||......|+++..++-+...-|++.|+++...-..+-|
T Consensus         2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~l~~~~~~v~~~~   46 (72)
T cd01760           2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRGLNPECCDVFLLG   46 (72)
T ss_pred             EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEec
Confidence            467778999999999999999999999999999987765555443

The ras-binding domain (RBD) of the serine/threonine kinase raf is structurally quite similar to the beta-grasp fold of ubiquitin. A raf-like RBD is also present in RGS12 and other members of a family of GTPase activating proteins and TIAM1, a guanine nucleotide exchange protein.

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

Probab=90.90  E-value=1.7  Score=27.03  Aligned_cols=51  Identities=18%  Similarity=0.165  Sum_probs=40.4

Q ss_pred             EEEEEEccCCCEEEEEEeC--CchHHHHHHHHHhhcCCCCCeEEEEE---CCEeeccee
Q 034926           22 INLKVKGQDGNEVFFRIKR--STQLKKLMNAYCDRQSVELNSIAFLY---VHISAFLAW   75 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~--~t~l~KLm~aYc~r~gl~~~s~rFlf---dG~rI~~~~   75 (78)
                      |+||+.- .|..+.|++.+  ++.+..|..--+++.+++  .+..-|   ||..+.+++
T Consensus         1 V~vKaty-~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~--~f~lKYlDde~e~v~lss   56 (81)
T cd06396           1 VNLKVTY-NGESQSFLVSDSENTTWASVEAMVKVSFGLN--DIQIKYVDEENEEVSVNS   56 (81)
T ss_pred             CEEEEEE-CCeEEEEEecCCCCCCHHHHHHHHHHHhCCC--cceeEEEcCCCCEEEEEc
Confidence            5677764 77888999999  889999999999999999  666666   666666654

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

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

Probab=90.22  E-value=2.4  Score=26.60  Aligned_cols=53  Identities=11%  Similarity=0.117  Sum_probs=41.2

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEE--CCEeeccee
Q 034926           21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY--VHISAFLAW   75 (78)
Q Consensus        21 ~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlf--dG~rI~~~~   75 (78)
                      .|+|||.- .|..+.+.|.++..|+.|.+.-.++.++. ..++..|  +|..+..++
T Consensus         2 ~ikVKv~~-~~Dv~~i~v~~~i~f~dL~~kIrdkf~~~-~~~~iKykDEGD~iti~s   56 (86)
T cd06408           2 KIRVKVHA-QDDTRYIMIGPDTGFADFEDKIRDKFGFK-RRLKIKMKDDGDMITMGD   56 (86)
T ss_pred             cEEEEEEe-cCcEEEEEcCCCCCHHHHHHHHHHHhCCC-CceEEEEEcCCCCccccC
Confidence            57888874 66788999999999999999999999985 4555555  565555543

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

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

Probab=89.86  E-value=2.5  Score=24.53  Aligned_cols=53  Identities=19%  Similarity=0.202  Sum_probs=40.7

Q ss_pred             EEEEEEccCCCEEEEEEe-CCchHHHHHHHHHhhcCCCCCeEEEEE---CCEeeccee
Q 034926           22 INLKVKGQDGNEVFFRIK-RSTQLKKLMNAYCDRQSVELNSIAFLY---VHISAFLAW   75 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK-~~t~l~KLm~aYc~r~gl~~~s~rFlf---dG~rI~~~~   75 (78)
                      |++|+.-. |....|.+. .++.+..|...=+++.+.....+++.|   +|..|.+++
T Consensus         1 ~~vK~~~~-~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~d~v~l~s   57 (81)
T cd05992           1 VRVKVKYG-GEIRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKYPDEDGDLVTISS   57 (81)
T ss_pred             CcEEEEec-CCCEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEeeCCCCCEEEeCC
Confidence            35666653 556689999 999999999999999998767777777   566666554

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

>cd01813 UBP_N UBP ubiquitin processing protease

Probab=89.71  E-value=1.4  Score=26.12  Aligned_cols=48  Identities=17%  Similarity=-0.012  Sum_probs=39.4

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEE---CCEee
Q 034926           23 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY---VHISA   71 (78)
Q Consensus        23 ~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlf---dG~rI   71 (78)
                      +|.|+- .|....+.+..++....|.+.-+++.|++++.-+++|   -|.-+
T Consensus         2 ~i~vk~-~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l   52 (74)
T cd01813           2 PVIVKW-GGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPA   52 (74)
T ss_pred             EEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcC
Confidence            444444 5566778999999999999999999999999999996   66544

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.

>smart00295 B41 Band 4

Probab=89.58  E-value=1.4  Score=29.26  Aligned_cols=39  Identities=26%  Similarity=0.395  Sum_probs=36.1

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCC
Q 034926           20 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVE   58 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~   58 (78)
                      ..+.++|.-.||..+.+.|..+|.-+.|++.=|++.|+.
T Consensus         2 ~~~~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~   40 (207)
T smart00295        2 KPRVLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIR   40 (207)
T ss_pred             CcEEEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCC
Confidence            358899999999999999999999999999999999984

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.

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

Probab=89.54  E-value=2.9  Score=24.59  Aligned_cols=47  Identities=19%  Similarity=0.253  Sum_probs=35.0

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCe-EEEE
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNS-IAFL   65 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s-~rFl   65 (78)
                      ...++|+|+-+||..+.-+...+.+++.|++--......+... +++.
T Consensus         4 ~~~~~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~   51 (82)
T PF00789_consen    4 SDVVRIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELI   51 (82)
T ss_dssp             SSEEEEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEE
T ss_pred             CCEEEEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEE
Confidence            3478899999999999999999999999996554444344333 5553

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

>smart00166 UBX Domain present in ubiquitin-regulatory proteins

Probab=88.68  E-value=3.5  Score=24.43  Aligned_cols=45  Identities=13%  Similarity=0.202  Sum_probs=35.1

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEE
Q 034926           21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFL   65 (78)
Q Consensus        21 ~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFl   65 (78)
                      ..+|.|+-+||..+.-+...+.+++.|++.-....+.+...++|.
T Consensus         4 ~~~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~~~~~~f~L~   48 (80)
T smart00166        4 QCRLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALTDGNDPFTLN   48 (80)
T ss_pred             eEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHcccCCCCCEEEE
Confidence            567778889999999999999999999998855555554555553

Present in FAF1 and Shp1p.

>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4

Probab=88.26  E-value=1.1  Score=29.53  Aligned_cols=54  Identities=15%  Similarity=0.143  Sum_probs=45.6

Q ss_pred             CcEEEEEEccCCCEE-EEEEeCCchHHHHHHHHHhhcC-------CCCCeEEEEECCEeecc
Q 034926           20 AHINLKVKGQDGNEV-FFRIKRSTQLKKLMNAYCDRQS-------VELNSIAFLYVHISAFL   73 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v-~FkIK~~t~l~KLm~aYc~r~g-------l~~~s~rFlfdG~rI~~   73 (78)
                      +.|.||.+-.||+.+ -|++.+++.-..|.+.-.+..+       .+.+.+++.|.|+.+.-
T Consensus         3 ~~~e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD   64 (113)
T cd01814           3 EQIEIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILEN   64 (113)
T ss_pred             ccEEEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCC
Confidence            368888888999888 8999999999999999985553       44899999999998753

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

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

Probab=85.34  E-value=3.9  Score=25.38  Aligned_cols=44  Identities=16%  Similarity=0.223  Sum_probs=38.8

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEEC
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYV   67 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfd   67 (78)
                      -.|||.-+.  .|-++|.+..++.-|.+.-++|.+++.+.+.+.|-
T Consensus         3 ~vvKV~f~~--tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYk   46 (80)
T cd06406           3 YVVKVHFKY--TVAIQVARGLSYATLLQKISSKLELPAEHITLSYK   46 (80)
T ss_pred             eEEEEEEEE--EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEec
Confidence            467887765  88999999999999999999999999888888883

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

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

Probab=85.30  E-value=1.8  Score=25.15  Aligned_cols=41  Identities=22%  Similarity=0.423  Sum_probs=33.8

Q ss_pred             EEccCCCEEEEEEeCCchHHHHHHHHHhhcCCC-CCeEEEEE
Q 034926           26 VKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVE-LNSIAFLY   66 (78)
Q Consensus        26 V~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~-~~s~rFlf   66 (78)
                      |.-.||+.+.|.|.+++.-+.|++.-|++.|+. ..-+-+.|
T Consensus         1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~   42 (80)
T PF09379_consen    1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQY   42 (80)
T ss_dssp             EEESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE
T ss_pred             CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEE
Confidence            344688999999999999999999999999964 45566666

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 ....

>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=84.76  E-value=5.9  Score=23.16  Aligned_cols=43  Identities=14%  Similarity=0.230  Sum_probs=37.1

Q ss_pred             EEEEEEccCCC----EEEEEEeCCchHHHHHHHHHhhcCC--CCCeEEE
Q 034926           22 INLKVKGQDGN----EVFFRIKRSTQLKKLMNAYCDRQSV--ELNSIAF   64 (78)
Q Consensus        22 I~lkV~~qdg~----~v~FkIK~~t~l~KLm~aYc~r~gl--~~~s~rF   64 (78)
                      -.|||-..++.    ...++|..+|.-+.|..+-+++.++  ++..+.+
T Consensus         3 ~~lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L   51 (93)
T PF00788_consen    3 GVLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCL   51 (93)
T ss_dssp             EEEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEE
T ss_pred             eEEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEE
Confidence            46889888988    8999999999999999999999998  4555555

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 ....

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

Probab=84.68  E-value=5.7  Score=23.98  Aligned_cols=48  Identities=10%  Similarity=0.080  Sum_probs=37.8

Q ss_pred             EEEEEcc-CCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEE-EECCEe
Q 034926           23 NLKVKGQ-DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAF-LYVHIS   70 (78)
Q Consensus        23 ~lkV~~q-dg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rF-lfdG~r   70 (78)
                      +|.|... .......|+.++.....|.+.=....|+++...|+ +|+|..
T Consensus         3 ~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~   52 (84)
T cd01789           3 TVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGDD   52 (84)
T ss_pred             EEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCC
Confidence            4444432 24445778999999999999999999999999999 589884

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

>cd01818 TIAM1_RBD Ubiquitin domain of Tiam1 guanine nucleotide exchange factor

Probab=83.79  E-value=3.5  Score=25.55  Aligned_cols=37  Identities=14%  Similarity=0.276  Sum_probs=33.5

Q ss_pred             EEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCe
Q 034926           25 KVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNS   61 (78)
Q Consensus        25 kV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s   61 (78)
                      .|.-+||..+...|+++..+.-+.++-|.+.++++..
T Consensus         3 ~V~lPn~~~~~v~vrp~~tv~dvLe~aCk~~~ldp~e   39 (77)
T cd01818           3 WVCLPDNQPVLTYLRPGMSVEDFLESACKRKQLDPME   39 (77)
T ss_pred             EEECCCCceEEEEECCCCCHHHHHHHHHHhcCCChhH
Confidence            4667899999999999999999999999999998764

Tiam1 (T lymphoma invasion and metastasis 1) a guanine nucleotide exchange factor that activates Rac, is an important regulator of Rho GTPase functions in tumor cells including regulation of cell shape and invasiveness in epithelial cells and fibroblasts. TIAM1 has an RBD (Ras-binding domain) similar to that of Raf kinase as well as PH (pleckstrin homology), PDZ, and RhoGEF domains.

>PHA01623 hypothetical protein

Probab=83.74  E-value=0.82  Score=26.29  Aligned_cols=28  Identities=25%  Similarity=0.586  Sum_probs=24.7

Q ss_pred             EEEEEEeCCchHHHHHHHHHhhcCCCCC
Q 034926           33 EVFFRIKRSTQLKKLMNAYCDRQSVELN   60 (78)
Q Consensus        33 ~v~FkIK~~t~l~KLm~aYc~r~gl~~~   60 (78)
                      .++|.|+-+..|.+-++.||...|++..
T Consensus        13 ~~r~sVrldeel~~~Ld~y~~~~g~~rS   40 (56)
T PHA01623         13 KAVFGIYMDKDLKTRLKVYCAKNNLQLT   40 (56)
T ss_pred             ceeEEEEeCHHHHHHHHHHHHHcCCCHH
Confidence            4689999999999999999999998743

>PLN02560 enoyl-CoA reductase

Probab=81.67  E-value=5.3  Score=29.97  Aligned_cols=45  Identities=16%  Similarity=0.191  Sum_probs=37.4

Q ss_pred             EEEEEccCCCEE---EEEEeCCchHHHHHHHHHhhcCC-CCCeEEEEEC
Q 034926           23 NLKVKGQDGNEV---FFRIKRSTQLKKLMNAYCDRQSV-ELNSIAFLYV   67 (78)
Q Consensus        23 ~lkV~~qdg~~v---~FkIK~~t~l~KLm~aYc~r~gl-~~~s~rFlfd   67 (78)
                      +|.|+...|..+   .+.+.+++....|.++++++.+. +++..|+.++
T Consensus         2 ~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~   50 (308)
T PLN02560          2 KVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLP   50 (308)
T ss_pred             EEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEe
Confidence            455666677776   68899999999999999999885 8899999983

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	78
1a5r_A	103	Structure Determination Of The Small Ubiquitin-Rela		9e-11
3kyd_D	115	Human Sumo E1~sumo1-amp Tetrahedral Intermediate Mi		1e-10
2kqs_A	99	Phosphorylation Of Sumo-Interacting Motif By Ck2 En		1e-10
1y8r_C	97	Sumo E1 Activating Enzyme Sae1-Sae2-Sumo1-Mg-Atp Co		1e-10
3kyc_D	97	Human Sumo E1 Complex With A Sumo1-Amp Mimic Length		1e-10
1wz0_A	104	Solution Structure Of Human Sumo-2 (Smt3b), A Ubiqu		1e-10
2awt_A	95	Solution Structure Of Human Small Ubiquitin-Like Mo		2e-10
2d07_B	93	Crystal Structure Of Sumo-3-Modified Thymine-Dna Gl		2e-10
2io1_B	94	Crystal Structure Of Human Senp2 In Complex With Pr		2e-10
2io3_B	81	Crystal Structure Of Human Senp2 In Complex With Ra		2e-10
1wm3_A	72	Crystal Structure Of Human Sumo-2 Protein Length =		3e-10
2io0_B	91	Crystal Structure Of Human Senp2 In Complex With Pr		3e-10
2ckh_B	79	Senp1-sumo2 Complex Length = 79		3e-10
3uin_B	80	Complex Between Human Rangap1-Sumo2, Ubc9 And The I		3e-10
2iyd_B	81	Senp1 Covalent Complex With Sumo-2 Length = 81		3e-10
1wm2_A	78	Crystal Structure Of Human Sumo-2 Protein Length =		3e-10
2k1f_A	88	Sumo-3 From Drosophila Melanogaster (Dsmt3) Length		3e-10
3rzw_C	99	Crystal Structure Of The Monobody Ysmb-9 Bound To H		1e-09
1z5s_B	82	Crystal Structure Of A Complex Between Ubc9, Sumo-1		2e-09
1tgz_B	80	Structure Of Human Senp2 In Complex With Sumo-1 Len		2e-09
2iy0_B	82	Senp1 (Mutant) Sumo1 Rangap Length = 82		2e-09
2iy1_B	83	Senp1 (Mutant) Full Length Sumo1 Length = 83		2e-09
2uyz_B	79	Non-Covalent Complex Between Ubc9 And Sumo1 Length		3e-09
2g4d_B	78	Crystal Structure Of Human Senp1 Mutant (C603s) In		3e-09
2bf8_B	77	Crystal Structure Of Sumo Modified Ubiquitin Conjug		3e-09
1u4a_A	87	Solution Structure Of Human Sumo-3 C47s Length = 87		4e-09
2k8h_A	110	Solution Structure Of Sumo From Trypanosoma Brucei		1e-08
3uqb_A	209	Crystal Structure Of A Smt Fusion Peptidyl-Prolyl C		1e-08
4ggq_C	209	Crystal Structure Of A Smt Fusion Peptidyl-Prolyl C		1e-08
3vaw_A	209	Crystal Structure Of A Smt Fusion Peptidyl-Prolyl C		1e-08
3uqa_A	209	Crystal Structure Of A Smt Fusion Peptidyl-Prolyl C		1e-08
3uf8_A	209	Crystal Structure Of A Smt Fusion Peptidyl-Prolyl C		2e-08
3pge_A	200	Structure Of Sumoylated Pcna Length = 200		2e-08
2eke_C	106	Structure Of A Sumo-Binding-Motif Mimic Bound To Sm		2e-08
3qht_A	98	Crystal Structure Of The Monobody Ysmb-1 Bound To Y		2e-08
3tix_A	207	Crystal Structure Of The Chp1-Tas3 Complex Core Len		3e-08
1l2n_A	101	Smt3 Solution Structure Length = 101		3e-08
1euv_B	86	X-Ray Structure Of The C-Terminal Ulp1 Protease Dom		3e-08
3v60_A	84	Structure Of S. Cerevisiae Pcna Conjugated To Sumo		4e-08
4da1_A	389	Crystal Structure Of Branched-Chain Alpha-Ketoacid		5e-08
3v7o_A	227	Crystal Structure Of The C-Terminal Domain Of Ebola		6e-08
3ix6_A	360	Crystal Structure Of Thymidylate Synthase Thya From		7e-08
3v62_A	84	Structure Of The S. Cerevisiae Srs2 C-Terminal Doma		2e-06

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

Iteration: 1
 Score = 61.6 bits (148), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 29/66 (43%), Positives = 40/66 (60%)
Query: 1  MSGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN 60
          MS     P  ED     +  +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +N
Sbjct: 3  MSDQEAKPSTEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMN 62
Query: 61 SIAFLY 66
          S+ FL+
Sbjct: 63 SLRFLF 68

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

Iteration: 1
 Score = 61.6 bits (148), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 29/66 (43%), Positives = 40/66 (60%)
Query: 1  MSGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN 60
          MS     P  ED     +  +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +N
Sbjct: 20 MSDQEAKPSTEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMN 79
Query: 61 SIAFLY 66
          S+ FL+
Sbjct: 80 SLRFLF 85

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

Iteration: 1
 Score = 61.6 bits (148), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 29/66 (43%), Positives = 40/66 (60%)
Query: 1  MSGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN 60
          MS     P  ED     +  +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +N
Sbjct: 3  MSDQEAKPSTEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMN 62
Query: 61 SIAFLY 66
          S+ FL+
Sbjct: 63 SLRFLF 68

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

Iteration: 1
 Score = 61.6 bits (148), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 29/66 (43%), Positives = 40/66 (60%)
Query: 1  MSGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN 60
          MS     P  ED     +  +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +N
Sbjct: 1  MSDQEAKPSTEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMN 60
Query: 61 SIAFLY 66
          S+ FL+
Sbjct: 61 SLRFLF 66

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

Iteration: 1
 Score = 61.6 bits (148), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 29/66 (43%), Positives = 40/66 (60%)
Query: 1  MSGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN 60
          MS     P  ED     +  +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +N
Sbjct: 1  MSDQEAKPSTEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMN 60
Query: 61 SIAFLY 66
          S+ FL+
Sbjct: 61 SLRFLF 66

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

Iteration: 1
 Score = 61.2 bits (147), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 30/60 (50%), Positives = 39/60 (65%), Gaps = 5/60 (8%)
Query: 12 DKKP-----NDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          D+KP      + + HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct: 10 DEKPKEGVKTENNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 69

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

Iteration: 1
 Score = 61.2 bits (147), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 30/60 (50%), Positives = 39/60 (65%), Gaps = 5/60 (8%)
Query: 12 DKKP-----NDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          D+KP      + + HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct: 3  DEKPKEGVKTENNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 62

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

Iteration: 1
 Score = 60.8 bits (146), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 30/60 (50%), Positives = 39/60 (65%), Gaps = 5/60 (8%)
Query: 12 DKKP-----NDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          D+KP      + + HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct: 3  DEKPKEGVKTENNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 62

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

Iteration: 1
 Score = 60.8 bits (146), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 27/46 (58%), Positives = 33/46 (71%)
Query: 21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct: 7  HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 52

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

Iteration: 1
 Score = 60.5 bits (145), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 27/46 (58%), Positives = 33/46 (71%)
Query: 21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct: 5  HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 50

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

Iteration: 1
 Score = 60.5 bits (145), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 27/46 (58%), Positives = 33/46 (71%)
Query: 21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct: 1  HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 46

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

Iteration: 1
 Score = 60.5 bits (145), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 27/46 (58%), Positives = 33/46 (71%)
Query: 21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct: 5  HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 50

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

Iteration: 1
 Score = 60.1 bits (144), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 27/46 (58%), Positives = 33/46 (71%)
Query: 21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct: 3  HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 48

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

Iteration: 1
 Score = 60.1 bits (144), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 27/46 (58%), Positives = 33/46 (71%)
Query: 21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct: 4  HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 49

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

Iteration: 1
 Score = 60.1 bits (144), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 27/46 (58%), Positives = 33/46 (71%)
Query: 21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct: 3  HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 48

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

Iteration: 1
 Score = 60.1 bits (144), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 27/46 (58%), Positives = 33/46 (71%)
Query: 21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct: 6  HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 51

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

Iteration: 1
 Score = 60.1 bits (144), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 27/55 (49%), Positives = 37/55 (67%)
Query: 12 DKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          D+K   ++ HINLKV GQD   V F+IK+ T L+KLMNAYCDR  + +  + F +
Sbjct: 3  DEKKGGETEHINLKVLGQDNAVVQFKIKKHTPLRKLMNAYCDRAGLSMQVVRFRF 57

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

Iteration: 1
 Score = 57.8 bits (138), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 28/66 (42%), Positives = 39/66 (59%)
Query: 1  MSGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN 60
          MS     P  ED     +  +I LKV GQD +E+ F++K +T LKKL  +Y  RQ V +N
Sbjct: 3  MSDQEAKPSTEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYAQRQGVPMN 62
Query: 61 SIAFLY 66
          S+ FL+
Sbjct: 63 SLRFLF 68

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

Iteration: 1
 Score = 57.8 bits (138), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 24/49 (48%), Positives = 35/49 (71%)
Query: 18 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          +  +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FL+
Sbjct: 3  EGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLF 51

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

Iteration: 1
 Score = 57.4 bits (137), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 24/49 (48%), Positives = 35/49 (71%)
Query: 18 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          +  +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FL+
Sbjct: 1  EGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLF 49

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

Iteration: 1
 Score = 57.4 bits (137), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 24/46 (52%), Positives = 34/46 (73%)
Query: 21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FL+
Sbjct: 2  YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLF 47

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

Iteration: 1
 Score = 57.0 bits (136), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 24/46 (52%), Positives = 34/46 (73%)
Query: 21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FL+
Sbjct: 2  YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLF 47

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

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 24/46 (52%), Positives = 34/46 (73%)
Query: 21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FL+
Sbjct: 3  YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLF 48

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

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 24/46 (52%), Positives = 34/46 (73%)
Query: 21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FL+
Sbjct: 2  YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLF 47

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

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 24/46 (52%), Positives = 34/46 (73%)
Query: 21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FL+
Sbjct: 1  YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLF 46

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

Iteration: 1
 Score = 56.6 bits (135), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 26/46 (56%), Positives = 32/46 (69%)
Query: 21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          HINLKV GQDG+ V F+IKR T L KLM AY +RQ + +  I F +
Sbjct: 3  HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYSERQGLSMRQIRFRF 48

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

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 23/50 (46%), Positives = 35/50 (70%)
Query: 17 DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          +++A + +KV   DG E+FFRIK  T LKKL++ YC +Q +  NS+ FL+
Sbjct: 22 EETALVAVKVVNADGAEMFFRIKSRTALKKLIDTYCKKQGISRNSVRFLF 71

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

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 26/50 (52%), Positives = 37/50 (74%), Gaps = 3/50 (6%)
Query: 21 HINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHI 69
          HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FLY  I
Sbjct: 21 HINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 68

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

Iteration: 1
 Score = 54.3 bits (129), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 26/50 (52%), Positives = 37/50 (74%), Gaps = 3/50 (6%)
Query: 21 HINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHI 69
          HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FLY  I
Sbjct: 21 HINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 68

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

Iteration: 1
 Score = 54.3 bits (129), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 26/50 (52%), Positives = 37/50 (74%), Gaps = 3/50 (6%)
Query: 21 HINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHI 69
          HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FLY  I
Sbjct: 21 HINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 68

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

Iteration: 1
 Score = 54.3 bits (129), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 26/50 (52%), Positives = 37/50 (74%), Gaps = 3/50 (6%)
Query: 21 HINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHI 69
          HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FLY  I
Sbjct: 21 HINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 68

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

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 26/50 (52%), Positives = 37/50 (74%), Gaps = 3/50 (6%)
Query: 21 HINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHI 69
          HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FLY  I
Sbjct: 21 HINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 68

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

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 26/51 (50%), Positives = 37/51 (72%), Gaps = 3/51 (5%)
Query: 20 AHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHI 69
           HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FLY  I
Sbjct: 28 THINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 76

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

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 26/51 (50%), Positives = 37/51 (72%), Gaps = 3/51 (5%)
Query: 20 AHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHI 69
           HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FLY  I
Sbjct: 30 THINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 78

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

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 26/51 (50%), Positives = 37/51 (72%), Gaps = 3/51 (5%)
Query: 20 AHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHI 69
           HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FLY  I
Sbjct: 22 THINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 70

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

Iteration: 1
 Score = 53.5 bits (127), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 25/48 (52%), Positives = 36/48 (75%), Gaps = 3/48 (6%)
Query: 20  AHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
            HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FLY
Sbjct: 56  THINLKVS--DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLTFLY 101

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

Iteration: 1
 Score = 53.5 bits (127), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 26/51 (50%), Positives = 37/51 (72%), Gaps = 3/51 (5%)
Query: 20 AHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHI 69
           HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FLY  I
Sbjct: 22 THINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGI 70

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

Iteration: 1
 Score = 53.5 bits (127), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 25/49 (51%), Positives = 36/49 (73%), Gaps = 3/49 (6%)
Query: 19 SAHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
            HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FLY
Sbjct: 9  ETHINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLY 55

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

Iteration: 1
 Score = 53.1 bits (126), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 25/48 (52%), Positives = 36/48 (75%), Gaps = 3/48 (6%)
Query: 20 AHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
           HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FLY
Sbjct: 8  THINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLY 53

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

Iteration: 1
 Score = 52.8 bits (125), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 25/47 (53%), Positives = 36/47 (76%), Gaps = 3/47 (6%)
Query: 21 HINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FLY
Sbjct: 30 HINLKV--SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLY 74

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

Iteration: 1
 Score = 52.8 bits (125), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 25/47 (53%), Positives = 36/47 (76%), Gaps = 3/47 (6%)
Query: 21 HINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FLY
Sbjct: 21 HINLKVS--DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLY 65

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

Iteration: 1
 Score = 52.4 bits (124), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 25/48 (52%), Positives = 36/48 (75%), Gaps = 3/48 (6%)
Query: 20 AHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
           HINLKV   DG+ E+FF+IK++T L++LM A+  RQ  E++S+ FLY
Sbjct: 20 THINLKVS--DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLY 65

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

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 23/48 (47%), Positives = 32/48 (66%), Gaps = 3/48 (6%)
Query: 20 AHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
           HINL V   DG+ E+FF I  +T L++LM A+  RQ  E++S+ FLY
Sbjct: 8  THINLXVS--DGSSEIFFXIXXTTPLRRLMEAFAXRQGXEMDSLRFLY 53

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	78
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	2e-23
3kyd_D	115	Small ubiquitin-related modifier 1; SUMO, thioeste	3e-22
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	2e-21
2d07_B	93	Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Ho	5e-21
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	6e-21
2eke_C	106	Ubiquitin-like protein SMT3; UBC9, SUMO binding mo	1e-20
3v7o_A	227	Minor nucleoprotein VP30; ssgcid, seattle structur	2e-20
2jxx_A	97	Nfatc2-interacting protein; nuclear factor of acti	2e-20
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	4e-20
3tix_A	207	Ubiquitin-like protein SMT3, RNA-induced transcri	4e-20
1wm3_A	72	Ubiquitin-like protein SMT3B; ubiquitin fold, half	6e-20
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	9e-20
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	2e-19
3a4r_A	79	Nfatc2-interacting protein; ubiquitin fold, coiled	2e-18
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	1e-15
2l76_A	95	Nfatc2-interacting protein; ubiquitin-like domain,	2e-10

>1wyw_B Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Homo sapiens} SCOP: d.15.1.1 PDB: 1y8r_C* 2asq_A 2pe6_B 1a5r_A 2kqs_A 3kyc_D* 3rzw_C Length = 97

 Score = 84.2 bits (208), Expect = 2e-23
 Identities = 29/66 (43%), Positives = 40/66 (60%)

Query: 1  MSGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN 60
          MS     P  ED     +  +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +N
Sbjct: 1  MSDQEAKPSTEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMN 60

Query: 61 SIAFLY 66
          S+ FL+
Sbjct: 61 SLRFLF 66

>3kyd_D Small ubiquitin-related modifier 1; SUMO, thioester, adenylation, inhibitor, TETR intermediate, ligase, nucleus, phosphoprotein; HET: VMX; 2.61A {Homo sapiens} Length = 115

 Score = 82.0 bits (202), Expect = 3e-22
 Identities = 29/66 (43%), Positives = 40/66 (60%)

Query: 1  MSGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN 60
          MS     P  ED     +  +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +N
Sbjct: 20 MSDQEAKPSTEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMN 79

Query: 61 SIAFLY 66
          S+ FL+
Sbjct: 80 SLRFLF 85

>1wz0_A Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-like molecule, structural genomics, sentrin2, NPPFSA; NMR {Homo sapiens} SCOP: d.15.1.1 Length = 104

 Score = 79.1 bits (195), Expect = 2e-21
 Identities = 31/65 (47%), Positives = 42/65 (64%), Gaps = 1/65 (1%)

Query: 2  SGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNS 61
          SG+ +   +E  K  + + HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  
Sbjct: 6  SGMADEKPKEGVKT-ENNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQ 64

Query: 62 IAFLY 66
          I F +
Sbjct: 65 IRFRF 69

>2d07_B Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Homo sapiens} SCOP: d.15.1.1 PDB: 2rpq_A 2awt_A 2io3_B 2iyd_B 1u4a_A 2k1f_A Length = 93

 Score = 78.0 bits (192), Expect = 5e-21
 Identities = 27/58 (46%), Positives = 38/58 (65%)

Query: 9  QEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          + ++    + + HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct: 5  KPKEGVKTENNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 62

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

 Score = 78.1 bits (192), Expect = 6e-21
 Identities = 24/62 (38%), Positives = 38/62 (61%)

Query: 5  TNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAF 64
           N  +  +    +++A + +KV   DG E+FFRIK  T LKKL++ YC +Q +  NS+ F
Sbjct: 10 NNGGEGAEGTCKEETALVAVKVVNADGAEMFFRIKSRTALKKLIDTYCKKQGISRNSVRF 69

Query: 65 LY 66
          L+
Sbjct: 70 LF 71

>2eke_C Ubiquitin-like protein SMT3; UBC9, SUMO binding motif, SBM, ligase/protein binding complex; 1.90A {Saccharomyces cerevisiae} SCOP: d.15.1.1 Length = 106

 Score = 77.3 bits (190), Expect = 1e-20
 Identities = 25/66 (37%), Positives = 36/66 (54%), Gaps = 1/66 (1%)

Query: 1  MSGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN 60
                    E K       HINLKV     +E+FF+IK++T L++LM A+  RQ  E++
Sbjct: 11 SQDPLVPRGSEVKPEVKPETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMD 69

Query: 61 SIAFLY 66
          S+ FLY
Sbjct: 70 SLRFLY 75

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

 Score = 80.2 bits (197), Expect = 2e-20
 Identities = 26/66 (39%), Positives = 38/66 (57%), Gaps = 1/66 (1%)

Query: 1  MSGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN 60
          M    +    E K       HINLKV     +E+FF+IK++T L++LM A+  RQ  E++
Sbjct: 1  MGHHHHHHSGEVKPEVKPETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMD 59

Query: 61 SIAFLY 66
          S+ FLY
Sbjct: 60 SLRFLY 65

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

 Score = 76.1 bits (187), Expect = 2e-20
 Identities = 11/66 (16%), Positives = 30/66 (45%), Gaps = 1/66 (1%)

Query: 2  SGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVF-FRIKRSTQLKKLMNAYCDRQSVELN 60
              ++     +   + S  + L+V+G++ ++     + R + LK LM+ Y +   +   
Sbjct: 6  HHHHHSSGLVPRGSTETSQQLQLRVQGKEKHQTLEVSLSRDSPLKTLMSHYEEAMGLSGR 65

Query: 61 SIAFLY 66
           ++F +
Sbjct: 66 KLSFFF 71

>2io1_B Small ubiquitin-related modifier 3 precursor; SUMO, SENP, ULP, complex, protein binding, hydrolase; 2.60A {Homo sapiens} SCOP: d.15.1.1 Length = 94

 Score = 75.6 bits (186), Expect = 4e-20
 Identities = 27/50 (54%), Positives = 34/50 (68%)

Query: 17 DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
            + HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct: 3  HMNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 52

>3tix_A Ubiquitin-like protein SMT3, RNA-induced transcri silencing complex protein TAS3; PIN, rossmann fold, SPOC, alpha-helical hairpin, heterochrom silencing, RITS, RNAI, argonaute; 2.90A {Saccharomyces cerevisiae} Length = 207

 Score = 78.7 bits (193), Expect = 4e-20
 Identities = 27/65 (41%), Positives = 39/65 (60%), Gaps = 1/65 (1%)

Query: 2   SGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNS 61
           S V    + E K       HINLKV     +E+FF+IK++T L++LM A+  RQ  E++S
Sbjct: 38  SEVNQEAKPEVKPEVKPETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDS 96

Query: 62  IAFLY 66
           + FLY
Sbjct: 97  LTFLY 101

>1wm3_A Ubiquitin-like protein SMT3B; ubiquitin fold, half-open barrel, two helices, protein transport; 1.20A {Homo sapiens} SCOP: d.15.1.1 PDB: 1wm2_A 3uin_B 3uio_B 2ckh_B Length = 72

 Score = 74.4 bits (183), Expect = 6e-20
 Identities = 27/46 (58%), Positives = 33/46 (71%)

Query: 21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct: 1  HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 46

>2uyz_B Small ubiquitin-related modifier 1; sumoylation, cell division, nuclear protein, ubiquitin-like modifier, UBL conjugation pathway; 1.4A {Homo sapiens} SCOP: d.15.1.1 PDB: 2vrr_B 2iy0_B 2iy1_B 2g4d_B 2las_A 2io2_B 1z5s_B 3uip_B* 1tgz_B* 2bf8_B Length = 79

 Score = 74.0 bits (182), Expect = 9e-20
 Identities = 24/46 (52%), Positives = 34/46 (73%)

Query: 21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FL+
Sbjct: 3  YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLF 48

>2io0_B Small ubiquitin-related modifier 2 precursor; SUMO, SENP, ULP, complex, protein binding, hydrolase; 2.30A {Homo sapiens} SCOP: d.15.1.1 Length = 91

 Score = 73.7 bits (181), Expect = 2e-19
 Identities = 27/48 (56%), Positives = 34/48 (70%)

Query: 19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          + HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct: 3  NDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 50

>3a4r_A Nfatc2-interacting protein; ubiquitin fold, coiled coil, cytoplasm, methylation, nucleus, transcription; 1.00A {Mus musculus} PDB: 3a4s_C 3rd2_A Length = 79

 Score = 70.6 bits (173), Expect = 2e-18
 Identities = 10/51 (19%), Positives = 27/51 (52%), Gaps = 1/51 (1%)

Query: 17 DQSAHINLKVKGQDGNEVF-FRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
            S  + L+V+G++ +++    +   + LK LM+ Y +   +  + ++F +
Sbjct: 3  LGSQELRLRVQGKEKHQMLEISLSPDSPLKVLMSHYEEAMGLSGHKLSFFF 53

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

 Score = 66.9 bits (162), Expect = 1e-15
 Identities = 28/68 (41%), Positives = 40/68 (58%), Gaps = 3/68 (4%)

Query: 1  MSG--VTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVE 58
          MS   V    + E K       HINLKV     +E+FF+IK++T L++LM A+  RQ  E
Sbjct: 7  MSDSEVNQEAKPEVKPEVKPETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKE 65

Query: 59 LNSIAFLY 66
          ++S+ FLY
Sbjct: 66 MDSLRFLY 73

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

 Score = 50.8 bits (121), Expect = 2e-10
 Identities = 9/56 (16%), Positives = 22/56 (39%), Gaps = 1/56 (1%)

Query: 11 EDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          E     +      LK++ +  + V   ++ S  L+ +++       V  + I  L+
Sbjct: 11 EGPTLPETPRLFPLKIRCR-ADLVRLPLRMSEPLQSVVDHMATHLGVSPSRILLLF 65

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	78
2l76_A	95	Nfatc2-interacting protein; ubiquitin-like domain,	99.91
3kyd_D	115	Small ubiquitin-related modifier 1; SUMO, thioeste	99.91
2jxx_A	97	Nfatc2-interacting protein; nuclear factor of acti	99.86
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	99.86
3tix_A	207	Ubiquitin-like protein SMT3, RNA-induced transcri	99.85
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	99.84
2d07_B	93	Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Ho	99.84
2eke_C	106	Ubiquitin-like protein SMT3; UBC9, SUMO binding mo	99.83
1wm3_A	72	Ubiquitin-like protein SMT3B; ubiquitin fold, half	99.82
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	99.82
3uf8_A	209	Ubiquitin-like protein SMT3, peptidyl-prolyl CIS-	99.82
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	99.82
3a4r_A	79	Nfatc2-interacting protein; ubiquitin fold, coiled	99.81
3v7o_A	227	Minor nucleoprotein VP30; ssgcid, seattle structur	99.8
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	99.79
4da1_A	389	Protein phosphatase 1K, mitochondrial; metal-ION-a	99.72
3ix6_A	360	TS, tsase, thymidylate synthase; niaid, ssgcid, se	99.7
3goe_A	82	DNA repair protein RAD60; SUMO-like domain, sumoyl	99.55
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	99.47
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	99.14
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	98.25
4hcn_B	98	Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidas	98.18
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	98.16
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	98.15
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	98.13
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	98.12
3v6c_B	91	Ubiquitin; structural genomics, structural genomic	98.12
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	98.08
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	98.06
3vdz_A	111	Ubiquitin-40S ribosomal protein S27A; gadolinium,	98.05
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	98.03
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	98.03
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	98.01
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	97.95
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	97.91
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	97.91
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	97.87
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	97.87
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	97.82
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	97.79
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	97.79
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	97.74
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	97.72
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	97.72
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	97.68
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	97.64
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	97.6
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	97.6
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	97.6
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	97.56
2daf_A	118	FLJ35834 protein; hypothetical protein FLJ35834, u	97.54
2al3_A	90	TUG long isoform; TUG UBL1 insulin, endocytosis/ex	97.53
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	97.53
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	97.51
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	97.37
3plu_A	93	Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-	97.36
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	97.35
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	97.3
1uh6_A	100	Ubiquitin-like 5; beta-grAsp fold, structural geno	97.27
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	97.26
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	97.25
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	96.3
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	97.2
1wia_A	95	Hypothetical ubiquitin-like protein (riken cDNA 20	97.12
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	97.0
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	96.99
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	96.97
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	96.88
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	96.79
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	96.73
4a20_A	98	Ubiquitin-like protein MDY2; protein binding, GET-	96.63
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	96.61
2lxa_A	87	Ubiquitin-like protein MDY2; ubiquitin-like domain	96.59
1wxv_A	92	BAG-family molecular chaperone regulator-1; struct	96.52
1we6_A	111	Splicing factor, putative; structural genomics, ub	96.46
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	96.39
1wju_A	100	NEDD8 ultimate buster-1; ubiquitin-like domain, st	96.25
1x1m_A	107	Ubiquitin-like protein SB132; structural genomics,	96.2
1wgh_A	116	Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fo	96.17
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	96.11
1v2y_A	105	3300001G02RIK protein; hypothetical protein, ubiqu	96.07
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	96.05
1wgg_A	96	Ubiquitin carboxyl-terminal hydrolase 14; ubiquiti	95.98
3u5c_f	152	40S ribosomal protein S31; translation, ribosome,	95.97
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	95.91
2gow_A	125	HCG-1 protein, ubiquitin-like protein 3; BC059385,	95.84
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	95.82
1v5t_A	90	8430435I17RIK protein; hypothetical protein, ubiqu	95.73
2kjr_A	95	CG11242; UBL, ubiquitin, ubiquitin-like, structura	95.45
1se9_A	126	Ubiquitin family; ubiquitin-like, cell-free, wheat	95.36
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	95.29
2kdb_A	99	Homocysteine-responsive endoplasmic reticulum- res	95.15
2fnj_B	118	Transcription elongation factor B polypeptide 2; b	95.03
2kj6_A	97	Tubulin folding cofactor B; methods development, N	94.4
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	94.13
1t0y_A	122	Tubulin folding cofactor B; ubiquitin-like, cytosk	94.09
4dbg_A	105	Ranbp-type and C3HC4-type zinc finger-containing;	94.06
2kzr_A	86	Ubiquitin thioesterase OTU1; structural genomics,	94.05
1wf9_A	107	NPL4 family protein; beta-grAsp fold like domain,	93.93
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	93.02
1v6e_A	95	Cytoskeleton-associated protein 1; tubulin-specifi	92.9
4ajy_B	118	Transcription elongation factor B polypeptide 2; E	92.78
4efo_A	94	Serine/threonine-protein kinase TBK1; ubiquitin li	92.59
2kvr_A	130	Ubiquitin carboxyl-terminal hydrolase 7; USP7, ubi	92.48
2cr5_A	109	Reproduction 8; UBX domain, D0H8S2298E protein, st	92.25
2daj_A	91	KIAA0977 protein, COBL-like 1; ubiquitin-like doma	92.18
2dzj_A	88	Synaptic glycoprotein SC2; ubiquitin-like fold, st	90.61
1oey_A	83	P67-PHOX, neutrophil cytosol factor 2; immune syst	90.41
1vd2_A	89	Protein kinase C, IOTA type; PB1 domain, OPCA moti	90.33
1wjn_A	97	Tubulin-folding protein TBCE; ubiquitin-like domai	90.03
2ylm_A	530	Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70	85.84
3qij_A	296	Protein 4.1; cytoskeleton, structural genomics, st	85.45
3shq_A	320	UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila	85.45
3ivf_A	371	Talin-1; FERM domain, cell membrane, cell projecti	83.88
1h4r_A	314	Merlin; FERM, neurofibromatosis, NF2, structural p	82.57
3qx1_A	84	FAS-associated factor 1; UBX, protein binding, P97	82.23
1ef1_A	294	Moesin; membrane, FERM domain, tail domain, membra	82.16
2dzk_A	109	UBX domain-containing protein 2; ubiquitin-like fo	81.3

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

Probab=99.91  E-value=3.3e-24  Score=135.99  Aligned_cols=57  Identities=14%  Similarity=0.172  Sum_probs=53.5

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeeccee
Q 034926           18 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAW   75 (78)
Q Consensus        18 ~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~   75 (78)
                      .+.+|+|||++ +|++++||||++|||+|||+|||+|+|++++++||+|||.||.++.
T Consensus        18 ~~~~IniKV~~-~g~ev~FkIK~tt~l~KL~~aYc~r~gv~~~sirFlfDG~rI~~~~   74 (95)
T 2l76_A           18 TPRLFPLKIRC-RADLVRLPLRMSEPLQSVVDHMATHLGVSPSRILLLFGETELSPTA   74 (95)
T ss_dssp             CCCCEEEEEEC-SSSEEEEEECSSSCTHHHHHHHHHHHTSCGGGEEEEETTEECCTTS
T ss_pred             CCCeEEEEEEc-CCcEEEEEEecCChHHHHHHHHHhhcCCChhhEEEEECCcCCCCCC
Confidence            46789999995 8999999999999999999999999999999999999999998763

>3kyd_D Small ubiquitin-related modifier 1; SUMO, thioester, adenylation, inhibitor, TETR intermediate, ligase, nucleus, phosphoprotein; HET: VMX; 2.61A {Homo sapiens} SCOP: d.15.1.1

Probab=99.91  E-value=2e-24  Score=140.72  Aligned_cols=74  Identities=39%  Similarity=0.600  Sum_probs=53.7

Q ss_pred             CCCCCCCCCCcCCCCCCCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926            1 MSGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus         1 m~~~~~~~~~~~~kp~~~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      ||+++..++.++..+..++.+|+|+|++++|.+|+|+|+++|+|+|||++||++.|++++++||+|||+||.+.
T Consensus        20 ~~~~~~~~~~~~~~~k~~~~~I~LKV~~qdg~ev~fkIk~tt~L~KLm~aY~er~Gl~~~~irFlFDG~rI~~~   93 (115)
T 3kyd_D           20 MSDQEAKPSTEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADN   93 (115)
T ss_dssp             -------------------CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHHTCCTTSEEEEETTEECCTT
T ss_pred             cccccccCccccccCCCCCCeEEEEEEcCCCCEEEEEEccCChHHHHHHHHHHHhCCChhhEEEEECCeECCCC
Confidence            45444333333333444578999999999999999999999999999999999999999999999999999875

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

Probab=99.86  E-value=6.3e-22  Score=125.42  Aligned_cols=58  Identities=19%  Similarity=0.324  Sum_probs=54.4

Q ss_pred             CCCcEEEEEEccCCC-EEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeeccee
Q 034926           18 QSAHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAW   75 (78)
Q Consensus        18 ~~~~I~lkV~~qdg~-~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~   75 (78)
                      ++++|+|+|++++|+ +++|+||++|+|+|||+|||+++|++++++||+|||.||.+..
T Consensus        22 ~~~~I~LkV~~~dg~~~v~fkIk~~t~l~kLm~aY~~~~g~~~~~vrF~FDG~rI~~~~   80 (97)
T 2jxx_A           22 TSQQLQLRVQGKEKHQTLEVSLSRDSPLKTLMSHYEEAMGLSGRKLSFFFDGTKLSGRE   80 (97)
T ss_dssp             SCSEEEEEEEESSSSCEEEEEEETTSCHHHHHHHHHHHTTCSSSCCEEEETTEECCSCS
T ss_pred             CCCeEEEEEEcCCCCEEEEEEECCCChHHHHHHHHHHHHCCCcccEEEEECCEEcCCCC
Confidence            467999999999995 8999999999999999999999999999999999999998753

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

Probab=99.86  E-value=6.4e-22  Score=138.78  Aligned_cols=68  Identities=38%  Similarity=0.656  Sum_probs=54.5

Q ss_pred             CCCCcCCCCC-CCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeeccee
Q 034926            7 TPQEEDKKPN-DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAW   75 (78)
Q Consensus         7 ~~~~~~~kp~-~~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~   75 (78)
                      +..++++||. +++.+|+|||++ +|.+++|+|+++|+|+|||++||+|+|++++++||+|||+||....
T Consensus        14 ~~~~~~~kp~~~~~~~I~LkV~~-~g~~v~fkIk~~t~l~kL~~ay~er~Gi~~~~~RF~FdG~rI~~~~   82 (200)
T 3pge_A           14 QEAKPEVKPEVKPETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQ   82 (200)
T ss_dssp             -----------CCCCCEEEEEEC-SSCEEEEEECTTSCTHHHHHHHHHHHSSCGGGEEEEETTEECCTTC
T ss_pred             cccccccCCCCCCCCeEEEEEec-CCCEEEEEEecCCHHHHHHHHHHHHhCCChhhEEEEECCEEcCCCC
Confidence            4455678886 578999999974 9999999999999999999999999999999999999999998753

>3tix_A Ubiquitin-like protein SMT3, RNA-induced transcri silencing complex protein TAS3; PIN, rossmann fold, SPOC, alpha-helical hairpin, heterochrom silencing, RITS, RNAI, argonaute; 2.90A {Saccharomyces cerevisiae}

Probab=99.85  E-value=7e-22  Score=139.09  Aligned_cols=68  Identities=38%  Similarity=0.668  Sum_probs=53.3

Q ss_pred             CCCCcCCCCC-CCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeeccee
Q 034926            7 TPQEEDKKPN-DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAW   75 (78)
Q Consensus         7 ~~~~~~~kp~-~~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~   75 (78)
                      ..+++|+||+ +++++|+|||. ++|++|+|+||++|+|+|||++||+++|++++++||+|||+||.+..
T Consensus        42 ~~~~~d~KP~~dp~e~InLKVk-~dG~eV~FKIKrtTpL~KLmeAYcERqGL~~~sIRFLFDGqRI~~dd  110 (207)
T 3tix_A           42 QEAKPEVKPEVKPETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLTFLYDGIEIQADQ  110 (207)
T ss_dssp             -------------CCEEEEEEE-CSSCEEEEEEETTSCTHHHHHHHHHHTTCCGGGSCEEETTEECCSSC
T ss_pred             CCCCCCCCCCCCCCCcEEEEEe-cCCCEEEEEEccCChHHHHHHHHHHHhCCCcccEEEEECCeecCCCC
Confidence            3466688887 57899999997 59999999999999999999999999999999999999999998753

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

Probab=99.84  E-value=6.3e-21  Score=122.89  Aligned_cols=63  Identities=37%  Similarity=0.627  Sum_probs=57.9

Q ss_pred             CCCCCCCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           12 DKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        12 ~~kp~~~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      ..++++++.+|+|+|++++|.+++|+|+++|+|++||++||++.|++++++||+|||.||.+.
T Consensus        17 ~~~~~~~~~~I~IkVk~~~g~~i~fkVk~~t~l~kL~~ay~ek~gi~~~~~rfiFdG~~L~~~   79 (110)
T 2k8h_A           17 EGTCKEETALVAVKVVNADGAEMFFRIKSRTALKKLIDTYCKKQGISRNSVRFLFDGTPIDET   79 (110)
T ss_dssp             CCCCCCCCCCEEEEEEETTSCCEEEEECTTSSHHHHHHHHHHHHTCCSSSCEEESSSCBCCSS
T ss_pred             cCCCCCCCCeEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCC
Confidence            334556678999999999999999999999999999999999999999999999999999875

>2d07_B Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Homo sapiens} SCOP: d.15.1.1 PDB: 2rpq_A 2awt_A 2io3_B 2iyd_B 1u4a_A 2k1f_A

Probab=99.84  E-value=7.9e-21  Score=118.45  Aligned_cols=58  Identities=47%  Similarity=0.687  Sum_probs=54.6

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeeccee
Q 034926           18 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAW   75 (78)
Q Consensus        18 ~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~   75 (78)
                      ++.+|+|+|++++|++++|+|+++|+|++||++||++.|++++++||+|||.||.+..
T Consensus        14 ~~~~i~ikV~~~~g~~i~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~   71 (93)
T 2d07_B           14 NNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETD   71 (93)
T ss_dssp             -CCEEEEEEECTTSCEEEEEEETTSCHHHHHHHHHHHHTCCGGGEEEEETTEECCTTC
T ss_pred             CCCeEEEEEECCCCCEEEEEEccCCHHHHHHHHHHHHhCCCccceEEEECCEEcCCCC
Confidence            4679999999999999999999999999999999999999999999999999998753

>2eke_C Ubiquitin-like protein SMT3; UBC9, SUMO binding motif, SBM, ligase/protein binding complex; 1.90A {Saccharomyces cerevisiae} SCOP: d.15.1.1

Probab=99.83  E-value=2.2e-20  Score=119.80  Aligned_cols=64  Identities=41%  Similarity=0.698  Sum_probs=57.3

Q ss_pred             cCCCCC-CCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeeccee
Q 034926           11 EDKKPN-DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAW   75 (78)
Q Consensus        11 ~~~kp~-~~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~   75 (78)
                      ++.+|. +++.+|+|+|++ +|.+++|+|+++|+|+|||++||++.|++++++||+|||.||....
T Consensus        20 ~~~~~~~~~~~~I~IkV~~-~g~~i~fkIk~tt~l~kL~~ay~ek~gi~~~~~rF~FdG~rl~~~~   84 (106)
T 2eke_C           20 SEVKPEVKPETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQ   84 (106)
T ss_dssp             CCCCCCCCCCSEEEEEEEC-SSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTC
T ss_pred             cccCCCCCCCCeEEEEEec-CCcEEEEEeCCCCHHHHHHHHHHHHhCCCcccEEEEECCeEcCCCC
Confidence            344443 467899999999 9999999999999999999999999999999999999999998753

>1wm3_A Ubiquitin-like protein SMT3B; ubiquitin fold, half-open barrel, two helices, protein transport; 1.20A {Homo sapiens} SCOP: d.15.1.1 PDB: 1wm2_A 3uin_B 3uio_B 2ckh_B

Probab=99.82  E-value=1.6e-20  Score=111.70  Aligned_cols=55  Identities=49%  Similarity=0.716  Sum_probs=52.8

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeeccee
Q 034926           21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAW   75 (78)
Q Consensus        21 ~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~   75 (78)
                      ||+|+|++++|.+++|+|+++|+|++||++||++.|++++++||+|||.||.+..
T Consensus         1 ~i~lkV~~~~g~~v~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~   55 (72)
T 1wm3_A            1 HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETD   55 (72)
T ss_dssp             CEEEEEECTTSCEEEEEECTTSCTHHHHHHHHHHHTCCTTTCEEEETTEECCTTC
T ss_pred             CEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCC
Confidence            6999999999999999999999999999999999999999999999999998753

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

Probab=99.82  E-value=2.1e-20  Score=119.22  Aligned_cols=58  Identities=47%  Similarity=0.687  Sum_probs=55.0

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeeccee
Q 034926           18 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAW   75 (78)
Q Consensus        18 ~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~   75 (78)
                      ++.+|+|+|++++|.+++|+|+++|+|++||++||++.|++++++||+|||.||.+..
T Consensus        21 ~~~~I~IkVk~~~g~~i~~kVk~~t~l~kL~~~y~ek~gi~~~~~rf~FdG~~l~~~~   78 (104)
T 1wz0_A           21 NNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETD   78 (104)
T ss_dssp             CSCCEEEEEECSSSCEEEEEECTTSCHHHHHHHHHHHHTCCTTTSCEESSSSBCCTTS
T ss_pred             CCCeEEEEEECCCCCEEEEEEcCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCC
Confidence            4679999999999999999999999999999999999999999999999999998753

>3uf8_A Ubiquitin-like protein SMT3, peptidyl-prolyl CIS- isomerase; ssgcid, seattle structural genomics center for in disease; HET: FK5; 1.50A {Burkholderia pseudomallei} PDB: 4ggq_C* 3vaw_A* 3uqa_A* 4g50_A* 4fn2_A* 3uqb_A* 4giv_A* 1euv_B 3v60_A 3v61_A 3v62_A*

Probab=99.82  E-value=1.4e-20  Score=131.26  Aligned_cols=64  Identities=41%  Similarity=0.700  Sum_probs=55.0

Q ss_pred             CCCCC-CCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecceee
Q 034926           12 DKKPN-DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAWA   76 (78)
Q Consensus        12 ~~kp~-~~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~~   76 (78)
                      ++||+ .++++|+|||++ +|++++|+||++|+|+|||++||+++|++++++||+|||++|.+++.
T Consensus        11 ~~~~~~~~~~~i~ikv~~-~~~~v~~~i~~~~~l~kl~~~y~~~~g~~~~~~~f~fdG~~i~~~~T   75 (209)
T 3uf8_A           11 EVKPEVKPETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQT   75 (209)
T ss_dssp             -------CCSEEEEEEEC-SSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGCEEEETTEECCTTCC
T ss_pred             cccceeCCCCcEEEEEEc-CCCEEEEEEeeCCHHHHHHHHHHHhhCCChheEEEEECCEeccCCCC
Confidence            35565 357899999998 88999999999999999999999999999999999999999998753

>2io0_B Small ubiquitin-related modifier 2 precursor; SUMO, SENP, ULP, complex, protein binding, hydrolase; 2.30A {Homo sapiens} SCOP: d.15.1.1

Probab=99.82  E-value=3.9e-20  Score=115.36  Aligned_cols=57  Identities=47%  Similarity=0.695  Sum_probs=53.8

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeeccee
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAW   75 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~   75 (78)
                      +++|+|+|++++|++++|+|+++|+|++||++||++.|++++++||+|||.||.+..
T Consensus         3 ~~~i~ikVk~~~g~~v~~~vk~~t~l~kl~~~y~~~~gi~~~~~rf~FdG~~l~~~~   59 (91)
T 2io0_B            3 NDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETD   59 (91)
T ss_dssp             -CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHTTCCSTTEEEEETTEECCTTC
T ss_pred             CCeEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCC
Confidence            468999999999999999999999999999999999999999999999999998753

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

Probab=99.81  E-value=5.3e-20  Score=111.51  Aligned_cols=57  Identities=18%  Similarity=0.281  Sum_probs=53.8

Q ss_pred             CCcEEEEEEccCCC-EEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeeccee
Q 034926           19 SAHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAW   75 (78)
Q Consensus        19 ~~~I~lkV~~qdg~-~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~   75 (78)
                      +++|+|+|++++|+ +++|+|+++|+|++||++||++.|++++++||+|||.||.+..
T Consensus         5 ~~~i~ikV~~~~g~~~i~~~i~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~   62 (79)
T 3a4r_A            5 SQELRLRVQGKEKHQMLEISLSPDSPLKVLMSHYEEAMGLSGHKLSFFFDGTKLSGKE   62 (79)
T ss_dssp             CCCEEEEEECSSTTCEEEEEECTTSCHHHHHHHHHHHHTCTTCCCEEEETTEECCSCC
T ss_pred             CCEEEEEEEeCCCCEEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCC
Confidence            56899999999996 8999999999999999999999999999999999999998753

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

Probab=99.80  E-value=2.1e-21  Score=138.15  Aligned_cols=63  Identities=41%  Similarity=0.714  Sum_probs=0.0

Q ss_pred             CCCCC-CCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeeccee
Q 034926           12 DKKPN-DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAW   75 (78)
Q Consensus        12 ~~kp~-~~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~   75 (78)
                      ++||+ +++++|+||| +++|++++|+||++|||+|||++||+++|++++++||+|||+||.+..
T Consensus        11 ~~~~~~~p~e~InLKV-~qdGseV~FKIKrtTpL~KLM~AYcERqGLs~~siRFLFDGqRI~ddd   74 (227)
T 3v7o_A           11 EVKPEVKPETHINLKV-SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQ   74 (227)
T ss_dssp             -----------------------------------------------------------------
T ss_pred             ccCCCCCCCCeEEEEE-eCCCCEEEEEEccCChHHHHHHHHHHHhCCCccceEEEECCEecCCCC
Confidence            35564 4578999999 889999999999999999999999999999999999999999998753

>2io1_B Small ubiquitin-related modifier 3 precursor; SUMO, SENP, ULP, complex, protein binding, hydrolase; 2.60A {Homo sapiens} SCOP: d.15.1.1

Probab=99.79  E-value=2.4e-19  Score=112.14  Aligned_cols=58  Identities=47%  Similarity=0.677  Sum_probs=53.8

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeeccee
Q 034926           18 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAW   75 (78)
Q Consensus        18 ~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~   75 (78)
                      .+++|+|+|++++|++++|+|+++|+|++||++||++.|++++++||+|||+||.+..
T Consensus         4 ~~~~i~ikVk~~~g~~i~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~FdG~~l~~~~   61 (94)
T 2io1_B            4 MNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETD   61 (94)
T ss_dssp             --CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTC
T ss_pred             CCCeEEEEEECCCCCEEEEEECCCCHHHHHHHHHHHHhCCCcccEEEEECCEEcCCCC
Confidence            3579999999999999999999999999999999999999999999999999998753

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

Probab=99.72  E-value=4.4e-19  Score=131.46  Aligned_cols=66  Identities=39%  Similarity=0.679  Sum_probs=0.0

Q ss_pred             CCcCCCCC-CCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeeccee
Q 034926            9 QEEDKKPN-DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAW   75 (78)
Q Consensus         9 ~~~~~kp~-~~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~   75 (78)
                      .+++.+|+ +++++|+|||++ +|.+++|+||++|||+|||++||+++|++++++||+|||+||.+..
T Consensus        17 ~~~~~~~~~~~~~~i~lkv~~-~~~~~~~~i~~~~~~~~l~~~y~~~~g~~~~~~~f~f~G~~i~~~~   83 (389)
T 4da1_A           17 AKPEVKPEVKPETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQ   83 (389)
T ss_dssp             --------------------------------------------------------------------
T ss_pred             CCCCCCCCCCCCCcEEEEEec-CCcEEEEEECCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCC
Confidence            33445565 356899999998 8899999999999999999999999999999999999999998653

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

Probab=99.70  E-value=1.3e-18  Score=130.69  Aligned_cols=58  Identities=41%  Similarity=0.696  Sum_probs=0.0

Q ss_pred             CCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeeccee
Q 034926           17 DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAW   75 (78)
Q Consensus        17 ~~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~   75 (78)
                      +++++|+|||++ +|++++|+||++|+|+|||+|||++.|++++++||+|||+||.+..
T Consensus        17 ~~~~~I~LKV~~-~g~~v~FkIk~~t~l~kLm~aY~~r~G~~~~~~rFlFdG~rI~~~~   74 (360)
T 3ix6_A           17 KPETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQ   74 (360)
T ss_dssp             -----------------------------------------------------------
T ss_pred             CCCCeEEEEEec-CCcEEEEEEecCChHHHHHHHHHHHhCCCcceEEEEECCeECCCCC
Confidence            357899999998 6899999999999999999999999999999999999999998653

>3goe_A DNA repair protein RAD60; SUMO-like domain, sumoylation, SUMO, genome stability, DNA damage, DNA recombination, nucleus; HET: DNA; 0.97A {Schizosaccharomyces pombe} PDB: 3rcz_A*

Probab=99.55  E-value=1.1e-14  Score=89.85  Aligned_cols=55  Identities=15%  Similarity=0.219  Sum_probs=51.3

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCC-eEEEEECCEeeccee
Q 034926           21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN-SIAFLYVHISAFLAW   75 (78)
Q Consensus        21 ~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~-s~rFlfdG~rI~~~~   75 (78)
                      -|++-+++.....++|+|++++++.+||+|||.++|++++ ++||+|||.||.+..
T Consensus         9 ~~~~~~~~~~~~dl~f~I~~~t~v~kLi~ayc~~~~I~~~~~IrllFDGdRLdp~~   64 (82)
T 3goe_A            9 LITLLLRSSKSEDLRLSIPVDFTVKDLIKRYCTEVKISFHERIRLEFEGEWLDPND   64 (82)
T ss_dssp             EEEEEEEESSSCCEEEEEETTSBHHHHHHHHHHHHTCCCCTTCEEEETTEECCTTS
T ss_pred             HHHHhhhccCCCCeEEEecCCCCHHHHHHHHHHHcCCCcCceEEEEEcCcccCccC
Confidence            5888888888888999999999999999999999999999 999999999998864

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

Probab=99.47  E-value=1.9e-13  Score=84.54  Aligned_cols=74  Identities=39%  Similarity=0.600  Sum_probs=53.3

Q ss_pred             CCCCCCCCCCcCCCCCCCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926            1 MSGVTNTPQEEDKKPNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus         1 m~~~~~~~~~~~~kp~~~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      ||++++.+..++.++.+++..|+|+|+..+|..+.|+|.+++++..|+++||++.|++++..||+|+|++|...
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~m~I~Vk~~~g~~~~l~v~~~~tv~~lK~~i~~~~gip~~~qrLif~Gk~L~d~   74 (97)
T 1wyw_B            1 MSDQEAKPSTEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADN   74 (97)
T ss_dssp             ------------------CCEEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTT
T ss_pred             CCccccCccccccCCCCCCCcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCChhhEEEEECCeEcCCC
Confidence            78766544444444445678999999999999999999999999999999999999999999999999998643

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

Probab=99.14  E-value=2.2e-10  Score=67.26  Aligned_cols=55  Identities=44%  Similarity=0.683  Sum_probs=51.8

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           20 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      ++|+|+|++.+|..+.|+|.+++++..|+++||++.|++++..||+|+|++|...
T Consensus         2 ~~m~i~vk~~~g~~~~~~v~~~~tv~~lk~~i~~~~gi~~~~qrL~~~G~~L~d~   56 (79)
T 2uyz_B            2 EYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADN   56 (79)
T ss_dssp             CEEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTT
T ss_pred             CeEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHHCCCcccEEEEECCEEeCCC
Confidence            3699999999999999999999999999999999999999999999999998654

>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=98.25  E-value=5.8e-06  Score=48.60  Aligned_cols=56  Identities=13%  Similarity=0.231  Sum_probs=52.0

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           18 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        18 ~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      +...++|.|+..+|..+.+.|.+++....|....+++.|++++..|++|+|+.+.-
T Consensus         9 ~~~~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~G~~L~d   64 (88)
T 3dbh_I            9 SGGSMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMND   64 (88)
T ss_dssp             CCCCEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCT
T ss_pred             CCCcEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcCHHHEEEEECCeECCC
Confidence            35679999999999999999999999999999999999999999999999998864

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

Probab=98.18  E-value=5e-06  Score=50.74  Aligned_cols=58  Identities=10%  Similarity=0.175  Sum_probs=50.7

Q ss_pred             CCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           17 DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        17 ~~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      ..+..++|.|+..+|..+.+.|..++....|....+++.|++++..|++|+|+.+.-.
T Consensus        18 ~~~~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~   75 (98)
T 4hcn_B           18 FQGRPMQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDG   75 (98)
T ss_dssp             ----CCEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTT
T ss_pred             CCCCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEECCEECCCC
Confidence            3456799999999999999999999999999999999999999999999999988643

>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=98.16  E-value=8.3e-06  Score=50.53  Aligned_cols=55  Identities=9%  Similarity=0.177  Sum_probs=50.7

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeec
Q 034926           18 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAF   72 (78)
Q Consensus        18 ~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~   72 (78)
                      ++..+.|.|+..+|..+.+.|..++....|....+++.|++.+..|++|.|+.+.
T Consensus        20 ~~~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~   74 (106)
T 1ttn_A           20 SGYECQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLT   74 (106)
T ss_dssp             -CCSEEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTCCCSTTCEEEETTEECC
T ss_pred             CCCeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHHCcCcccEEEEECCEECC
Confidence            4567999999888999999999999999999999999999999999999999874

>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=98.15  E-value=6.2e-06  Score=48.07  Aligned_cols=54  Identities=11%  Similarity=0.242  Sum_probs=49.7

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        21 ~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      .++|.|+..+|..+.+.|.+++....|....+++.+++++..|++|+|+.+...
T Consensus         3 ~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~ip~~~qrL~~~g~~L~d~   56 (85)
T 3n3k_B            3 HMRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG   56 (85)
T ss_dssp             -CEEEEECGGGCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETBEECCTT
T ss_pred             eEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCeECCCC
Confidence            588999999999999999999999999999999999999999999999988654

>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=98.13  E-value=1.7e-05  Score=46.69  Aligned_cols=54  Identities=17%  Similarity=0.147  Sum_probs=50.1

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           20 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      ..++|.|+..+|..+.+.|.+++....|....+++.|++++..|++|+|+.+..
T Consensus         6 ~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~qrL~~~Gk~L~d   59 (87)
T 1wh3_A            6 SGIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQD   59 (87)
T ss_dssp             SSEEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTCCCTTTEEEEETTEECCS
T ss_pred             CCEEEEEEcCCCCEEEEEeCCCChHHHHHHHHHHHhCCChHHEEEEECCEEccC
Confidence            469999999889999999999999999999999999999999999999998853

>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=98.12  E-value=1.3e-05  Score=46.60  Aligned_cols=55  Identities=11%  Similarity=0.239  Sum_probs=50.5

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           20 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      ..++|.|+..+|..+.+.|.+++....|....+++.+++++..|++|+|+.+...
T Consensus         2 s~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~i~~~~qrL~~~g~~L~d~   56 (85)
T 3mtn_B            2 SHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG   56 (85)
T ss_dssp             -CEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTT
T ss_pred             CeEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcChHHEEEEECCEECCCC
Confidence            3589999999999999999999999999999999999999999999999988643

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

Probab=98.12  E-value=1.9e-05  Score=47.25  Aligned_cols=57  Identities=7%  Similarity=0.176  Sum_probs=52.3

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           18 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        18 ~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      +...++|.|+..+|..+.+.|..++....|....+++.|++.+..|++|+|+.+.-.
T Consensus        14 ~~~~m~i~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~   70 (91)
T 3v6c_B           14 PRGSMQIFVNTLTGTHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG   70 (91)
T ss_dssp             CCCSEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTT
T ss_pred             CCCeEEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCCChhhEEEEECCeECCCc
Confidence            356799999999999999999999999999999999999999999999999987643

>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=98.08  E-value=1.7e-05  Score=45.00  Aligned_cols=52  Identities=13%  Similarity=0.243  Sum_probs=47.8

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      ++|.|+..+|..+.+.+.+++....|....+++.|++++..|++|+|+.+..
T Consensus         1 M~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~~i~~~~q~L~~~g~~L~d   52 (76)
T 1ndd_A            1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMND   52 (76)
T ss_dssp             CEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCT
T ss_pred             CEEEEECCCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCEECCC
Confidence            3678888889999999999999999999999999999999999999998854

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

Probab=98.06  E-value=2.9e-05  Score=44.94  Aligned_cols=54  Identities=7%  Similarity=0.124  Sum_probs=50.4

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        21 ~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      .+.|.|+..+|..+.+.|.+++....|....+++.|++++..|++|+|+.+.-.
T Consensus         4 ~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~G~~L~d~   57 (79)
T 3phx_B            4 PLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQ   57 (79)
T ss_dssp             CEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTT
T ss_pred             CEEEEEEeCCCCEEEEEECCcChHHHHHHHHHhhcCCCHHHEEEEECCEECCCC
Confidence            589999999999999999999999999999999999999999999999987643

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

Probab=98.05  E-value=2.9e-05  Score=48.53  Aligned_cols=55  Identities=9%  Similarity=0.184  Sum_probs=51.4

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           20 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      ..++|.|+..+|..+.+.|.+++....|....+++.|+++...|++|+|+.+.-.
T Consensus        34 ~~m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~   88 (111)
T 3vdz_A           34 LAMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG   88 (111)
T ss_dssp             GCEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTT
T ss_pred             ccEEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCChHHEEEEECCEECCCC
Confidence            4799999999999999999999999999999999999999999999999988643

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

Probab=98.03  E-value=9.5e-05  Score=47.37  Aligned_cols=53  Identities=11%  Similarity=0.207  Sum_probs=49.1

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeec
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAF   72 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~   72 (78)
                      ...++|.|+.. |..+.+.|..++....|....+++.|++.+..|++|+|+.|.
T Consensus        30 ~~~m~I~Vk~~-g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~   82 (125)
T 1j8c_A           30 PKIIKVTVKTP-KEKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILK   82 (125)
T ss_dssp             CCCEEEEEECS-SCEEEEEECTTCCHHHHHHHHHHHHCSCSSSEEEEETTEEES
T ss_pred             CCcEEEEEEeC-CeEEEEEECCCCcHHHHHHHHHHHHCcCcceEEEEECCEEcC
Confidence            35799999988 888999999999999999999999999999999999999884

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

Probab=98.03  E-value=4.4e-05  Score=45.28  Aligned_cols=54  Identities=13%  Similarity=0.119  Sum_probs=50.7

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           20 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      ..++|.|+..+|..+.+.|..++....|....+++.|++++..|++|+|+.+.-
T Consensus         4 ~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~d   57 (90)
T 4dwf_A            4 DSLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQD   57 (90)
T ss_dssp             CEEEEEEEETTCCEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCT
T ss_pred             cEEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCeECCC
Confidence            479999999999999999999999999999999999999999999999998754

>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=98.01  E-value=2.5e-05  Score=44.24  Aligned_cols=51  Identities=10%  Similarity=0.191  Sum_probs=47.0

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           23 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        23 ~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      .|.|+..+|..+.+.+.+++....|....+++.|++++..|++|+|+.+..
T Consensus         2 ~i~vk~~~g~~~~i~v~~~~tv~~lK~~i~~~~~i~~~~q~L~~~g~~L~d   52 (76)
T 3a9j_A            2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLED   52 (76)
T ss_dssp             EEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCT
T ss_pred             EEEEEcCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCeECCC
Confidence            577888889999999999999999999999999999999999999998854

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

Probab=97.95  E-value=5.5e-05  Score=43.57  Aligned_cols=54  Identities=15%  Similarity=0.226  Sum_probs=49.7

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           20 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      ..++|.|+..+|..+.+.+..++....|....+++.|++++..|++|+|+.+..
T Consensus         6 ~~m~i~vk~~~g~~~~~~v~~~~tV~~LK~~i~~~~~i~~~~qrL~~~gk~L~d   59 (81)
T 2dzi_A            6 SGMQLTVKALQGRECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALAD   59 (81)
T ss_dssp             SSEEEEEEETTSCEEEEEECSSCBHHHHHHHHHHHTCCCTTTCEEEETTEECCT
T ss_pred             CcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHEEEEECCeECCC
Confidence            468899998889988999999999999999999999999999999999998853

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

Probab=97.91  E-value=4.6e-05  Score=45.44  Aligned_cols=52  Identities=8%  Similarity=0.155  Sum_probs=48.8

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeec
Q 034926           21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAF   72 (78)
Q Consensus        21 ~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~   72 (78)
                      .++|.|+..+|..+.+.|.+++....|....+++.|++++..|++|+|+.+.
T Consensus         4 ~m~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~   55 (88)
T 2hj8_A            4 PLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLE   55 (88)
T ss_dssp             EEEEEEEETTSCEEEEEEESSSBHHHHHHHHHHHTCSCTTTEEEESSSSCCC
T ss_pred             cEEEEEECCCCCEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEECCEECC
Confidence            5889999888999999999999999999999999999999999999998874

>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=97.91  E-value=4.5e-05  Score=45.62  Aligned_cols=53  Identities=9%  Similarity=0.203  Sum_probs=48.4

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      ++|.|+..+|..+.+.|..++....|....+++.|++++..|++|+|+.+...
T Consensus         2 m~i~vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~gip~~~qrL~~~G~~L~d~   54 (96)
T 3k9o_B            2 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG   54 (96)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTT
T ss_pred             cEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCCChhHEEEEECCEECCCC
Confidence            56788888899999999999999999999999999999999999999988643

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

Probab=97.87  E-value=6.8e-05  Score=42.78  Aligned_cols=51  Identities=8%  Similarity=0.136  Sum_probs=47.0

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      ++|.|+. +|....+.+..++....|....+++.|++++..|++|+|+.+.-
T Consensus         5 m~i~vk~-~g~~~~~~v~~~~tV~~LK~~i~~~~~i~~~~qrL~~~gk~L~d   55 (77)
T 2bwf_A            5 LNIHIKS-GQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKD   55 (77)
T ss_dssp             EEEEEEE-TTEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCT
T ss_pred             EEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHhCCCHHHEEEEECCeEcCC
Confidence            7888888 88888999999999999999999999999999999999998753

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

Probab=97.87  E-value=7.3e-05  Score=46.54  Aligned_cols=54  Identities=9%  Similarity=0.184  Sum_probs=50.5

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           20 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      ..++|+|+..+|..+.+.|..++....|....+++.|++++..|++|+|+.+.-
T Consensus        34 ~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D   87 (111)
T 2ojr_A           34 LAMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLED   87 (111)
T ss_dssp             SCEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCCCTTTEEEEETTEECCS
T ss_pred             CeEEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHHHCcCcccEEEEECCEECCC
Confidence            479999999899999999999999999999999999999999999999998854

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

Probab=97.82  E-value=7.5e-05  Score=45.15  Aligned_cols=51  Identities=10%  Similarity=0.191  Sum_probs=46.9

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           23 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        23 ~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      +|+|+..+|..+.+.|..++....|....+++.|++++..|++|+|+.+..
T Consensus         2 ~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~gi~~~~qrL~~~Gk~L~D   52 (98)
T 1yx5_B            2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLED   52 (98)
T ss_dssp             EEEEEETTSCEEEEECCTTCBHHHHHHHHHHHTCCCGGGEEEEETTEECCT
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCC
Confidence            577888889989999999999999999999999999999999999998854

>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=97.79  E-value=0.00017  Score=43.31  Aligned_cols=53  Identities=9%  Similarity=0.143  Sum_probs=49.2

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeec
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAF   72 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~   72 (78)
                      ...|+|.|+.. |..+.+.|..++....|.+..+++.|++++..|++|.|+.+.
T Consensus        15 ~~~m~i~Vk~~-g~~~~~~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~   67 (96)
T 1wx8_A           15 SRIIRVSVKTP-QDCHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILR   67 (96)
T ss_dssp             SCEEEEEEECS-SSEEEEEEETTCCHHHHHHHHHHHTCSCTTTBCCEETTEECC
T ss_pred             CCcEEEEEEEC-CeEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEECC
Confidence            35799999987 889999999999999999999999999999999999999874

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

Probab=97.79  E-value=0.00017  Score=42.46  Aligned_cols=55  Identities=13%  Similarity=0.120  Sum_probs=50.9

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      ...++|.|+..+|....+.|.+++....|....+++.|++++..|++|.|+.+.-
T Consensus        15 ~~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~D   69 (88)
T 4eew_A           15 PDSLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQD   69 (88)
T ss_dssp             CCEEEEEEEETTSCEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCT
T ss_pred             CCeEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEECCC
Confidence            3579999999999999999999999999999999999999999999999998754

>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=97.74  E-value=0.00027  Score=43.40  Aligned_cols=54  Identities=11%  Similarity=0.198  Sum_probs=48.7

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeec
Q 034926           18 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAF   72 (78)
Q Consensus        18 ~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~   72 (78)
                      ....++|+|+...|. ..+.|..++....|....+++.|++.+..|++|+|+.|.
T Consensus        14 ~~~~m~I~Vk~~~g~-~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~   67 (106)
T 1wx7_A           14 DPHLIKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILK   67 (106)
T ss_dssp             CSSEEEEEEECSSCE-EEEEEETTCCHHHHHHHHHHHHTCCTTTEEEEETTEECC
T ss_pred             CCceEEEEEEeCCCc-EEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECC
Confidence            356799999988775 689999999999999999999999999999999999874

>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=97.72  E-value=0.00016  Score=41.54  Aligned_cols=53  Identities=17%  Similarity=0.171  Sum_probs=47.8

Q ss_pred             cEEEEEEccCCCEE-EEE-EeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           21 HINLKVKGQDGNEV-FFR-IKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        21 ~I~lkV~~qdg~~v-~Fk-IK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      .+.|.|+..+|..+ .+. |.+++....|....+++.|++++..|++|+|+.+..
T Consensus         2 ~m~i~Vk~~~g~~~~~l~~v~~~~tv~~lK~~i~~~~gip~~~qrL~~~g~~L~d   56 (78)
T 2faz_A            2 SMWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMED   56 (78)
T ss_dssp             CEEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCT
T ss_pred             cEEEEEEECCCCEEEEEeccCCCCCHHHHHHHHHHHHCcChhhEEEEECCEECCC
Confidence            47788888888886 788 999999999999999999999999999999998853

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

Probab=97.72  E-value=0.00013  Score=47.97  Aligned_cols=60  Identities=10%  Similarity=0.201  Sum_probs=51.3

Q ss_pred             CCCCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           15 PNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        15 p~~~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      |..+...+.|.|+..+|..+.+.|..++....|....+++.|++++..|++|+|+.+...
T Consensus        14 ~~~~~~~m~i~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~QrL~~~g~~L~d~   73 (172)
T 3u30_A           14 LVPRGSHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG   73 (172)
T ss_dssp             -----CCEEEEEEETTTEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTT
T ss_pred             CCCCCCcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCcccccc
Confidence            333456799999999999999999999999999999999999999999999999887653

>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=97.68  E-value=0.00037  Score=41.01  Aligned_cols=54  Identities=13%  Similarity=0.154  Sum_probs=48.9

Q ss_pred             CcEEEEEEccCC-CEEEE-EEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           20 AHINLKVKGQDG-NEVFF-RIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        20 ~~I~lkV~~qdg-~~v~F-kIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      ..+.|.|+..+| ..+.+ .|.+++....|....+++.|++++..|++|+|+.+..
T Consensus         6 ~~m~i~Vk~~~g~~~~~l~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~gk~L~d   61 (89)
T 1wy8_A            6 SGMWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLEN   61 (89)
T ss_dssp             SCEEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCCTTTEEEEETTEECCS
T ss_pred             CcEEEEEEECCCCceEEEEecCCCCCHHHHHHHHHHHHCcChhhEEEEECCeECCC
Confidence            468999998888 68899 5999999999999999999999999999999998853

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

Probab=97.64  E-value=0.00015  Score=43.20  Aligned_cols=53  Identities=11%  Similarity=0.178  Sum_probs=48.2

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        21 ~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      -+.|.|+..+|..+.+.+.+++....|.+..+++.|++++..|++|+|+.+..
T Consensus         9 ~~~i~v~~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D   61 (88)
T 1sif_A            9 GLQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLED   61 (88)
T ss_dssp             -CEEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCT
T ss_pred             ceEEEEEeCCCCEEEEEECCCChHHHHHHHHHHHHCcChhhEEEEECCEECCC
Confidence            36778888899999999999999999999999999999999999999998853

>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=97.60  E-value=0.00031  Score=44.44  Aligned_cols=53  Identities=9%  Similarity=0.191  Sum_probs=48.6

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        21 ~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      .+.|.|...+|....+.+.+++....|.+..+++.|++++..|+.|+|+.+..
T Consensus        76 ~~~i~Vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~qrL~~~g~~L~d  128 (152)
T 3b08_A           76 GMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLED  128 (152)
T ss_dssp             CEEEEEEESSSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCT
T ss_pred             ccceeeeecCCCEEEEEeCCCCcHHHHHHHHHHHhCcChhhEEEEECCEECCC
Confidence            47788888889999999999999999999999999999999999999998743

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

Probab=97.60  E-value=0.00017  Score=43.58  Aligned_cols=52  Identities=8%  Similarity=0.067  Sum_probs=46.2

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           20 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      ..++|.|+.  |..+.+.|.+++....|....+++.|++++..|++|+|+.+..
T Consensus        18 ~~m~I~Vk~--g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D   69 (93)
T 2l7r_A           18 GSMQLFVRA--QELHTFEVTGQETVAQIKAHVASLEGIAPEDQVVLLAGAPLED   69 (93)
T ss_dssp             --CEEEEES--SSEEEEECCSSCBHHHHHHHHHHHHTCCGGGCEEEETTEECCT
T ss_pred             CcEEEEEEC--CCEEEEEeCCCCcHHHHHHHHHHHhCcChhHEEEEECCEECCC
Confidence            358888887  7888999999999999999999999999999999999998853

>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=97.60  E-value=0.0004  Score=42.57  Aligned_cols=53  Identities=11%  Similarity=0.196  Sum_probs=48.3

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeec
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAF   72 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~   72 (78)
                      ...++|.|+...|. ..+.|..++....|.+..+++.|++++..|++|+|+.+.
T Consensus        20 ~~~m~I~Vk~~~g~-~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~   72 (100)
T 1yqb_A           20 PHLIKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILK   72 (100)
T ss_dssp             TTEEEEEEECSSCE-EEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECC
T ss_pred             CCeEEEEEEcCCCc-EEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECC
Confidence            45799999988875 689999999999999999999999999999999999874

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

Probab=97.56  E-value=0.0005  Score=42.13  Aligned_cols=54  Identities=7%  Similarity=0.146  Sum_probs=48.9

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      ...++|.|+.. |..+.+.|..++....|....+++.|++++..|++|.|+.+.-
T Consensus        23 ~~~m~I~Vk~~-g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D   76 (101)
T 2klc_A           23 PKIMKVTVKTP-KEKEEFAVPENSSVQQFKEEISKRFKSHTDQLVLIFAGKILKD   76 (101)
T ss_dssp             CCCEEEEEECS-SCEEEEEECSCCCHHHHHHHHHHHHTCCGGGEEEEETTEEECT
T ss_pred             CCeEEEEEEeC-CcEEEEEECCCCCHHHHHHHHHHHHCcChhhEEEEECCEECCC
Confidence            35688999887 8888999999999999999999999999999999999998843

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

Probab=97.54  E-value=0.00093  Score=43.30  Aligned_cols=55  Identities=18%  Similarity=0.138  Sum_probs=49.5

Q ss_pred             CcEEEEEE-ccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           20 AHINLKVK-GQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        20 ~~I~lkV~-~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      ..|+++|+ ..+|..+.+.+..++.++.|.+..+.+.+++.+.+|+.|+|+-+.-.
T Consensus        14 ~~itvkv~l~~~~~k~tv~v~~d~TV~dLKe~ls~~~~iP~e~qrLIy~GKiLKD~   69 (118)
T 2daf_A           14 SLATVKVVLIPVGQEIVIPFKVDTILKYLKDHFSHLLGIPHSVLQIRYSGKILKNN   69 (118)
T ss_dssp             SCEEEEEEETTTCCEEEEEECSSSCSHHHHHHHHHHHTCCTTTEEEEETTEEECSS
T ss_pred             ccEEEEEEEcCCCcEEEEEeCCCCcHHHHHHHHHhhhCCChHHEEEEECCeEcCCc
Confidence            45889987 66788899999999999999999999999999999999999988643

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

Probab=97.53  E-value=0.00021  Score=44.47  Aligned_cols=54  Identities=17%  Similarity=0.254  Sum_probs=50.8

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeeccee
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAW   75 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~   75 (78)
                      ..+.|...+|+...+||.+++.|..+.+.-|+++|++.+...+.|+++.|.+|-
T Consensus        10 m~v~Vl~~n~rr~~VKvtp~t~L~~VL~eaC~K~gl~~~~~~Lkh~~k~lDLSl   63 (90)
T 2al3_A           10 SAVSVLAPNGRRHTVKVTPSTVLLQVLEDTCRRQDFNPSEYDLKFQRTVLDLSL   63 (90)
T ss_dssp             CCEEEECTTSCEEEECCCTTSBHHHHHHHHHHHTTCCGGGCEEEETTEEESSSC
T ss_pred             cEEEEEcCCCcEEEEEECCCCCHHHHHHHHHHHhCCChhhCeEEeCCEeccccc
Confidence            478889999999999999999999999999999999999999999999998874

>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=97.53  E-value=0.00029  Score=41.95  Aligned_cols=53  Identities=13%  Similarity=0.238  Sum_probs=47.8

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      +.|.|+..+|..+.+.|.+++....|....+++.|++++..|++|+|+.+.-.
T Consensus         1 M~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~   53 (88)
T 4fbj_B            1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDE   53 (88)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTT
T ss_pred             CEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcChhHEEEEECCeECCCC
Confidence            35777878899999999999999999999999999999999999999988643

>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=97.51  E-value=0.00075  Score=39.13  Aligned_cols=52  Identities=10%  Similarity=0.141  Sum_probs=48.0

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhh---cCCCCCeEEEEECCEeec
Q 034926           21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDR---QSVELNSIAFLYVHISAF   72 (78)
Q Consensus        21 ~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r---~gl~~~s~rFlfdG~rI~   72 (78)
                      .++|.|+..+|..+.+.|..++....|....+++   .|++++..|++|.|+.+.
T Consensus         5 ~m~i~vk~~~g~~~~~~v~~~~TV~~lK~~i~~~~~~~gip~~~qrLi~~Gk~L~   59 (85)
T 2wyq_A            5 AVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILS   59 (85)
T ss_dssp             CEEEEEEETTSCEEEEEECTTSBHHHHHHHHHHHHCTTTCCGGGEEEEETTEECC
T ss_pred             eEEEEEEECCCCEEEEEECCCCCHHHHHHHHHhhccccCCCHHHeEEEECCEECc
Confidence            5888998888999999999999999999999998   789999999999999874

>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=97.37  E-value=0.00087  Score=40.34  Aligned_cols=50  Identities=10%  Similarity=0.108  Sum_probs=45.5

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHhh---cCCCCCeEEEEECCEeec
Q 034926           23 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDR---QSVELNSIAFLYVHISAF   72 (78)
Q Consensus        23 ~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r---~gl~~~s~rFlfdG~rI~   72 (78)
                      +|.|+..+|..+.+.|..++....|....+++   .|++++..|++|+|+.+.
T Consensus         2 ~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~~~~gip~~~qrLi~~Gk~L~   54 (95)
T 1uel_A            2 QVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILN   54 (95)
T ss_dssp             EEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECC
T ss_pred             EEEEEeCCCCEEEEEECCCCHHHHHHHHHHhhcccCCCChhhEEEEECCEECC
Confidence            57777778999999999999999999999998   789999999999999874

>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=97.36  E-value=0.0012  Score=41.10  Aligned_cols=54  Identities=11%  Similarity=0.009  Sum_probs=50.6

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           20 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      .-|.|.|.+..|..+.+++.++.....|.+.-+++.|++++..|+.|.|+.+.-
T Consensus        20 ~mIqI~Vk~~~Gkk~~v~v~p~DTI~~LK~~I~~k~Gip~~qQrLif~Gk~LkD   73 (93)
T 3plu_A           20 HMIEVVVNDRLGKKVRVKCLGEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKD   73 (93)
T ss_dssp             CEEEEEEECTTSCEEEEEEETTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCT
T ss_pred             ceEEEEEECCCCCEEEEEECCcCHHHHHHHHHHHHhCCCHHHEEEEeCCEEccC
Confidence            479999999999999999999999999999999999999999999999987653

>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=97.35  E-value=0.0012  Score=42.50  Aligned_cols=55  Identities=7%  Similarity=0.126  Sum_probs=50.3

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      ...+.|.|...+|..+.+.|.+++....|....+++.|++++..|+.|+|+.+.-
T Consensus        79 ~~~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~q~L~~~G~~L~d  133 (159)
T 3rt3_B           79 DEPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLED  133 (159)
T ss_dssp             CCCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCT
T ss_pred             CCcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCHHHEEEEECCeecCC
Confidence            3458888999999999999999999999999999999999999999999988764

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

Probab=97.30  E-value=0.00046  Score=42.63  Aligned_cols=52  Identities=15%  Similarity=0.152  Sum_probs=46.9

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      ++|.|+..+|..+.+.|..++....|....+++.|++++..|++|.|+.+.-
T Consensus         2 m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D   53 (106)
T 3m62_B            2 VSLTFKNFKKEKVPLDLEPSNTILETKTKLAQSISCEESQIKLIYSGKVLQD   53 (106)
T ss_dssp             -CEEEECTTCCEEEECCCTTSBHHHHHHHHHHTTTSCGGGCEEEETTEECCT
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCChhhEEEEECCEECCC
Confidence            4677888889999999999999999999999999999999999999998754

>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=97.27  E-value=0.0024  Score=39.97  Aligned_cols=53  Identities=11%  Similarity=0.083  Sum_probs=49.9

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeec
Q 034926           20 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAF   72 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~   72 (78)
                      .-|+|.|+...|..+.+.|.++.....|.+.-+++.|++++..|+.|.|+.+.
T Consensus        27 ~mm~I~VKtl~Gk~i~lev~p~dTV~~lK~~Ia~k~Gip~~qQrLi~~Gk~L~   79 (100)
T 1uh6_A           27 TMIEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFK   79 (100)
T ss_dssp             CEEEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCCCGGGCEEEETTEECC
T ss_pred             CeEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCHHHEEEEECCEECC
Confidence            45999999988999999999999999999999999999999999999999885

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

Probab=97.26  E-value=0.0018  Score=38.39  Aligned_cols=53  Identities=11%  Similarity=0.160  Sum_probs=49.3

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEe-ec
Q 034926           20 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHIS-AF   72 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~r-I~   72 (78)
                      .+.+|.|..-.|....+.|.+++....|....+++.|++++..|++|.|+. +.
T Consensus         9 ~~~~i~vk~l~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~lL~   62 (84)
T 2kk8_A            9 SHMKFLVENLNGSSFELEVDYRDTLLVVKQKIERSQHIPVSKQTLIVDGIVILR   62 (84)
T ss_dssp             CCEEEEEEETTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCC
T ss_pred             CceEEEEEecCCcEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCEEecC
Confidence            478899999899999999999999999999999999999999999999987 63

>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=97.25  E-value=0.001  Score=41.97  Aligned_cols=51  Identities=10%  Similarity=0.191  Sum_probs=46.4

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           23 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        23 ~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      .|.|+..+|..+.+.|.+++....|....+++.|++++..|++|.|+.+..
T Consensus         2 ~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gip~~~q~L~~~g~~L~d   52 (152)
T 3b08_A            2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLED   52 (152)
T ss_dssp             EEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCT
T ss_pred             EEEEEeCCCCEEEEEECCCCCHHHHHHHHHHHHCcChHHeEEEECCeECcC
Confidence            567777788899999999999999999999999999999999999998753

>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=96.30  E-value=5e-05  Score=43.46  Aligned_cols=51  Identities=10%  Similarity=0.086  Sum_probs=45.7

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           23 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        23 ~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      .|.|+..+|..+.+.+.+++....|....+++.|++++..|++|+|+.+..
T Consensus         2 ~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~qrL~~~gk~L~d   52 (76)
T 3b1l_X            2 IVFVRFNSSYGFPVEVDSDTSILQLKEVVAKQQGVPADQLRVIFAGKELPN   52 (76)
Confidence            466777788888899999999999999999999999999999999988743

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

Probab=97.20  E-value=0.0032  Score=38.04  Aligned_cols=53  Identities=13%  Similarity=0.197  Sum_probs=47.9

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeec
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAF   72 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~   72 (78)
                      ...++|.|+...| ...+.|.+++....|...-+++.|++++..|++|.|+.+.
T Consensus        13 ~~~~~I~Vk~~~~-~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~   65 (94)
T 2kan_A           13 VRKIHVTVKFPSK-QFTVEVDRTETVSSLKDKIHIVENTPIKRMQLYYSGIELA   65 (94)
T ss_dssp             SCCEEEEEECSSC-EEEEEECTTCBHHHHHHHHHHHSSSCTTTEEEEETTEEEC
T ss_pred             CCCEEEEEEcCCc-EEEEEECCCCcHHHHHHHHHHHHCcCHHHEEEEECCEECC
Confidence            3468999998777 7789999999999999999999999999999999998874

>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=97.12  E-value=0.0016  Score=38.97  Aligned_cols=51  Identities=16%  Similarity=0.154  Sum_probs=45.8

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           20 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      ..|+|.|+..+|..+.+.|.+++....|....+++.   ++..|++|.|+.|.-
T Consensus         6 ~~m~i~Vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~---~~~qrLi~~Gk~L~D   56 (95)
T 1wia_A            6 SGINVRLKFLNDTEELAVARPEDTVGTLKSKYFPGQ---ESQMKLIYQGRLLQD   56 (95)
T ss_dssp             CSEEEEEEETTTEEEEEEECSSSBHHHHHHHHSSST---TTTCEEEETTEECCC
T ss_pred             CeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHhhC---cCcEEEEECCEEccC
Confidence            469999998889888999999999999999999887   889999999998853

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

Probab=97.00  E-value=0.0029  Score=39.52  Aligned_cols=51  Identities=8%  Similarity=0.204  Sum_probs=46.8

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeec
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAF   72 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~   72 (78)
                      ..|.|...+|..+.+.|.+++....|....+++.|++++..|++|+|+.+.
T Consensus        10 ~~i~vk~l~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~   60 (114)
T 2kdi_A           10 FQIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLE   60 (114)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECC
T ss_pred             EEEEEEeCCCcEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCEECC
Confidence            566777778999999999999999999999999999999999999999874

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

Probab=96.99  E-value=0.0025  Score=42.47  Aligned_cols=51  Identities=10%  Similarity=0.199  Sum_probs=47.3

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           23 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        23 ~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      .|.|+..+|..+.+.|.+++....|....+++.|++++..|++|.|+.+.-
T Consensus         2 qI~Vk~~~Gk~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D   52 (169)
T 3l0w_B            2 QIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLED   52 (169)
T ss_dssp             EEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCTTTEEEEETTEECCT
T ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHHCcCHHHEEEEECCccccC
Confidence            577888899999999999999999999999999999999999999998754

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

Probab=96.97  E-value=0.00035  Score=42.97  Aligned_cols=54  Identities=7%  Similarity=0.130  Sum_probs=46.9

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      +-.|+|+|+. .|..+.+.|..++....|....+++.|++++..|++|.|+.+.-
T Consensus        26 ~m~i~I~Vk~-~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D   79 (101)
T 3m63_B           26 AMSLNIHIKS-GQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKD   79 (101)
T ss_dssp             ---CCEEEEC-SSCCCCBCCCTTSBHHHHHHHHHHHHSCCSTTCCEEETTEECCT
T ss_pred             CcEEEEEEEE-CCEEEEEEeCCCCCHHHHHHHHHHHHCcChHHEEEEECCEECCC
Confidence            4568888887 78888899999999999999999999999999999999998754

>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=96.88  E-value=0.0053  Score=38.11  Aligned_cols=53  Identities=13%  Similarity=0.203  Sum_probs=46.4

Q ss_pred             CcEEEEEEccC----------CCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeec
Q 034926           20 AHINLKVKGQD----------GNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAF   72 (78)
Q Consensus        20 ~~I~lkV~~qd----------g~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~   72 (78)
                      ..|+|.|..++          |..+.+.|..++....|....+++.|++++..|++|.|+.+.
T Consensus        24 ~~i~l~V~~p~~~~~~~~~L~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrL~~~Gk~L~   86 (115)
T 1we7_A           24 GPVSIKVQVPNMQDKTEWKLNGQGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIK   86 (115)
T ss_dssp             SCEEEEEEECCCSSSCSSCCSSEEEEEEECSCSBTHHHHHHHHHHSSCCTTTEEEEETTEEEC
T ss_pred             CCEEEEEEcCCCccccccccCCeEEEEEECCCCCHHHHHHHHHHHHCCChHHEEEEECCEECC
Confidence            46777777653          567889999999999999999999999999999999998874

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

Probab=96.79  E-value=0.0036  Score=42.90  Aligned_cols=53  Identities=9%  Similarity=0.159  Sum_probs=49.9

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      +.|.|+..+|..+.+.|.+++....|....+++.|++++..|++|.|+.+.-.
T Consensus       106 MqI~VKtl~Gkt~~l~V~~s~TV~~LK~kI~~~~gIp~~~QrLi~~Gk~L~D~  158 (189)
T 3q3f_A          106 GQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG  158 (189)
T ss_dssp             EEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTT
T ss_pred             eeeeeecCCCCEEEEEeCCCCcHHHHHHHHHhccCCCHHHEEEEECCEECCCC
Confidence            89999999999999999999999999999999999999999999999988643

>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=96.73  E-value=0.0028  Score=38.34  Aligned_cols=56  Identities=7%  Similarity=0.032  Sum_probs=48.4

Q ss_pred             CCCCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEee
Q 034926           15 PNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISA   71 (78)
Q Consensus        15 p~~~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI   71 (78)
                      +......|+|+|+. .|..+.+.|..++.+..|...-+++.|++++..|++|.|+.+
T Consensus        11 ~~~~~~~~~i~Vk~-~g~~~~i~v~~~~TV~~LK~~I~~~tgip~~~QrL~~~Gk~L   66 (95)
T 1v86_A           11 GGVGKELVDLKIIW-NKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGLVP   66 (95)
T ss_dssp             CCCCCCCEEEEEEE-TTEEEEEEECTTSBHHHHHHHHHHHHCSCSTTCCCBSSSBCC
T ss_pred             CCCCCceEEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCeeC
Confidence            33345679999984 577788999999999999999999999999999999999876

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

Probab=96.63  E-value=0.011  Score=36.40  Aligned_cols=55  Identities=11%  Similarity=0.158  Sum_probs=45.7

Q ss_pred             CCcEEEEEEccCCCEEEE--EEeCCchHHHHHHHH-HhhcCCCCCeEEEEECCEeecc
Q 034926           19 SAHINLKVKGQDGNEVFF--RIKRSTQLKKLMNAY-CDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~F--kIK~~t~l~KLm~aY-c~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      ...++|.|+...|....+  .+.++.....|.... +++.|++++..|++|.|+.+.-
T Consensus        17 ~~~m~I~VKtl~g~~~~i~v~v~~~~TV~~lK~~I~~~~~gip~~~QrLi~~Gk~L~D   74 (98)
T 4a20_A           17 NAAVHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASHISEIKLLLKGKVLHD   74 (98)
T ss_dssp             -CCEEEEEEECSSSCEEEEEEECTTCBHHHHHHHHHHTTSCSCGGGEEEEETTEEECT
T ss_pred             CCCEEEEEEcCCCCEEEEEEecCCCChHHHHHHHHHHHhcCCChhhEEEEECCEECcC
Confidence            346888888888886555  555999999999998 7788999999999999998754

>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=96.61  E-value=0.0081  Score=35.69  Aligned_cols=53  Identities=11%  Similarity=0.093  Sum_probs=45.3

Q ss_pred             CcEEEEEEccCCC--EEEEEEeCCchHHHHHHHHHhhc--CCCCCeEEEEECCEeec
Q 034926           20 AHINLKVKGQDGN--EVFFRIKRSTQLKKLMNAYCDRQ--SVELNSIAFLYVHISAF   72 (78)
Q Consensus        20 ~~I~lkV~~qdg~--~v~FkIK~~t~l~KLm~aYc~r~--gl~~~s~rFlfdG~rI~   72 (78)
                      ..|+|.|+..+|.  .+.+.+..++....|...-+++.  |++++..|++|.|+.+.
T Consensus         6 ~~m~i~Vk~~~~~~~~~~v~v~~~~TV~~lK~~I~~~~~~~i~~~~QrLi~~Gk~L~   62 (93)
T 1wgd_A            6 SGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLL   62 (93)
T ss_dssp             CCCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECC
T ss_pred             cEEEEEEEeCCCCeEEEEEecCCCCcHHHHHHHHHHHhcCCCChHHeEEEECCEECc
Confidence            3588888887777  55666669999999999999988  99999999999999874

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

Probab=96.59  E-value=0.0057  Score=36.89  Aligned_cols=52  Identities=10%  Similarity=0.137  Sum_probs=45.6

Q ss_pred             EEEEEEccCCCEEEEEEe--CCchHHHHHHHH-HhhcCCCCCeEEEEECCEeecc
Q 034926           22 INLKVKGQDGNEVFFRIK--RSTQLKKLMNAY-CDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK--~~t~l~KLm~aY-c~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      +.|.|+...|....+.|.  +++....|...- +++.|++++..|++|.|+.+.-
T Consensus         2 mqI~VKtl~g~~~~i~v~v~~~~TV~~lK~~I~~~~~gip~~~QrLi~~Gk~L~D   56 (87)
T 2lxa_A            2 VHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASHISEIKLLLKGKVLHD   56 (87)
T ss_dssp             CEEEEEECSSSCEECCEECCTTCBHHHHHHHHHHTTSCSSSTTEEEEETTEECCT
T ss_pred             EEEEEEcCCCCEEEEEEcCCCCCcHHHHHHHHHHHhcCCChHHEEEEECCEECcC
Confidence            567888888887777766  999999999998 9999999999999999998754

>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=96.52  E-value=0.019  Score=33.86  Aligned_cols=53  Identities=8%  Similarity=0.050  Sum_probs=46.5

Q ss_pred             CcEEEEEEccCCCEEEEEEeCC-----chHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           20 AHINLKVKGQDGNEVFFRIKRS-----TQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~-----t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      ..|+|.|+. .|....+.+..+     +....|...-+++.|++++..|++|.|+.+.-
T Consensus         6 ~~~~v~Vk~-~~~~~~i~v~~~~~~~~~TV~~LK~~i~~~~gip~~~qrL~~~Gk~L~D   63 (92)
T 1wxv_A            6 SGLTVTVTH-SNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKE   63 (92)
T ss_dssp             SSEEEEEEC-SSSEEEEEECCCSSSSSCBHHHHHHHHHHHTCCCTTTCEEEETTEEECC
T ss_pred             CeEEEEEEE-CCEEEEEEECCCcCcccCcHHHHHHHHHHHHCcCHHHEEEEECCeecCC
Confidence            368999987 477778899985     99999999999999999999999999998753

>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=96.46  E-value=0.0056  Score=37.71  Aligned_cols=53  Identities=11%  Similarity=0.051  Sum_probs=48.2

Q ss_pred             CcEEEEEEcc---CCCEEEEEEeC-CchHHHHHHHHHhhcCCCCCeEEEEECCEeec
Q 034926           20 AHINLKVKGQ---DGNEVFFRIKR-STQLKKLMNAYCDRQSVELNSIAFLYVHISAF   72 (78)
Q Consensus        20 ~~I~lkV~~q---dg~~v~FkIK~-~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~   72 (78)
                      ..|+|.|+..   +|..+.+.|.+ ++....|....++..|++++..|++|.|..+.
T Consensus        26 ~~i~i~Vk~~~~~~g~~~~l~v~~l~~TV~~LK~~I~~~~gip~~~QrL~~~Gk~L~   82 (111)
T 1we6_A           26 GPATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLK   82 (111)
T ss_dssp             SCEEEEECCTTCSSSCCEEEEESCSSSBHHHHHHHHHHHTTCCTTTSEEECSSSBCC
T ss_pred             CcEEEEEEecccCCCcEEEEEecCCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECC
Confidence            4699999987   78888999998 99999999999999999999999999998664

>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=96.39  E-value=0.00053  Score=43.58  Aligned_cols=51  Identities=10%  Similarity=0.199  Sum_probs=0.0

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           23 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        23 ~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      .|.|...+|..+.+.|.+++....|....+++.|++++..|++|+|..+.-
T Consensus         2 ~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D   52 (128)
T 3u5e_m            2 QIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLED   52 (128)
T ss_dssp             ---------------------------------------------------
T ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCcChHHEEEEECCEECCC
Confidence            567777788888999999999999999999999999999999999988754

>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=96.25  E-value=0.011  Score=36.94  Aligned_cols=53  Identities=9%  Similarity=0.068  Sum_probs=45.5

Q ss_pred             cEEEEEEccC--CCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           21 HINLKVKGQD--GNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        21 ~I~lkV~~qd--g~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      .|+|++.+..  +..+.+.|.++.....|...-+++.|++++..|+.|.|+.+.-
T Consensus        17 ti~V~~~~~~~~~~~~~lev~~~~TV~~lK~kI~~k~gip~~qQrLI~~GKiL~D   71 (100)
T 1wju_A           17 TIEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQL   71 (100)
T ss_dssp             EEEEECCTTTCCSSSEEEEEESSSBHHHHHHHHHHHTTCCSTTCEEEETTEECCT
T ss_pred             EEEEEecCCCCCCcEEEEEeCCcCHHHHHHHHHHHHHCcCHHHeEEEeCCeECCC
Confidence            4666665533  6788999999999999999999999999999999999998753

>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=96.20  E-value=0.014  Score=35.81  Aligned_cols=53  Identities=17%  Similarity=0.125  Sum_probs=42.2

Q ss_pred             cEEEEEEccCC---CEEEEEE--------eC-CchHHHHHHHHHhhc--CCCCCe-EEEEECCEeecc
Q 034926           21 HINLKVKGQDG---NEVFFRI--------KR-STQLKKLMNAYCDRQ--SVELNS-IAFLYVHISAFL   73 (78)
Q Consensus        21 ~I~lkV~~qdg---~~v~FkI--------K~-~t~l~KLm~aYc~r~--gl~~~s-~rFlfdG~rI~~   73 (78)
                      .|+|.|+..++   ....+.|        .+ ++....|....+++.  |++++. .|++|.|+.+.-
T Consensus        12 ~~~i~Vk~~~~~~~~~~~l~v~~~~~~~v~~~~~TV~~LK~~i~~~~~~gip~~~~qrLi~~Gk~L~D   79 (107)
T 1x1m_A           12 DWHLAVKLADQPLAPKSILQLPETELGEYSLGGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKD   79 (107)
T ss_dssp             SCCEEEEETTCTTSCCEEECCCCCSSCSSCCCCCBHHHHHHHHHHHCTTTCCCSSSEEEEETTEECCT
T ss_pred             ceEEEEEeCCCCCccEEEEEecCccccccCcccCCHHHHHHHHHHHhccCCChhhcEEEEECCeECCC
Confidence            36666666566   5666774        44 499999999999999  999999 999999998753

>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=96.17  E-value=0.04  Score=34.98  Aligned_cols=55  Identities=15%  Similarity=0.138  Sum_probs=47.8

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHh------hcCC--CCCeEEEEECCEeecc
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCD------RQSV--ELNSIAFLYVHISAFL   73 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~------r~gl--~~~s~rFlfdG~rI~~   73 (78)
                      ...|+|+|+.-.|..+.|.|..++....|...-++      +-|.  +++..|++|.|+.|.-
T Consensus        14 ~~~m~I~vKtl~G~t~~lev~~s~TV~~lK~kI~~~~p~dwke~~p~p~~qqrLIy~GK~LeD   76 (116)
T 1wgh_A           14 ADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHG   76 (116)
T ss_dssp             SSSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECS
T ss_pred             CCeEEEEEEeCCCCEEEEEECCcCHHHHHHHHHHHhcccccccCCCCChHHEEEEECCcCCCC
Confidence            45799999988899999999999999999999998      4454  6899999999998753

>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=96.11  E-value=0.032  Score=33.83  Aligned_cols=52  Identities=8%  Similarity=0.011  Sum_probs=44.0

Q ss_pred             cEEEEEEccCC----CEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeec
Q 034926           21 HINLKVKGQDG----NEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAF   72 (78)
Q Consensus        21 ~I~lkV~~qdg----~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~   72 (78)
                      .+.|.|....+    ..+.+.|..++....|...-+++.|++++..|++|.|+.+.
T Consensus         7 ~m~I~Vk~~~~~~~~~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~gk~L~   62 (102)
T 1v5o_A            7 GMLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLT   62 (102)
T ss_dssp             CEEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTCCCGGGBCEEETTEEEC
T ss_pred             eEEEEEEECCCCcCceEEEEEcCCCCCHHHHHHHHHHHHCcChHHeEEEECCEECC
Confidence            46666665433    57789999999999999999999999999999999998874

>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=96.07  E-value=0.011  Score=36.95  Aligned_cols=54  Identities=11%  Similarity=0.071  Sum_probs=47.5

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCC---------------CeEEEEECCEeec
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL---------------NSIAFLYVHISAF   72 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~---------------~s~rFlfdG~rI~   72 (78)
                      +..++|.|+.-+|..+.+.|.+++....|..+-.++.++++               ..+|+.|+|+.|.
T Consensus         5 ~~~M~I~Vk~l~g~~~~v~V~~~~TV~dLK~~I~~~~~i~~~~q~g~~~isw~~~w~q~~Li~~Gk~L~   73 (105)
T 1v2y_A            5 SSGMTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLT   73 (105)
T ss_dssp             CCSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEEC
T ss_pred             CCcEEEEEEecCCCEEEEEECCCChHHHHHHHHHHHhCCCcccccCcceeeeeecceeEEEEeCCcCcc
Confidence            34699999989999999999999999999999999888765               5789999999884

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

Probab=96.05  E-value=0.02  Score=37.38  Aligned_cols=53  Identities=9%  Similarity=0.191  Sum_probs=47.7

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        21 ~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      .+.|.|...+|..+.+.|.++.....|...-+++.|++++..|+.|+|+.+..
T Consensus        96 g~~i~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~q~L~~~g~~L~D  148 (172)
T 3u30_A           96 GMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLED  148 (172)
T ss_dssp             CEEEEEEESSCCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCT
T ss_pred             cccceeecccCcceeEEecCCCCHHHHHHHHHHHhCCCceeEEEEECCccCCC
Confidence            46667777889999999999999999999999999999999999999998754

>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=95.98  E-value=0.02  Score=34.65  Aligned_cols=52  Identities=6%  Similarity=-0.077  Sum_probs=45.9

Q ss_pred             CcEEEEEEccCCCEE-EEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeec
Q 034926           20 AHINLKVKGQDGNEV-FFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAF   72 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v-~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~   72 (78)
                      ..|+|+|+. .|... .+.|..++.+..|...-+++.|++++..|++|.|+.+.
T Consensus         6 ~~m~i~Vk~-~g~~~~~l~v~~~~TV~~lK~~I~~~tgip~~~QkLi~~Gk~L~   58 (96)
T 1wgg_A            6 SGYSVTVKW-GKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLK   58 (96)
T ss_dssp             CEEEEEEEE-TTEEEEEEEEESSSCHHHHHHHHHHHTCCCTTTSCCEETTEECC
T ss_pred             cEEEEEEEE-CCEEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCcCCC
Confidence            468888885 56676 49999999999999999999999999999999998775

>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=95.97  E-value=0.0012  Score=43.80  Aligned_cols=52  Identities=10%  Similarity=0.199  Sum_probs=0.0

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           23 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        23 ~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      .|.|...+|..+.+.|.+++....|....+++.|++++..|++|+|..|.-.
T Consensus         2 qI~VK~l~G~~~~l~V~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~   53 (152)
T 3u5c_f            2 QIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDG   53 (152)
T ss_dssp             ----------------------------------------------------
T ss_pred             EEEEEeCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEEcccc
Confidence            5667777888889999999999999999999999999999999999987543

>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=95.91  E-value=0.023  Score=36.35  Aligned_cols=52  Identities=17%  Similarity=0.114  Sum_probs=46.9

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEE-E-CCEeecc
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFL-Y-VHISAFL   73 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFl-f-dG~rI~~   73 (78)
                      ++|.|+..+|..+.+.|.+++....|...-+++.|+++..-|+. | +|..+.-
T Consensus         3 m~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~QrL~~~~~g~~L~d   56 (159)
T 3rt3_B            3 WDLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQD   56 (159)
T ss_dssp             CEEEEEETTSCEEEEECCTTCCHHHHHHHHHHHHCCCGGGEEEEEETTCCBCCT
T ss_pred             eEEEEEECCCCEEEEEeCCCCcHHHHHHHHHHHhCCCHHHEEEEEcCCCCCCCC
Confidence            56778877899999999999999999999999999999999999 9 6987754

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

Probab=95.84  E-value=0.036  Score=35.58  Aligned_cols=55  Identities=15%  Similarity=0.138  Sum_probs=48.1

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHh------hcCC--CCCeEEEEECCEeecc
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCD------RQSV--ELNSIAFLYVHISAFL   73 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~------r~gl--~~~s~rFlfdG~rI~~   73 (78)
                      ...|+|+|+..+|....|.|.+++....|...-++      +-|.  +++..|++|.|+.+.-
T Consensus        15 ~~~m~I~vktl~G~~~~lev~~s~TV~~lK~~I~~~~p~dwke~ip~~~~~qrLIy~GK~LeD   77 (125)
T 2gow_A           15 ADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHG   77 (125)
T ss_dssp             TTCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHSSCCCSCCCCTTCCGGGEEEESSSSEEES
T ss_pred             CCeEEEEEEeCCCCEEEEEeCCccHHHHHHHHHHHHCCcccccCCCCChHHEEEEECCcCCCC
Confidence            45699999988999999999999999999999998      5566  4899999999998753

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

Probab=95.82  E-value=0.034  Score=32.68  Aligned_cols=51  Identities=16%  Similarity=0.163  Sum_probs=43.1

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      +.+.+. -.|....+.+..++....|....+++.|++++..|++|+|+.+.-
T Consensus        13 ~~~~~~-~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D   63 (85)
T 2kd0_A           13 IKLTVK-FGGKSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVE   63 (85)
T ss_dssp             EEEEEE-ETTEEEEEEECTTSBHHHHHHHHHHHHCCCTTTCEEEETTEECCT
T ss_pred             EEEEEE-ECCEEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCeECCC
Confidence            444333 367788899999999999999999999999999999999998743

>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=95.73  E-value=0.021  Score=33.90  Aligned_cols=51  Identities=16%  Similarity=0.045  Sum_probs=44.3

Q ss_pred             cEEEEEEccCCCEEEE-EEeCCchHHHHHHHHHhhcCCCCCeEEEE---ECCEeec
Q 034926           21 HINLKVKGQDGNEVFF-RIKRSTQLKKLMNAYCDRQSVELNSIAFL---YVHISAF   72 (78)
Q Consensus        21 ~I~lkV~~qdg~~v~F-kIK~~t~l~KLm~aYc~r~gl~~~s~rFl---fdG~rI~   72 (78)
                      .|+|+|+. .|..+.+ .|..++....|...-+++.|++++..|++   |.|..+.
T Consensus         7 ~m~i~Vk~-~g~~~~i~~v~~~~TV~~lK~~I~~~~gip~~~QkLi~~k~~Gk~L~   61 (90)
T 1v5t_A            7 GLPIIVKW-GGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAE   61 (90)
T ss_dssp             SCCEEEEE-TTEEEEECSCCSSSBHHHHHHHHHHHTCCCTTTCEEESCEETTEECC
T ss_pred             eEEEEEEE-CCEEEEEEEeCCCCCHHHHHHHHHHHHCcCHHHeEEEeeccCCcCcC
Confidence            46777775 5777778 88999999999999999999999999999   9998765

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

Probab=95.45  E-value=0.12  Score=31.36  Aligned_cols=52  Identities=8%  Similarity=0.070  Sum_probs=44.8

Q ss_pred             CCcEEEEEEccCCC--EEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEEC--CEe
Q 034926           19 SAHINLKVKGQDGN--EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYV--HIS   70 (78)
Q Consensus        19 ~~~I~lkV~~qdg~--~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfd--G~r   70 (78)
                      ...|+|.|....+.  .+.++|.++.....|...-.++.|++++..|+.|.  |..
T Consensus        13 ~~~v~l~It~s~~~~~~~~~~v~~~~TV~~LK~kI~~~~GiP~~~QrL~~~~~g~~   68 (95)
T 2kjr_A           13 SDFIKVNVSNSHNDAVAFEVKLAKDLTVAQLKTKLEILTGGCAGTMKVQVFKGDTC   68 (95)
T ss_dssp             CCEEEEEEEESSCSCEEEEEEEETTCBHHHHHHHHHHHHCSCTTTEEEEEEETTEE
T ss_pred             CCeEEEEEEECCCCceEEEEEeCccCHHHHHHHHHHHHHCcCHHHeEEEEecCCcc
Confidence            45788888876554  67899999999999999999999999999999996  553

>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=95.36  E-value=0.083  Score=34.14  Aligned_cols=54  Identities=9%  Similarity=0.142  Sum_probs=45.4

Q ss_pred             CcEEEEEEccCCCEE-EEEEeCCchHHHHHHHHH-----hhcCCCC--CeEEEEECCEeecc
Q 034926           20 AHINLKVKGQDGNEV-FFRIKRSTQLKKLMNAYC-----DRQSVEL--NSIAFLYVHISAFL   73 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v-~FkIK~~t~l~KLm~aYc-----~r~gl~~--~s~rFlfdG~rI~~   73 (78)
                      +.+.|+|+..+|..+ .+.+.+++....|...-.     ++-|.++  +..|+.|.|+.+.-
T Consensus        15 ~~~~i~~kt~~G~~i~~l~v~psdTV~~lK~kI~~~~p~dkegiP~~~~qQrLIy~GK~LeD   76 (126)
T 1se9_A           15 NQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLEN   76 (126)
T ss_dssp             CCEEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCT
T ss_pred             ccEEEEEEECCCCEEEeeecCccCHHHHHHHHHHhhcccccccCCCChhhEEEEECCeECcC
Confidence            589999999999998 699999999988888884     4556665  79999999998753

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

Probab=95.29  E-value=0.069  Score=39.03  Aligned_cols=54  Identities=9%  Similarity=0.232  Sum_probs=49.7

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeec
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAF   72 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~   72 (78)
                      ...++|.|+..+|..+.+.|..++....|...-+++.|++++..|++|.|+.|.
T Consensus       231 ~~~MqI~VKtl~Gk~~~leV~~s~TV~dLK~kI~~~~GIp~~~QRLi~~Gk~L~  284 (307)
T 3ai5_A          231 TGSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLE  284 (307)
T ss_dssp             CCCEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECC
T ss_pred             CCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEeCCeecC
Confidence            356889999888999999999999999999999999999999999999999874

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

Probab=95.15  E-value=0.074  Score=32.57  Aligned_cols=54  Identities=11%  Similarity=0.007  Sum_probs=44.6

Q ss_pred             CcEEEEEEccCCC--EEEEEEeCCchHHHHHHHHHhhc-CCC-CCeEEEEECCEeecc
Q 034926           20 AHINLKVKGQDGN--EVFFRIKRSTQLKKLMNAYCDRQ-SVE-LNSIAFLYVHISAFL   73 (78)
Q Consensus        20 ~~I~lkV~~qdg~--~v~FkIK~~t~l~KLm~aYc~r~-gl~-~~s~rFlfdG~rI~~   73 (78)
                      ..|+|+|+..+|.  .+.+.+.+++....|...-+++. |.+ ++..|+.|.|+.+.-
T Consensus        22 ~~m~I~VK~~~g~~~~i~l~v~~~~TV~~LK~~I~~~~~g~pp~~~QrLIy~Gk~L~D   79 (99)
T 2kdb_A           22 HPVTLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYPSKPLTKDQRLVYSGRLLPD   79 (99)
T ss_dssp             -CEEEEEECTTSSSCCEEEEECTTSBHHHHHHHHHHHSTTCCCTTTCCEEETTEEECT
T ss_pred             CeEEEEEEcCCCCEEEEEEEcCCCCHHHHHHHHHHHHhcCCCChhhEEEEECCEECCC
Confidence            4699999988877  67888899999999999998864 555 599999999998753

>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=95.03  E-value=0.11  Score=33.20  Aligned_cols=50  Identities=10%  Similarity=-0.004  Sum_probs=43.5

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeec
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAF   72 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~   72 (78)
                      |.|+|+... ..+.+.|..+.....|...-+++.|++++.-|++|+|+.+.
T Consensus         3 mfl~ir~~k-tti~lev~~sdTV~~lK~kI~~~egIP~~qQrLi~~Gk~Le   52 (118)
T 2fnj_B            3 VFLMIRRHK-TTIFTDAKESSTVFELKRIVEGILKRPPEEQRLYKDDQLLD   52 (118)
T ss_dssp             EEEEEEEBT-EEEEEEEETTSBHHHHHHHHHHHHCCCGGGEEEEETTEECC
T ss_pred             EEEEEecCC-EEEEEEeCCcChHHHHHHHHHHHhCCCHHHeEEEECCeECC
Confidence            667777633 45788999999999999999999999999999999999775

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

Probab=94.40  E-value=0.18  Score=30.72  Aligned_cols=51  Identities=10%  Similarity=0.098  Sum_probs=43.9

Q ss_pred             CCcEEEEEEccCC--CEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCE
Q 034926           19 SAHINLKVKGQDG--NEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHI   69 (78)
Q Consensus        19 ~~~I~lkV~~qdg--~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~   69 (78)
                      ...|+|.|.....  ..+.++|.++.....|...=.++.|++++..|+.|.|.
T Consensus        12 ~~~v~l~It~s~~~~~~~e~~v~~~~TV~~LK~kIe~~~Gip~~~QrLi~~g~   64 (97)
T 2kj6_A           12 DDSVHLHITHANLKSFSADARFSPQMSVEAVKEKLWKKCGTSVNSMALELYDD   64 (97)
T ss_dssp             CCCEEEEEEETTSSCCCEEEEECTTCCHHHHHHHHHHHHCCCTTSEEEEEECS
T ss_pred             CceEEEEEEECCCCceEEEEEeCCCChHHHHHHHHHHHHCcCHHHeEEEEecC
Confidence            4578888886444  36789999999999999999999999999999999874

>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=94.13  E-value=0.059  Score=40.13  Aligned_cols=53  Identities=11%  Similarity=0.172  Sum_probs=46.1

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHh---hcCCCCCeEEEEECCEeec
Q 034926           20 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCD---RQSVELNSIAFLYVHISAF   72 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~---r~gl~~~s~rFlfdG~rI~   72 (78)
                      ..+.|.|+...|..+.+.|..++....|...-++   +.|++.+..|++|.|+.|.
T Consensus         6 ~~M~I~VKtl~Gk~~~leV~~~~TV~~LK~~I~~~~~~~gip~~~QrLiy~GK~L~   61 (368)
T 1oqy_A            6 SAVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILS   61 (368)
T ss_dssp             CCCCEEEEETTTEEEEECCCTTCBHHHHHHHHHHHTCSSSCCSTEEEEESSSSEEC
T ss_pred             ceEEEEEEeCCCCEEEEEeCCCChHHHHHHHHHHHhCcCCCChhheEEEECCeecC
Confidence            3477777777888889999999999999999998   5679999999999999874

>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=94.09  E-value=0.21  Score=31.22  Aligned_cols=49  Identities=8%  Similarity=0.064  Sum_probs=42.7

Q ss_pred             CcEEEEEEccCCC-EEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECC
Q 034926           20 AHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVH   68 (78)
Q Consensus        20 ~~I~lkV~~qdg~-~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG   68 (78)
                      ..|+|.|....+. ...++|.++.....|...-+++.|++++..|+.|.|
T Consensus         5 ~~v~l~V~~~~~~~~~e~~v~~~~TV~~lK~ki~~~~Gip~~~qrL~~~g   54 (122)
T 1t0y_A            5 EVYDLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFD   54 (122)
T ss_dssp             CEEEEEEEESSCCSCEEEEEETTSBHHHHHHHHHHHHCCCTTTEEEEEEC
T ss_pred             CEEEEEEEECCCCccEEEEeCCCCcHHHHHHHHHHHhCCCHHHeEEEEec
Confidence            3688888875553 468899999999999999999999999999999976

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

Probab=94.06  E-value=0.24  Score=30.97  Aligned_cols=51  Identities=6%  Similarity=0.029  Sum_probs=42.9

Q ss_pred             cEEEEEEccCC--CEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEee
Q 034926           21 HINLKVKGQDG--NEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISA   71 (78)
Q Consensus        21 ~I~lkV~~qdg--~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI   71 (78)
                      .+.+.|.|..+  ..+.+.|.+++....|.+...++.|+++..-|+.|.|+-+
T Consensus        24 ~l~v~v~d~~s~~~~i~l~V~ps~TV~~LK~~I~~k~Gipp~~QRli~ggkll   76 (105)
T 4dbg_A           24 RLWVSVEDAQMHTVTIWLTVRPDMTVASLKDMVFLDYGFPPVLQQWVIGQRLA   76 (105)
T ss_dssp             EEEEEEEESSSCCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEEE
T ss_pred             EEEEEEEccCCCCceEEEEECCcChHHHHHHHHHHHhCCCHHHEEEeccCeEc
Confidence            45566666654  5789999999999999999999999999999988877743

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

Probab=94.05  E-value=0.029  Score=32.93  Aligned_cols=48  Identities=15%  Similarity=0.234  Sum_probs=39.7

Q ss_pred             EEEEEccCCCEEEEE-EeCCchHHHHHHHHHhhcCCCCCeEEEEECC--Eee
Q 034926           23 NLKVKGQDGNEVFFR-IKRSTQLKKLMNAYCDRQSVELNSIAFLYVH--ISA   71 (78)
Q Consensus        23 ~lkV~~qdg~~v~Fk-IK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG--~rI   71 (78)
                      .|+|+..+|..+ +. +..++.+..|....+++.|++++..|++|.+  +.+
T Consensus         2 ~i~vr~~~G~~~-v~~l~~~~Tv~~Lk~~I~~~~gi~~~~qrL~~~~p~k~l   52 (86)
T 2kzr_A            2 RVRCKAKGGTHL-LQGLSSRTRLRELQGQIAAITGIAPGSQRILVGYPPECL   52 (86)
T ss_dssp             CEEEEETTEEEE-ECSCCTTCBHHHHHHHHHHHTCCCTTTCCCEESSCCCCC
T ss_pred             EEEEEcCCCCEE-eeecCCCCCHHHHHHHHHHHhCCCccceEEEeCCCCccc
Confidence            578888888664 67 8899999999999999999998888888753  444

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

Probab=93.93  E-value=0.059  Score=33.04  Aligned_cols=49  Identities=14%  Similarity=0.198  Sum_probs=44.2

Q ss_pred             CcEEEEEEccCCCEEEEEEe-CCchHHHHHHHHHhhcCCCCCeEEEEECCE
Q 034926           20 AHINLKVKGQDGNEVFFRIK-RSTQLKKLMNAYCDRQSVELNSIAFLYVHI   69 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK-~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~   69 (78)
                      ..+.|+|+..+|.. .+.|. ++..+..|...-+++.|+++...|+.|+|.
T Consensus         6 ~~M~irvrs~~G~~-~v~v~~~~~Tv~~LK~kI~~~~gip~~~QrL~~~~~   55 (107)
T 1wf9_A            6 SGTMLRVRSRDGLE-RVSVDGPHITVSQLKTLIQDQLQIPIHNQTLSTNRN   55 (107)
T ss_dssp             CCEEEEEECSSCEE-EEEECCTTSBHHHHHHHHHHHSCCCTTTCCCBSSGG
T ss_pred             CeEEEEEECCCCCE-EEEECCCCCcHHHHHHHHHHHhCcCcccCEEEECCc
Confidence            34889999999976 78899 999999999999999999999999988887

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

Probab=93.02  E-value=0.018  Score=39.69  Aligned_cols=51  Identities=14%  Similarity=0.248  Sum_probs=0.0

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           23 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        23 ~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      .|.|...+|..+.+.|.+++....|...-+++.|++++..|++|+|+.|.-
T Consensus         2 qI~VKtL~GktitLeV~~sdTV~~LK~kI~~keGIP~~qQRLIf~GK~LeD   52 (189)
T 2xzm_9            2 QVQVKTLEGETKIYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAPN   52 (189)
T ss_dssp             ---------------------------------------------------
T ss_pred             EEEEEcCCCCEEEEEECCcChHHHHHHHHHHHhCcChhHEEEEecCeECCC
Confidence            455666678888899999999999999999999999999999999988754

>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=92.90  E-value=0.18  Score=30.01  Aligned_cols=48  Identities=6%  Similarity=-0.064  Sum_probs=41.8

Q ss_pred             cEEEEEEccCCC-EEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECC
Q 034926           21 HINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVH   68 (78)
Q Consensus        21 ~I~lkV~~qdg~-~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG   68 (78)
                      .|+|.|...... ...+++.++.....|...-+++.|++++..|+.|.|
T Consensus         7 ~v~l~I~~~~~~~~~~~~v~~~~TV~~lK~ki~~~~gip~~~qrL~~~~   55 (95)
T 1v6e_A            7 GVMVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGSPASCMELELYG   55 (95)
T ss_dssp             CEEEEEEETTSSSCEEEEECTTSBHHHHHHHHHHHTCSCTTTCBCEEEC
T ss_pred             EEEEEEEECCCCeeEEEEcCccCHHHHHHHHHHHHHCCCHHHeEEEEeC
Confidence            488888875443 468899999999999999999999999999999976

>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=92.78  E-value=0.54  Score=30.06  Aligned_cols=51  Identities=10%  Similarity=-0.037  Sum_probs=43.2

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      +=|+|+. ....+.+.++++.....|...-.++.|++++.-|++|+|+.+.-
T Consensus         3 vFl~Ikr-~ktTI~ldve~sdTV~~lK~kI~~~~giPp~qQrLI~~Gk~LeD   53 (118)
T 4ajy_B            3 VFLMIRR-HKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDD   53 (118)
T ss_dssp             EEEEEEE-BTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCT
T ss_pred             eEEEEec-CCEEEEEEcCCCChHHHHHHHHHHHHCCCHHHeEEEeCCeECCC
Confidence            3455554 44578889999999999999999999999999999999988753

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

Probab=92.59  E-value=0.38  Score=29.62  Aligned_cols=52  Identities=8%  Similarity=0.005  Sum_probs=43.1

Q ss_pred             EEEEEcc-CCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           23 NLKVKGQ-DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        23 ~lkV~~q-dg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      -|.|-+- .+..+.+-|.++..+..+.++-+++.|+++..-+++|.|+.+.+.
T Consensus        14 vvHVf~~~~a~~h~v~I~~~etv~~~ke~V~eqTgIp~~~Q~LL~eg~~l~l~   66 (94)
T 4efo_A           14 VIHVFSLQQMTAHKIYIHSYNTATIFHELVYKQTKIISSNQELIYEGRRLVLE   66 (94)
T ss_dssp             EEEEEETTTTEEEEEEEETTCBHHHHHHHHHHHHCCCGGGEEEEETTEEECCC
T ss_pred             eEEEEEcccceEEEEEeccchHHHHHHHHHHHHhCCCHHHHHHHhCCCccccC
Confidence            3444443 456668999999999999999999999999999999999887643

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

Probab=92.48  E-value=0.13  Score=33.18  Aligned_cols=33  Identities=9%  Similarity=0.289  Sum_probs=31.4

Q ss_pred             EEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEE
Q 034926           34 VFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY   66 (78)
Q Consensus        34 v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlf   66 (78)
                      ..|||.+++++..|....++..|++.+.+||+.
T Consensus        58 ~~~rv~k~~~~~~~~~~va~~lg~~~~~~RlW~   90 (130)
T 2kvr_A           58 TVFKVLKNSSLAEFVQSLSQTMGFPQDQIRLWP   90 (130)
T ss_dssp             EEEECCTTSBHHHHHHHHHHHHCCCGGGCEEEE
T ss_pred             ceEEEeccCcHHHHHHHHHHHhCCCcccEEEEE
Confidence            479999999999999999999999999999986

>2cr5_A Reproduction 8; UBX domain, D0H8S2298E protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.15.1.2

Probab=92.25  E-value=1  Score=27.68  Aligned_cols=46  Identities=9%  Similarity=0.116  Sum_probs=35.5

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEE
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFL   65 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFl   65 (78)
                      ...++|.|+-.||..+.-+...+.+++.|++ |++..+.....+++.
T Consensus        21 ~~~~~IqiRlpdG~r~~rrF~~~~tl~~v~~-fv~~~~~~~~~f~L~   66 (109)
T 2cr5_A           21 EEVVTVALRCPNGRVLRRRFFKSWNSQVLLD-WMMKVGYHKSLYRLS   66 (109)
T ss_dssp             SSEEEEEEECTTSCEEEEEEESSSBTHHHHH-HHHHHTCCTTTEEEE
T ss_pred             CCcEEEEEECCCCCEEEEEeCCCCCHHHHHH-HHHhcCCCCCCeEEE
Confidence            3578999999999999888999999998887 554555555556654

>2daj_A KIAA0977 protein, COBL-like 1; ubiquitin-like domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=92.18  E-value=0.58  Score=28.89  Aligned_cols=54  Identities=9%  Similarity=0.165  Sum_probs=43.3

Q ss_pred             CCCCCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECC
Q 034926           15 PNDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVH   68 (78)
Q Consensus        15 p~~~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG   68 (78)
                      |..+..++.|-|--.-...-..+|.+..+|+.|+-+-|++..+++..+.|+=|-
T Consensus         4 ~~~PE~TvRLvVNy~~tQKtVvRVSP~vpL~ellp~IC~Kcefdp~~~~Ll~d~   57 (91)
T 2daj_A            4 GSSGEKTVRVVINFKKTQKTIVRVSPHASLQELAPIICSKCEFDPLHTLLLKDY   57 (91)
T ss_dssp             CSCCCSCEEEEEEETTTEEEEEEECSSSCTTTHHHHHHHHTTCCTTSEEEESCS
T ss_pred             CCCCccEEEEEEeecCcceeEEEeCCCCcHHHHHHHHhhcccCChhhEEEecCC
Confidence            333345677777655555568899999999999999999999999999988653

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

Probab=90.61  E-value=0.25  Score=29.29  Aligned_cols=52  Identities=10%  Similarity=0.166  Sum_probs=43.4

Q ss_pred             CcEEEEEEccCCCEE--EE-EEeCCchHHHHHHHHHh-hcCCCCCeEEEEEC--CEee
Q 034926           20 AHINLKVKGQDGNEV--FF-RIKRSTQLKKLMNAYCD-RQSVELNSIAFLYV--HISA   71 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v--~F-kIK~~t~l~KLm~aYc~-r~gl~~~s~rFlfd--G~rI   71 (78)
                      ..+.|.|....|.+.  .+ .|.+++....|.+..++ +.|++++..|+.|.  |..+
T Consensus         9 ~~M~I~Vk~~~g~~~~~~l~~v~~~~TV~~lK~~I~~~~~~i~~~~QrL~~~~~Gk~L   66 (88)
T 2dzj_A            9 KHYEVEILDAKTREKLCFLDKVEPHATIAEIKNLFTKTHPQWYPARQSLRLDPKGKSL   66 (88)
T ss_dssp             CCEEEEEEESSSCCCCEEEEEECSSCBHHHHHHHHHHHCSSSCTTTCCEESSTTSCCC
T ss_pred             EEEEEEEECCCCCEEeeEEeEcCCCCcHHHHHHHHHHHhcCCChHHeEEEecCCCcCc
Confidence            358889988877664  46 89999999999999999 47899999999876  7766

>1oey_A P67-PHOX, neutrophil cytosol factor 2; immune system, PB1 heterodimer/complex, NADPH oxidase, PB1 D heterodimerization; 2.0A {Homo sapiens} SCOP: d.15.2.2

Probab=90.41  E-value=0.95  Score=27.27  Aligned_cols=44  Identities=14%  Similarity=0.233  Sum_probs=40.2

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEE
Q 034926           21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY   66 (78)
Q Consensus        21 ~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlf   66 (78)
                      .++|||.-+  ..|-.+|.++.++.-|.+.-|+|.+++.+.+.+.|
T Consensus         5 ~~~VKV~~~--~tvairvp~~~~y~~L~~~l~~kL~l~~~~~~LsY   48 (83)
T 1oey_A            5 AYTLKVHYK--YTVVMKTQPGLPYSQVRDMVSKKLELRLEHTKLSY   48 (83)
T ss_dssp             CEEEEEESS--SEEEEEECTTCCHHHHHHHHHHHTTCCGGGCCEEE
T ss_pred             cEEEEEEEE--EEEEEECCCCCCHHHHHHHHHHHhCCCcceeEEEe
Confidence            489999987  58899999999999999999999999888888887

>1vd2_A Protein kinase C, IOTA type; PB1 domain, OPCA motif, APKC, ZIP/P62, MEK5, molecular recognition, transferase; NMR {Homo sapiens} SCOP: d.15.2.2 PDB: 1wmh_A

Probab=90.33  E-value=1.9  Score=26.10  Aligned_cols=56  Identities=13%  Similarity=0.126  Sum_probs=45.7

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCe-EEEEE---CCEeeccee
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNS-IAFLY---VHISAFLAW   75 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s-~rFlf---dG~rI~~~~   75 (78)
                      ++.|+||+.- .|.-+.|++..+..+..|.+.-+++.++..+. +...|   +|..+..|+
T Consensus         4 ~~~vkvK~~~-~gdi~~~~v~~~i~~~~L~~kv~~~~~~~~~~~f~lky~DEeGD~itisS   63 (89)
T 1vd2_A            4 GSQVRVKAYY-RGDIMITHFEPSISFEGLCNEVRDMCSFDNEQLFTMKWIDEEGDPCTVSS   63 (89)
T ss_dssp             SSCEEEEEES-SSCEEEEEECTTCCHHHHHHHHHHHTTCCSSCCEEEEECCSSSCCEECCS
T ss_pred             CCeEEEEEEe-CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCeEEEEEECCCCCcccccC
Confidence            4568999986 46788999999999999999999999987544 77777   477777665

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

Probab=90.03  E-value=1.1  Score=26.54  Aligned_cols=50  Identities=14%  Similarity=0.185  Sum_probs=42.9

Q ss_pred             CCcEEEEEEc---cCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECC
Q 034926           19 SAHINLKVKG---QDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVH   68 (78)
Q Consensus        19 ~~~I~lkV~~---qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG   68 (78)
                      ...|+|.|..   .+|..+..++-.++...+|...=+...|++....|+.|.+
T Consensus         7 ~~~v~l~I~~~~~~~~~~~e~~l~~~~TV~~LK~~i~~~~gip~~~q~L~~~~   59 (97)
T 1wjn_A            7 GQLLTLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYES   59 (97)
T ss_dssp             SCEEEEEEEESSCSSSCCEEEEEETTSBHHHHHHHHHTTTTCCTTTCEEEEEC
T ss_pred             CccEEEEEEecCCCCCcEEEEECCCCCCHHHHHHHHHHHHCCChhHeEEEEEc
Confidence            3468888864   3677888999999999999999999999999999998863

>2ylm_A Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70A {Homo sapiens}

Probab=85.84  E-value=1  Score=34.65  Aligned_cols=33  Identities=9%  Similarity=0.289  Sum_probs=31.2

Q ss_pred             EEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEE
Q 034926           34 VFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY   66 (78)
Q Consensus        34 v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlf   66 (78)
                      ..|||.+++++..|.+.-++..|++.+.+||+.
T Consensus        38 ~~~rv~k~~~~~~l~~~va~~lg~~~~~~RlW~   70 (530)
T 2ylm_A           38 TVFKVLKNSSLAEFVQSLSQTMGFPQDQIRLWP   70 (530)
T ss_dssp             EEEEEETTSBHHHHHHHHHHHHTSCGGGEEEEE
T ss_pred             ceEEEcCcCCHHHHHHHHHHHhCcCcccEEEEE
Confidence            479999999999999999999999999999985

>3qij_A Protein 4.1; cytoskeleton, structural genomics, structural genomics conso SGC; 1.80A {Homo sapiens} PDB: 1gg3_A 3bin_A 2he7_A 2rq1_A

Probab=85.45  E-value=1.4  Score=31.01  Aligned_cols=48  Identities=10%  Similarity=0.093  Sum_probs=39.4

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCC-CeEEEEE
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL-NSIAFLY   66 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~-~s~rFlf   66 (78)
                      ...|.++|.-.||....|.|..+|.-+.|++.-|++.|+.. ..+-+.|
T Consensus        15 ~~~~~~~V~lldgt~~~~~vd~~tt~~el~~~v~~~l~L~e~~~FgL~~   63 (296)
T 3qij_A           15 YFQGHCKVSLLDDTVYECVVEKHAKGQDLLKRVCEHLNLLEEDYFGLAI   63 (296)
T ss_dssp             --CCEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHTCSSGGGEEEEE
T ss_pred             CceEEEEEEccCCCEEEEEECCCCCHHHHHHHHHHHcCCCCcceeEEEE
Confidence            45799999999999999999999999999999999999753 3344433

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

Probab=85.45  E-value=1  Score=32.67  Aligned_cols=52  Identities=17%  Similarity=0.184  Sum_probs=46.2

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEE---ECCEeec
Q 034926           20 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFL---YVHISAF   72 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFl---fdG~rI~   72 (78)
                      +.|+|+|+. .|....+.|..++....|...-++..|+++..-|++   |.|..+.
T Consensus         4 ~~i~i~Vk~-~g~~~~v~v~~~~Tv~~lK~~I~~~tgVpp~~QkLi~~k~~Gk~l~   58 (320)
T 3shq_A            4 KEVVVIVKW-SGKEYPVDLTDQDTVEVLRHEIFRKTQVRPERQKLLNLKYKGKTAA   58 (320)
T ss_dssp             CEEEEEEEE-TTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGCEETTCBSSSSBCC
T ss_pred             ceEEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEeecccCCcccC
Confidence            468889986 678888999999999999999999999999999999   8887654

>3ivf_A Talin-1; FERM domain, cell membrane, cell projection, cytoskeleton, M phosphoprotein, cell adhesion, structural protein; 1.94A {Mus musculus} PDB: 2kma_A 2kc1_A

Probab=83.88  E-value=2.8  Score=30.06  Aligned_cols=47  Identities=15%  Similarity=0.301  Sum_probs=40.6

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCC-CCeEEEEE
Q 034926           20 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVE-LNSIAFLY   66 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~-~~s~rFlf   66 (78)
                      .++.++|.-.||....|.|..+|.-+.|++.-|++.|+. ...+.+.+
T Consensus        84 ~~~~~~V~l~dg~~~~~~vd~~tt~~el~~~v~~~l~L~e~~~FgL~~  131 (371)
T 3ivf_A           84 KQRPLKIRMLDGTVKTIMVDDSKTVTDMLMTICARIGITNHDEYSLVR  131 (371)
T ss_dssp             CEEEEEEECTTSCEEEEEEETTSBHHHHHHHHHHHTTCSCGGGEEEEC
T ss_pred             ceeEEEEECcCCCEEEEEECCCCCHHHHHHHHHHHcCCCCccccEEEE
Confidence            479999999999999999999999999999999999975 44455554

>1h4r_A Merlin; FERM, neurofibromatosis, NF2, structural protein, cytoskeleton, anti-oncogene; 1.8A {Homo sapiens} SCOP: a.11.2.1 b.55.1.5 d.15.1.4 PDB: 1isn_A 3u8z_A

Probab=82.57  E-value=3.2  Score=28.95  Aligned_cols=51  Identities=14%  Similarity=0.206  Sum_probs=40.4

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCC-CCeEEEEE--CCEe
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVE-LNSIAFLY--VHIS   70 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~-~~s~rFlf--dG~r   70 (78)
                      ...+.++|.-.|| ++.|.|..+|.-+.|++.-|++.|+. ...+-+.|  +|..
T Consensus        20 ~~~~~~~V~lldg-~~~~~v~~~t~~~el~~~v~~~l~L~e~~~FgL~~~~~~~~   73 (314)
T 1h4r_A           20 PKTFTVRIVTMDA-EMEFNCEMKWKGKDLFDLVCRTLGLRETWFFGLQYTIKDTV   73 (314)
T ss_dssp             -CEEEEEEECSSC-EEEEEEETTCBHHHHHHHHHHHHTCCCGGGEEEEEEETTEE
T ss_pred             CCeeEEEEEeCCc-eEEEEeCCCCcHHHHHHHHHHHhCCCCCccceEEEEeCCcC
Confidence            5679999999999 78999999999999999999999975 33344433  5543

>3qx1_A FAS-associated factor 1; UBX, protein binding, P97 binding; 1.60A {Homo sapiens} PDB: 3qwz_B* 3qc8_B 3qca_A 3qq8_B 3r3m_B 1h8c_A

Probab=82.23  E-value=5.3  Score=22.96  Aligned_cols=44  Identities=14%  Similarity=0.274  Sum_probs=35.4

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEE
Q 034926           21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFL   65 (78)
Q Consensus        21 ~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFl   65 (78)
                      ..+|.|+-.||..+.-+...+.+++.|++ |.+..+.+...+++.
T Consensus         7 ~~~i~iRlpdG~r~~~~F~~~~tl~~v~~-fv~~~~~~~~~f~L~   50 (84)
T 3qx1_A            7 VSKLRIRTPSGEFLERRFLASNKLQIVFD-FVASKGFPWDEYKLL   50 (84)
T ss_dssp             EEEEEEECTTSCEEEEEEETTSBHHHHHH-HHHHTTCCTTTEEEE
T ss_pred             eEEEEEECCCCCEEEEEeCCCCCHHHHHH-HHHHcCCCCCCeEEE
Confidence            57788888999999889999999998887 444466677777776

>1ef1_A Moesin; membrane, FERM domain, tail domain, membrane protein; 1.90A {Homo sapiens} SCOP: a.11.2.1 b.55.1.5 d.15.1.4 PDB: 1sgh_A 1j19_A 2emt_A 2ems_A 2d10_A 2d11_A 2yvc_A 2d2q_A 2zpy_A 1gc7_A 1gc6_A 1ni2_A

Probab=82.16  E-value=2.5  Score=29.16  Aligned_cols=45  Identities=22%  Similarity=0.297  Sum_probs=37.0

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCC-CeEEEEE
Q 034926           21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL-NSIAFLY   66 (78)
Q Consensus        21 ~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~-~s~rFlf   66 (78)
                      .|+++|.-.|| ++.|.|..+|.-+.|++.-|++.|+.. ..+-+.|
T Consensus         1 ~i~~~V~l~d~-~~~~~v~~~tt~~el~~~v~~~l~L~e~~~FgL~~   46 (294)
T 1ef1_A            1 TISVRVTTMDA-ELEFAIQPNTTGKQLFDQVVKTIGLREVWFFGLQY   46 (294)
T ss_dssp             CEEEEEEETTE-EEEEEECTTCBHHHHHHHHHHHHTCCCGGGEEEEE
T ss_pred             CEEEEEEECCc-eEEEEECCCCcHHHHHHHHHHHcCCCCcceeEEEE
Confidence            37888888888 688999999999999999999999753 3345444

>2dzk_A UBX domain-containing protein 2; ubiquitin-like fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} PDB: 2kxj_A

Probab=81.30  E-value=7.1  Score=23.81  Aligned_cols=46  Identities=7%  Similarity=0.089  Sum_probs=35.6

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEE
Q 034926           20 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFL   65 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFl   65 (78)
                      ...+|.|+-.||..+.-+...+.+++.|++.-....+.+...+.|.
T Consensus        12 ~~t~IqIRlpdG~rl~~rF~~~~tl~~v~~fV~~~~~~~~~~f~L~   57 (109)
T 2dzk_A           12 TIARIQFRLPDGSSFTNQFPSDAPLEEARQFAAQTVGNTYGNFSLA   57 (109)
T ss_dssp             CCEEEEEECSSSCEEEEEECTTSBHHHHHHHHHHHHTTSSCSCEEE
T ss_pred             CcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHhccCCCCCceEEE
Confidence            4688888889999999999999999999987655555554555554

---

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	78
d1wm3a_	72	d.15.1.1 (A:) SUMO-2 {Human (Homo sapiens) [TaxId:	2e-19
d2uyzb1	77	d.15.1.1 (B:20-96) SUMO-1 (smt3 homologue) {Human	9e-17
d1euvb_	79	d.15.1.1 (B:) SUMO-1 (smt3 homologue) {Baker's yea	5e-14

>d1wm3a_ d.15.1.1 (A:) SUMO-2 {Human (Homo sapiens) [TaxId: 9606]} Length = 72

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: SUMO-2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 72.5 bits (178), Expect = 2e-19
 Identities = 27/46 (58%), Positives = 33/46 (71%)

Query: 21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          HINLKV GQDG+ V F+IKR T L KLM AYC+RQ + +  I F +
Sbjct: 1  HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRF 46

>d2uyzb1 d.15.1.1 (B:20-96) SUMO-1 (smt3 homologue) {Human (Homo sapiens) [TaxId: 9606]} Length = 77

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: SUMO-1 (smt3 homologue)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 65.5 bits (160), Expect = 9e-17
 Identities = 24/46 (52%), Positives = 34/46 (73%)

Query: 21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
          +I LKV GQD +E+ F++K +T LKKL  +YC RQ V +NS+ FL+
Sbjct: 2  YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLF 47

>d1euvb_ d.15.1.1 (B:) SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomyces cerevisiae), smt3 [TaxId: 4932]} Length = 79

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: SUMO-1 (smt3 homologue)
species: Baker's yeast (Saccharomyces cerevisiae), smt3 [TaxId: 4932]

 Score = 58.7 bits (142), Expect = 5e-14
 Identities = 23/48 (47%), Positives = 34/48 (70%), Gaps = 1/48 (2%)

Query: 19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY 66
            HINLKV     +E+FF+IK++T L++LM A+  RQ  E++S+ FLY
Sbjct: 2  ETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLY 48

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	78
d1wm3a_	72	SUMO-2 {Human (Homo sapiens) [TaxId: 9606]}	99.84
d2uyzb1	77	SUMO-1 (smt3 homologue) {Human (Homo sapiens) [Tax	99.79
d1euvb_	79	SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomy	99.73
d1ttna1	80	Dendritic cell-derived ubiquitin-like protein {Hum	98.01
d1z2ma2	76	Interferon-induced 15 kDa protein {Human (Homo sap	97.95
d1j8ca_	103	Ubiquitin-like N-terminal domain of PLIC-2 {Human	97.94
d1uh6a_	100	Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculu	97.94
d1m94a_	73	Ubiquitin-like modifier protein hub1 {Baker's yeas	97.77
d1ogwa_	76	Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}	97.75
d1wh3a_	87	2'-5'-oligoadenylate synthetase-like protein, OASL	97.71
d1wgha_	116	Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculu	97.68
d1bt0a_	73	Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxI	97.64
d1wx8a1	83	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	97.62
d1wx9a1	73	Large proline-rich protein BAT3 {Human (Homo sapie	97.6
d1oqya4	77	Ubiquitin-like domain of Rad23 homolog A (Hhr23a)	97.58
d2al3a1	76	Tether containing UBX domain for GLUT4 (Tug) {Mous	97.49
d1yqba1	84	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	97.42
d2zeqa1	78	Ubiquitin-like domain of parkin {Mouse (Mus muscul	97.39
d2bwfa1	73	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	97.33
d2faza1	76	Ubiquitin-like PHD and RING finger domain-containi	97.22
d1zkha1	86	Splicing factor 3 subunit 1, C-terminal domain {Hu	97.07
d1wgga_	96	Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (M	97.06
d1se9a_	101	Hypothetical protein At3g01050 {Thale cress (Arabi	96.93
d1wy8a1	76	Ubiquitin-like PHD and RING finger domain-containi	96.81
d1uela_	95	Ubiquitin-like domain of Rad23 homolog B (Hhr23B)	96.78
d1v5oa_	102	1700011n24rik protein {Mouse (Mus musculus) [TaxId	96.64
d1z2ma1	76	Interferon-induced 15 kDa protein {Human (Homo sap	96.58
d1wjua_	100	NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens	96.57
d2c9wb1	103	Elongin B {Human (Homo sapiens) [TaxId: 9606]}	96.3
d1v86a_	95	hypothetical D7wsu128e protein {Mouse (Mus musculu	95.98
d1wgda_	93	Homocysteine-responsive endoplasmic reticulum-resi	95.83
d1we6a_	111	Splicing factor 3 subunit 1, C-terminal domain {Th	95.78
d2cr5a1	96	UBX domain-containing protein 6 (Reproduction 8) {	95.67
d1wxva1	81	Bag-family molecular chaperone regulator-1 {Human	95.29
d1wiaa_	95	Ubiquitin-like protein bab25500 (2010008E23Rik) {M	95.16
d1v2ya_	105	Ubiquitin-like protein 3300001g02rik {Mouse (Mus m	95.01
d1wjna_	97	Tubulin-folding protein TbcE {Mouse (Mus musculus)	94.67
d2npta1	105	Mitogen activated protein kinase kinase 5, Map2k5	93.18
d1ef1a3	84	Moesin {Human (Homo sapiens) [TaxId: 9606]}	93.12
d1v5ta_	90	8430435i17rik protein {Mouse (Mus musculus) [TaxId	93.0
d1wxma1	73	A-Raf proto-oncogene serine/threonine-protein kina	91.5
d1ip9a_	85	Bud emergence mediator Bemp1 {Baker's yeast (Sacch	90.81
d1h4ra3	84	Merlin {Human (Homo sapiens) [TaxId: 9606]}	90.63
d1c1yb_	77	c-Raf1 RBD {Human (Homo sapiens) [TaxId: 9606]}	90.29
d1gg3a3	81	Erythroid membrane protein 4.1R {Human (Homo sapie	86.83
d1wgra_	100	Growth factor receptor-bound protein 7, GRB-7 {Hum	85.92
d1wgya_	104	Rap guanine nucleotide exchange factor 5, RapGEF5	84.42
d1h8ca_	82	Fas-associated factor 1, Faf1 {Human (Homo sapiens	82.79

>d1wm3a_ d.15.1.1 (A:) SUMO-2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: SUMO-2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=2.7e-21  Score=114.42  Aligned_cols=55  Identities=49%  Similarity=0.716  Sum_probs=53.0

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeeccee
Q 034926           21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAW   75 (78)
Q Consensus        21 ~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~   75 (78)
                      ||+|+|++++|++++|+||++++|++||++||++.|++++.++|+|||.+|.+..
T Consensus         1 ~I~lkv~~~~g~~v~f~vk~~t~l~kl~~~y~~~~~~~~~~~~f~fdG~~i~~~~   55 (72)
T d1wm3a_           1 HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETD   55 (72)
T ss_dssp             CEEEEEECTTSCEEEEEECTTSCTHHHHHHHHHHHTCCTTTCEEEETTEECCTTC
T ss_pred             CEEEEEECCCCCEEEEEEcCCChHHHHHHHHHHHhCCCccceEEEECCEEcCCCC
Confidence            7999999999999999999999999999999999999999999999999998754

>d2uyzb1 d.15.1.1 (B:20-96) SUMO-1 (smt3 homologue) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: SUMO-1 (smt3 homologue)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=9.9e-20  Score=108.26  Aligned_cols=56  Identities=43%  Similarity=0.666  Sum_probs=53.6

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeeccee
Q 034926           20 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAW   75 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~   75 (78)
                      ++|+|+|++++|.+++|+|+++++|++||++||++.|++++.+||+|||.+|.+.+
T Consensus         1 e~I~ikv~~~dg~~v~f~v~~~t~l~kl~~~y~~~~~~~~~~~~f~fdG~~l~~~~   56 (77)
T d2uyzb1           1 EYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNH   56 (77)
T ss_dssp             CEEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTC
T ss_pred             CEEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCChhHEEEEECCEECCCCC
Confidence            47999999999999999999999999999999999999999999999999998754

>d1euvb_ d.15.1.1 (B:) SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomyces cerevisiae), smt3 [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: SUMO-1 (smt3 homologue)
species: Baker's yeast (Saccharomyces cerevisiae), smt3 [TaxId: 4932]

Probab=99.73  E-value=4.7e-18  Score=101.17  Aligned_cols=56  Identities=43%  Similarity=0.719  Sum_probs=52.7

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeeccee
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAW   75 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~   75 (78)
                      .++|+|||.+ +|.+++|+|+++++|++||++||++.|++.+.+||+|||.+|...+
T Consensus         2 ~~~I~ikv~~-~~~~~~f~v~~~~~~~~l~~~~~~~~~i~~~~~~l~f~G~~l~~~~   57 (79)
T d1euvb_           2 ETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQ   57 (79)
T ss_dssp             CSEEEEEEES-SSCEEEEEEETTSCTHHHHHHHHHHTTCCGGGEEEEETTEECCTTC
T ss_pred             CcEEEEEECC-CCeEEEEEECCCCcHHHHHHHHHHHhCCChHhEEEEECCEEeCCCC
Confidence            5799999986 7899999999999999999999999999999999999999998754

>d1ttna1 d.15.1.1 (A:21-100) Dendritic cell-derived ubiquitin-like protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Dendritic cell-derived ubiquitin-like protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.01  E-value=1.3e-05  Score=46.16  Aligned_cols=55  Identities=9%  Similarity=0.147  Sum_probs=51.1

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           20 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      ..|.|+|+..+|..+.+.|.+++....|...-+++.|++++..|++|+|+.+...
T Consensus         2 ~e~qi~Vk~~~G~~~~l~V~~~~tV~~lK~~I~~~~~ip~~~qrLi~~Gk~L~d~   56 (80)
T d1ttna1           2 YECQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDK   56 (80)
T ss_dssp             CSEEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTCCCSTTCEEEETTEECCTT
T ss_pred             CeEEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCcccEEEEECceEcCCC
Confidence            4688999999999999999999999999999999999999999999999988643

>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=97.95  E-value=3.1e-05  Score=43.92  Aligned_cols=55  Identities=7%  Similarity=0.121  Sum_probs=51.1

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           20 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      +.|.|.|+..+|..+.+.|.++.....|....+++.|++++..|++|.|+.+.-.
T Consensus         2 ~~~qi~Vk~~~G~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~qrL~~~gk~L~d~   56 (76)
T d1z2ma2           2 EPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQ   56 (76)
T ss_dssp             CCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTT
T ss_pred             CCEEEEEEcCCCCEEEEEECCCCcHHHHHHHHHHHhcCChhHeEEEECCeECCCC
Confidence            3589999999999999999999999999999999999999999999999988643

>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=97.94  E-value=0.0001  Score=44.14  Aligned_cols=54  Identities=11%  Similarity=0.178  Sum_probs=48.4

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      ...|+|+|+..++ ...|.|..++....|...-+++.|++.+..|++|.|+.|.-
T Consensus        30 ~~~i~V~Vk~~~~-~~~i~V~~~~tV~~LK~~I~~~~gi~~~~qrLi~~Gk~L~D   83 (103)
T d1j8ca_          30 PKIIKVTVKTPKE-KEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKD   83 (103)
T ss_dssp             CCCEEEEEECSSC-EEEEEECTTCCHHHHHHHHHHHHCSCSSSEEEEETTEEEST
T ss_pred             CCeEEEEEECCCc-cEEEEECCCChHHHHHHHHHHHHCcCHHHeeeeeeeecccC
Confidence            3479999998665 46899999999999999999999999999999999998864

>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=97.94  E-value=3.4e-05  Score=46.77  Aligned_cols=56  Identities=11%  Similarity=0.060  Sum_probs=51.9

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           18 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        18 ~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      ....|+|.|.+..|..+.++|.+++....|.+.-+++.|++++..|++|.|+.+.-
T Consensus        25 ~~~~i~V~V~~~~Gk~~~v~V~p~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D   80 (100)
T d1uh6a_          25 AATMIEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKD   80 (100)
T ss_dssp             CCCEEEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCS
T ss_pred             CCceEEEEEECCCCCEEEEEECCcChHHHHHHHHHHHHCCCcceEEEEEEeecccC
Confidence            34679999999999999999999999999999999999999999999999987753

>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=97.77  E-value=4.3e-05  Score=43.35  Aligned_cols=52  Identities=12%  Similarity=0.025  Sum_probs=48.8

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      |.|.|.+..|..+.+.|.++.....|...-+++.|++++..|++|+|+.+.-
T Consensus         2 i~i~vk~~~Gk~~~v~V~~~~tV~~lK~~I~~~~~i~~~~q~Li~~Gk~L~d   53 (73)
T d1m94a_           2 IEVVVNDRLGKKVRVKCLAEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKD   53 (73)
T ss_dssp             EEEEEEETTTEEEEEEECTTSBHHHHHHHHHHHHCCTTTSEEEESSSCEECT
T ss_pred             eEEEEECCCCCEEEEEECCcCcHHHHHHHHHHhhcccccEEEEEEEeEEecc
Confidence            6788899899999999999999999999999999999999999999998754

>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=97.75  E-value=6.1e-05  Score=42.71  Aligned_cols=54  Identities=9%  Similarity=0.190  Sum_probs=48.9

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeeccee
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAW   75 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~   75 (78)
                      +.|.|+..+|....+.|.+++....|....+.+.|++++..|++|.|+.+.-++
T Consensus         1 MqI~Vk~l~G~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~qrL~~~Gk~L~d~~   54 (76)
T d1ogwa_           1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR   54 (76)
T ss_dssp             CEEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTS
T ss_pred             CEEEEEcCCCCEEEEEECCCCcHHHHHHhhhhhcCCChHHEEeEECCeEcCCCC
Confidence            357788889999999999999999999999999999999999999999886543

>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=97.71  E-value=0.00011  Score=42.66  Aligned_cols=56  Identities=18%  Similarity=0.134  Sum_probs=51.6

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      ...+.|.|+..+|..+.+.|.+++....|....+++.|++++..|++|.|+.+.-.
T Consensus         5 s~~mqI~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~   60 (87)
T d1wh3a_           5 SSGIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDW   60 (87)
T ss_dssp             SSSEEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTCCCTTTEEEEETTEECCSS
T ss_pred             CCcEEEEEECCCCCEEEEEECCcCcHHHHHHHHHHHHCcChHHeEEEeeceEcCCC
Confidence            45788999999999999999999999999999999999999999999999988644

>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=97.68  E-value=0.00011  Score=45.48  Aligned_cols=56  Identities=14%  Similarity=0.109  Sum_probs=50.8

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHH--------HhhcCCCCCeEEEEECCEeecce
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAY--------CDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aY--------c~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      ...|+|+|+-.+|....|.|.+++....|.+..        +++.|.+++..|++|.|+-|.-.
T Consensus        14 ~~~i~i~v~~l~Gk~~~~~v~p~~TV~~lK~~I~~~~p~~~~e~~~~~~~~qRLiy~Gk~L~D~   77 (116)
T d1wgha_          14 ADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGN   77 (116)
T ss_dssp             SSSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSS
T ss_pred             CCeEEEEEEEcCCCEEEEEECCcchHHHHHHHHHhhcccccccccCCChHHeEEEECCEEecCC
Confidence            457999999999999999999999999999998        57889999999999999988643

>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=97.64  E-value=0.00012  Score=41.07  Aligned_cols=52  Identities=13%  Similarity=0.208  Sum_probs=47.9

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           23 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        23 ~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      .|.|+..+|..+.+.|.+++....|....+++.|++++..|+.|.|+.+...
T Consensus         2 ~I~Vk~~~G~~~~l~V~~~~tV~~lK~~i~~~~gi~~~~qrLi~~Gk~L~d~   53 (73)
T d1bt0a_           2 LIKVKTLTGKEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADD   53 (73)
T ss_dssp             EEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTT
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCCChHHEEEEECCeEcCCC
Confidence            4677888999999999999999999999999999999999999999988654

>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=97.62  E-value=8.4e-05  Score=42.95  Aligned_cols=55  Identities=9%  Similarity=0.111  Sum_probs=48.8

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      ...|+|+|+..++ ...|.|.+++....|....+++.|++++..|++|.|+.+.-.
T Consensus         8 ~~~i~v~Vk~~~~-~~~i~v~~~~tV~~lK~~I~~~~~v~~~~qrL~f~Gk~L~d~   62 (83)
T d1wx8a1           8 SRIIRVSVKTPQD-CHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQ   62 (83)
T ss_dssp             SCEEEEEEECSSS-EEEEEEETTCCHHHHHHHHHHHTCSCTTTBCCEETTEECCTT
T ss_pred             CCeEEEEEEcCCC-cEEEEECCCChHHHHHHHHHHHhCCChhHEEEEEEhhccccC
Confidence            4579999998655 568999999999999999999999999999999999988654

>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=97.60  E-value=8.8e-05  Score=41.92  Aligned_cols=53  Identities=13%  Similarity=0.123  Sum_probs=48.8

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      +.|.|+.-+|....+.|.+++....|...-+++.|++.+..|+.|.|+-+.-.
T Consensus         1 m~I~Vk~~~g~~~~l~V~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~   53 (73)
T d1wx9a1           1 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDD   53 (73)
T ss_dssp             EEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHCCCTTTCCCEETTEECCSS
T ss_pred             CEEEEEcCCCCEEEEEECCCChHHHHHHHHHHHhCCChHHEEEEECCeEccCC
Confidence            56888888999999999999999999999999999999999999999987644

>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=97.58  E-value=5.5e-05  Score=43.07  Aligned_cols=54  Identities=9%  Similarity=0.108  Sum_probs=48.8

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcC---CCCCeEEEEECCEeecce
Q 034926           21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQS---VELNSIAFLYVHISAFLA   74 (78)
Q Consensus        21 ~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~g---l~~~s~rFlfdG~rI~~~   74 (78)
                      .|+|.|+..+|....+.|.+++....|....+.+.|   ++++..|++|+|+.+.-.
T Consensus         2 ~~~i~vk~l~g~~~~l~v~~~~TV~~lK~~i~~~~g~~~i~~~~qrLi~~Gk~L~D~   58 (77)
T d1oqya4           2 AVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDD   58 (77)
T ss_dssp             CCCEEEEETTTEEEEECCCTTCBHHHHHHHHHHHTCSSSCCSTEEEEESSSSEECSS
T ss_pred             cEEEEEECCCCCEEEEEECCCCcHHHHHHHHHHhcCCCCCChHHEEeEECCcCccCC
Confidence            478888888999999999999999999999999988   789999999999988643

>d2al3a1 d.15.1.2 (A:10-85) Tether containing UBX domain for GLUT4 (Tug) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: Tether containing UBX domain for GLUT4 (Tug)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.49  E-value=0.00013  Score=42.70  Aligned_cols=52  Identities=17%  Similarity=0.277  Sum_probs=49.2

Q ss_pred             EEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeeccee
Q 034926           24 LKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAW   75 (78)
Q Consensus        24 lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~   75 (78)
                      +.|.+.+|....+||.++|.|..+.+.-|++.|++.+...+.+.++.|.++-
T Consensus         3 V~Vl~~~~rR~~VKvtP~t~l~~VL~eaC~k~~~~~~~~~Lkh~~k~ldLsl   54 (76)
T d2al3a1           3 VSVLAPNGRRHTVKVTPSTVLLQVLEDTCRRQDFNPSEYDLKFQRTVLDLSL   54 (76)
T ss_dssp             EEEECTTSCEEEECCCTTSBHHHHHHHHHHHTTCCGGGCEEEETTEEESSSC
T ss_pred             EEEECCCCcEEEEEeCCCcCHHHHHHHHHHHhCCChhHceeeeCCEEcCccc
Confidence            6788999999999999999999999999999999999999999999998874

>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=97.42  E-value=0.00066  Score=39.04  Aligned_cols=55  Identities=11%  Similarity=0.135  Sum_probs=48.8

Q ss_pred             CcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeeccee
Q 034926           20 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAW   75 (78)
Q Consensus        20 ~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~   75 (78)
                      ..|+|.|+..++ ...|.|.++.....|...-+++.|++++..|++|.|+.+.-.+
T Consensus         6 ~~i~I~Vkt~~~-~~~~~V~~~~tV~~lK~~i~~~~gi~~~~qrL~~~Gk~L~D~~   60 (84)
T d1yqba1           6 HLIKVTVKTPKD-KEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPD   60 (84)
T ss_dssp             TEEEEEEECSSC-EEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTS
T ss_pred             CEEEEEEEcCCC-cEEEEECCCCcHHHHHHHHHHHHCcCchhEEEEEeeeeccccC
Confidence            469999998655 5689999999999999999999999999999999999886543

>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=97.39  E-value=0.00042  Score=39.51  Aligned_cols=54  Identities=11%  Similarity=0.107  Sum_probs=49.5

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeeccee
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLAW   75 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~~   75 (78)
                      ..|.|+..+|..+.+.|.+++....|....+++.|++++..|++|.|+-+....
T Consensus         3 M~I~Vk~~~g~t~~l~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~d~~   56 (78)
T d2zeqa1           3 MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKRQGVPADQLRVIFAGKELPNHL   56 (78)
T ss_dssp             EEEEEESSSSSCEEEEECTTCBHHHHHHHHHHHHTCCGGGEEEEETTEEECTTC
T ss_pred             eEEEEEcCCCCEEEEEEcccccHHHHHHHHHHHHCcChhHeEEEEeeeEcCCCC
Confidence            568888889999999999999999999999999999999999999999886543

>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=97.33  E-value=0.00054  Score=38.42  Aligned_cols=53  Identities=8%  Similarity=0.121  Sum_probs=46.3

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        21 ~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      .|+|+|+.. ++...+.|.++.....|...-.++.|++++..|++|.|+.+.-.
T Consensus         1 si~I~Vk~~-~~~~~i~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~D~   53 (73)
T d2bwfa1           1 SLNIHIKSG-QDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDD   53 (73)
T ss_dssp             EEEEEEEET-TEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTT
T ss_pred             CEEEEEEeC-CeEEEEEECCCChHHHHHHHHHHHHCcChHHeEEEECCeEccCC
Confidence            378888864 45678999999999999999999999999999999999988644

>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=97.22  E-value=0.00076  Score=38.33  Aligned_cols=51  Identities=18%  Similarity=0.138  Sum_probs=44.0

Q ss_pred             EEEEEccCCC-EEEE-EEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           23 NLKVKGQDGN-EVFF-RIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        23 ~lkV~~qdg~-~v~F-kIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      .|.|+.-+|. ...+ .+.+++....|...-+++.|++++..|+.|+|+.+.-
T Consensus         2 ~I~Vktl~Gk~t~~l~~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~D   54 (76)
T d2faza1           2 WIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMED   54 (76)
T ss_dssp             EEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCT
T ss_pred             EEEEEeCCCCcEEEEecCCCCCCHHHHHHHHHHHHCcChHHeEEEEeeEeccC
Confidence            4677778886 4444 5999999999999999999999999999999998864

>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=97.07  E-value=0.0022  Score=37.16  Aligned_cols=45  Identities=11%  Similarity=0.129  Sum_probs=41.9

Q ss_pred             CCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           30 DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        30 dg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      +|..+.+.|.+++....|....+++.|++.+..++.|.|+.+.-+
T Consensus        20 ~G~~~~l~v~~~~tV~~lK~~I~~~~~ip~~~q~Li~~Gk~L~D~   64 (86)
T d1zkha1          20 NGQVLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDS   64 (86)
T ss_dssp             SSCEEEEEECTTSBHHHHHHHHHHHTCCCTTTEEEEETTEEECTT
T ss_pred             CCeEEEEEECCCChHHHHHHHHHhhhcCChHHEEEEeCCcCcCCC
Confidence            678899999999999999999999999999999999999988643

>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=97.06  E-value=0.00065  Score=40.14  Aligned_cols=55  Identities=7%  Similarity=-0.111  Sum_probs=49.0

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeec
Q 034926           18 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAF   72 (78)
Q Consensus        18 ~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~   72 (78)
                      ....|+|+|+.-.+....+.|.++.....|....++..|++++..|++|.|+.+.
T Consensus         4 ~s~~~~I~VK~~~~~~~~v~v~~~~tV~~lK~~i~~~~gvp~~~QkLi~~Gk~L~   58 (96)
T d1wgga_           4 GSSGYSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLK   58 (96)
T ss_dssp             CCCEEEEEEEETTEEEEEEEEESSSCHHHHHHHHHHHTCCCTTTSCCEETTEECC
T ss_pred             CCCceEEEEEeCCCCEEEEEECCCCcHHHHHHHhhhhcCccceeeEEeecCcccC
Confidence            3567999999866766679999999999999999999999999999999999875

>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=96.93  E-value=0.0024  Score=38.56  Aligned_cols=56  Identities=9%  Similarity=0.152  Sum_probs=47.0

Q ss_pred             CCcEEEEEEccCCCEE-EEEEeCCchHHHHHHHHHh-----hcCCC--CCeEEEEECCEeecce
Q 034926           19 SAHINLKVKGQDGNEV-FFRIKRSTQLKKLMNAYCD-----RQSVE--LNSIAFLYVHISAFLA   74 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v-~FkIK~~t~l~KLm~aYc~-----r~gl~--~~s~rFlfdG~rI~~~   74 (78)
                      .+.|+|+|+-.+|..+ -|.|.+++....|.+.-..     +.|.+  ++..|++|.|+-+.-.
T Consensus         5 ~~~i~I~~r~~~G~~i~~~~v~~s~TV~~lK~~I~~~~~~~k~~iP~~~~~qRLIf~Gk~L~D~   68 (101)
T d1se9a_           5 HNQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENS   68 (101)
T ss_dssp             CCCEEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTT
T ss_pred             cceEEEEEEeCCCCeecceecCccCHHHHHHHHHHHhccccccCCCCCcccEEEEECCeEecCC
Confidence            3579999999999998 5999999999999988855     46765  7799999999987543

>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=0.005  Score=34.73  Aligned_cols=52  Identities=13%  Similarity=0.149  Sum_probs=43.6

Q ss_pred             EEEEEccCCC-EEEE-EEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           23 NLKVKGQDGN-EVFF-RIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        23 ~lkV~~qdg~-~v~F-kIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      .|.|+.-+|. ...+ .|.+++....|....+++.|++.+..|++|.|+.+.-.
T Consensus         2 ~I~Vk~l~G~~t~~~~~v~~~~TV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~   55 (76)
T d1wy8a1           2 WIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENG   55 (76)
T ss_dssp             EEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCCTTTEEEEETTEECCSS
T ss_pred             EEEEEeCCCCceEEEeccCCCChHHHHHHHHHHHHCCCchhcEEEEEeeEecCC
Confidence            4566666774 4555 69999999999999999999999999999999988643

>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=96.78  E-value=0.0031  Score=36.61  Aligned_cols=51  Identities=10%  Similarity=0.079  Sum_probs=44.5

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcC---CCCCeEEEEECCEeecc
Q 034926           23 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQS---VELNSIAFLYVHISAFL   73 (78)
Q Consensus        23 ~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~g---l~~~s~rFlfdG~rI~~   73 (78)
                      .|.|+.-+|....+.|.+++....|...-+++.|   ++.+..|++|.|+.+.-
T Consensus         2 ~I~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~~~~i~~~~qrLi~~Gk~L~d   55 (95)
T d1uela_           2 QVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILND   55 (95)
T ss_dssp             EEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECCT
T ss_pred             EEEEEeCCCCEEEEEECCCccHHHHHHHHHhhhcccCCCccceEEEECCeEccC
Confidence            4566677899999999999999999999999876   67899999999998854

>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=96.64  E-value=0.0043  Score=36.99  Aligned_cols=52  Identities=8%  Similarity=0.057  Sum_probs=45.9

Q ss_pred             cEEEEE----EccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeec
Q 034926           21 HINLKV----KGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAF   72 (78)
Q Consensus        21 ~I~lkV----~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~   72 (78)
                      -.+|+|    ++.+|....+.|.+++.+..|...-+.+.|++.+..|++|+|+.|.
T Consensus         7 ~m~itV~~~~~~~~~~t~~l~V~~~~tV~~LK~~Ie~~~gip~~~Q~Li~~Gk~L~   62 (102)
T d1v5oa_           7 GMLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLT   62 (102)
T ss_dssp             CEEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTCCCGGGBCEEETTEEEC
T ss_pred             CEEEEEEecccCCCCCEEEEEECCcccHHHHHHHHHHHhCCCcceEEEEeCCeEee
Confidence            455666    6667889999999999999998888899999999999999999985

>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=96.58  E-value=0.0042  Score=34.90  Aligned_cols=51  Identities=18%  Similarity=0.135  Sum_probs=45.6

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEE--CCEeecc
Q 034926           23 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY--VHISAFL   73 (78)
Q Consensus        23 ~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlf--dG~rI~~   73 (78)
                      +|+|+.-+|..+.+.|.+++....|...-+++.|++++.-|++|  .|+.+.-
T Consensus         2 ~l~Vk~l~G~~~~v~V~~~~tV~~lK~~I~~~~gip~~~QrLi~~~~Gk~L~D   54 (76)
T d1z2ma1           2 DLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQD   54 (76)
T ss_dssp             EEEEEESSSCEEEEECCSSCCHHHHHHHHHHHHCCCGGGEEEEEETTCCBCCS
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhccCCccEEEEEcCCCeeccC
Confidence            57777788999999999999999999999999999999999999  4877643

>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=96.57  E-value=0.0022  Score=38.17  Aligned_cols=55  Identities=11%  Similarity=0.114  Sum_probs=47.5

Q ss_pred             CcEEEEE--EccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecce
Q 034926           20 AHINLKV--KGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFLA   74 (78)
Q Consensus        20 ~~I~lkV--~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~~   74 (78)
                      .+|+|.|  +...|..+.+.|+.+...+.|.+.-+++.|++.+..|++|.|+.|.-.
T Consensus        16 ati~V~~~~~~~~g~~~~lev~~~~TV~~LK~~I~~~~gi~~~~qkLi~~Gk~L~d~   72 (100)
T d1wjua_          16 ATIEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLG   72 (100)
T ss_dssp             EEEEEECCTTTCCSSSEEEEEESSSBHHHHHHHHHHHTTCCSTTCEEEETTEECCTT
T ss_pred             EEEEEEEeeccCCCeEEEEEECCCcHHHHHHHHHHHHHCCCCeeEEEEEcccCcCCC
Confidence            3666666  334588889999999999999999999999999999999999988654

>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=96.30  E-value=0.0083  Score=36.07  Aligned_cols=51  Identities=10%  Similarity=-0.037  Sum_probs=44.4

Q ss_pred             EEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           22 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      |-|+++. .+..+...|.+++....|....+++.|++.+..|++|+|+.+.-
T Consensus         2 ifv~i~~-~k~Ti~l~v~~~~TV~~lK~~I~~~~gip~~~QrLi~~Gk~L~D   52 (103)
T d2c9wb1           2 VFLMIRR-HKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDD   52 (103)
T ss_dssp             EEEEEEE-BTEEEEEEECTTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCT
T ss_pred             EEEEEeC-CCEEEEEEeCCCCcHHHHHHHHHHHhCCCcccEEEEECCEEcCC
Confidence            5677776 34467889999999999999999999999999999999998853

>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=95.98  E-value=0.0065  Score=35.50  Aligned_cols=51  Identities=8%  Similarity=0.066  Sum_probs=46.3

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCE
Q 034926           18 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHI   69 (78)
Q Consensus        18 ~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~   69 (78)
                      ..+.|+|+|.. ++....+.|..++....|...-++..|++++..|++|.|.
T Consensus        14 ~~~~i~v~V~~-~~k~~~i~v~~~~TV~~LK~~I~~~tgvp~~~q~Li~~g~   64 (95)
T d1v86a_          14 GKELVDLKIIW-NKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGL   64 (95)
T ss_dssp             CCCCEEEEEEE-TTEEEEEEECTTSBHHHHHHHHHHHHCSCSTTCCCBSSSB
T ss_pred             CccEEEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEeccc
Confidence            34579999985 7778899999999999999999999999999999999986

>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=95.83  E-value=0.016  Score=33.68  Aligned_cols=55  Identities=11%  Similarity=0.064  Sum_probs=44.9

Q ss_pred             CcEEEEEEccCC--CEEEEEEeCCchHHHHHHHHHhhcC--CCCCeEEEEECCEeecce
Q 034926           20 AHINLKVKGQDG--NEVFFRIKRSTQLKKLMNAYCDRQS--VELNSIAFLYVHISAFLA   74 (78)
Q Consensus        20 ~~I~lkV~~qdg--~~v~FkIK~~t~l~KLm~aYc~r~g--l~~~s~rFlfdG~rI~~~   74 (78)
                      ..|+|.|+..++  ..+.+.+.+++....|.+.-+++.+  .+.+..|++|.|+.+.-.
T Consensus         6 ~~i~l~Ik~~~~~~~~~~~~v~~~~TV~~LK~~I~~~~~~~~~~~~qrLIy~Gk~L~D~   64 (93)
T d1wgda_           6 SGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDH   64 (93)
T ss_dssp             CCCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECCSS
T ss_pred             CcEEEEEECCCCCceeEEEEcCCCCcHHHHHHHHHHHcCCCCChHHEEEEECCeEccCC
Confidence            456666666554  4578888999999999999999865  889999999999988644

>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=95.78  E-value=0.0091  Score=36.11  Aligned_cols=53  Identities=11%  Similarity=0.028  Sum_probs=45.1

Q ss_pred             cEEEEEEc---cCCCEEEEEEeC-CchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           21 HINLKVKG---QDGNEVFFRIKR-STQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        21 ~I~lkV~~---qdg~~v~FkIK~-~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      .++|+|.-   .+|..+.+.|.+ ++....|....+++.|++.+..|+.|.|+.+.-
T Consensus        27 ~~ti~V~v~~~~~G~~i~l~v~~~sdtV~~lK~~I~~~~gip~~~QrLi~~Gk~L~D   83 (111)
T d1we6a_          27 PATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKD   83 (111)
T ss_dssp             CEEEEECCTTCSSSCCEEEEESCSSSBHHHHHHHHHHHTTCCTTTSEEECSSSBCCT
T ss_pred             CEEEEEEcccCCCCeEEEEEecCCccHHHHHHHHHHHHHCCCccceEEEEeeEEccc
Confidence            46666653   358899999986 899999999999999999999999999987753

>d2cr5a1 d.15.1.2 (A:8-103) UBX domain-containing protein 6 (Reproduction 8) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: UBX domain-containing protein 6 (Reproduction 8)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.67  E-value=0.037  Score=31.79  Aligned_cols=50  Identities=8%  Similarity=0.086  Sum_probs=40.0

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECC
Q 034926           18 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVH   68 (78)
Q Consensus        18 ~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG   68 (78)
                      ....++|.|+-.||..+.-+...+.+++.|++ |.+..+.....++++..-
T Consensus        13 ~~~~~~i~iRlPdG~r~~r~F~~~dtl~~l~~-fv~~~~~~~~~f~l~~~~   62 (96)
T d2cr5a1          13 AEEVVTVALRCPNGRVLRRRFFKSWNSQVLLD-WMMKVGYHKSLYRLSTSF   62 (96)
T ss_dssp             CSSEEEEEEECTTSCEEEEEEESSSBTHHHHH-HHHHHTCCTTTEEEECSS
T ss_pred             CCCeEEEEEECCCCCEEEEEECCcccHHHHHH-HHHHhccCcccceeecCC
Confidence            34579999999999999889999999999984 666666667777766543

>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=95.29  E-value=0.043  Score=30.89  Aligned_cols=51  Identities=8%  Similarity=0.054  Sum_probs=42.5

Q ss_pred             EEEEEEccCCCEEEEEE-----eCCchHHHHHHHHHhhcCCCCCeEEEEECCEeecc
Q 034926           22 INLKVKGQDGNEVFFRI-----KRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAFL   73 (78)
Q Consensus        22 I~lkV~~qdg~~v~FkI-----K~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~~   73 (78)
                      |+|+|.. .+....+.|     ..++.+..|...-+...|++++..+++|+|+.+..
T Consensus         2 i~i~V~~-~~~~~~i~v~~~~~~~~~Tv~~LK~~I~~~tgvp~~~QkL~~~G~~L~~   57 (81)
T d1wxva1           2 LTVTVTH-SNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKE   57 (81)
T ss_dssp             EEEEEEC-SSSEEEEEECCCSSSSSCBHHHHHHHHHHHTCCCTTTCEEEETTEEECC
T ss_pred             EEEEEEE-CCeeEEEEEecCCCCCccHHHHHHHHHHHHHCcCHHHEEeeecCeEeCc
Confidence            6778765 445556666     46889999999999999999999999999999864

>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=95.16  E-value=0.052  Score=31.67  Aligned_cols=51  Identities=16%  Similarity=0.180  Sum_probs=44.2

Q ss_pred             CCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEeec
Q 034926           19 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISAF   72 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI~   72 (78)
                      ...|+|+|+.-+|.+..+.|.++.....|...-.   ..+.+..|++|.|+-+.
T Consensus         5 ~s~m~i~vK~l~~~~~~v~v~~~~TV~~lK~~i~---~~~~~~qrLi~~Gk~L~   55 (95)
T d1wiaa_           5 SSGINVRLKFLNDTEELAVARPEDTVGTLKSKYF---PGQESQMKLIYQGRLLQ   55 (95)
T ss_dssp             CCSEEEEEEETTTEEEEEEECSSSBHHHHHHHHS---SSTTTTCEEEETTEECC
T ss_pred             CCcEEEEEEcCCCCEEEEEECCcCcHHHHHHHHh---cCCcceeEEEECCEEcc
Confidence            4579999999999999999999999999986543   55778899999999885

>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=95.01  E-value=0.007  Score=36.08  Aligned_cols=56  Identities=11%  Similarity=0.050  Sum_probs=47.2

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCC---------------eEEEEECCEeecc
Q 034926           18 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN---------------SIAFLYVHISAFL   73 (78)
Q Consensus        18 ~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~---------------s~rFlfdG~rI~~   73 (78)
                      +..-++|+|+..+|....+.|.++.....|...-+++.|++++               ++.++|+|+.|..
T Consensus         4 gss~M~v~Vk~~~G~~~~v~V~~~~TV~~LK~~I~~~~~ip~~~Qr~~~~~~~~~~~~~~~Li~~G~~L~d   74 (105)
T d1v2ya_           4 GSSGMTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTE   74 (105)
T ss_dssp             CCCSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECC
T ss_pred             CCCcEEEEEEeCCCCEEEEEECCCChHHHHHHHHHHHHCcCHHHhcccccccccccccceEEEECCEECcc
Confidence            3457999999999999999999999999999888877776544               5779999999853

>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=94.67  E-value=0.044  Score=31.85  Aligned_cols=53  Identities=13%  Similarity=0.162  Sum_probs=44.4

Q ss_pred             CCcEEEEEEcc---CCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEECCEee
Q 034926           19 SAHINLKVKGQ---DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLYVHISA   71 (78)
Q Consensus        19 ~~~I~lkV~~q---dg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlfdG~rI   71 (78)
                      +.-|+|+|...   ++..+..+|..+.....|...=.+..|++.+..|++|.|.+.
T Consensus         7 ~~~iti~i~~~~~~~~~~~~~kv~~~~TV~~LK~~i~~~~gip~~~qrL~y~~~~~   62 (97)
T d1wjna_           7 GQLLTLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSKM   62 (97)
T ss_dssp             SCEEEEEEEESSCSSSCCEEEEEETTSBHHHHHHHHHTTTTCCTTTCEEEEECTTS
T ss_pred             CCeEEEEEEeCCCCCCceEEEEcCCCCCHHHHHHHHHHHHCcChHHeEEEecCCCC
Confidence            35677777643   456678999999999999999999999999999999977643

>d2npta1 d.15.2.2 (A:4-108) Mitogen activated protein kinase kinase 5, Map2k5 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: CAD & PB1 domains
family: PB1 domain
domain: Mitogen activated protein kinase kinase 5, Map2k5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.18  E-value=0.16  Score=30.57  Aligned_cols=56  Identities=11%  Similarity=0.147  Sum_probs=46.4

Q ss_pred             CCcEEEEEEccCCCEEEEEEeC--CchHHHHHHHHHhhcCCCCCeEEEEE---CCEeeccee
Q 034926           19 SAHINLKVKGQDGNEVFFRIKR--STQLKKLMNAYCDRQSVELNSIAFLY---VHISAFLAW   75 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~FkIK~--~t~l~KLm~aYc~r~gl~~~s~rFlf---dG~rI~~~~   75 (78)
                      ++.+.|++..++|..+-+.|..  .-.|+.|.+++.+..- +...-.|-|   ||.||+..|
T Consensus        11 ~q~lVIRI~~~~~~~vDw~V~~~~~l~F~dvL~~i~q~~p-~at~taFEYEDEdGDRITVRS   71 (105)
T d2npta1          11 NQVLVIRIKIPNSGAVDWTVHSGPQLLFRDVLDVIGQVLP-EATTTAFEYEDEDGDRITVRS   71 (105)
T ss_dssp             -CCEEEEEEETTTEEEEEEECC--CCCHHHHHHHHHHHST-TSCCSEEEEECTTSCEEEECS
T ss_pred             cCceEEEEEcCCCceeeeeecCCceeeHHHHHHHHHHhcc-cccccceeeccccCCEeEEcc
Confidence            4678999999999999999995  8899999999999775 335567778   899998765

>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=93.12  E-value=0.094  Score=29.94  Aligned_cols=37  Identities=24%  Similarity=0.356  Sum_probs=33.7

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCC
Q 034926           21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVE   58 (78)
Q Consensus        21 ~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~   58 (78)
                      +|+++|.--|+ ++.|.|.+.+.=+.|++.-|++.|+.
T Consensus         1 t~~v~V~~LD~-~~~~~v~~~a~G~~l~~~Vc~~l~L~   37 (84)
T d1ef1a3           1 TISVRVTTMDA-ELEFAIQPNTTGKQLFDQVVKTIGLR   37 (84)
T ss_dssp             CEEEEEEETTE-EEEEEECTTCBHHHHHHHHHHHHTCC
T ss_pred             CEEEEEEEcCC-EEEEEEcCCChHHHHHHHHHHHcCCc
Confidence            47889998887 69999999999999999999999975

>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=93.00  E-value=0.067  Score=30.40  Aligned_cols=55  Identities=16%  Similarity=0.042  Sum_probs=44.4

Q ss_pred             CCcEEEEEEccCCCEEEE-EEeCCchHHHHHHHHHhhcCCCCCeEEEE---ECCEeecce
Q 034926           19 SAHINLKVKGQDGNEVFF-RIKRSTQLKKLMNAYCDRQSVELNSIAFL---YVHISAFLA   74 (78)
Q Consensus        19 ~~~I~lkV~~qdg~~v~F-kIK~~t~l~KLm~aYc~r~gl~~~s~rFl---fdG~rI~~~   74 (78)
                      ...|+|.|+. .|....+ .|..+.....|...-+++.|++++..|++   |.|+-+.-.
T Consensus         5 s~~~~i~Vk~-~~~~~~i~~v~~~~tV~~LK~~i~~~t~vp~~~QkLi~~~~~Gk~L~D~   63 (90)
T d1v5ta_           5 SSGLPIIVKW-GGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAEND   63 (90)
T ss_dssp             CCSCCEEEEE-TTEEEEECSCCSSSBHHHHHHHHHHHTCCCTTTCEEESCEETTEECCTT
T ss_pred             CCcEEEEEEE-CCeEEEEEEeCCCCcHHHHHHHHHHHHcCCHHHhhhhhhccCCcCCCCc
Confidence            3457777775 5556555 59999999999999999999999999999   688877543

>d1wxma1 d.15.1.5 (A:8-80) A-Raf proto-oncogene serine/threonine-protein kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ras-binding domain, RBD
domain: A-Raf proto-oncogene serine/threonine-protein kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.50  E-value=0.45  Score=26.65  Aligned_cols=53  Identities=8%  Similarity=0.132  Sum_probs=44.4

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEE--CCEeeccee
Q 034926           23 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY--VHISAFLAW   75 (78)
Q Consensus        23 ~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlf--dG~rI~~~~   75 (78)
                      +++|.=+||+.-...+++...++-+...-|++.|+.+.....+-  +|.+-...|
T Consensus         2 ~iRv~LPngq~T~V~vrpG~tir~~L~k~l~kRgl~~~~~~V~~~~~g~~~~i~~   56 (73)
T d1wxma1           2 TVKVYLPNKQRTVVTVRDGMSVYDSLDKALKVRGLNQDCCVVYRLIKGRKTVTAW   56 (73)
T ss_dssp             EEEEECSSSCEEEEECCSSCBSHHHHHHHHHTTTCCSSSEEEEEESSSCEEEECS
T ss_pred             eEEEEcCCCCeEEEEecCCCCHHHHHHHHHHHcCCCHHHEEEEEecCCCcceeec
Confidence            57888899999999999999999999999999999999876643  776544444

>d1ip9a_ d.15.2.2 (A:) Bud emergence mediator Bemp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: CAD & PB1 domains
family: PB1 domain
domain: Bud emergence mediator Bemp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.81  E-value=0.74  Score=25.86  Aligned_cols=53  Identities=11%  Similarity=0.053  Sum_probs=41.5

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEE---CCEeecc
Q 034926           18 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY---VHISAFL   73 (78)
Q Consensus        18 ~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlf---dG~rI~~   73 (78)
                      +...|.||+.- ++..+.|+|.++..+..|.+.-+++.++.  .+++.|   ||.-+.+
T Consensus         9 ~~~~ikVKv~~-~~D~~~~~l~~~it~~dL~~kI~~rf~~~--~~~lkY~Dedgd~v~i   64 (85)
T d1ip9a_           9 GLKTTKIKFYY-KDDIFALMLKGDTTYKELRSKIAPRIDTD--NFKLQTKLFDGSGEEI   64 (85)
T ss_dssp             CCCCEEEEECB-TTCCEEEEECSCCCHHHHHHHHHHHHTSS--CEEEEECCSSSCCSCC
T ss_pred             CCCCEEEEEEE-CCcEEEEEeCCCCCHHHHHHHHHHHhCCC--ceEEEEEcCCCCEEEE
Confidence            35679999986 55677999999999999999999999754  577776   4554443

>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=90.63  E-value=0.4  Score=27.14  Aligned_cols=49  Identities=12%  Similarity=0.202  Sum_probs=39.8

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCC---CeEEEEECCEe
Q 034926           21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL---NSIAFLYVHIS   70 (78)
Q Consensus        21 ~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~---~s~rFlfdG~r   70 (78)
                      .|+++|.--|+ ++.|.|.+.+.=+.||+.-|++.|+..   =.++|.=+|.+
T Consensus         2 ~~~v~V~lLD~-~le~~v~~~a~G~~L~d~Vc~~L~L~E~~YFGL~y~~~~~~   53 (84)
T d1h4ra3           2 TFTVRIVTMDA-EMEFNCEMKWKGKDLFDLVCRTLGLRETWFFGLQYTIKDTV   53 (84)
T ss_dssp             EEEEEEECSSC-EEEEEEETTCBHHHHHHHHHHHHTCCCGGGEEEEEEETTEE
T ss_pred             eEEEEEEEcCC-cEEEEEcCCChHHHHHHHHHHHcCCcccccceEEEecCCce
Confidence            57888988886 689999999999999999999999742   23666666654

>d1c1yb_ d.15.1.5 (B:) c-Raf1 RBD {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ras-binding domain, RBD
domain: c-Raf1 RBD
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.29  E-value=0.6  Score=26.34  Aligned_cols=53  Identities=11%  Similarity=0.169  Sum_probs=45.1

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEE-----CCEeeccee
Q 034926           23 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY-----VHISAFLAW   75 (78)
Q Consensus        23 ~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlf-----dG~rI~~~~   75 (78)
                      +|+|.=+||+.-...+++...++-+...-|++.|+.+.....+.     .|....+.|
T Consensus         3 ~iRv~LPngq~T~V~vrpG~tird~L~k~l~kRgl~~~~c~V~~~~~~~~g~~~~l~~   60 (77)
T d1c1yb_           3 TIRVFLPNKQRTVVNVRNGMSLHDCLMKALKVRGLQPECCAVFRLLHEHKGKKARLDW   60 (77)
T ss_dssp             EEEEEETTTEEEEEECCTTCBHHHHHHHHHHTTTCCGGGEEEEEEEGGGSSEEEEECT
T ss_pred             eEEEECCCCCeEEEEecCCCCHHHHHHHHHHHcCCCHHHEEEEEeccCCCCcceeecc
Confidence            67888899999899999999999999999999999988877654     476665555

>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=86.83  E-value=0.64  Score=26.05  Aligned_cols=36  Identities=14%  Similarity=0.201  Sum_probs=32.6

Q ss_pred             EEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCC
Q 034926           23 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVE   58 (78)
Q Consensus        23 ~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~   58 (78)
                      ..+|.--||+++.|.|.+.+.=+.|++.-|++.|+.
T Consensus         2 ~C~V~lLD~~~~~~~v~~~~~G~~l~~~Vc~~l~l~   37 (81)
T d1gg3a3           2 HCKVSLLDDTVYECVVEKHAKGQDLLKRVCEHLNLL   37 (81)
T ss_dssp             EEEEECTTSCEEEEECCTTCCHHHHHHHHHHHHTTC
T ss_pred             EEEEEecCCCEEEEEECCCCcHHHHHHHHHHHcCCc
Confidence            457777899999999999999999999999999975

>d1wgra_ d.15.1.5 (A:) Growth factor receptor-bound protein 7, GRB-7 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ras-binding domain, RBD
domain: Growth factor receptor-bound protein 7, GRB-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.92  E-value=1.5  Score=24.93  Aligned_cols=43  Identities=12%  Similarity=0.122  Sum_probs=38.6

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCC
Q 034926           18 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN   60 (78)
Q Consensus        18 ~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~   60 (78)
                      +.+.+-|+|--.||....+.|..+|.-+.|...-|++.+++.+
T Consensus         6 ~~~~~vvkv~~~dg~~k~l~V~~~tTa~eV~~~l~~K~~~~~~   48 (100)
T d1wgra_           6 SGRPHVVKVYSEDGACRSVEVAAGATARHVCEMLVQRAHALSD   48 (100)
T ss_dssp             CCSCEEEEEEETTSCEEEEEECTTCCHHHHHHHHHCSSSCCCC
T ss_pred             CCCceEEEEEecCCCEEEEEECCCCcHHHHHHHHHHHhCCCCC
Confidence            3567999999999999999999999999999999999997643

>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=84.42  E-value=0.58  Score=27.99  Aligned_cols=56  Identities=13%  Similarity=0.098  Sum_probs=47.9

Q ss_pred             CCCcEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCe---EEEEECCEeecc
Q 034926           18 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNS---IAFLYVHISAFL   73 (78)
Q Consensus        18 ~~~~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s---~rFlfdG~rI~~   73 (78)
                      .++.|..+|...|.+.+..++..++.-+.++.+-|+|.+.+.+.   +...++|.|+-+
T Consensus         6 s~dei~~~VY~~Dhsy~tlr~~v~~sa~eI~~~vaeKl~~~~e~L~LV~V~SsGEr~~l   64 (104)
T d1wgya_           6 SGEEIFCHVYITEHSYVSVKAKVSSIAQEILKVVAEKIQYAEEDLALVAITFSGEKHEL   64 (104)
T ss_dssp             CSSCCCEEEECSSSCEEEECCCTTCBSHHHHHHHHHHHTSCGGGEEEEEECSSCCCCBC
T ss_pred             CCCeEEEEEEecCCcEEEEEeeccCcHHHHHHHHHHHhCCCCCceEEEEEccCCcEEee
Confidence            35689999999999999999999999999999999999987555   455678888754

>d1h8ca_ d.15.1.2 (A:) Fas-associated factor 1, Faf1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: Fas-associated factor 1, Faf1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.79  E-value=2.3  Score=23.06  Aligned_cols=45  Identities=13%  Similarity=0.202  Sum_probs=36.0

Q ss_pred             cEEEEEEccCCCEEEEEEeCCchHHHHHHHHHhhcCCCCCeEEEEE
Q 034926           21 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLY   66 (78)
Q Consensus        21 ~I~lkV~~qdg~~v~FkIK~~t~l~KLm~aYc~r~gl~~~s~rFlf   66 (78)
                      -++|+|+-+||..++-+...+++++.|++.-.. .+.+...+.++-
T Consensus         5 ~~~i~iRlPdG~~~~~~F~~~~tl~~v~~~v~~-~~~~~~~~~l~~   49 (82)
T d1h8ca_           5 VSKLRIRTPSGEFLERRFLASNKLQIVFDFVAS-KGFPWDEYKLLS   49 (82)
T ss_dssp             CEEEEEECTTSCEEEEEECTTSBHHHHHHHHHH-HTCCSSSEEEEE
T ss_pred             cEEEEEECCCCCEEEEEECCCCcHHHHHHHHHh-cCCCCCceEEEe
Confidence            467899999999999999999999999876543 566666666653