Citrus Sinensis ID: 034110

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100---
Protein Sequence
MPDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTEDR
Secondary Structure (PSIPRED)
cccccEEEEEEEEEccccccccccccccHHHHHHHHHHHHccccccccccccccEEEEEccEEEcccccccccccccccccccEEEEEEEEcccccccccccc
Secondary Structure Prediction (SSPRO)
cccccEEEEEEEEcccccccccccccHHHHHHHHHHHHHccccccccccccHHHEEEEEcccEEccccccHHcccccccccccEEEEEEEEcccccccccccc
Coil and Loop (DISEMBL)
MPDEELIDIKFrlydgsdigpfryssastVDMLKQRIvsdwpkgktivpkAVTEIKLISsgkilennktvgqckipygevpggvIIMHVVVqpslaktktedr
Flexible Loop (DISEMBL)
MPDEELIDIKfrlydgsdigpfryssastvdMLKQRivsdwpkgktivpkaVTEIKLissgkilennktvgQCKIPYGEVPGGVIIMHVvvqpslaktktedr
Low Complexity Region (SEG)
MPDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTEDR
Disordered region (IsUnstruct)
*****LIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIMHVVVQ***********
Disordered Region (DISOPRED)
****ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTI*PKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIMH***************
Disordered Region (DISEMBL)
MPDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSL********
Disordered Region (DISPRO)
***EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIMHVVVQPS*********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MPDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTEDR
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	103	2.2.26 [Sep-21-2011]
Q9SW27	118	Membrane-anchored ubiquit	yes	no	1.0	0.872	0.815	1e-46
Q9LSD8	120	Membrane-anchored ubiquit	no	no	1.0	0.858	0.621	6e-34
Q7XRU4	135	Membrane-anchored ubiquit	yes	no	0.912	0.696	0.6	6e-29
Q6Z8K4	119	Membrane-anchored ubiquit	no	no	0.951	0.823	0.520	4e-26
Q9SH14	120	Membrane-anchored ubiquit	no	no	0.980	0.841	0.533	2e-24
Q8GWJ6	119	Membrane-anchored ubiquit	no	no	0.922	0.798	0.489	2e-23
Q8LCS8	124	Membrane-anchored ubiquit	no	no	0.864	0.717	0.528	3e-22
Q75GT2	119	Membrane-anchored ubiquit	no	no	0.854	0.739	0.550	3e-21
Q9MAB9	117	Membrane-anchored ubiquit	no	no	0.834	0.735	0.511	5e-20
Q67UI2	126	Membrane-anchored ubiquit	no	no	0.873	0.714	0.444	3e-19

>sp|Q9SW27|MUB3_ARATH Membrane-anchored ubiquitin-fold protein 3 OS=Arabidopsis thaliana GN=MUB3 PE=1 SV=1

 Score =  184 bits (467), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 84/103 (81%), Positives = 96/103 (93%)

Query: 1   MPDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISS 60
           MP+EE IDIKFRLYDGSDIGPFRYS+ASTVD LKQR+VSDWPKGKT+VPK + E+KLISS
Sbjct: 1   MPEEESIDIKFRLYDGSDIGPFRYSAASTVDFLKQRVVSDWPKGKTVVPKGINEVKLISS 60

Query: 61  GKILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTEDR 103
           GKILENNKTVGQCK P+G++ GGVI+MHVVVQPSLAK+KTE +
Sbjct: 61  GKILENNKTVGQCKTPFGDIAGGVIVMHVVVQPSLAKSKTEKK 103

May serve as docking site to facilitate the association of other proteins to the plasma membrane.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9LSD8|MUB4_ARATH Membrane-anchored ubiquitin-fold protein 4 OS=Arabidopsis thaliana GN=MUB4 PE=1 SV=1

 Score =  142 bits (358), Expect = 6e-34,   Method: Compositional matrix adjust.
 Identities = 64/103 (62%), Positives = 84/103 (81%)

Query: 1   MPDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISS 60
           MP+E+L+++KFRLYDGSD+GPF+YS  +TV MLK+RIVS+WPK K IVPK+ ++IKLI++
Sbjct: 1   MPEEDLVELKFRLYDGSDVGPFQYSPTATVSMLKERIVSEWPKDKKIVPKSASDIKLINA 60

Query: 61  GKILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTEDR 103
           GKILEN KTV QCK P+ ++P  VI MHVVVQ S  K + E +
Sbjct: 61  GKILENGKTVAQCKAPFDDLPKSVITMHVVVQLSPTKARPEKK 103

May serve as docking site to facilitate the association of other proteins to the plasma membrane.

Arabidopsis thaliana (taxid: 3702)

>sp|Q7XRU4|MUB4_ORYSJ Membrane-anchored ubiquitin-fold protein 4 OS=Oryza sativa subsp. japonica GN=MUB4 PE=2 SV=2

 Score =  125 bits (315), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 57/95 (60%), Positives = 74/95 (77%), Gaps = 1/95 (1%)

Query: 10  KFRLYDGSDIGPFRYSS-ASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNK 68
           KFRL+DGSDIGP R ++ A+TV  LK R+V+DWPK KTIVPK   ++KLIS GKILEN+K
Sbjct: 26  KFRLFDGSDIGPLRCNAVATTVAALKDRVVADWPKDKTIVPKTANDVKLISGGKILENDK 85

Query: 69  TVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTEDR 103
            + QC+ P+G++P   I MHVVVQPS AK+K + +
Sbjct: 86  NIAQCRAPFGDLPSTAITMHVVVQPSSAKSKPDKK 120

May serve as docking site to facilitate the association of other proteins to the plasma membrane.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q6Z8K4|MUB3_ORYSJ Membrane-anchored ubiquitin-fold protein 3 OS=Oryza sativa subsp. japonica GN=MUB3 PE=3 SV=1

 Score =  116 bits (291), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 51/98 (52%), Positives = 75/98 (76%)

Query: 4   EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKI 63
           +E I++KFRL+DG+DIGP +Y  ++TV  LK+ I++ WP+ K I PK V ++KLI++G+I
Sbjct: 5   KEPIEVKFRLFDGTDIGPSKYDPSTTVSALKEFILARWPQDKEITPKTVNDLKLINAGRI 64

Query: 64  LENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTE 101
           LENN+T+ + ++P GEVPGGVI MHVVV+P      +E
Sbjct: 65  LENNRTLAESRVPVGEVPGGVITMHVVVRPPQPDKNSE 102

May serve as docking site to facilitate the association of other proteins to the plasma membrane.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q9SH14|MUB5_ARATH Membrane-anchored ubiquitin-fold protein 5 OS=Arabidopsis thaliana GN=MUB5 PE=1 SV=1

 Score =  110 bits (276), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 55/103 (53%), Positives = 74/103 (71%), Gaps = 2/103 (1%)

Query: 1   MPDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISS 60
           M DE+LI++KFRL DG+DIGP +YS   TV  LK++I++ WPK K   PK + E+KLI+ 
Sbjct: 1   MGDEDLIELKFRLADGTDIGPSKYSQFMTVASLKEKIIAQWPKDKENAPKMINEVKLING 60

Query: 61  GKILENNKTVGQCK--IPYGEVPGGVIIMHVVVQPSLAKTKTE 101
           GKILENNKT+ + +  I  GE+PG V  MHVV++P L + K E
Sbjct: 61  GKILENNKTLSEARSLITIGELPGIVTTMHVVLRPPLFEKKKE 103

May serve as docking site to facilitate the association of other proteins to the plasma membrane.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8GWJ6|MUB6_ARATH Membrane-anchored ubiquitin-fold protein 6 OS=Arabidopsis thaliana GN=MUB6 PE=1 SV=1

 Score =  107 bits (268), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 47/96 (48%), Positives = 74/96 (77%), Gaps = 1/96 (1%)

Query: 3  DEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGK 62
          +E+ I++KFRL DG+DIGP +Y+ + TV  LK++++S WPK K   PK V ++KLI++GK
Sbjct: 4  EEDWIELKFRLADGTDIGPSKYNQSMTVSSLKEKLISQWPKDKENTPKTVNDMKLINAGK 63

Query: 63 ILENNKTVGQCKIPYGEVPGGVIIMHVVVQ-PSLAK 97
          ILENN+T+ + ++P  E+PG +I MH+V++ P+L K
Sbjct: 64 ILENNRTLAESRLPVCELPGMIITMHIVLRLPTLDK 99

May serve as docking site to facilitate the association of other proteins to the plasma membrane.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8LCS8|MUB2_ARATH Membrane-anchored ubiquitin-fold protein 2 OS=Arabidopsis thaliana GN=MUB2 PE=1 SV=1

 Score =  103 bits (257), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 47/89 (52%), Positives = 64/89 (71%)

Query: 4  EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKI 63
          ++ ++IKFRL DGSDIGP  +  A+TV  LK+ +V+ WP+ K   PK V ++KLIS+G+I
Sbjct: 5  KDQLEIKFRLNDGSDIGPKLFPDATTVATLKETVVAQWPRDKENGPKTVKDVKLISAGRI 64

Query: 64 LENNKTVGQCKIPYGEVPGGVIIMHVVVQ 92
          LENNKTVG C+ P G   G V  MHV++Q
Sbjct: 65 LENNKTVGDCRSPVGNFSGAVTTMHVIIQ 93

May serve as docking site to facilitate the association of other proteins to the plasma membrane.

Arabidopsis thaliana (taxid: 3702)

>sp|Q75GT2|MUB1_ORYSJ Membrane-anchored ubiquitin-fold protein 1 OS=Oryza sativa subsp. japonica GN=MUB1 PE=3 SV=1

 Score =  100 bits (248), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 49/89 (55%), Positives = 65/89 (73%), Gaps = 1/89 (1%)

Query: 4  EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKI 63
          +E  +IKFRL DG+DIGP RY +ASTV  LK+ IV+ WPK K   P+ V ++KLI++GKI
Sbjct: 6  QEQFEIKFRLPDGTDIGPKRYPAASTVATLKESIVAQWPKDKEKGPRTVNDLKLINAGKI 65

Query: 64 LENNKTVGQCKIPYGEVPGGVIIMHVVVQ 92
          LENNKT+ +CK P  +   G+  MHVVV+
Sbjct: 66 LENNKTLSECKSPICDF-SGLTTMHVVVR 93

May serve as docking site to facilitate the association of other proteins to the plasma membrane.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q9MAB9|MUB1_ARATH Membrane-anchored ubiquitin-fold protein 1 OS=Arabidopsis thaliana GN=MUB1 PE=1 SV=1

 Score = 96.3 bits (238), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 44/86 (51%), Positives = 61/86 (70%)

Query: 7  IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILEN 66
          ++IKFRL DGSDIGP  +  A+TV  LK+ ++S+WP+ K   PK V E+KLIS+GK+LEN
Sbjct: 8  LEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLEN 67

Query: 67 NKTVGQCKIPYGEVPGGVIIMHVVVQ 92
          +KTV   + P   + G V  MHV++Q
Sbjct: 68 SKTVKDYRSPVSNLAGAVTTMHVIIQ 93

May serve as docking site to facilitate the association of other proteins to the plasma membrane.

Arabidopsis thaliana (taxid: 3702)

>sp|Q67UI2|MUB2_ORYSJ Membrane-anchored ubiquitin-fold protein 2 OS=Oryza sativa subsp. japonica GN=MUB2 PE=2 SV=1

 Score = 93.6 bits (231), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 40/90 (44%), Positives = 64/90 (71%)

Query: 5   ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKIL 64
           E ++++FRL DGSDIGP  +  A+TV  LK+ +++ WP+GK I P+ V ++ +I++G++L
Sbjct: 12  EAVEVRFRLDDGSDIGPSMHDQATTVTALKEFVLARWPQGKEIAPRTVNDVTIINAGQVL 71

Query: 65  ENNKTVGQCKIPYGEVPGGVIIMHVVVQPS 94
           ENN+T+ + +    E P G I MHVVV+ S
Sbjct: 72  ENNRTLAESRNLAAESPEGPITMHVVVRRS 101

May serve as docking site to facilitate the association of other proteins to the plasma membrane.

Oryza sativa subsp. japonica (taxid: 39947)

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	103
297799496	118	hypothetical protein ARALYDRAFT_492339 [	1.0	0.872	0.834	8e-46
224122106	118	predicted protein [Populus trichocarpa]	1.0	0.872	0.844	9e-46
449440524	150	PREDICTED: membrane-anchored ubiquitin-f	1.0	0.686	0.844	9e-46
118485449	118	unknown [Populus trichocarpa]	1.0	0.872	0.834	1e-45
358248209	118	uncharacterized protein LOC100810070 [Gl	1.0	0.872	0.825	2e-45
449440526	118	PREDICTED: membrane-anchored ubiquitin-f	1.0	0.872	0.844	2e-45
351727385	118	uncharacterized protein LOC100500090 [Gl	1.0	0.872	0.834	2e-45
388509856	118	unknown [Medicago truncatula] gi|3885154	1.0	0.872	0.815	4e-45
15234839	118	membrane-anchored ubiquitin-fold protein	1.0	0.872	0.815	6e-45
312282251	118	unnamed protein product [Thellungiella h	1.0	0.872	0.815	1e-44

>gi|297799496|ref|XP_002867632.1| hypothetical protein ARALYDRAFT_492339 [Arabidopsis lyrata subsp. lyrata] gi|297313468|gb|EFH43891.1| hypothetical protein ARALYDRAFT_492339 [Arabidopsis lyrata subsp. lyrata]

 Score =  187 bits (474), Expect = 8e-46,   Method: Compositional matrix adjust.
 Identities = 86/103 (83%), Positives = 96/103 (93%)

Query: 1   MPDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISS 60
           MP+EE IDIKFRLYDGSDIGPFRYS+ASTVD LKQR+VSDWPKGKT+VPK + E+KLISS
Sbjct: 1   MPEEESIDIKFRLYDGSDIGPFRYSAASTVDFLKQRVVSDWPKGKTVVPKGINEVKLISS 60

Query: 61  GKILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTEDR 103
           GKILENNKTVGQCK P+GE+ GGVI+MHVVVQPSLAKTKTE +
Sbjct: 61  GKILENNKTVGQCKTPFGEIAGGVIVMHVVVQPSLAKTKTEKK 103

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224122106|ref|XP_002318754.1| predicted protein [Populus trichocarpa] gi|222859427|gb|EEE96974.1| predicted protein [Populus trichocarpa]

 Score =  187 bits (474), Expect = 9e-46,   Method: Compositional matrix adjust.
 Identities = 87/103 (84%), Positives = 96/103 (93%)

Query: 1   MPDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISS 60
           MP+E+L+DIKFRLYDGSDIGPFRYSS STVDMLKQRIVSDWP+GKTI PKAV EIKLISS
Sbjct: 1   MPEEDLVDIKFRLYDGSDIGPFRYSSTSTVDMLKQRIVSDWPRGKTITPKAVNEIKLISS 60

Query: 61  GKILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTEDR 103
           GK+L+NNKTVGQC+ P+GE  GGVIIMHVVVQPSLAKTKTE +
Sbjct: 61  GKVLDNNKTVGQCRTPFGEAAGGVIIMHVVVQPSLAKTKTEKK 103

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449440524|ref|XP_004138034.1| PREDICTED: membrane-anchored ubiquitin-fold protein 3-like isoform 1 [Cucumis sativus] gi|449501411|ref|XP_004161359.1| PREDICTED: membrane-anchored ubiquitin-fold protein 3-like isoform 1 [Cucumis sativus]

 Score =  187 bits (474), Expect = 9e-46,   Method: Compositional matrix adjust.
 Identities = 87/103 (84%), Positives = 97/103 (94%)

Query: 1   MPDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISS 60
           MP+++LIDIKFRLYDGSDIGPFRYSSAST+D+LKQRIVSDWPKGKTI PKA +EIKLISS
Sbjct: 1   MPEDDLIDIKFRLYDGSDIGPFRYSSASTIDVLKQRIVSDWPKGKTITPKAASEIKLISS 60

Query: 61  GKILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTEDR 103
           GKILENNKTVGQCK+P+GE  GGV IMHVVVQPSLAK KTE++
Sbjct: 61  GKILENNKTVGQCKLPFGEFTGGVTIMHVVVQPSLAKAKTEEK 103

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118485449|gb|ABK94581.1| unknown [Populus trichocarpa]

 Score =  186 bits (472), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 86/103 (83%), Positives = 96/103 (93%)

Query: 1   MPDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISS 60
           MP+E+L+DIKFRLYDGSDIGPFRYSS STVDMLKQRIVSDWP+GKTI PKAV EIKLISS
Sbjct: 1   MPEEDLVDIKFRLYDGSDIGPFRYSSTSTVDMLKQRIVSDWPRGKTITPKAVNEIKLISS 60

Query: 61  GKILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTEDR 103
           G++L+NNKTVGQC+ P+GE  GGVIIMHVVVQPSLAKTKTE +
Sbjct: 61  GRVLDNNKTVGQCRTPFGEAAGGVIIMHVVVQPSLAKTKTEKK 103

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358248209|ref|NP_001240095.1| uncharacterized protein LOC100810070 [Glycine max] gi|255638141|gb|ACU19384.1| unknown [Glycine max]

 Score =  186 bits (472), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 85/103 (82%), Positives = 97/103 (94%)

Query: 1   MPDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISS 60
           MP+E+L+DIKFRLYDGSDIGPFRYSSA+TVDMLKQRIVSDWPKGKT+VPK+  E+KLISS
Sbjct: 1   MPEEDLVDIKFRLYDGSDIGPFRYSSAATVDMLKQRIVSDWPKGKTVVPKSANEVKLISS 60

Query: 61  GKILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTEDR 103
           GKILENNKTVGQCK+P+GE  GGVIIMHVVVQPSL+KTK + +
Sbjct: 61  GKILENNKTVGQCKVPFGETAGGVIIMHVVVQPSLSKTKADKK 103

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449440526|ref|XP_004138035.1| PREDICTED: membrane-anchored ubiquitin-fold protein 3-like isoform 2 [Cucumis sativus] gi|449501415|ref|XP_004161360.1| PREDICTED: membrane-anchored ubiquitin-fold protein 3-like isoform 2 [Cucumis sativus]

 Score =  186 bits (471), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 87/103 (84%), Positives = 96/103 (93%)

Query: 1   MPDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISS 60
           MP+++LIDIKFRLYDGSDIGPFRYSSAST+D+LKQRIVSDWPKGKTI PKA +EIKLISS
Sbjct: 1   MPEDDLIDIKFRLYDGSDIGPFRYSSASTIDVLKQRIVSDWPKGKTITPKAASEIKLISS 60

Query: 61  GKILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTEDR 103
           GKILENNKTVGQCK+P+GE  GGV IMHVVVQPSLAK KTE +
Sbjct: 61  GKILENNKTVGQCKLPFGEFTGGVTIMHVVVQPSLAKAKTEKK 103

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351727385|ref|NP_001236647.1| uncharacterized protein LOC100500090 [Glycine max] gi|255629071|gb|ACU14880.1| unknown [Glycine max]

 Score =  186 bits (471), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 86/103 (83%), Positives = 97/103 (94%)

Query: 1   MPDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISS 60
           MP+E+L+DIKFRLYDGSDIGPFRYSSA+TVDMLKQRIVSDWPKGKT+VPK+  E+KLISS
Sbjct: 1   MPEEDLVDIKFRLYDGSDIGPFRYSSAATVDMLKQRIVSDWPKGKTVVPKSANEVKLISS 60

Query: 61  GKILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTEDR 103
           GKILENNKTVGQCK+P+GE PGGVIIM VVVQPSLAKTK + +
Sbjct: 61  GKILENNKTVGQCKVPFGETPGGVIIMLVVVQPSLAKTKADKK 103

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388509856|gb|AFK42994.1| unknown [Medicago truncatula] gi|388515421|gb|AFK45772.1| unknown [Medicago truncatula]

 Score =  184 bits (468), Expect = 4e-45,   Method: Compositional matrix adjust.
 Identities = 84/103 (81%), Positives = 96/103 (93%)

Query: 1   MPDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISS 60
           MP+E+L+DIKFRLYDGSDIGPFRYSSA+TVDMLKQRIVSDWPKGKT +PK+  E+KLISS
Sbjct: 1   MPEEDLVDIKFRLYDGSDIGPFRYSSAATVDMLKQRIVSDWPKGKTFLPKSANEVKLISS 60

Query: 61  GKILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTEDR 103
           GKILENNKTVGQCK P+G++ GGVIIMHVVVQPSLAK+K E +
Sbjct: 61  GKILENNKTVGQCKAPFGDIAGGVIIMHVVVQPSLAKSKAEKK 103

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15234839|ref|NP_194229.1| membrane-anchored ubiquitin-fold protein 3 [Arabidopsis thaliana] gi|75213044|sp|Q9SW27.1|MUB3_ARATH RecName: Full=Membrane-anchored ubiquitin-fold protein 3; Short=AtMUB3; Short=Membrane-anchored ub-fold protein 3; AltName: Full=ATGP4; Flags: Precursor gi|4455242|emb|CAB36741.1| geranylgeranylated protein ATGP4 [Arabidopsis thaliana] gi|7269349|emb|CAB79408.1| geranylgeranylated protein ATGP4 [Arabidopsis thaliana] gi|27765070|gb|AAO23656.1| At4g24990 [Arabidopsis thaliana] gi|110742864|dbj|BAE99330.1| geranylgeranylated protein ATGP4 [Arabidopsis thaliana] gi|332659589|gb|AEE84989.1| membrane-anchored ubiquitin-fold protein 3 [Arabidopsis thaliana]

 Score =  184 bits (467), Expect = 6e-45,   Method: Compositional matrix adjust.
 Identities = 84/103 (81%), Positives = 96/103 (93%)

Query: 1   MPDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISS 60
           MP+EE IDIKFRLYDGSDIGPFRYS+ASTVD LKQR+VSDWPKGKT+VPK + E+KLISS
Sbjct: 1   MPEEESIDIKFRLYDGSDIGPFRYSAASTVDFLKQRVVSDWPKGKTVVPKGINEVKLISS 60

Query: 61  GKILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTEDR 103
           GKILENNKTVGQCK P+G++ GGVI+MHVVVQPSLAK+KTE +
Sbjct: 61  GKILENNKTVGQCKTPFGDIAGGVIVMHVVVQPSLAKSKTEKK 103

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|312282251|dbj|BAJ33991.1| unnamed protein product [Thellungiella halophila]

 Score =  183 bits (464), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 84/103 (81%), Positives = 96/103 (93%)

Query: 1   MPDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISS 60
           MP+EE IDIKFRLYDGSDIGPFRYS+ASTVD LKQR+VSDWPKGKT+VPK + E+KLISS
Sbjct: 1   MPEEESIDIKFRLYDGSDIGPFRYSAASTVDFLKQRVVSDWPKGKTVVPKGINEVKLISS 60

Query: 61  GKILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTEDR 103
           GKILEN+KTVGQCK P+G++ GGVI+MHVVVQPSLAKTKTE +
Sbjct: 61  GKILENSKTVGQCKTPFGDIAGGVIVMHVVVQPSLAKTKTEKK 103

Source: Thellungiella halophila

Species: Eutrema halophilum

Genus: Eutrema

Family: Brassicaceae

Order: Brassicales

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	103
TAIR|locus:2117383	118	ATGP4 "AT4G24990" [Arabidopsis	1.0	0.872	0.815	8.1e-44
TAIR|locus:2091975	120	MUB4 "AT3G26980" [Arabidopsis	1.0	0.858	0.621	2.3e-32
TAIR|locus:2029466	120	MUB5 "AT1G77870" [Arabidopsis	0.980	0.841	0.533	1.2e-24
TAIR|locus:2030616	119	MUB6 "AT1G22050" [Arabidopsis	0.951	0.823	0.49	2.9e-23
TAIR|locus:2180937	124	MUB2 "AT5G15460" [Arabidopsis	0.970	0.806	0.47	5.5e-22
TAIR|locus:2102172	117	MUB1 "AT3G01050" [Arabidopsis	0.902	0.794	0.5	2.7e-20
UNIPROTKB|Q2TA46	117	UBL3 "Ubiquitin-like protein 3	0.893	0.786	0.214	0.00073
UNIPROTKB|O95164	117	UBL3 "Ubiquitin-like protein 3	0.893	0.786	0.214	0.00073
MGI|MGI:1344373	117	Ubl3 "ubiquitin-like 3" [Mus m	0.893	0.786	0.214	0.00073
RGD|1305431	117	Ubl3 "ubiquitin-like 3" [Rattu	0.893	0.786	0.214	0.00073

TAIR|locus:2117383 ATGP4 "AT4G24990" [Arabidopsis thaliana (taxid:3702)]

 Score = 462 (167.7 bits), Expect = 8.1e-44, P = 8.1e-44
 Identities = 84/103 (81%), Positives = 96/103 (93%)

Query:     1 MPDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISS 60
             MP+EE IDIKFRLYDGSDIGPFRYS+ASTVD LKQR+VSDWPKGKT+VPK + E+KLISS
Sbjct:     1 MPEEESIDIKFRLYDGSDIGPFRYSAASTVDFLKQRVVSDWPKGKTVVPKGINEVKLISS 60

Query:    61 GKILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTEDR 103
             GKILENNKTVGQCK P+G++ GGVI+MHVVVQPSLAK+KTE +
Sbjct:    61 GKILENNKTVGQCKTPFGDIAGGVIVMHVVVQPSLAKSKTEKK 103

GO:0003674 "molecular_function" evidence=ND

GO:0005886 "plasma membrane" evidence=ISM;IDA

GO:0010286 "heat acclimation" evidence=RCA

TAIR|locus:2091975 MUB4 "AT3G26980" [Arabidopsis thaliana (taxid:3702)]

 Score = 354 (129.7 bits), Expect = 2.3e-32, P = 2.3e-32
 Identities = 64/103 (62%), Positives = 84/103 (81%)

Query:     1 MPDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISS 60
             MP+E+L+++KFRLYDGSD+GPF+YS  +TV MLK+RIVS+WPK K IVPK+ ++IKLI++
Sbjct:     1 MPEEDLVELKFRLYDGSDVGPFQYSPTATVSMLKERIVSEWPKDKKIVPKSASDIKLINA 60

Query:    61 GKILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTEDR 103
             GKILEN KTV QCK P+ ++P  VI MHVVVQ S  K + E +
Sbjct:    61 GKILENGKTVAQCKAPFDDLPKSVITMHVVVQLSPTKARPEKK 103

GO:0003674 "molecular_function" evidence=ND

GO:0005886 "plasma membrane" evidence=ISM

TAIR|locus:2029466 MUB5 "AT1G77870" [Arabidopsis thaliana (taxid:3702)]

 Score = 281 (104.0 bits), Expect = 1.2e-24, P = 1.2e-24
 Identities = 55/103 (53%), Positives = 74/103 (71%)

Query:     1 MPDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISS 60
             M DE+LI++KFRL DG+DIGP +YS   TV  LK++I++ WPK K   PK + E+KLI+ 
Sbjct:     1 MGDEDLIELKFRLADGTDIGPSKYSQFMTVASLKEKIIAQWPKDKENAPKMINEVKLING 60

Query:    61 GKILENNKTVGQCK--IPYGEVPGGVIIMHVVVQPSLAKTKTE 101
             GKILENNKT+ + +  I  GE+PG V  MHVV++P L + K E
Sbjct:    61 GKILENNKTLSEARSLITIGELPGIVTTMHVVLRPPLFEKKKE 103

GO:0003674 "molecular_function" evidence=ND

GO:0005886 "plasma membrane" evidence=ISM

TAIR|locus:2030616 MUB6 "AT1G22050" [Arabidopsis thaliana (taxid:3702)]

 Score = 268 (99.4 bits), Expect = 2.9e-23, P = 2.9e-23
 Identities = 49/100 (49%), Positives = 77/100 (77%)

Query:     3 DEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGK 62
             +E+ I++KFRL DG+DIGP +Y+ + TV  LK++++S WPK K   PK V ++KLI++GK
Sbjct:     4 EEDWIELKFRLADGTDIGPSKYNQSMTVSSLKEKLISQWPKDKENTPKTVNDMKLINAGK 63

Query:    63 ILENNKTVGQCKIPYGEVPGGVIIMHVVVQ-PSLAKTKTE 101
             ILENN+T+ + ++P  E+PG +I MH+V++ P+L K K+E
Sbjct:    64 ILENNRTLAESRLPVCELPGMIITMHIVLRLPTLDK-KSE 102

GO:0003674 "molecular_function" evidence=ND

GO:0005886 "plasma membrane" evidence=ISM

TAIR|locus:2180937 MUB2 "AT5G15460" [Arabidopsis thaliana (taxid:3702)]

 Score = 256 (95.2 bits), Expect = 5.5e-22, P = 5.5e-22
 Identities = 47/100 (47%), Positives = 69/100 (69%)

Query:     4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKI 63
             ++ ++IKFRL DGSDIGP  +  A+TV  LK+ +V+ WP+ K   PK V ++KLIS+G+I
Sbjct:     5 KDQLEIKFRLNDGSDIGPKLFPDATTVATLKETVVAQWPRDKENGPKTVKDVKLISAGRI 64

Query:    64 LENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTEDR 103
             LENNKTVG C+ P G   G V  MHV++Q  + + + + +
Sbjct:    65 LENNKTVGDCRSPVGNFSGAVTTMHVIIQHQVTEKEKKKK 104

GO:0003674 "molecular_function" evidence=ND

GO:0005886 "plasma membrane" evidence=ISM

GO:0030244 "cellulose biosynthetic process" evidence=RCA

GO:0048193 "Golgi vesicle transport" evidence=RCA

TAIR|locus:2102172 MUB1 "AT3G01050" [Arabidopsis thaliana (taxid:3702)]

 Score = 240 (89.5 bits), Expect = 2.7e-20, P = 2.7e-20
 Identities = 47/94 (50%), Positives = 64/94 (68%)

Query:     7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILEN 66
             ++IKFRL DGSDIGP  +  A+TV  LK+ ++S+WP+ K   PK V E+KLIS+GK+LEN
Sbjct:     8 LEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLEN 67

Query:    67 NKTVGQCKIPYGEVPGGVIIMHVVVQ-PSLAKTK 99
             +KTV   + P   + G V  MHV++Q P   K K
Sbjct:    68 SKTVKDYRSPVSNLAGAVTTMHVIIQAPVTEKEK 101

GO:0003674 "molecular_function" evidence=ND

GO:0005886 "plasma membrane" evidence=ISM

UNIPROTKB|Q2TA46 UBL3 "Ubiquitin-like protein 3" [Bos taurus (taxid:9913)]

 Score = 85 (35.0 bits), Expect = 0.00073, P = 0.00072
 Identities = 21/98 (21%), Positives = 48/98 (48%)

Query:     5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKG-KTIVPKAVTEIKLISSGKI 63
             ++I+++  L  G     F +S   +   + + +  +WP   +     +   ++LI  G+ 
Sbjct:     8 DMINLRLILVSGKT-KEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRF 66

Query:    64 LENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTE 101
             L  N T+G  K+P+G+      +MH+V + +L +  ++
Sbjct:    67 LHGNVTLGALKLPFGKTT----VMHLVARETLPEPNSQ 100

GO:0005886 "plasma membrane" evidence=IEA

UNIPROTKB|O95164 UBL3 "Ubiquitin-like protein 3" [Homo sapiens (taxid:9606)]

 Score = 85 (35.0 bits), Expect = 0.00073, P = 0.00072
 Identities = 21/98 (21%), Positives = 48/98 (48%)

Query:     5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKG-KTIVPKAVTEIKLISSGKI 63
             ++I+++  L  G     F +S   +   + + +  +WP   +     +   ++LI  G+ 
Sbjct:     8 DMINLRLILVSGKT-KEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRF 66

Query:    64 LENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTE 101
             L  N T+G  K+P+G+      +MH+V + +L +  ++
Sbjct:    67 LHGNVTLGALKLPFGKTT----VMHLVARETLPEPNSQ 100

GO:0005886 "plasma membrane" evidence=IEA

GO:0005622 "intracellular" evidence=IDA

MGI|MGI:1344373 Ubl3 "ubiquitin-like 3" [Mus musculus (taxid:10090)]

 Score = 85 (35.0 bits), Expect = 0.00073, P = 0.00072
 Identities = 21/98 (21%), Positives = 48/98 (48%)

Query:     5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKG-KTIVPKAVTEIKLISSGKI 63
             ++I+++  L  G     F +S   +   + + +  +WP   +     +   ++LI  G+ 
Sbjct:     8 DMINLRLILVSGKT-KEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRF 66

Query:    64 LENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTE 101
             L  N T+G  K+P+G+      +MH+V + +L +  ++
Sbjct:    67 LHGNVTLGALKLPFGKTT----VMHLVARETLPEPNSQ 100

GO:0003674 "molecular_function" evidence=ND

GO:0005886 "plasma membrane" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IEA

RGD|1305431 Ubl3 "ubiquitin-like 3" [Rattus norvegicus (taxid:10116)]

 Score = 85 (35.0 bits), Expect = 0.00073, P = 0.00072
 Identities = 21/98 (21%), Positives = 48/98 (48%)

Query:     5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKG-KTIVPKAVTEIKLISSGKI 63
             ++I+++  L  G     F +S   +   + + +  +WP   +     +   ++LI  G+ 
Sbjct:     8 DMINLRLILVSGKT-KEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRF 66

Query:    64 LENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTE 101
             L  N T+G  K+P+G+      +MH+V + +L +  ++
Sbjct:    67 LHGNVTLGALKLPFGKTT----VMHLVARETLPEPNSQ 100


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.316   0.136   0.393    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      103       103   0.00091  102 3  11 22  0.45    30
                                                     29  0.49    31


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  10
  No. of states in DFA:  551 (59 KB)
  Total size of DFA:  109 KB (2073 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  10.75u 0.10s 10.85t   Elapsed:  00:00:00
  Total cpu time:  10.75u 0.10s 10.85t   Elapsed:  00:00:00
  Start:  Mon May 20 15:29:39 2013   End:  Mon May 20 15:29:39 2013

GO:0005622 "intracellular" evidence=IEA;ISO

GO:0005886 "plasma membrane" 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)
Q7XRU4	MUB4_ORYSJ	No assigned EC number	0.6	0.9126	0.6962	yes	no
Q9SW27	MUB3_ARATH	No assigned EC number	0.8155	1.0	0.8728	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

Fail to connect to STRING server

---

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	103
cd01814	113	cd01814, NTGP5, Ubiquitin-like NTGP5 and ATGP4	2e-51
pfam13881	111	pfam13881, Rad60-SLD_2, Ubiquitin-2 like Rad60 SUM	9e-50
TIGR00601	378	TIGR00601, rad23, UV excision repair protein Rad23	3e-05
cd01769	69	cd01769, UBL, Ubiquitin-like domain of UBL	7e-05
pfam00240	69	pfam00240, ubiquitin, Ubiquitin family	2e-04
cd01805	77	cd01805, RAD23_N, Ubiquitin-like domain of RAD23	8e-04
smart00213	72	smart00213, UBQ, Ubiquitin homologues	0.003

>gnl|CDD|176409 cd01814, NTGP5, Ubiquitin-like NTGP5 and ATGP4

 Score =  156 bits (397), Expect = 2e-51
 Identities = 68/98 (69%), Positives = 81/98 (82%)

Query: 4   EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKI 63
           EE I+IKFRLYDGSDIGP RY +A+TVD LK+R+VS WPK K + PK V E+KLIS+GKI
Sbjct: 2   EEQIEIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKI 61

Query: 64  LENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTE 101
           LEN+KTVG+C+ P G++ GGVI MHVVVQP LA  KTE
Sbjct: 62  LENSKTVGECRSPVGDIAGGVITMHVVVQPPLADKKTE 99

NTGP5 and ATGP4 are plant-specific isoprenylated GTP-binding proteins with a single fold that resembles ubiquitin. The function of these proteins is unknown. Length = 113

>gnl|CDD|206052 pfam13881, Rad60-SLD_2, Ubiquitin-2 like Rad60 SUMO-like

 Score =  152 bits (387), Expect = 9e-50
 Identities = 58/97 (59%), Positives = 80/97 (82%)

Query: 5   ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKIL 64
           ELI++KFRL DGSDIGPFR+S A+TV  LK+++++ WPK K   PK+  ++KLI++GKIL
Sbjct: 1   ELIELKFRLVDGSDIGPFRFSPATTVADLKEKVLAQWPKDKEEGPKSPNDVKLINAGKIL 60

Query: 65  ENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTE 101
           ENNKT+G+C++P GE PGGVI+MHVVV+P L +  +E
Sbjct: 61  ENNKTLGECRLPAGETPGGVIVMHVVVRPPLPEPNSE 97

Length = 111

>gnl|CDD|233045 TIGR00601, rad23, UV excision repair protein Rad23

 Score = 40.6 bits (95), Expect = 3e-05
 Identities = 27/80 (33%), Positives = 39/80 (48%), Gaps = 9/80 (11%)

Query: 21  PFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEV 80
                   TV  LK++I ++  +GK   P  V + KLI SGKIL ++KTV + KI     
Sbjct: 14  KIDMEPDETVKELKEKIEAE--QGKDAYP--VAQQKLIYSGKILSDDKTVKEYKIKEK-- 67

Query: 81  PGGVIIMHVVVQPSLAKTKT 100
              V++M  V +P     K 
Sbjct: 68  -DFVVVM--VSKPKTGTGKV 84

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) [DNA metabolism, DNA replication, recombination, and repair]. Length = 378

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

 Score = 37.2 bits (87), Expect = 7e-05
 Identities = 20/71 (28%), Positives = 33/71 (46%), Gaps = 13/71 (18%)

Query: 22 FRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVP 81
             S   TV  LK +I +        VP    + +LI +GKIL+++KT+    I      
Sbjct: 12 LEVSPDDTVAELKAKIAAKEG-----VPPE--QQRLIYAGKILKDDKTLSDYGI----QD 60

Query: 82 GGVIIMHVVVQ 92
          G  +  H+V++
Sbjct: 61 GSTL--HLVLR 69

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

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

 Score = 36.4 bits (85), Expect = 2e-04
 Identities = 20/64 (31%), Positives = 32/64 (50%), Gaps = 8/64 (12%)

Query: 12 RLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVG 71
          +  DG  I       + TV  LK++I       K  +P  V + +LI SGK+LE++ T+ 
Sbjct: 1  KTLDGKTI-TLEVDPSDTVSELKEKIED-----KEGIP--VDQQRLIFSGKVLEDDTTLS 52

Query: 72 QCKI 75
          +  I
Sbjct: 53 EYGI 56

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

>gnl|CDD|176400 cd01805, RAD23_N, Ubiquitin-like domain of RAD23

 Score = 35.0 bits (81), Expect = 8e-04
 Identities = 20/55 (36%), Positives = 30/55 (54%), Gaps = 5/55 (9%)

Query: 21 PFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKI 75
          P       TV  LK++I  +  KG    P+   + KLI SGKIL+++ T+ + KI
Sbjct: 14 PIEVDPDDTVAELKEKIEEE--KGCDYPPE---QQKLIYSGKILKDDTTLEEYKI 63

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). Length = 77

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

 Score = 33.4 bits (77), Expect = 0.003
 Identities = 21/83 (25%), Positives = 37/83 (44%), Gaps = 12/83 (14%)

Query: 7  IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILEN 66
          I++  +  DG  I       + TV  LK++I        T +P    + +LI  GK+LE+
Sbjct: 1  IELTVKTLDGKTI-TLEVKPSDTVSELKEKIAE-----LTGIP--PEQQRLIYKGKVLED 52

Query: 67 NKTVGQCKIPYGEVPGGVIIMHV 89
          ++T+    I      G  I + +
Sbjct: 53 DRTLADYGIQ----DGSTIHLVL 71

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	103
cd01814	113	NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and AT	99.97
PF13881	111	Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB	99.96
cd01807	74	GDX_N ubiquitin-like domain of GDX. GDX contains a	99.8
cd01790	79	Herp_N Homocysteine-responsive endoplasmic reticul	99.8
cd01793	74	Fubi Fubi ubiquitin-like protein. Fubi is a ubiqui	99.78
cd01794	70	DC_UbP_C dendritic cell derived ubiquitin-like pro	99.78
cd01797	78	NIRF_N amino-terminal ubiquitin-like domain of Np9	99.77
cd01810	74	ISG15_repeat2 ISG15 ubiquitin-like protein, second	99.75
cd01802	103	AN1_N ubiquitin-like domain of AN1. AN1 (also know	99.75
cd01798	70	parkin_N amino-terminal ubiquitin-like of parkin p	99.75
PTZ00044	76	ubiquitin; Provisional	99.75
cd01791	73	Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also know	99.73
cd01800	76	SF3a120_C Ubiquitin-like domain of Mammalian splic	99.73
cd01806	76	Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also kn	99.72
cd01808	71	hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC	99.71
cd01804	78	midnolin_N Ubiquitin-like domain of midnolin. midn	99.7
PF00240	69	ubiquitin: Ubiquitin family; InterPro: IPR000626 U	99.7
cd01803	76	Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40	99.7
cd01809	72	Scythe_N Ubiquitin-like domain of Scythe protein.	99.69
cd01805	77	RAD23_N Ubiquitin-like domain of RAD23. RAD23 belo	99.68
cd01792	80	ISG15_repeat1 ISG15 ubiquitin-like protein, first	99.67
cd01796	71	DDI1_N DNA damage inducible protein 1 ubiquitin-li	99.67
cd01815	75	BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC	99.6
cd01812	71	BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-ter	99.59
KOG0005	70	consensus Ubiquitin-like protein [Cell cycle contr	99.59
KOG0004	156	consensus Ubiquitin/40S ribosomal protein S27a fus	99.56
cd01763	87	Sumo Small ubiquitin-related modifier (SUMO). Smal	99.55
KOG0010	493	consensus Ubiquitin-like protein [Posttranslationa	99.55
KOG0003	128	consensus Ubiquitin/60s ribosomal protein L40 fusi	99.5
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	99.5
cd01813	74	UBP_N UBP ubiquitin processing protease. The UBP (	99.48
smart00213	64	UBQ Ubiquitin homologues. Ubiquitin-mediated prote	99.45
cd01799	75	Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HO	99.4
cd01769	69	UBL Ubiquitin-like domain of UBL. UBLs function by	99.31
KOG0011	340	consensus Nucleotide excision repair factor NEF2,	99.26
cd01795	107	USP48_C USP ubiquitin-specific protease. The USP (	99.14
KOG4248	1143	consensus Ubiquitin-like protein, regulator of apo	99.12
cd01789	84	Alp11_N Ubiquitin-like domain of Alp11 tubulin-fol	99.09
PF11976	72	Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; Inter	99.08
cd01801	77	Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-	98.86
KOG0001	75	consensus Ubiquitin and ubiquitin-like proteins [P	98.85
PLN02560	308	enoyl-CoA reductase	98.79
cd01788	119	ElonginB Ubiquitin-like domain of Elongin B. Elong	98.75
PF14560	87	Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2K	98.65
PF10302	97	DUF2407: DUF2407 ubiquitin-like domain; InterPro:	98.61
KOG0006	446	consensus E3 ubiquitin-protein ligase (Parkin prot	98.48
cd00196	69	UBQ Ubiquitin-like proteins. Ubiquitin homologs; I	98.32
PF11543	80	UN_NPL4: Nuclear pore localisation protein NPL4; I	98.08
PF00789	82	UBX: UBX domain; InterPro: IPR001012 The UBX domai	97.99
KOG4495	110	consensus RNA polymerase II transcription elongati	97.7
cd01770	79	p47_UBX p47-like ubiquitin domain. p47_UBX p47 is	97.68
cd01811	80	OASL_repeat1 2'-5' oligoadenylate synthetase-like	97.5
KOG4583	391	consensus Membrane-associated ER protein involved	97.37
cd01767	77	UBX UBX (ubiquitin regulatory X) domain. The UBX (	97.3
cd01774	85	Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 i	97.24
cd01772	79	SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-subst	97.09
PF08817	79	YukD: WXG100 protein secretion system (Wss), prote	96.94
smart00166	80	UBX Domain present in ubiquitin-regulatory protein	96.94
KOG1872	473	consensus Ubiquitin-specific protease [Posttransla	96.93
COG5417	81	Uncharacterized small protein [Function unknown]	96.52
KOG1769	99	consensus Ubiquitin-like proteins [Posttranslation	96.45
PF13019	162	Telomere_Sde2: Telomere stability and silencing	96.32
cd01771	80	Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated fac	96.11
PF15044	76	CLU_N: Mitochondrial function, CLU-N-term	95.95
KOG3493	73	consensus Ubiquitin-like protein [Posttranslationa	95.36
KOG0013	231	consensus Uncharacterized conserved protein [Funct	94.98
COG5227	103	SMT3 Ubiquitin-like protein (sentrin) [Posttransla	94.53
cd01773	82	Faf1_like1_UBX Faf1 ike-1 UBX domain. Faf1_like1 i	94.17
KOG3206	234	consensus Alpha-tubulin folding cofactor B [Posttr	94.01
KOG2086	380	consensus Protein tyrosine phosphatase SHP1/Cofact	91.75
PF11470	65	TUG-UBL1: GLUT4 regulating protein TUG; InterPro:	89.1
cd00754	80	MoaD Ubiquitin domain of MoaD-like proteins. MoaD	88.94
TIGR01682	80	moaD molybdopterin converting factor, subunit 1, n	86.01
KOG1639	297	consensus Steroid reductase required for elongatio	85.47
PF08337	539	Plexin_cytopl: Plexin cytoplasmic RasGAP domain; I	85.13
PF09379	80	FERM_N: FERM N-terminal domain ; InterPro: IPR0189	84.31
smart00666	81	PB1 PB1 domain. Phox and Bem1p domain, present in	84.05
PF00564	84	PB1: PB1 domain; InterPro: IPR000270 The Phox and	83.76
PF10209	122	DUF2340: Uncharacterized conserved protein (DUF234	83.71
TIGR01687	88	moaD_arch MoaD family protein, archaeal. Members o	82.73
PF02597	77	ThiS: ThiS family; InterPro: IPR003749 ThiS (thiam	82.25
PF08783	74	DWNN: DWNN domain; InterPro: IPR014891 The ~75-res	81.54
smart00144	108	PI3K_rbd PI3-kinase family, Ras-binding domain. Ce	81.5
PRK06437	67	hypothetical protein; Provisional	80.94
PF14453	57	ThiS-like: ThiS-like ubiquitin	80.19

>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4

Probab=99.97  E-value=5.2e-32  Score=182.29  Aligned_cols=99  Identities=69%  Similarity=1.133  Sum_probs=94.3

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCc
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGG   83 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~   83 (103)
                      ++.|+||||+.+|.||.|+.|++++||++||++|+++||+++|++|..+++|||||+||+|+|+.||++|++..|++++.
T Consensus         2 ~~~~e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~TL~d~~~p~g~~~~~   81 (113)
T cd01814           2 EEQIEIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSKTVGECRSPVGDIAGG   81 (113)
T ss_pred             CccEEEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCCcHHHhCCcccccCCC
Confidence            68899999999999999999999999999999999999999999998999999999999999999999999999999988


Q ss_pred             eEEEEEEecCCCCCCcCcC
Q 034110           84 VIIMHVVVQPSLAKTKTED  102 (103)
Q Consensus        84 ~~t~hlv~~~~~~~k~~~~  102 (103)
                      ++|||||+|++.+.++.++
T Consensus        82 ~~TmHvvlr~~~~~~~~~k  100 (113)
T cd01814          82 VITMHVVVQPPLADKKTEK  100 (113)
T ss_pred             ceEEEEEecCCCCCccccc
Confidence            9999999999999887543

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

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

Probab=99.96  E-value=2.5e-29  Score=169.53  Aligned_cols=96  Identities=46%  Similarity=0.919  Sum_probs=81.8

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCce
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGV   84 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~   84 (103)
                      ++|+|||++.+|.|+.++.|++++||++||+.|.++||.||++.|.+++.+||||+||+|+|+.||++|++..|+.++.+
T Consensus         1 ~~i~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~~~~~~~~~~~~   80 (111)
T PF13881_consen    1 DKIELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDCRLPSGETPGGP   80 (111)
T ss_dssp             TSEEEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGGT--TTSETT--
T ss_pred             CeEEEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHhCCCCCCCCCCC
Confidence            47999999999998999999999999999999999999999999999999999999999999999999999999887778


Q ss_pred             EEEEEEecCCCCCCcC
Q 034110           85 IIMHVVVQPSLAKTKT  100 (103)
Q Consensus        85 ~t~hlv~~~~~~~k~~  100 (103)
                      ++|||+++++.+.+..
T Consensus        81 ~vmHlvvrp~~~~~~~   96 (111)
T PF13881_consen   81 TVMHLVVRPNAPEPNE   96 (111)
T ss_dssp             EEEEEEE-SSSSSSSS
T ss_pred             EEEEEEecCCCCCccc
Confidence            9999999998776654

>cd01807 GDX_N ubiquitin-like domain of GDX

Probab=99.80  E-value=3.1e-19  Score=111.31  Aligned_cols=71  Identities=23%  Similarity=0.395  Sum_probs=64.5

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceE
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVI   85 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~   85 (103)
                      .|.||+.+|+. ..+++++++||++||++|++.  +|         +++|||+|+|+.|+|+.+|++|+|.++      .
T Consensus         2 ~i~vk~~~G~~-~~l~v~~~~tV~~lK~~i~~~~gi~---------~~~q~L~~~G~~L~d~~~L~~~~i~~~------~   65 (74)
T cd01807           2 FLTVKLLQGRE-CSLQVSEKESVSTLKKLVSEHLNVP---------EEQQRLLFKGKALADDKRLSDYSIGPN------A   65 (74)
T ss_pred             EEEEEeCCCCE-EEEEECCCCcHHHHHHHHHHHHCCC---------HHHeEEEECCEECCCCCCHHHCCCCCC------C
Confidence            57888899965 479999999999999999988  55         999999999999999999999999998      6


Q ss_pred             EEEEEecCC
Q 034110           86 IMHVVVQPS   94 (103)
Q Consensus        86 t~hlv~~~~   94 (103)
                      ++|++++++
T Consensus        66 ~l~l~~~~~   74 (74)
T cd01807          66 KLNLVVRPP   74 (74)
T ss_pred             EEEEEEcCC
Confidence            899999864

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

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

Probab=99.80  E-value=2.7e-19  Score=114.31  Aligned_cols=75  Identities=19%  Similarity=0.187  Sum_probs=62.3

Q ss_pred             eEEEEEEeCCCCee-eeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccC--CCCCCCCC
Q 034110            6 LIDIKFRLYDGSDI-GPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCK--IPYGEVPG   82 (103)
Q Consensus         6 ~v~l~~~~~~g~~~-~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~--i~~g~~~~   82 (103)
                      .++|.+|..+|..+ ..+++++++||++||++|++.+|    ..| ++++|||||+||+|+|+.||++|.  +.++    
T Consensus         1 ~i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~----~~~-~~~~QrLIy~GKiLkD~~tL~~~~~~~~~~----   71 (79)
T cd01790           1 PVTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYP----SKP-LEQDQRLIYSGKLLPDHLKLRDVLRKQDEY----   71 (79)
T ss_pred             CeEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcC----CCC-ChhHeEEEEcCeeccchhhHHHHhhcccCC----
Confidence            37899999999541 24555899999999999999865    122 279999999999999999999996  8776    


Q ss_pred             ceEEEEEEe
Q 034110           83 GVIIMHVVV   91 (103)
Q Consensus        83 ~~~t~hlv~   91 (103)
                        .|||||+
T Consensus        72 --~tiHLV~   78 (79)
T cd01790          72 --HMVHLVC   78 (79)
T ss_pred             --ceEEEEe
Confidence              7899997

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.

>cd01793 Fubi Fubi ubiquitin-like protein

Probab=99.78  E-value=1e-18  Score=109.07  Aligned_cols=70  Identities=20%  Similarity=0.235  Sum_probs=61.3

Q ss_pred             EEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEE
Q 034110            9 IKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVII   86 (103)
Q Consensus         9 l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t   86 (103)
                      |.+|.  + ....+++++++||++||++|++.  +|         +++|||||+||.|+|+.+|++|+|.++      +|
T Consensus         3 i~vk~--~-~~~~l~v~~~~tV~~lK~~i~~~~gip---------~~~q~Li~~Gk~L~D~~tL~~~~i~~~------~t   64 (74)
T cd01793           3 LFVRA--Q-NTHTLEVTGQETVSDIKAHVAGLEGID---------VEDQVLLLAGVPLEDDATLGQCGVEEL------CT   64 (74)
T ss_pred             EEEEC--C-CEEEEEECCcCcHHHHHHHHHhhhCCC---------HHHEEEEECCeECCCCCCHHHcCCCCC------CE
Confidence            44454  3 34579999999999999999988  55         999999999999999999999999988      78


Q ss_pred             EEEEecCCCC
Q 034110           87 MHVVVQPSLA   96 (103)
Q Consensus        87 ~hlv~~~~~~   96 (103)
                      +|+++++.++
T Consensus        65 l~l~~~l~GG   74 (74)
T cd01793          65 LEVAGRLLGG   74 (74)
T ss_pred             EEEEEecCCC
Confidence            9999998874

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.

>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein

Probab=99.78  E-value=8.7e-19  Score=109.12  Aligned_cols=67  Identities=28%  Similarity=0.413  Sum_probs=61.0

Q ss_pred             EEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEE
Q 034110            9 IKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVII   86 (103)
Q Consensus         9 l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t   86 (103)
                      +++++.+|+.+ ++++++++||++||++|++.  +|         +++|||||+|+.|+|+.+|++|+|..+      .|
T Consensus         1 ~~vk~~~G~~~-~l~v~~~~TV~~lK~~I~~~~gi~---------~~~q~Li~~G~~L~D~~~l~~~~i~~~------~t   64 (70)
T cd01794           1 LKVRLSTGKDV-KLSVSSKDTVGQLKKQLQAAEGVD---------PCCQRWFFSGKLLTDKTRLQETKIQKD------YV   64 (70)
T ss_pred             CeEEcCCCCEE-EEEECCcChHHHHHHHHHHHhCCC---------HHHeEEEECCeECCCCCCHHHcCCCCC------CE
Confidence            47899999665 79999999999999999988  66         999999999999999999999999977      78


Q ss_pred             EEEEe
Q 034110           87 MHVVV   91 (103)
Q Consensus        87 ~hlv~   91 (103)
                      +||++
T Consensus        65 v~~~~   69 (70)
T cd01794          65 VQVIV   69 (70)
T ss_pred             EEEEe
Confidence            99976

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.

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

Probab=99.77  E-value=2e-18  Score=109.55  Aligned_cols=73  Identities=21%  Similarity=0.267  Sum_probs=65.0

Q ss_pred             EEEEEeCCCCeeeeEE-eCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCce
Q 034110            8 DIKFRLYDGSDIGPFR-YSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGV   84 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~-v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~   84 (103)
                      .|.|++.+|..+..++ +++++||++||++|++.  +|         +++|||||+||+|+|+.+|++|+|.++      
T Consensus         2 ~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~---------~~~QrLi~~Gk~L~D~~tL~~y~i~~~------   66 (78)
T cd01797           2 WIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVE---------PECQRLFYRGKQMEDGHTLFDYNVGLN------   66 (78)
T ss_pred             EEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCC---------HHHeEEEeCCEECCCCCCHHHcCCCCC------
Confidence            5788999996644675 89999999999999988  55         999999999999999999999999999      


Q ss_pred             EEEEEEecCCC
Q 034110           85 IIMHVVVQPSL   95 (103)
Q Consensus        85 ~t~hlv~~~~~   95 (103)
                      .++|+++++.+
T Consensus        67 ~~i~l~~~~~~   77 (78)
T cd01797          67 DIIQLLVRQDP   77 (78)
T ss_pred             CEEEEEEecCC
Confidence            68999998764

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.

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

Probab=99.75  E-value=3.9e-18  Score=106.43  Aligned_cols=72  Identities=18%  Similarity=0.238  Sum_probs=64.1

Q ss_pred             EEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEE
Q 034110            9 IKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVII   86 (103)
Q Consensus         9 l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t   86 (103)
                      |.||+.+|+. ..+++++++||++||++|++.  +|         +++|+|+|+|+.|+|+.+|++|+|.++      .+
T Consensus         1 i~vk~~~g~~-~~l~v~~~~tV~~lK~~I~~~~gi~---------~~~q~L~~~G~~L~D~~tL~~~~i~~~------~t   64 (74)
T cd01810           1 ILVRNDKGRS-SIYEVQLTQTVATLKQQVSQRERVQ---------ADQFWLSFEGRPMEDEHPLGEYGLKPG------CT   64 (74)
T ss_pred             CEEECCCCCE-EEEEECCcChHHHHHHHHHHHhCCC---------HHHeEEEECCEECCCCCCHHHcCCCCC------CE
Confidence            4578899954 579999999999999999988  55         999999999999999999999999998      68


Q ss_pred             EEEEecCCCC
Q 034110           87 MHVVVQPSLA   96 (103)
Q Consensus        87 ~hlv~~~~~~   96 (103)
                      +|++++..++
T Consensus        65 l~l~~~l~gg   74 (74)
T cd01810          65 VFMNLRLRGG   74 (74)
T ss_pred             EEEEEEccCC
Confidence            9999987653

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.

>cd01802 AN1_N ubiquitin-like domain of AN1

Probab=99.75  E-value=6.3e-18  Score=112.47  Aligned_cols=76  Identities=21%  Similarity=0.256  Sum_probs=67.8

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      +..+|.|+..+|..+ .+++++++||.+||++|++.  +|         +++|||+|+|+.|+|+.+|++|+|.++    
T Consensus        26 ~~M~I~Vk~l~G~~~-~leV~~~~TV~~lK~kI~~~~gip---------~~~QrLi~~Gk~L~D~~tL~dy~I~~~----   91 (103)
T cd01802          26 DTMELFIETLTGTCF-ELRVSPFETVISVKAKIQRLEGIP---------VAQQHLIWNNMELEDEYCLNDYNISEG----   91 (103)
T ss_pred             CCEEEEEEcCCCCEE-EEEeCCCCcHHHHHHHHHHHhCCC---------hHHEEEEECCEECCCCCcHHHcCCCCC----
Confidence            357888899999654 69999999999999999988  55         999999999999999999999999998    


Q ss_pred             ceEEEEEEecCCCC
Q 034110           83 GVIIMHVVVQPSLA   96 (103)
Q Consensus        83 ~~~t~hlv~~~~~~   96 (103)
                        .|+|++++..++
T Consensus        92 --stL~l~~~l~GG  103 (103)
T cd01802          92 --CTLKLVLAMRGG  103 (103)
T ss_pred             --CEEEEEEecCCC
Confidence              689999987664

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.

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

Probab=99.75  E-value=5.3e-18  Score=104.62  Aligned_cols=68  Identities=24%  Similarity=0.428  Sum_probs=61.4

Q ss_pred             EEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEE
Q 034110            9 IKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVII   86 (103)
Q Consensus         9 l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t   86 (103)
                      |.|++.+|.. .++++++++||++||++|++.  +|         +++|+|+|+|+.|+|+.+|++|+|.++      +|
T Consensus         1 i~vk~~~g~~-~~~~v~~~~tV~~lK~~i~~~~gi~---------~~~q~Li~~G~~L~d~~~l~~~~i~~~------st   64 (70)
T cd01798           1 VYVRTNTGHT-FPVEVDPDTDIKQLKEVVAKRQGVP---------PDQLRVIFAGKELRNTTTIQECDLGQQ------SI   64 (70)
T ss_pred             CEEEcCCCCE-EEEEECCCChHHHHHHHHHHHHCCC---------HHHeEEEECCeECCCCCcHHHcCCCCC------CE
Confidence            4578889955 579999999999999999998  55         999999999999999999999999998      78


Q ss_pred             EEEEec
Q 034110           87 MHVVVQ   92 (103)
Q Consensus        87 ~hlv~~   92 (103)
                      +|++.|
T Consensus        65 l~l~~~   70 (70)
T cd01798          65 LHAVRR   70 (70)
T ss_pred             EEEEeC
Confidence            999875

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.

>PTZ00044 ubiquitin; Provisional

Probab=99.75  E-value=9.5e-18  Score=104.48  Aligned_cols=73  Identities=25%  Similarity=0.400  Sum_probs=65.8

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceE
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVI   85 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~   85 (103)
                      +|.||..+|.. ..+++++++||++||++|++.  +|         +++|||+|+|+.|+|+.+|++|++.++      .
T Consensus         2 ~i~vk~~~G~~-~~l~v~~~~tv~~lK~~i~~~~gi~---------~~~q~L~~~g~~L~d~~~l~~~~i~~~------~   65 (76)
T PTZ00044          2 QILIKTLTGKK-QSFNFEPDNTVQQVKMALQEKEGID---------VKQIRLIYSGKQMSDDLKLSDYKVVPG------S   65 (76)
T ss_pred             EEEEEeCCCCE-EEEEECCCCcHHHHHHHHHHHHCCC---------HHHeEEEECCEEccCCCcHHHcCCCCC------C
Confidence            57788999965 478999999999999999999  55         999999999999999999999999988      6


Q ss_pred             EEEEEecCCCC
Q 034110           86 IMHVVVQPSLA   96 (103)
Q Consensus        86 t~hlv~~~~~~   96 (103)
                      ++|++++..++
T Consensus        66 ~i~l~~~~~gg   76 (76)
T PTZ00044         66 TIHMVLQLRGG   76 (76)
T ss_pred             EEEEEEEccCC
Confidence            89999987653

>cd01791 Ubl5 UBL5 ubiquitin-like modifier

Probab=99.73  E-value=1.4e-17  Score=104.63  Aligned_cols=69  Identities=17%  Similarity=0.231  Sum_probs=62.0

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCce
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGV   84 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~   84 (103)
                      +.|.|+...|+.+ .+++++++||++||++|++.  +|         +++|||||+|++|+|+.+|++|+|.+|      
T Consensus         2 ~~i~vkt~~Gk~~-~~~v~~~~TV~~LK~~I~~~~~~~---------~~~qrLi~~Gk~L~D~~tL~~ygi~~~------   65 (73)
T cd01791           2 IEVVCNDRLGKKV-RVKCNPDDTIGDLKKLIAAQTGTR---------PEKIVLKKWYTIFKDHISLGDYEIHDG------   65 (73)
T ss_pred             EEEEEECCCCCEE-EEEeCCCCcHHHHHHHHHHHhCCC---------hHHEEEEeCCcCCCCCCCHHHcCCCCC------
Confidence            5788899889665 68999999999999999988  55         999999999999999999999999999      


Q ss_pred             EEEEEEe
Q 034110           85 IIMHVVV   91 (103)
Q Consensus        85 ~t~hlv~   91 (103)
                      +++||.-
T Consensus        66 stv~l~~   72 (73)
T cd01791          66 MNLELYY   72 (73)
T ss_pred             CEEEEEe
Confidence            7899853

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.

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

Probab=99.73  E-value=1.5e-17  Score=104.48  Aligned_cols=69  Identities=20%  Similarity=0.396  Sum_probs=62.6

Q ss_pred             CCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEEEEEEec
Q 034110           15 DGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIMHVVVQ   92 (103)
Q Consensus        15 ~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t~hlv~~   92 (103)
                      +| +++++++++++||++||++|++.  +|         ++.|+|+|+|+.|+|+.+|++|+|.+|      .++|++++
T Consensus         6 ~g-~~~~l~v~~~~TV~~lK~~i~~~~gip---------~~~q~L~~~G~~L~d~~tL~~~~i~~g------~~l~v~~~   69 (76)
T cd01800           6 NG-QMLNFTLQLSDPVSVLKVKIHEETGMP---------AGKQKLQYEGIFIKDSNSLAYYNLANG------TIIHLQLK   69 (76)
T ss_pred             CC-eEEEEEECCCCcHHHHHHHHHHHHCCC---------HHHEEEEECCEEcCCCCcHHHcCCCCC------CEEEEEEe
Confidence            56 45689999999999999999988  65         999999999999999999999999999      68999999


Q ss_pred             CCCCCCc
Q 034110           93 PSLAKTK   99 (103)
Q Consensus        93 ~~~~~k~   99 (103)
                      +.++.||
T Consensus        70 ~~gg~~~   76 (76)
T cd01800          70 ERGGRKK   76 (76)
T ss_pred             cCCCcCC
Confidence            9887775

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.

>cd01806 Nedd8 Nebb8-like ubiquitin protein

Probab=99.72  E-value=4.9e-17  Score=100.60  Aligned_cols=73  Identities=26%  Similarity=0.431  Sum_probs=65.4

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceE
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVI   85 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~   85 (103)
                      .|.|+..+|+.+ .+++++++||++||++|++.  +|         ++.|||+|+|+.|+|+.+|++|++.+|      .
T Consensus         2 ~i~v~~~~g~~~-~~~v~~~~tv~~lK~~i~~~~g~~---------~~~qrL~~~g~~L~d~~tl~~~~i~~g------~   65 (76)
T cd01806           2 LIKVKTLTGKEI-EIDIEPTDKVERIKERVEEKEGIP---------PQQQRLIYSGKQMNDDKTAADYKLEGG------S   65 (76)
T ss_pred             EEEEEeCCCCEE-EEEECCCCCHHHHHHHHhHhhCCC---------hhhEEEEECCeEccCCCCHHHcCCCCC------C
Confidence            578889999664 79999999999999999988  55         999999999999999999999999999      6


Q ss_pred             EEEEEecCCCC
Q 034110           86 IMHVVVQPSLA   96 (103)
Q Consensus        86 t~hlv~~~~~~   96 (103)
                      ++|++++..++
T Consensus        66 ~i~l~~~~~gg   76 (76)
T cd01806          66 VLHLVLALRGG   76 (76)
T ss_pred             EEEEEEEccCC
Confidence            89999986553

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.

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

Probab=99.71  E-value=5.4e-17  Score=100.44  Aligned_cols=71  Identities=21%  Similarity=0.386  Sum_probs=61.6

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEE
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVII   86 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t   86 (103)
                      +.|.|+..+|. . .+++++++||++||++|++...     +|  +++|||+|+||.|+|+.+|++|++.+|      ++
T Consensus         1 ~~i~vk~~~g~-~-~l~v~~~~TV~~lK~~I~~~~~-----i~--~~~~~Li~~Gk~L~d~~tL~~~~i~~~------st   65 (71)
T cd01808           1 IKVTVKTPKDK-E-EIEIAEDASVKDFKEAVSKKFK-----AN--QEQLVLIFAGKILKDTDTLTQHNIKDG------LT   65 (71)
T ss_pred             CEEEEEcCCCC-E-EEEECCCChHHHHHHHHHHHhC-----CC--HHHEEEEECCeEcCCCCcHHHcCCCCC------CE
Confidence            35778888884 3 7899999999999999998831     22  999999999999999999999999988      68


Q ss_pred             EEEEec
Q 034110           87 MHVVVQ   92 (103)
Q Consensus        87 ~hlv~~   92 (103)
                      +|++++
T Consensus        66 l~l~~~   71 (71)
T cd01808          66 VHLVIK   71 (71)
T ss_pred             EEEEEC
Confidence            999875

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.

>cd01804 midnolin_N Ubiquitin-like domain of midnolin

Probab=99.70  E-value=8.4e-17  Score=101.74  Aligned_cols=73  Identities=16%  Similarity=0.227  Sum_probs=64.4

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCce
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGV   84 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~   84 (103)
                      ..|.|+...|+. .++++++++||++||++|++.  +|         +++|||+|+|+.|+|+ +|++|||.+|      
T Consensus         2 m~I~Vk~~~G~~-~~l~v~~~~TV~~LK~~I~~~~~~~---------~~~qrL~~~Gk~L~d~-~L~~~gi~~~------   64 (78)
T cd01804           2 MNLNIHSTTGTR-FDLSVPPDETVEGLKKRISQRLKVP---------KERLALLHRETRLSSG-KLQDLGLGDG------   64 (78)
T ss_pred             eEEEEEECCCCE-EEEEECCcCHHHHHHHHHHHHhCCC---------hHHEEEEECCcCCCCC-cHHHcCCCCC------
Confidence            468889999965 579999999999999999988  55         9999999999999999 9999999998      


Q ss_pred             EEEEEEecCCCC
Q 034110           85 IIMHVVVQPSLA   96 (103)
Q Consensus        85 ~t~hlv~~~~~~   96 (103)
                      .++|++....++
T Consensus        65 ~~i~l~~~~~~~   76 (78)
T cd01804          65 SKLTLVPTVEAG   76 (78)
T ss_pred             CEEEEEeecccc
Confidence            679998876543

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.

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

Probab=99.70  E-value=1.9e-16  Score=96.67  Aligned_cols=66  Identities=30%  Similarity=0.491  Sum_probs=59.9

Q ss_pred             EeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEEEEE
Q 034110           12 RLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIMHV   89 (103)
Q Consensus        12 ~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t~hl   89 (103)
                      |+.+|+ .+.+++++++||.+||++|++.  +|         ++.|+|+|+|+.|+|+.+|++|+|.+|      .+||+
T Consensus         1 k~~~g~-~~~~~v~~~~tV~~lK~~i~~~~~~~---------~~~~~L~~~G~~L~d~~tL~~~~i~~~------~~I~l   64 (69)
T PF00240_consen    1 KTLSGK-TFTLEVDPDDTVADLKQKIAEETGIP---------PEQQRLIYNGKELDDDKTLSDYGIKDG------STIHL   64 (69)
T ss_dssp             EETTSE-EEEEEEETTSBHHHHHHHHHHHHTST---------GGGEEEEETTEEESTTSBTGGGTTSTT------EEEEE
T ss_pred             CCCCCc-EEEEEECCCCCHHHhhhhcccccccc---------cccceeeeeeecccCcCcHHHcCCCCC------CEEEE
Confidence            467885 4589999999999999999999  55         999999999999999999999999999      78999


Q ss_pred             EecC
Q 034110           90 VVQP   93 (103)
Q Consensus        90 v~~~   93 (103)
                      ++++
T Consensus        65 ~~k~   68 (69)
T PF00240_consen   65 VIKP   68 (69)
T ss_dssp             EESS
T ss_pred             EEec
Confidence            8875

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

>cd01803 Ubiquitin Ubiquitin

Probab=99.70  E-value=1.2e-16  Score=98.86  Aligned_cols=73  Identities=23%  Similarity=0.382  Sum_probs=65.9

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceE
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVI   85 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~   85 (103)
                      .|.|+..+|+.+ .+++++++||++||++|++.  +|         ++.|||+|+|+.|+|+.+|++|++.+|      .
T Consensus         2 ~i~v~~~~g~~~-~~~v~~~~tV~~lK~~i~~~~g~~---------~~~q~L~~~g~~L~d~~~L~~~~i~~~------~   65 (76)
T cd01803           2 QIFVKTLTGKTI-TLEVEPSDTIENVKAKIQDKEGIP---------PDQQRLIFAGKQLEDGRTLSDYNIQKE------S   65 (76)
T ss_pred             EEEEEcCCCCEE-EEEECCcCcHHHHHHHHHHHhCCC---------HHHeEEEECCEECCCCCcHHHcCCCCC------C
Confidence            577888999665 68999999999999999998  66         999999999999999999999999988      6


Q ss_pred             EEEEEecCCCC
Q 034110           86 IMHVVVQPSLA   96 (103)
Q Consensus        86 t~hlv~~~~~~   96 (103)
                      ++|++++..++
T Consensus        66 ~i~l~~~~~gg   76 (76)
T cd01803          66 TLHLVLRLRGG   76 (76)
T ss_pred             EEEEEEEccCC
Confidence            89999997764

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

>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein

Probab=99.69  E-value=1.9e-16  Score=96.97  Aligned_cols=72  Identities=31%  Similarity=0.502  Sum_probs=62.6

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEE
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVII   86 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t   86 (103)
                      +.|.++..+|.. ..+++++++||.+||++|++.+     ++|  ++.|||+|+|+.|+|+.+|++|++.+|      ++
T Consensus         1 i~i~vk~~~g~~-~~~~v~~~~tv~~lK~~i~~~~-----gi~--~~~q~L~~~g~~L~d~~~L~~~~i~~~------~~   66 (72)
T cd01809           1 IEIKVKTLDSQT-HTFTVEEEITVLDLKEKIAEEV-----GIP--VEQQRLIYSGRVLKDDETLSEYKVEDG------HT   66 (72)
T ss_pred             CEEEEEeCCCCE-EEEEECCCCcHHHHHHHHHHHH-----CcC--HHHeEEEECCEECCCcCcHHHCCCCCC------CE
Confidence            467888899954 5799999999999999999882     122  999999999999999999999999998      68


Q ss_pred             EEEEec
Q 034110           87 MHVVVQ   92 (103)
Q Consensus        87 ~hlv~~   92 (103)
                      +|++.+
T Consensus        67 l~l~~~   72 (72)
T cd01809          67 IHLVKR   72 (72)
T ss_pred             EEEEeC
Confidence            999864

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.

>cd01805 RAD23_N Ubiquitin-like domain of RAD23

Probab=99.68  E-value=2.9e-16  Score=97.81  Aligned_cols=74  Identities=28%  Similarity=0.323  Sum_probs=61.1

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEEE
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIM   87 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t~   87 (103)
                      .|.++..+|.. +.+++++++||.+||++|++.+     +++..+++|||+|+|+.|+|+.+|++|+|.+|      .++
T Consensus         2 ~i~vk~~~g~~-~~l~v~~~~TV~~lK~~i~~~~-----~i~~~~~~q~L~~~G~~L~d~~~L~~~~i~~~------~~i   69 (77)
T cd01805           2 KITFKTLKQQT-FPIEVDPDDTVAELKEKIEEEK-----GCDYPPEQQKLIYSGKILKDDTTLEEYKIDEK------DFV   69 (77)
T ss_pred             EEEEEeCCCCE-EEEEECCCCcHHHHHHHHHHhh-----CCCCChhHeEEEECCEEccCCCCHHHcCCCCC------CEE
Confidence            57788899955 5799999999999999999982     12001999999999999999999999999998      467


Q ss_pred             EEEecC
Q 034110           88 HVVVQP   93 (103)
Q Consensus        88 hlv~~~   93 (103)
                      |++++.
T Consensus        70 ~~~~~~   75 (77)
T cd01805          70 VVMVSK   75 (77)
T ss_pred             EEEEec
Confidence            776653

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).

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

Probab=99.67  E-value=2.4e-16  Score=99.80  Aligned_cols=72  Identities=24%  Similarity=0.356  Sum_probs=64.8

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEE--EecCeecCCCCcccccCCCCCCCCC
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKL--ISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrL--I~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      ++|.|+..+|+.+ .+++++++||++||++|++.  +|         +++|||  +|.|++|+|+.+|++|+|.+|    
T Consensus         3 ~~i~Vk~~~G~~~-~~~v~~~~TV~~lK~~I~~~~~i~---------~~~qrL~~~~~G~~L~D~~tL~~~gi~~g----   68 (80)
T cd01792           3 WDLKVKMLGGNEF-LVSLRDSMTVSELKQQIAQKIGVP---------AFQQRLAHLDSREVLQDGVPLVSQGLGPG----   68 (80)
T ss_pred             eEEEEEeCCCCEE-EEEcCCCCcHHHHHHHHHHHhCCC---------HHHEEEEeccCCCCCCCCCCHHHcCCCCC----
Confidence            6889999999665 68999999999999999988  55         999999  999999999999999999998    


Q ss_pred             ceEEEEEEecCC
Q 034110           83 GVIIMHVVVQPS   94 (103)
Q Consensus        83 ~~~t~hlv~~~~   94 (103)
                        .++|++++..
T Consensus        69 --s~l~l~~~~~   78 (80)
T cd01792          69 --STVLLVVQNC   78 (80)
T ss_pred             --CEEEEEEEcc
Confidence              6789988754

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.

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

Probab=99.67  E-value=1.9e-16  Score=98.38  Aligned_cols=65  Identities=14%  Similarity=0.193  Sum_probs=57.2

Q ss_pred             EEEEeC-CCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCC-CcccccCCCCCCCCCce
Q 034110            9 IKFRLY-DGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENN-KTVGQCKIPYGEVPGGV   84 (103)
Q Consensus         9 l~~~~~-~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~-~tL~~~~i~~g~~~~~~   84 (103)
                      |+|++. +|. ...+++++++||++||++|++.  +|         +++|||||+||.|+|+ .+|++|+|.+|      
T Consensus         1 l~v~~~~~g~-~~~l~v~~~~TV~~lK~~I~~~~gip---------~~~q~Li~~Gk~L~D~~~~L~~~gi~~~------   64 (71)
T cd01796           1 ITVYTARSET-TFSLDVDPDLELENFKALCEAESGIP---------ASQQQLIYNGRELVDNKRLLALYGVKDG------   64 (71)
T ss_pred             CEEEECCCCC-EEEEEECCcCCHHHHHHHHHHHhCCC---------HHHeEEEECCeEccCCcccHHHcCCCCC------
Confidence            568888 774 4589999999999999999988  55         9999999999999887 68999999999      


Q ss_pred             EEEEE
Q 034110           85 IIMHV   89 (103)
Q Consensus        85 ~t~hl   89 (103)
                      .++||
T Consensus        65 ~~l~l   69 (71)
T cd01796          65 DLVVL   69 (71)
T ss_pred             CEEEE
Confidence            56776

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.

>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP

Probab=99.60  E-value=1.3e-15  Score=96.49  Aligned_cols=57  Identities=28%  Similarity=0.443  Sum_probs=48.1

Q ss_pred             CcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEEEEEEec
Q 034110           26 SASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIMHVVVQ   92 (103)
Q Consensus        26 ~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t~hlv~~   92 (103)
                      .++||.+||++|++.++   +.+| .+++|||||+||+|+|+.||++|+|.+|      .++||+.+
T Consensus        19 ~~~TV~~LK~kI~~~~~---egi~-~~dqQrLIy~GKiL~D~~TL~dygI~~g------stlhLv~~   75 (75)
T cd01815          19 GGYQVSTLKQLIAAQLP---DSLP-DPELIDLIHCGRKLKDDQTLDFYGIQSG------STIHILRK   75 (75)
T ss_pred             ccCcHHHHHHHHHHhhc---cCCC-ChHHeEEEeCCcCCCCCCcHHHcCCCCC------CEEEEEeC
Confidence            46799999999999853   2221 1889999999999999999999999999      68999753

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

>cd01812 BAG1_N Ubiquitin-like domain of BAG1

Probab=99.59  E-value=5.6e-15  Score=90.48  Aligned_cols=67  Identities=21%  Similarity=0.245  Sum_probs=58.6

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCce
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGV   84 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~   84 (103)
                      |.|+++.. | ....+++++++||++||++|++.  +|         +++|||+|+|+.|+|+.+|++|++.+|      
T Consensus         1 i~i~vk~~-g-~~~~i~v~~~~tv~~lK~~i~~~~gi~---------~~~q~L~~~g~~l~d~~~L~~~~i~~g------   63 (71)
T cd01812           1 IRVRVKHG-G-ESHDLSISSQATFGDLKKMLAPVTGVE---------PRDQKLIFKGKERDDAETLDMSGVKDG------   63 (71)
T ss_pred             CEEEEEEC-C-EEEEEEECCCCcHHHHHHHHHHhhCCC---------hHHeEEeeCCcccCccCcHHHcCCCCC------
Confidence            45777776 6 45689999999999999999988  65         999999999999999999999999998      


Q ss_pred             EEEEEE
Q 034110           85 IIMHVV   90 (103)
Q Consensus        85 ~t~hlv   90 (103)
                      .++|++
T Consensus        64 ~~l~v~   69 (71)
T cd01812          64 SKVMLL   69 (71)
T ss_pred             CEEEEe
Confidence            567775

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).

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

Probab=99.59  E-value=1.5e-15  Score=92.44  Aligned_cols=69  Identities=25%  Similarity=0.457  Sum_probs=61.3

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEEE
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIM   87 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t~   87 (103)
                      .|++++.+|+.| .++++|+++|.++|++|++.     |++|  |.+|||||+||++.|+.|-++|++.-|      +.+
T Consensus         2 ~iKvktLt~KeI-eidIep~DkverIKErvEEk-----eGIP--p~qqrli~~gkqm~DD~tA~~Y~~~~G------SVl   67 (70)
T KOG0005|consen    2 LIKVKTLTGKEI-EIDIEPTDKVERIKERVEEK-----EGIP--PQQQRLIYAGKQMNDDKTAAHYNLLGG------SVL   67 (70)
T ss_pred             eeeEeeeccceE-EEeeCcchHHHHHHHHhhhh-----cCCC--chhhhhhhccccccccccHHHhhhccc------eeE
Confidence            478888999887 79999999999999999998     3344  999999999999999999999999977      678


Q ss_pred             EEE
Q 034110           88 HVV   90 (103)
Q Consensus        88 hlv   90 (103)
                      |++
T Consensus        68 Hlv   70 (70)
T KOG0005|consen   68 HLV   70 (70)
T ss_pred             eeC
Confidence            975

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

Probab=99.56  E-value=3.1e-15  Score=105.60  Aligned_cols=76  Identities=24%  Similarity=0.379  Sum_probs=65.3

Q ss_pred             EEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEEEEEE
Q 034110           11 FRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIMHVV   90 (103)
Q Consensus        11 ~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t~hlv   90 (103)
                      +....|+.+ .+++++++||..+|++|++.     |.||  +++|||||+|+.|+|+.+|+||+|+..      .|+||+
T Consensus         5 Vk~l~~kti-~~eve~~~ti~~~Kakiq~~-----egIp--~dqqrlifag~qLedgrtlSDY~Iqke------stl~l~   70 (156)
T KOG0004|consen    5 VKTLTGKTI-TLEVEANDTIDNVKAKIQDK-----EGIP--PDQQRLIFAGKQLEDGRTLSDYNIQKE------STLHLV   70 (156)
T ss_pred             hhhccccce-eeeecccccHHHHHHhhhcc-----cCCC--chhhhhhhhhcccccCCcccccccccc------ceEEEE
Confidence            344566444 58999999999999999966     4455  999999999999999999999999977      899999


Q ss_pred             ecCCCCCCcC
Q 034110           91 VQPSLAKTKT  100 (103)
Q Consensus        91 ~~~~~~~k~~  100 (103)
                      ++..++++|.
T Consensus        71 l~l~Gg~kkr   80 (156)
T KOG0004|consen   71 LRLRGGAKKR   80 (156)
T ss_pred             EEecCCcccc
Confidence            9999887774

>cd01763 Sumo Small ubiquitin-related modifier (SUMO)

Probab=99.55  E-value=5.9e-14  Score=90.31  Aligned_cols=77  Identities=16%  Similarity=0.323  Sum_probs=69.6

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVP   81 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~   81 (103)
                      ...|.|+++..+|+.+ .+++.+++++..||+.+++.  +|         +++|||+|.|+.|+|+.|+++|++.+|   
T Consensus         9 ~~~i~I~v~~~~g~~~-~~~v~~~~~l~~l~~~y~~~~gi~---------~~~~rf~f~G~~L~~~~T~~~l~m~d~---   75 (87)
T cd01763           9 SEHINLKVKGQDGNEV-FFKIKRSTPLKKLMEAYCQRQGLS---------MNSVRFLFDGQRIRDNQTPDDLGMEDG---   75 (87)
T ss_pred             CCeEEEEEECCCCCEE-EEEEcCCCHHHHHHHHHHHHhCCC---------ccceEEEECCeECCCCCCHHHcCCCCC---
Confidence            5789999999999665 68999999999999999988  55         899999999999999999999999999   


Q ss_pred             CceEEEEEEecCCCC
Q 034110           82 GGVIIMHVVVQPSLA   96 (103)
Q Consensus        82 ~~~~t~hlv~~~~~~   96 (103)
                         .++|++++..++
T Consensus        76 ---d~I~v~l~l~GG   87 (87)
T cd01763          76 ---DEIEVMLEQTGG   87 (87)
T ss_pred             ---CEEEEEEecccC
Confidence               579999887764

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.

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

Probab=99.55  E-value=1e-14  Score=117.93  Aligned_cols=75  Identities=25%  Similarity=0.354  Sum_probs=65.0

Q ss_pred             eEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceE
Q 034110            6 LIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVI   85 (103)
Q Consensus         6 ~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~   85 (103)
                      .+.|+++..+++  +.+.|..+.||.+||+.|+..+-     .  .+++++|||+||+|+|++||..|+|.+|      .
T Consensus        15 ~irV~Vkt~~dk--~~~~V~~~ssV~qlKE~I~~~f~-----a--~~dqlvLIfaGrILKD~dTL~~~gI~Dg------~   79 (493)
T KOG0010|consen   15 LIRVTVKTPKDK--YEVNVASDSSVLQLKELIAQRFG-----A--PPDQLVLIYAGRILKDDDTLKQYGIQDG------H   79 (493)
T ss_pred             eeEEEEecCCcc--eeEecccchHHHHHHHHHHHhcC-----C--ChhHeeeeecCccccChhhHHHcCCCCC------c
Confidence            367777777773  57899999999999999999932     1  1999999999999999999999999999      8


Q ss_pred             EEEEEecCCC
Q 034110           86 IMHVVVQPSL   95 (103)
Q Consensus        86 t~hlv~~~~~   95 (103)
                      |||||++...
T Consensus        80 TvHLVik~~~   89 (493)
T KOG0010|consen   80 TVHLVIKSQP   89 (493)
T ss_pred             EEEEEeccCC
Confidence            9999998663

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

Probab=99.50  E-value=2.7e-15  Score=100.82  Aligned_cols=71  Identities=24%  Similarity=0.396  Sum_probs=61.8

Q ss_pred             EeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEEEEEEe
Q 034110           12 RLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIMHVVV   91 (103)
Q Consensus        12 ~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t~hlv~   91 (103)
                      +...|+.+ .++++|++||.+||++|...     +++|  +++|+|||+||+|+|+.||++|+|...      .|+|++.
T Consensus         6 ~~~~GKT~-~le~EpS~ti~~vKA~i~~~-----~Gi~--~~~~~L~~~~k~LED~~Tla~Y~i~~~------~Tl~~~~   71 (128)
T KOG0003|consen    6 KTLTGKTI-TLEVEPSDTIDNVKAKIQDK-----EGIP--PDQQRLIFAGKQLEDGRTLADYNIQKE------STLHLVL   71 (128)
T ss_pred             EEeeCceE-EEEecccchHHHHHHHhccc-----cCCC--HHHHHHHhcccccccCCcccccCccch------hhhhhhH
Confidence            34578665 58999999999999999877     3344  999999999999999999999999976      7899999


Q ss_pred             cCCCC
Q 034110           92 QPSLA   96 (103)
Q Consensus        92 ~~~~~   96 (103)
                      +..++
T Consensus        72 rL~GG   76 (128)
T KOG0003|consen   72 RLRGG   76 (128)
T ss_pred             HHhcC
Confidence            98876

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=99.50  E-value=9.7e-14  Score=110.05  Aligned_cols=67  Identities=33%  Similarity=0.429  Sum_probs=57.2

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCC
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGE   79 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~   79 (103)
                      .|+||+.+|+. +.+++++++||.+||++|++...  .+.+|  +++|||||+||+|+|+.+|++|+|.+++
T Consensus         2 kItVKtl~g~~-~~IeV~~~~TV~dLK~kI~~~~g--~~~ip--~~~QkLIy~GkiL~Dd~tL~dy~I~e~~   68 (378)
T TIGR00601         2 TLTFKTLQQQK-FKIDMEPDETVKELKEKIEAEQG--KDAYP--VAQQKLIYSGKILSDDKTVREYKIKEKD   68 (378)
T ss_pred             EEEEEeCCCCE-EEEEeCCcChHHHHHHHHHHhhC--CCCCC--hhHeEEEECCEECCCCCcHHHcCCCCCC
Confidence            68889999955 57999999999999999998721  11133  9999999999999999999999999985

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).

>cd01813 UBP_N UBP ubiquitin processing protease

Probab=99.48  E-value=1.1e-13  Score=86.84  Aligned_cols=60  Identities=23%  Similarity=0.154  Sum_probs=51.6

Q ss_pred             EEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEe---cCeecCCCCcccccCCCCCC
Q 034110            9 IKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLIS---SGKILENNKTVGQCKIPYGE   79 (103)
Q Consensus         9 l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~---~Gk~L~D~~tL~~~~i~~g~   79 (103)
                      |.++. +| ..+++++++++||++||++|++.  +|         +++|||||   .|+.|+|+.+|++|+|.+|+
T Consensus         3 i~vk~-~g-~~~~v~v~~~~Tv~~lK~~i~~~tgvp---------~~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g~   67 (74)
T cd01813           3 VIVKW-GG-QEYSVTTLSEDTVLDLKQFIKTLTGVL---------PERQKLLGLKVKGKPAEDDVKISALKLKPNT   67 (74)
T ss_pred             EEEEE-CC-EEEEEEECCCCCHHHHHHHHHHHHCCC---------HHHEEEEeecccCCcCCCCcCHHHcCCCCCC
Confidence            34443 44 44689999999999999999998  66         99999997   99999999999999999983

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.

>smart00213 UBQ Ubiquitin homologues

Probab=99.45  E-value=3.2e-13  Score=80.23  Aligned_cols=61  Identities=30%  Similarity=0.495  Sum_probs=53.9

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCC
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYG   78 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g   78 (103)
                      ++|+++..+ .. ..+++++++||++||++|++.  +|         ++.|+|+|+|+.|.|+.+|++|++.+|
T Consensus         1 ~~i~vk~~~-~~-~~~~v~~~~tv~~lk~~i~~~~~~~---------~~~~~L~~~g~~L~d~~tL~~~~i~~~   63 (64)
T smart00213        1 IELTVKTLD-GT-ITLEVKPSDTVSELKEKIAELTGIP---------VEQQRLIYKGKVLEDDRTLADYNIQDG   63 (64)
T ss_pred             CEEEEEECC-ce-EEEEECCCCcHHHHHHHHHHHHCCC---------HHHEEEEECCEECCCCCCHHHcCCcCC
Confidence            357788887 33 579999999999999999988  55         889999999999999999999999876

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

>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1

Probab=99.40  E-value=1.5e-12  Score=82.03  Aligned_cols=70  Identities=17%  Similarity=0.145  Sum_probs=54.6

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecC-CCCcccccCCC-CCCCCCce
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILE-NNKTVGQCKIP-YGEVPGGV   84 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~-D~~tL~~~~i~-~g~~~~~~   84 (103)
                      |+|.=+...|..+ .+++++++||++||++|++.     +++|  +++||| |.|+.|. |+.+|++|++. +|      
T Consensus         3 ~~~~~~~~~~~t~-~l~v~~~~TV~~lK~kI~~~-----~gip--~~~QrL-~~G~~L~dD~~tL~~ygi~~~g------   67 (75)
T cd01799           3 VSVEDAQSHTVTI-WLTVRPDMTVAQLKDKVFLD-----YGFP--PAVQRW-VIGQRLARDQETLYSHGIRTNG------   67 (75)
T ss_pred             EEEeccccCCCeE-EEEECCCCcHHHHHHHHHHH-----HCcC--HHHEEE-EcCCeeCCCcCCHHHcCCCCCC------
Confidence            3444455666454 69999999999999999988     2233  999999 9999984 77999999998 55      


Q ss_pred             EEEEEEe
Q 034110           85 IIMHVVV   91 (103)
Q Consensus        85 ~t~hlv~   91 (103)
                      .++||-+
T Consensus        68 ~~~~l~~   74 (75)
T cd01799          68 DSAFLYI   74 (75)
T ss_pred             CEEEEEe
Confidence            5678753

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.

>cd01769 UBL Ubiquitin-like domain of UBL

Probab=99.31  E-value=9.7e-12  Score=74.61  Aligned_cols=67  Identities=31%  Similarity=0.480  Sum_probs=55.3

Q ss_pred             EEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEEEEEE
Q 034110           11 FRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIMHVV   90 (103)
Q Consensus        11 ~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t~hlv   90 (103)
                      ++..+|..+ .+.+++++||++||++|+..+.     +|  ++.|+|+|+|+.|+|+.+|++|++.++      .++|+.
T Consensus         2 v~~~~~~~~-~~~~~~~~ti~~lK~~i~~~~~-----~~--~~~~~l~~~g~~l~d~~~l~~~~v~~~------~~i~v~   67 (69)
T cd01769           2 VKTLTGKTF-ELEVSPDDTVAELKAKIAAKEG-----VP--PEQQRLIYAGKILKDDKTLSDYGIQDG------STLHLV   67 (69)
T ss_pred             eEccCCCEE-EEEECCCChHHHHHHHHHHHHC-----cC--hHHEEEEECCcCCCCcCCHHHCCCCCC------CEEEEE
Confidence            344567554 6899999999999999999832     22  899999999999999999999999988      457765


Q ss_pred             e
Q 034110           91 V   91 (103)
Q Consensus        91 ~   91 (103)
                      .
T Consensus        68 ~   68 (69)
T cd01769          68 L   68 (69)
T ss_pred             E
Confidence            3

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.

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

Probab=99.26  E-value=1.2e-11  Score=96.26  Aligned_cols=67  Identities=25%  Similarity=0.373  Sum_probs=58.7

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCC
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEV   80 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~   80 (103)
                      .|+||+..|..+ .+++.|+.||..||.+|+...-  .+ .|  ++.|+|||+||+|.|+.|+.+|++.+++|
T Consensus         2 ~lt~KtL~q~~F-~iev~Pe~tV~evK~kIet~~g--~d-yP--~~~QkLIy~GkiL~D~~tv~Eykv~E~~f   68 (340)
T KOG0011|consen    2 KLTVKTLKQQTF-TIEVKPEDTVVEVKKKIETEKG--PD-YP--AEQQKLIYSGKILKDETTVGEYKVKEKKF   68 (340)
T ss_pred             eeEeeeccCcee-EeecCcchhHHHHHHHHHhccC--CC-Cc--hhhheeeecceeccCCcchhhhccccCce
Confidence            589999999665 8999999999999999998811  11 23  99999999999999999999999999976

>cd01795 USP48_C USP ubiquitin-specific protease

Probab=99.14  E-value=1.4e-10  Score=77.04  Aligned_cols=59  Identities=20%  Similarity=0.236  Sum_probs=52.3

Q ss_pred             eEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeec-CCCCcccccCCCCCCCCCceEEEEEEecCC
Q 034110           21 PFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKIL-ENNKTVGQCKIPYGEVPGGVIIMHVVVQPS   94 (103)
Q Consensus        21 ~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L-~D~~tL~~~~i~~g~~~~~~~t~hlv~~~~   94 (103)
                      .++|++++||.+||.+|+..  .|         |+.|+|+|.|+.| +|..||++|||..+      ++++|.+..+
T Consensus        18 ~L~V~~~~TVg~LK~lImQ~f~V~---------P~dQkL~~dG~~L~DDsrTLssyGv~sg------Svl~LlideP   79 (107)
T cd01795          18 ALLVSANQTLKELKIQIMHAFSVA---------PFDQNLSIDGKILSDDCATLGTLGVIPE------SVILLKADEP   79 (107)
T ss_pred             eEEeCccccHHHHHHHHHHHhcCC---------cccceeeecCceeccCCccHHhcCCCCC------CEEEEEecCC
Confidence            58999999999999999999  55         9999999999999 57799999999988      6788887644

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

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

Probab=99.12  E-value=1.2e-10  Score=100.70  Aligned_cols=73  Identities=22%  Similarity=0.440  Sum_probs=66.0

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceE
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVI   85 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~   85 (103)
                      +|++++.|. .+..+.+...+||.++|++|+++  ||         .+-|||||+||+|.|++++.+|+| +|      -
T Consensus         4 ~v~vktld~-r~~t~~ig~q~ti~~~~d~~r~~~ni~---------s~~qr~i~~grvl~~~k~vq~~~v-dg------k   66 (1143)
T KOG4248|consen    4 NVLVKTLDS-RTRTFIIGAQMTIKEFKDHIRASVNIP---------SEKQRLIYQGRVLQDDKKVQEYNV-DG------K   66 (1143)
T ss_pred             ceeeeeccc-ceeEEEechHHHHHHHHHHHHHhcccc---------cccceeeecceeeccchhhhhccC-CC------e
Confidence            488999999 56789999999999999999999  66         999999999999999999999999 67      5


Q ss_pred             EEEEEecCCCCC
Q 034110           86 IMHVVVQPSLAK   97 (103)
Q Consensus        86 t~hlv~~~~~~~   97 (103)
                      ++|||-|++++.
T Consensus        67 ~~hlverppp~~   78 (1143)
T KOG4248|consen   67 VIHLVERPPPQT   78 (1143)
T ss_pred             EEEeeccCCCCc
Confidence            799999977653

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

Probab=99.09  E-value=1.1e-09  Score=70.12  Aligned_cols=71  Identities=20%  Similarity=0.296  Sum_probs=54.6

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEE-EecCe-----ec-CCCCcccccCCCC
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKL-ISSGK-----IL-ENNKTVGQCKIPY   77 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrL-I~~Gk-----~L-~D~~tL~~~~i~~   77 (103)
                      +.|.+............+++++||.+||++++..  .|         ++.||| +|.|+     .| +|+.+|++|++.+
T Consensus         2 v~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~---------~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~d   72 (84)
T cd01789           2 VTVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTP---------ASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDD   72 (84)
T ss_pred             EEEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCC---------ccceEEEEEcCCCCeEeecCCCccEeeeccCCC
Confidence            3444444332233345599999999999999988  55         999999 58999     46 8889999999999


Q ss_pred             CCCCCceEEEEEEec
Q 034110           78 GEVPGGVIIMHVVVQ   92 (103)
Q Consensus        78 g~~~~~~~t~hlv~~   92 (103)
                      |      .+||++=.
T Consensus        73 g------~~IhVvD~   81 (84)
T cd01789          73 G------CRIHVIDV   81 (84)
T ss_pred             C------CEEEEEeC
Confidence            9      78998643

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

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

Probab=99.08  E-value=1e-09  Score=67.38  Aligned_cols=69  Identities=32%  Similarity=0.442  Sum_probs=58.4

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCC-cceEEEecCeecCCCCcccccCCCCCCCCCc
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAV-TEIKLISSGKILENNKTVGQCKIPYGEVPGG   83 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~-~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~   83 (103)
                      ++|+++..+|+. ..+.+.+++++..|++.+++.  +|         + +.++|+|.|+.|++++|++++++.+|     
T Consensus         1 I~i~v~~~~~~~-~~~~v~~~~~~~~l~~~~~~~~~i~---------~~~~~~l~fdG~~L~~~~T~~~~~ied~-----   65 (72)
T PF11976_consen    1 ITIKVRSQDGKE-IKFKVKPTTTVSKLIEKYCEKKGIP---------PEESIRLIFDGKRLDPNDTPEDLGIEDG-----   65 (72)
T ss_dssp             EEEEEEETTSEE-EEEEEETTSCCHHHHHHHHHHHTTT---------T-TTEEEEETTEEE-TTSCHHHHT-STT-----
T ss_pred             CEEEEEeCCCCE-EEEEECCCCcHHHHHHHHHHhhCCC---------ccceEEEEECCEEcCCCCCHHHCCCCCC-----
Confidence            568888899964 478999999999999999988  55         6 99999999999999999999999999     


Q ss_pred             eEEEEEEe
Q 034110           84 VIIMHVVV   91 (103)
Q Consensus        84 ~~t~hlv~   91 (103)
                       .++|+++
T Consensus        66 -d~Idv~I   72 (72)
T PF11976_consen   66 -DTIDVII   72 (72)
T ss_dssp             -EEEEEE-
T ss_pred             -CEEEEEC
Confidence             5688763

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 ....

>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13

Probab=98.86  E-value=6.1e-09  Score=65.34  Aligned_cols=61  Identities=26%  Similarity=0.353  Sum_probs=46.5

Q ss_pred             CeeeeEEe-CCcchHHHHHHHHHhhCCCCCccCCCCCcceEE--EecCeecCCCCcccccCCCCCCCCCceEEEEE
Q 034110           17 SDIGPFRY-SSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKL--ISSGKILENNKTVGQCKIPYGEVPGGVIIMHV   89 (103)
Q Consensus        17 ~~~~~~~v-~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrL--I~~Gk~L~D~~tL~~~~i~~g~~~~~~~t~hl   89 (103)
                      +.+..+++ +++.||.+||+.|++.++    ..+  ++.|||  ++.|+.|.|+++|+++++.+|      .++|+
T Consensus        11 k~~~~~~~~~~~aTV~dlk~~i~~~~~----~~~--~~Rqrl~~~~~g~~L~d~~tL~~~gv~~g------~~lyv   74 (77)
T cd01801          11 KPIGKLKVSSGDATIADLKKLIAKSSP----QLT--VNRQSLRLEPKGKSLKDDDTLVDLGVGAG------ATLYV   74 (77)
T ss_pred             CceeecccCCCCccHHHHHHHHHHHcC----CCC--cceeEEEeCCCCcccCCcccHhhcCCCCC------CEEEE
Confidence            34443444 488999999999998732    111  888888  699999999999999999888      56664

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

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

Probab=98.85  E-value=4.4e-08  Score=57.89  Aligned_cols=69  Identities=29%  Similarity=0.493  Sum_probs=58.8

Q ss_pred             EEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEEE
Q 034110           10 KFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIM   87 (103)
Q Consensus        10 ~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t~   87 (103)
                      .+....|+.+ .+.+.++.+|..+|.+|+..  +|         ...|+|.|.|+.|+|+.+|.+|+|..+      .++
T Consensus         3 ~~~~~~gk~~-~~~~~~~~~i~~~k~~i~~~~~~~---------~~~q~~~~~~~~l~d~~~l~~~~i~~~------~~~   66 (75)
T KOG0001|consen    3 FVKTLDGKTI-TLEVSPSDTIEVVKAKIRDKEGIP---------VDQQRLIFGGKPLEDGRTLADYNIQEG------STL   66 (75)
T ss_pred             EEEecCCCEE-EEEecCCCHHHHHHHHHHhhcCCC---------CeeEEEEECCEECcCCCcHHHhCCCCC------CEE
Confidence            3444677554 68999999999999999988  55         899999999999999999999999988      678


Q ss_pred             EEEecCC
Q 034110           88 HVVVQPS   94 (103)
Q Consensus        88 hlv~~~~   94 (103)
                      |++.+..
T Consensus        67 ~l~~~~~   73 (75)
T KOG0001|consen   67 HLVLSLR   73 (75)
T ss_pred             EEEEecC
Confidence            9887654

>PLN02560 enoyl-CoA reductase

Probab=98.79  E-value=2.1e-08  Score=77.82  Aligned_cols=73  Identities=18%  Similarity=0.262  Sum_probs=57.9

Q ss_pred             EEEEEeCCCCee--eeEEeCCcchHHHHHHHHHhh---CCCCCccCCCCCcceEEEec---C----eecCCCCcccccCC
Q 034110            8 DIKFRLYDGSDI--GPFRYSSASTVDMLKQRIVSD---WPKGKTIVPKAVTEIKLISS---G----KILENNKTVGQCKI   75 (103)
Q Consensus         8 ~l~~~~~~g~~~--~~~~v~~~~tV~~lK~~i~~~---~p~~~e~~p~~~~~qrLI~~---G----k~L~D~~tL~~~~i   75 (103)
                      .|.++..+|+.+  ..+++++++||++||+.|++.   ++         +++|||++.   |    +.|+|+++|+++++
T Consensus         2 ~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~---------~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv   72 (308)
T PLN02560          2 KVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYY---------PSRQRLTLPLPPGKTRPTVLDDSKSLKDYGL   72 (308)
T ss_pred             EEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCC---------hhheEEEEecCCCCcCccccCCCCCHHhcCC
Confidence            356667788777  578999999999999999987   34         899999983   4    48999999999999


Q ss_pred             CCCCCCCceEEEEEEecCCCCC
Q 034110           76 PYGEVPGGVIIMHVVVQPSLAK   97 (103)
Q Consensus        76 ~~g~~~~~~~t~hlv~~~~~~~   97 (103)
                      .+|      ++++  ++-.|++
T Consensus        73 ~~g------stLy--~kDLGpQ   86 (308)
T PLN02560         73 GDG------GTVV--FKDLGPQ   86 (308)
T ss_pred             CCC------ceEE--EEeCCCc
Confidence            988      4554  5544443

>cd01788 ElonginB Ubiquitin-like domain of Elongin B

Probab=98.75  E-value=4.5e-08  Score=66.46  Aligned_cols=78  Identities=18%  Similarity=0.237  Sum_probs=58.5

Q ss_pred             eEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCC-CCce
Q 034110            6 LIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEV-PGGV   84 (103)
Q Consensus         6 ~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~-~~~~   84 (103)
                      ++.+++|-..- .| -+++.+++||.+||++|+.-+-     .|  +++|||+..+.+|+|++||++||+..... +..+
T Consensus         2 dvFlmIrR~KT-Ti-F~dakes~tVlelK~~iegI~k-----~p--p~dQrL~kd~qvLeD~kTL~d~g~t~~~akaq~p   72 (119)
T cd01788           2 DVFLMIRRHKT-TI-FTDAKESTTVYELKRIVEGILK-----RP--PEDQRLYKDDQLLDDGKTLGDCGFTSQTARPQAP   72 (119)
T ss_pred             ceEEEEEecce-EE-EeecCCcccHHHHHHHHHHHhc-----CC--hhHheeecCceeecccccHHHcCccccccccCCC
Confidence            45666665544 34 3699999999999999998732     22  99999997788999999999999965333 3344


Q ss_pred             EEEEEEec
Q 034110           85 IIMHVVVQ   92 (103)
Q Consensus        85 ~t~hlv~~   92 (103)
                      .++-|.++
T Consensus        73 A~vgLa~r   80 (119)
T cd01788          73 ATVGLAFR   80 (119)
T ss_pred             CeEEEEEe
Confidence            66777766

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

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

Probab=98.65  E-value=2.8e-07  Score=58.85  Aligned_cols=69  Identities=22%  Similarity=0.337  Sum_probs=52.1

Q ss_pred             EEEEEEeCCCC-eeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEec----C----eecCCCCcccccCC
Q 034110            7 IDIKFRLYDGS-DIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISS----G----KILENNKTVGQCKI   75 (103)
Q Consensus         7 v~l~~~~~~g~-~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~----G----k~L~D~~tL~~~~i   75 (103)
                      |.|.+.....+ ......+++++||.+||++|+..  +|         ++.|||.+.    |    ...+|..+|.+|++
T Consensus         2 v~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~---------~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~   72 (87)
T PF14560_consen    2 VKLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIP---------PSDMRLQLKSDKDDSKIEELDDDDATLGSYGI   72 (87)
T ss_dssp             EEEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS----------TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-
T ss_pred             EEEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCC---------cccEEEEEEecCCCccccccCCCccEeecCCC
Confidence            45555554432 24578999999999999999999  55         999999776    1    13378899999999


Q ss_pred             CCCCCCCceEEEEEE
Q 034110           76 PYGEVPGGVIIMHVV   90 (103)
Q Consensus        76 ~~g~~~~~~~t~hlv   90 (103)
                      .+|      .++|++
T Consensus        73 ~dg------~~i~V~   81 (87)
T PF14560_consen   73 KDG------MRIHVV   81 (87)
T ss_dssp             STT------EEEEEE
T ss_pred             CCC------CEEEEE
Confidence            999      788875

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

Probab=98.61  E-value=1.3e-07  Score=62.34  Aligned_cols=60  Identities=25%  Similarity=0.420  Sum_probs=46.4

Q ss_pred             EEEEeCCC-CeeeeEEeC--CcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccC
Q 034110            9 IKFRLYDG-SDIGPFRYS--SASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCK   74 (103)
Q Consensus         9 l~~~~~~g-~~~~~~~v~--~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~   74 (103)
                      |.+|+.++ .| .++++.  .++||..||..|.+.+|.+     ++-..+||||+||+|.|...|+..-
T Consensus         3 l~IRFs~sipD-l~L~I~~~~~~Tv~~LK~lIR~~~p~~-----~s~~rLRlI~~Gr~L~d~t~l~~~l   65 (97)
T PF10302_consen    3 LTIRFSDSIPD-LPLDIPSPNTTTVAWLKQLIRERLPPE-----PSRRRLRLIYAGRLLNDHTDLSSEL   65 (97)
T ss_pred             EEEEECCCCCC-ceeecCCCCcccHHHHHHHHHhhcCCC-----CccccEEeeecCcccCccchhhhhh
Confidence            44455553 34 367887  8899999999999998632     3477899999999999999887643

They contain a characteristic GFDRL sequence motif.

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

Probab=98.48  E-value=2.8e-07  Score=72.42  Aligned_cols=73  Identities=23%  Similarity=0.403  Sum_probs=59.3

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCce
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGV   84 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~   84 (103)
                      +-|.|+-.+.+...+++|+.+++|.+||+.++.+  +|         ++++|+||+||.|.|+.|+..|.+...      
T Consensus         3 ~lvqf~~~~~~h~l~v~v~~~t~I~~lke~Vak~~gvp---------~D~L~viFaGKeLs~~ttv~~cDL~qq------   67 (446)
T KOG0006|consen    3 VLVQFNKTGSSHGLPVEVDSDTSIFQLKEVVAKRQGVP---------ADQLRVIFAGKELSNDTTVQNCDLSQQ------   67 (446)
T ss_pred             EEEEeCCccccCceeEEEecCCCHHHHHHHHHHhhCCC---------hhheEEEEeccccccCceeeccccccc------
Confidence            4567765444445789999999999999999988  66         999999999999999999998887755      


Q ss_pred             EEEEEE-ecCC
Q 034110           85 IIMHVV-VQPS   94 (103)
Q Consensus        85 ~t~hlv-~~~~   94 (103)
                      +.+|++ +||.
T Consensus        68 s~~hi~~lRP~   78 (446)
T KOG0006|consen   68 SATHIMLLRPW   78 (446)
T ss_pred             chhhhhccCcc
Confidence            457776 5554

>cd00196 UBQ Ubiquitin-like proteins

Probab=98.32  E-value=4.1e-06  Score=46.55  Aligned_cols=64  Identities=25%  Similarity=0.342  Sum_probs=51.8

Q ss_pred             eCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEEEEEE
Q 034110           13 LYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIMHVV   90 (103)
Q Consensus        13 ~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t~hlv   90 (103)
                      +.+|.. ..+.+.+.+||.+||+.|.+.++     .  .++.++|.+.|..+.+...+.++++..+      .++|+.
T Consensus         4 ~~~~~~-~~~~~~~~~tv~~l~~~i~~~~~-----~--~~~~~~l~~~~~~~~~~~~~~~~~~~~~------~~i~~~   67 (69)
T cd00196           4 LNDGKT-VELLVPSGTTVADLKEKLAKKLG-----L--PPEQQRLLVNGKILPDSLTLEDYGLQDG------DELVLV   67 (69)
T ss_pred             ecCCCE-EEEEcCCCCcHHHHHHHHHHHHC-----c--ChHHeEEEECCeECCCCCcHHHcCCCCC------CEEEEE
Confidence            345633 46888899999999999999963     1  2899999999999999998888999888      456654

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.

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

Probab=98.08  E-value=9e-06  Score=51.79  Aligned_cols=66  Identities=23%  Similarity=0.334  Sum_probs=38.6

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEec---Ceec--CCCCcccccCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISS---GKIL--ENNKTVGQCKIPYGE   79 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~---Gk~L--~D~~tL~~~~i~~g~   79 (103)
                      +.+-||||-.+|..  -+++++++|+.+|+++|++.++     +|  .+.|.|...   ...|  .++.+|+++||..||
T Consensus         3 ~~milRvrS~dG~~--Rie~~~~~t~~~L~~kI~~~l~-----~~--~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGd   73 (80)
T PF11543_consen    3 SSMILRVRSKDGMK--RIEVSPSSTLSDLKEKISEQLS-----IP--DSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGD   73 (80)
T ss_dssp             ---EEEEE-SSEEE--EEEE-TTSBHHHHHHHHHHHS----------TTT---BSSGGGGGCSSS-TT-CCCCT---TT-
T ss_pred             ccEEEEEECCCCCE--EEEcCCcccHHHHHHHHHHHcC-----CC--CcceEEEecCCCCcccccCCcCCHHHcCCCCcc
Confidence            45779999999943  4799999999999999999943     11  445555221   1234  578999999999995

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.

>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=97.99  E-value=0.00018  Score=44.97  Aligned_cols=74  Identities=22%  Similarity=0.318  Sum_probs=54.8

Q ss_pred             CCceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEE--ecCeecCCC--CcccccCCCCC
Q 034110            3 DEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLI--SSGKILENN--KTVGQCKIPYG   78 (103)
Q Consensus         3 ~~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI--~~Gk~L~D~--~tL~~~~i~~g   78 (103)
                      ++..+.|+||+.||+.+ .-.|.+++||.+|.+.|.......      .....+|+  |-.+.|.++  .||+++++..+
T Consensus         3 ~~~~~~I~vRlpdG~~l-~~~F~~~~tl~~l~~~v~~~~~~~------~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~   75 (82)
T PF00789_consen    3 ESDVVRIQVRLPDGSRL-QRRFPKSDTLQDLYDFVESQLFSP------EESDFELITAFPRRELTDEDSKTLEEAGLLPS   75 (82)
T ss_dssp             TSSEEEEEEEETTSTEE-EEEEETTSBHHHHHHHHHHHHHCT------TTSSEEEEESSSTEECCSTTTSBTCCCTTSSC
T ss_pred             CCCEEEEEEECCCCCEE-EEEECCcchHHHHHHHHHHhcCCC------CCccEEEEeCCCCcCCCccccccHHHhcCCCC
Confidence            36789999999999765 579999999999999999882200      02226665  556777444  69999988866


Q ss_pred             CCCCceEEEEE
Q 034110           79 EVPGGVIIMHV   89 (103)
Q Consensus        79 ~~~~~~~t~hl   89 (103)
                            .+++|
T Consensus        76 ------~~l~v   80 (82)
T PF00789_consen   76 ------ATLIV   80 (82)
T ss_dssp             ------EEEEE
T ss_pred             ------eEEEE
Confidence                  56665

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 ....

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

Probab=97.70  E-value=0.00014  Score=48.37  Aligned_cols=74  Identities=23%  Similarity=0.313  Sum_probs=52.9

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecC--eecCCCCcccccCCCCCCC-CCc
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSG--KILENNKTVGQCKIPYGEV-PGG   83 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~G--k~L~D~~tL~~~~i~~g~~-~~~   83 (103)
                      +.+++|=... .| -+..+++.||-+||.+++.-+-     .|  ++.|||....  ..|+|++||++||...... +..
T Consensus         3 ~f~~VrR~kt-ti-f~da~es~tV~elK~~l~gi~~-----~P--vn~qrL~kmd~eqlL~D~ktL~d~gfts~~ak~q~   73 (110)
T KOG4495|consen    3 VFLRVRRHKT-TI-FTDAKESSTVFELKRKLEGILK-----RP--VNEQRLYKMDTEQLLDDGKTLGDCGFTSQTAKPQA   73 (110)
T ss_pred             eeeeeeecce-eE-EeecCccccHHHHHHHHHHHHh-----CC--CcchheeecCHHHHhhccchhhhccccccccccCC
Confidence            4556654443 33 4799999999999999998732     23  9999998743  4789999999998765543 344


Q ss_pred             eEEEEE
Q 034110           84 VIIMHV   89 (103)
Q Consensus        84 ~~t~hl   89 (103)
                      +.++-|
T Consensus        74 pA~vgL   79 (110)
T KOG4495|consen   74 PATVGL   79 (110)
T ss_pred             Cceeee
Confidence            455544

>cd01770 p47_UBX p47-like ubiquitin domain

Probab=97.68  E-value=0.00055  Score=43.32  Aligned_cols=67  Identities=22%  Similarity=0.308  Sum_probs=51.5

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEE--ecCeec-CCCCcccccCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLI--SSGKIL-ENNKTVGQCKIPYG   78 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI--~~Gk~L-~D~~tL~~~~i~~g   78 (103)
                      ....|.||+.||+.+ ...|..++||++|.+.|..+.|..      ......|.  |=.|.| +++.||+++|+...
T Consensus         3 p~t~iqiRlpdG~r~-~~rF~~~~tv~~l~~~v~~~~~~~------~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s   72 (79)
T cd01770           3 PTTSIQIRLADGKRL-VQKFNSSHRVSDVRDFIVNARPEF------AARPFTLMTAFPVKELSDESLTLKEANLLNA   72 (79)
T ss_pred             CeeEEEEECCCCCEE-EEEeCCCCcHHHHHHHHHHhCCCC------CCCCEEEecCCCCcccCCCCCcHHHCCCcCc
Confidence            467899999999766 579999999999999999885411      12445564  557777 55899999999854

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

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

Probab=97.50  E-value=0.0012  Score=42.00  Aligned_cols=63  Identities=19%  Similarity=0.203  Sum_probs=51.4

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEec---C--eecCCCCcccccCCCCC
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISS---G--KILENNKTVGQCKIPYG   78 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~---G--k~L~D~~tL~~~~i~~g   78 (103)
                      |+|++.-.++++. .+.++|...|..+|++|...|-        -+..|||-|+   |  ..|.+..+|++|||=.+
T Consensus         1 iqVtV~q~g~~dl-~l~vnPy~pI~k~K~kI~~~~~--------~~g~qrLsfQepgg~rqlL~s~~sLA~yGiFs~   68 (80)
T cd01811           1 IQVTVEQTGYSDW-ILRVNPYSPIRKIKEKIRRSRN--------CSGLQRLSFQEPGGERQLLSSRKSLADYGIFSK   68 (80)
T ss_pred             CEEEeeecCCCce-EEEeCCcchHHHHHHHHHHhhC--------cccceEEEeecCCcccccccccccHhhhcceec
Confidence            4677788888776 5899999999999999999953        1668999885   2  26699999999998644

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

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

Probab=97.37  E-value=0.0001  Score=58.22  Aligned_cols=81  Identities=19%  Similarity=0.156  Sum_probs=56.5

Q ss_pred             ceEEEEEEeCCCCe-eeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCc
Q 034110            5 ELIDIKFRLYDGSD-IGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGG   83 (103)
Q Consensus         5 ~~v~l~~~~~~g~~-~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~   83 (103)
                      ..|++-++..+.+. ...+..+-.+||++||.+++..+|.+    |. ..+|||||+||.|.|...|++.-++...    
T Consensus         8 ~~v~lliks~Nq~y~dl~i~~dl~wtv~~Lk~hls~VyPsk----pl-~~dqrliYsgkllld~qcl~d~lrkq~k----   78 (391)
T KOG4583|consen    8 FPVTLLIKSPNQSYKDLSISLDLKWTVGDLKVHLSQVYPSK----PL-ELDQRLIYSGKLLLDHQCLTDWLRKQVK----   78 (391)
T ss_pred             cceEEEecCCCccccceeeehhhhhhHHHHhhhHhhcCCCC----Cc-hhhHHHHhhccccccchhHHHHHHHHHH----
Confidence            44555565555521 12466678899999999999999943    32 6789999999999999999985544331    


Q ss_pred             eEEEEEEecCC
Q 034110           84 VIIMHVVVQPS   94 (103)
Q Consensus        84 ~~t~hlv~~~~   94 (103)
                      -.+.|||+...
T Consensus        79 ~Hv~hlvcnsk   89 (391)
T KOG4583|consen   79 EHVKHLVCNSK   89 (391)
T ss_pred             HHHHHHhcCCC
Confidence            13456665543

>cd01767 UBX UBX (ubiquitin regulatory X) domain

Probab=97.30  E-value=0.0028  Score=39.32  Aligned_cols=64  Identities=19%  Similarity=0.309  Sum_probs=48.6

Q ss_pred             eEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEE--ecCeecC---CCCcccccCCCCC
Q 034110            6 LIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLI--SSGKILE---NNKTVGQCKIPYG   78 (103)
Q Consensus         6 ~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI--~~Gk~L~---D~~tL~~~~i~~g   78 (103)
                      ...|+||+.+|+.+ .-.|..++||.+|.+-|......        .....|+  |-.|.+.   ++.||+++|+..+
T Consensus         2 ~t~i~iRlpdG~~~-~~~F~~~~tl~~l~~fv~~~~~~--------~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~~s   70 (77)
T cd01767           2 TTKIQIRLPDGKRL-EQRFNSTHKLSDVRDFVESNGPP--------AEPFTLMTSFPRRVLTDLDYELTLQEAGLVNE   70 (77)
T ss_pred             cEEEEEEcCCCCEE-EEEeCCCCCHHHHHHHHHHcCCC--------CCCEEEEeCCCCccCCCCCccCcHHHcCCccc
Confidence            46899999999665 57999999999999999987431        3344554  3456674   5899999999843

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

>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain

Probab=97.24  E-value=0.0038  Score=40.04  Aligned_cols=65  Identities=12%  Similarity=0.289  Sum_probs=51.4

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecC--eecC--------CCCcccccC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSG--KILE--------NNKTVGQCK   74 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~G--k~L~--------D~~tL~~~~   74 (103)
                      ..+.|.||+.+|+.+ .-.|..++||++|.+-|... +       ..+....|+++=  |.+.        .+.||+++|
T Consensus         3 ~~~~I~iRlp~G~Rl-~rrF~~~~tl~~l~~fv~~~-~-------~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaG   73 (85)
T cd01774           3 DTVKIVFKLPNGTRV-ERRFLFTQSLRVIHDFLFSL-K-------ETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAG   73 (85)
T ss_pred             ceEEEEEECCCCCEE-EEEeCCCCcHHHHHHHHHhC-C-------CCCCcEEEecCCCCccccccccccCcCCCCHHHcC
Confidence            468999999999765 57999999999999999643 2       126677887766  7775        367999999


Q ss_pred             CCCC
Q 034110           75 IPYG   78 (103)
Q Consensus        75 i~~g   78 (103)
                      +...
T Consensus        74 L~~s   77 (85)
T cd01774          74 LSNS   77 (85)
T ss_pred             CCCc
Confidence            9855

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

>cd01772 SAKS1_UBX SAKS1-like UBX domain

Probab=97.09  E-value=0.0091  Score=37.48  Aligned_cols=65  Identities=12%  Similarity=0.196  Sum_probs=48.6

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEE--ecCeecCC---CCcccccCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLI--SSGKILEN---NKTVGQCKIPYG   78 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI--~~Gk~L~D---~~tL~~~~i~~g   78 (103)
                      ....|+||+.+|+.+ ...|+.++|+.+|.+.|......        .....|+  |-.|.+.+   +.||.++++...
T Consensus         3 ~~~~i~iRlp~G~~~-~~~F~~~~tl~~v~~fV~~~~~~--------~~~f~L~t~fPrk~~~~~d~~~TL~elgL~Ps   72 (79)
T cd01772           3 TETRIQIRLLDGTTL-KQTFKAREQLAAVRLFVELNTGN--------GGPFTLMTPFPRKVFTEDDMEKPLQELGLVPS   72 (79)
T ss_pred             cEEEEEEECCCCCEE-EEEeCCCChHHHHHHHHHHcCCC--------CCCEEEEeCCCCeECCcccccCCHHHCCCCCc
Confidence            467899999999655 57999999999999999987431        1334443  44567743   589999998855

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

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

Probab=96.94  E-value=0.0037  Score=39.11  Aligned_cols=71  Identities=14%  Similarity=0.150  Sum_probs=46.4

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEE-ecCeecCCCCcccccCCCCCC
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLI-SSGKILENNKTVGQCKIPYGE   79 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI-~~Gk~L~D~~tL~~~~i~~g~   79 (103)
                      +.|++...+|. ...+.+....+|++|...|.+.+..+....+ .....+|. -.|..|.++.||++++|.+|+
T Consensus         3 ~rVtv~~~~~~-~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~-~~~~~~L~~~~g~~L~~~~tL~~~gV~dGd   74 (79)
T PF08817_consen    3 CRVTVDAGNGR-QVDLALPADVPVAELIPELVELLGLPGDDPP-GHGQWVLARAGGRPLDPDQTLADAGVRDGD   74 (79)
T ss_dssp             EEEEEE-TT---EEEEEEETTSBTTHHHHHHHHHS---S---T-T-E-EEEG-GGTEEEETTSBCGGGT--TT-
T ss_pred             EEEEEEcCCCc-EEEEEcCCCCcHHHHHHHHHHHhCCccCCCC-CcceEEEEecCCcccCCcCcHhHcCCCCCC
Confidence            56677666553 4578999999999999999998431111111 12257777 789999999999999999994

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

>smart00166 UBX Domain present in ubiquitin-regulatory proteins

Probab=96.94  E-value=0.013  Score=36.58  Aligned_cols=66  Identities=18%  Similarity=0.250  Sum_probs=47.6

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEE--ecCeecCC---CCcccccCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLI--SSGKILEN---NKTVGQCKIPYG   78 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI--~~Gk~L~D---~~tL~~~~i~~g   78 (103)
                      ....|.||+.+|+.+ ...|.+++||.+|.+.|......+       ....+|+  |-.|.|.+   +.||.++++..+
T Consensus         3 ~~~~I~iRlPdG~ri-~~~F~~~~tl~~v~~~v~~~~~~~-------~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p~   73 (80)
T smart00166        3 DQCRLQIRLPDGSRL-VRRFPSSDTLRTVYEFVSAALTDG-------NDPFTLNSPFPRRTFTKDDYSKTLLELALLPS   73 (80)
T ss_pred             CeEEEEEEcCCCCEE-EEEeCCCCcHHHHHHHHHHcccCC-------CCCEEEEeCCCCcCCccccccCCHHHCCCCCc
Confidence            567899999999765 579999999999999995543211       2334553  45567753   479999997644

Present in FAF1 and Shp1p.

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

Probab=96.93  E-value=0.0025  Score=52.23  Aligned_cols=64  Identities=17%  Similarity=0.204  Sum_probs=53.8

Q ss_pred             CCCCeeeeEE-eCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEEEEEE
Q 034110           14 YDGSDIGPFR-YSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIMHVV   90 (103)
Q Consensus        14 ~~g~~~~~~~-v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t~hlv   90 (103)
                      .-|++.++++ ++.+.|+..+|++|.+-  .|         |+.||+.+.|+.|.|+--+...+|+.|      .++|+.
T Consensus         9 KW~gk~y~v~~l~~d~t~~vlKaqlf~LTgV~---------PeRQKv~vKGg~a~dd~~~~al~iKpn------~~lmMm   73 (473)
T KOG1872|consen    9 KWGGKKYPVETLSTDETPSVLKAQLFALTGVP---------PERQKVMVKGGLAKDDVDWGALQIKPN------ETLMMM   73 (473)
T ss_pred             eecCccccceeccCCCchHHHHHHHHHhcCCC---------ccceeEEEecccccccccccccccCCC------CEEEee
Confidence            3344567777 99999999999999988  55         999999999999999988888999988      678875


Q ss_pred             ec
Q 034110           91 VQ   92 (103)
Q Consensus        91 ~~   92 (103)
                      -.
T Consensus        74 Gt   75 (473)
T KOG1872|consen   74 GT   75 (473)
T ss_pred             cc
Confidence            44

>COG5417 Uncharacterized small protein [Function unknown]

Probab=96.52  E-value=0.027  Score=35.82  Aligned_cols=71  Identities=17%  Similarity=0.319  Sum_probs=55.4

Q ss_pred             eEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCC
Q 034110            6 LIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGE   79 (103)
Q Consensus         6 ~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~   79 (103)
                      .|++-|+.-+|+. +.+.++.--+|..|-..+++...  .+-.+.+-..+|..-.+++|.+++.|.+|+|++||
T Consensus         6 kVTvD~t~y~g~~-yDLrl~d~~pikklIdivwe~~k--is~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD   76 (81)
T COG5417           6 KVTVDFTNYNGGT-YDLRLPDYLPIKKLIDIVWESLK--ISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGD   76 (81)
T ss_pred             EEEEEeEecCCce-EEEeccccchHHHHHHHHHHHhh--ccccccCCCEEEEeccceEecCCceEEeccccCCC
Confidence            5778888888854 57899999899888888877611  01122234689999999999999999999999996

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

Probab=96.45  E-value=0.053  Score=36.02  Aligned_cols=76  Identities=16%  Similarity=0.306  Sum_probs=57.3

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      +.|.|++.=-+| ....+.+.-++....|...-.++  .+         .+++|++|.|+.+.+.+|-++++..+||   
T Consensus        19 ~hi~LKV~gqd~-~~~~Fkikr~t~LkKLM~aYc~r~Gl~---------~~s~RFlFdG~rI~~~~TP~~L~mEd~D---   85 (99)
T KOG1769|consen   19 EHINLKVKGQDG-SVVVFKIKRHTPLKKLMKAYCERQGLS---------MNSLRFLFDGQRIRETHTPADLEMEDGD---   85 (99)
T ss_pred             ceEEEEEecCCC-CEEEEEeecCChHHHHHHHHHHHcCCc---------cceEEEEECCcCcCCCCChhhhCCcCCc---
Confidence            345555554445 44468999999999988777766  44         8999999999999999999999999995   


Q ss_pred             ceEEEEEEecCCCC
Q 034110           83 GVIIMHVVVQPSLA   96 (103)
Q Consensus        83 ~~~t~hlv~~~~~~   96 (103)
                         .|-++....++
T Consensus        86 ---~Iev~~~q~gG   96 (99)
T KOG1769|consen   86 ---EIEVVQEQTGG   96 (99)
T ss_pred             ---EEEEEeecccC
Confidence               35554444433

>PF13019 Telomere_Sde2: Telomere stability and silencing

Probab=96.32  E-value=0.039  Score=39.60  Aligned_cols=82  Identities=18%  Similarity=0.286  Sum_probs=52.9

Q ss_pred             EEEEEEeCCCC---eeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcc-eEEEec-Ceec--CCCCcccccCCCCCC
Q 034110            7 IDIKFRLYDGS---DIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTE-IKLISS-GKIL--ENNKTVGQCKIPYGE   79 (103)
Q Consensus         7 v~l~~~~~~g~---~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~-qrLI~~-Gk~L--~D~~tL~~~~i~~g~   79 (103)
                      |+|=+...+|-   ....+.+.+++||.+|+.+|.+..|     .|  ... +-|.+. |+.|  .++..++.+.-...+
T Consensus         1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~-----~~--~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~~~   73 (162)
T PF13019_consen    1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLP-----IP--SSSQLYLTTNSNGQLSPSSDIPLSSLLSSSQD   73 (162)
T ss_pred             CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcC-----CC--ccceeEEEEeCCCeeCCCccccHHhhccCcCC
Confidence            35556667883   3346888999999999999999965     11  333 335443 4455  555666655443332


Q ss_pred             CCCceEEEEEEecCCCCC
Q 034110           80 VPGGVIIMHVVVQPSLAK   97 (103)
Q Consensus        80 ~~~~~~t~hlv~~~~~~~   97 (103)
                      .  ..++++|+++..|++
T Consensus        74 ~--~~~~l~l~~rl~GGK   89 (162)
T PF13019_consen   74 S--DFITLRLSLRLRGGK   89 (162)
T ss_pred             C--CceEEEEEEeccCCC
Confidence            1  347899999888764

>cd01771 Faf1_UBX Faf1 UBX domain

Probab=96.11  E-value=0.093  Score=33.17  Aligned_cols=65  Identities=22%  Similarity=0.293  Sum_probs=49.1

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh-CCCCCccCCCCCcceEEE--ecCeecC---CCCcccccCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD-WPKGKTIVPKAVTEIKLI--SSGKILE---NNKTVGQCKIPY   77 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~-~p~~~e~~p~~~~~qrLI--~~Gk~L~---D~~tL~~~~i~~   77 (103)
                      ++.+.|.||+.+|+.+ .-.|..++++.+|-.-|... .+         +..-+|+  |=-|.+.   -+.||.++|+..
T Consensus         2 ~~~~~i~iRlP~G~r~-~rrF~~t~~L~~l~~fv~~~~~~---------~~~f~L~t~fPRk~~~~~d~~~TL~e~gL~p   71 (80)
T cd01771           2 EPISKLRVRTPSGDFL-ERRFLGDTPLQVLLNFVASKGYP---------IDEYKLLSSWPRRDLTQLDPNFTLLELKLYP   71 (80)
T ss_pred             CCeEEEEEECCCCCEE-EEEeCCCCcHHHHHHHHHhcCCC---------CCCEEEecCCCCCCCcCCCCCCcHHHcCCCC
Confidence            5789999999999654 57999999999999999876 33         3445553  3345553   357999999875


Q ss_pred             C
Q 034110           78 G   78 (103)
Q Consensus        78 g   78 (103)
                      .
T Consensus        72 ~   72 (80)
T cd01771          72 Q   72 (80)
T ss_pred             C
Confidence            5

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

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

Probab=95.95  E-value=0.022  Score=35.81  Aligned_cols=58  Identities=22%  Similarity=0.370  Sum_probs=44.9

Q ss_pred             eCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccC-CCCCCCCCceEEEEEEecC
Q 034110           24 YSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCK-IPYGEVPGGVIIMHVVVQP   93 (103)
Q Consensus        24 v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~-i~~g~~~~~~~t~hlv~~~   93 (103)
                      |+++++|.+|++.|... |   +.  +.-....|.++|+.|+|...|++.. +.+|      .+++++..|
T Consensus         1 v~~~d~v~dvrq~L~~~-~---~t--~~~Tn~~L~~~g~~L~~~~el~~i~~~~~~------~~L~lve~p   59 (76)
T PF15044_consen    1 VSPTDTVQDVRQVLAES-P---ET--CYLTNFSLEHNGQRLDDFVELSEIEGIKDG------CVLELVEEP   59 (76)
T ss_pred             CChhhHHHHHHHHHHhC-c---cc--cceeEEEEEECCCccCCchhhhhhhCCCCC------cEEEEEecC
Confidence            46789999999999987 1   01  1278889999999999999888764 6655      678887654

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

Probab=95.36  E-value=0.0071  Score=37.53  Aligned_cols=55  Identities=20%  Similarity=0.253  Sum_probs=43.4

Q ss_pred             CCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCC
Q 034110           16 GSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYG   78 (103)
Q Consensus        16 g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g   78 (103)
                      |+.. -+.+.+++||+++|..|+++.-..       ++.+.|---+.+++|.-+|++|.|.+|
T Consensus        11 GKKV-RvKCn~dDtiGD~KKliaaQtGT~-------~~kivl~k~~~i~kd~I~L~dyeihdg   65 (73)
T KOG3493|consen   11 GKKV-RVKCNTDDTIGDLKKLIAAQTGTR-------PEKIVLKKWYTIFKDHITLSDYEIHDG   65 (73)
T ss_pred             CceE-EEEeCCcccccCHHHHHHHhhCCC-------hhHhHHHhhhhhhhcccceeeEEeccC
Confidence            5554 378899999999999999994311       555666556668899999999999988

>KOG0013 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.98  E-value=0.028  Score=42.12  Aligned_cols=65  Identities=23%  Similarity=0.277  Sum_probs=51.8

Q ss_pred             eEEEEEEeC-CCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCC
Q 034110            6 LIDIKFRLY-DGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYG   78 (103)
Q Consensus         6 ~v~l~~~~~-~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g   78 (103)
                      +..++.++. .++++ -+....-+||.++|..+.+.=-     .  ++-.|++.|+|++|-|..-|++|+|..|
T Consensus       145 e~~lk~rlTtT~~d~-~lta~~~Dtv~eik~~L~Aaeg-----~--D~~sQrif~Sg~~l~dkt~LeEc~iekg  210 (231)
T KOG0013|consen  145 EPILKLRLTTTREDF-WLTAPHYDTVGEIKRALRAAEG-----V--DPLSQRIFFSGGVLVDKTDLEECKIEKG  210 (231)
T ss_pred             CcchHHHhhhhhhhe-eecccCcCcHHHHHHHHHHhhc-----c--chhhheeeccCCceeccccceeeeecCC
Confidence            455666666 55444 5777888999999999998822     1  1779999999999999999999999977

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

Probab=94.53  E-value=0.32  Score=32.08  Aligned_cols=66  Identities=18%  Similarity=0.333  Sum_probs=51.5

Q ss_pred             eEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCC
Q 034110            6 LIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGE   79 (103)
Q Consensus         6 ~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~   79 (103)
                      .|.|++.=.+|..+ -+.+-.+++-..|-...+++.-       .+.+++|++|.|+-.+-++|-.+++..++|
T Consensus        24 hinLkvv~qd~tel-fFkiKktT~f~klm~af~~rqG-------K~m~slRfL~dG~rI~~dqTP~dldmEdnd   89 (103)
T COG5227          24 HINLKVVDQDGTEL-FFKIKKTTTFKKLMDAFSRRQG-------KNMSSLRFLFDGKRIDLDQTPGDLDMEDND   89 (103)
T ss_pred             ccceEEecCCCCEE-EEEEeccchHHHHHHHHHHHhC-------cCcceeEEEEcceecCCCCChhhcCCccch
Confidence            34455444466555 4899999999988887777733       348999999999999999999999988775

>cd01773 Faf1_like1_UBX Faf1 ike-1 UBX domain

Probab=94.17  E-value=0.59  Score=29.90  Aligned_cols=64  Identities=14%  Similarity=0.203  Sum_probs=47.1

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh-CCCCCccCCCCCcceEEE--ecCeec---CCCCcccccCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD-WPKGKTIVPKAVTEIKLI--SSGKIL---ENNKTVGQCKIPYG   78 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~-~p~~~e~~p~~~~~qrLI--~~Gk~L---~D~~tL~~~~i~~g   78 (103)
                      ..-.|.||+.+|..+ .-.+..+.++.+|-..|... .+         ++..+|+  |=-|.+   +-+.||.++|+...
T Consensus         4 ~~t~i~vRlP~G~r~-~rrF~~~~~L~~v~~fv~~~g~~---------~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~   73 (82)
T cd01773           4 PKARLMLRYPDGKRE-QIALPEQAKLLALVRHVQSKGYP---------NERFELLTNFPRRKLSHLDYDITLQEAGLCPQ   73 (82)
T ss_pred             CeeEEEEECCCCCEE-EEEeCCCCcHHHHHHHHHhcCCC---------CCCEEEecCCCCcccCCcccCCCHHHcCCCCC
Confidence            456799999999554 67999999999999999875 33         4555554  233444   34589999998866

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

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

Probab=94.01  E-value=0.26  Score=37.02  Aligned_cols=59  Identities=20%  Similarity=0.312  Sum_probs=44.6

Q ss_pred             eEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEE-EecC-----eec-CCCCcccccCCCCCCCCCceEEEEEEec
Q 034110           21 PFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKL-ISSG-----KIL-ENNKTVGQCKIPYGEVPGGVIIMHVVVQ   92 (103)
Q Consensus        21 ~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrL-I~~G-----k~L-~D~~tL~~~~i~~g~~~~~~~t~hlv~~   92 (103)
                      ...++++.||.++|.+|+-..-       ..++.++| +|.|     ..| +++..|..|+..+|      ..+|++=.
T Consensus        16 Ekr~~~~ltl~q~K~KLe~~~G-------~~~~~M~l~l~~~~d~~~~~lsn~d~~lg~~~~~Dg------~rihviD~   81 (234)
T KOG3206|consen   16 EKRLSNSLTLAQFKDKLELLTG-------TEAESMELELYDGDDKKVSALSNEDADLGFYKVEDG------LRIHVIDS   81 (234)
T ss_pred             hhhcCCcCcHHHHHhhhhhhhC-------CCccceEEEEEcCCCceeeeccCCcccccccCCCCc------eEEEEEec
Confidence            3577899999999999998832       12788888 6766     245 66788888998888      78887543

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

Probab=91.75  E-value=0.55  Score=37.87  Aligned_cols=68  Identities=21%  Similarity=0.335  Sum_probs=50.8

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEE--ecCeec-CCCCcccccCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLI--SSGKIL-ENNKTVGQCKIPYG   78 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI--~~Gk~L-~D~~tL~~~~i~~g   78 (103)
                      +.+-+|.||+.+|..+ ...|+-+-||.+|+..|...-|++-      ...+-|+  |=-|.| +|++||+++++.+.
T Consensus       303 ~PtTsIQIRLanG~Rl-V~~fN~sHTv~DIR~fI~~aRp~~~------~~~F~L~~~FPpk~l~D~sqTle~AgL~Ns  373 (380)
T KOG2086|consen  303 EPTTSIQIRLANGTRL-VLKFNHSHTVSDIREFIDTARPGDS------STYFILMMAFPPKPLSDDSQTLEEAGLLNS  373 (380)
T ss_pred             CCcceEEEEecCCcee-eeeccCcccHHHHHHHHHhcCCCCc------CCceeeeecCCCcccCCcchhHHhccchhh
Confidence            3567899999999776 5799999999999999998866331      2233333  334666 67899999999865

>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=89.10  E-value=2.5  Score=25.78  Aligned_cols=55  Identities=11%  Similarity=0.126  Sum_probs=36.3

Q ss_pred             CCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCC
Q 034110           14 YDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYG   78 (103)
Q Consensus        14 ~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g   78 (103)
                      .++ ....+.+.|++++.+|=+..-..  +.         +++=.|.|++|.|+-+.++.-.|+.+|
T Consensus         4 ~~~-rr~~vkvtp~~~l~~VL~eac~k~~l~---------~~~~~L~h~~k~ldlslp~R~snL~n~   60 (65)
T PF11470_consen    4 YNF-RRFKVKVTPNTTLNQVLEEACKKFGLD---------PSSYDLKHNNKPLDLSLPFRLSNLPNN   60 (65)
T ss_dssp             TTS--EEEE---TTSBHHHHHHHHHHHTT-----------GGG-EEEETTEEESSS-BHHHH---SS
T ss_pred             cCC-cEEEEEECCCCCHHHHHHHHHHHcCCC---------ccceEEEECCEEeccccceeecCCCCC
Confidence            455 33468999999999887766666  44         778899999999999999999999988

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.

>cd00754 MoaD Ubiquitin domain of MoaD-like proteins

Probab=88.94  E-value=3.5  Score=24.81  Aligned_cols=56  Identities=14%  Similarity=0.265  Sum_probs=37.3

Q ss_pred             CCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCC
Q 034110           16 GSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGE   79 (103)
Q Consensus        16 g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~   79 (103)
                      |.....++++...||.+|.+.+.+++|.. ...  ......+..+|+...+     +..+.+||
T Consensus        14 g~~~~~~~~~~~~tv~~ll~~l~~~~~~~-~~~--~~~~~~v~vNg~~v~~-----~~~l~~gD   69 (80)
T cd00754          14 GKDEEELELPEGATVGELLDALEARYPGL-LEE--LLARVRIAVNGEYVRL-----DTPLKDGD   69 (80)
T ss_pred             CCceEEEECCCCCcHHHHHHHHHHHCchH-HHh--hhhcEEEEECCeEcCC-----CcccCCCC
Confidence            43334567777899999999999988721 000  1346677788888863     34567774

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

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

Probab=86.01  E-value=3.3  Score=25.43  Aligned_cols=55  Identities=15%  Similarity=0.310  Sum_probs=37.1

Q ss_pred             CCeeeeEEeCCc-chHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCC
Q 034110           16 GSDIGPFRYSSA-STVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGE   79 (103)
Q Consensus        16 g~~~~~~~v~~~-~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~   79 (103)
                      |.....++++.. .||.+|.+.|.+.+|. ...   ....+.+..+|+...++     .-+++||
T Consensus        14 g~~~~~~~~~~~~~tv~~L~~~L~~~~p~-l~~---~~~~~~v~vn~~~v~~~-----~~l~dgD   69 (80)
T TIGR01682        14 GTDEETLELPDESTTVGELKEHLAKEGPE-LAA---SRGQVMVAVNEEYVTDD-----ALLNEGD   69 (80)
T ss_pred             CCCeEEEECCCCCcCHHHHHHHHHHhCch-hhh---hccceEEEECCEEcCCC-----cCcCCCC
Confidence            433345678766 8999999999999772 111   13456777888888753     4566774

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

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

Probab=85.47  E-value=1.9  Score=33.44  Aligned_cols=57  Identities=19%  Similarity=0.137  Sum_probs=40.1

Q ss_pred             eeeEEeCCcchHHHHHHHHHhh-CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCC
Q 034110           19 IGPFRYSSASTVDMLKQRIVSD-WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYG   78 (103)
Q Consensus        19 ~~~~~v~~~~tV~~lK~~i~~~-~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g   78 (103)
                      +.....+.+.||.++++.+.+. .- -.+..+  ....|+=-.|+.|.|+++|++++...|
T Consensus        14 ~~~~~~s~~~ti~d~~~~~~~~~~k-~~~~~~--r~tlr~e~kgkpl~~~s~l~e~~~~s~   71 (297)
T KOG1639|consen   14 IKEKDLSGSETIDDLLKAISAKNLK-ITPYRI--RLTLRVEPKGKPLIDNSKLQEYGDGSG   71 (297)
T ss_pred             eeeecCCCCCcHHHHHHHHHHhhhc-cCccch--hheeeccCCCccccchhHHHHhccCCC
Confidence            3345677888999999888776 11 001122  445555667999999999999998876

>PF08337 Plexin_cytopl: Plexin cytoplasmic RasGAP domain; InterPro: IPR013548 This domain is found at C terminus of various plexins (e

Probab=85.13  E-value=6  Score=33.40  Aligned_cols=81  Identities=20%  Similarity=0.400  Sum_probs=48.6

Q ss_pred             ceEEEEEEeCC-CCeeeeEEeCCcchHHHHHHHHHhh-CCCC--CccCCCCCcceEEEe-c---Ce-ecCCCC-------
Q 034110            5 ELIDIKFRLYD-GSDIGPFRYSSASTVDMLKQRIVSD-WPKG--KTIVPKAVTEIKLIS-S---GK-ILENNK-------   68 (103)
Q Consensus         5 ~~v~l~~~~~~-g~~~~~~~v~~~~tV~~lK~~i~~~-~p~~--~e~~p~~~~~qrLI~-~---Gk-~L~D~~-------   68 (103)
                      ..+.|.....+ +.+-.++.|=.++||.++|++|... |- +  ..-+| .++++-|-+ .   |+ +|.|..       
T Consensus       188 ~~ltl~v~~~~~~~~~i~VkVLdCDTItQVKeKiLDavyk-~~p~S~rp-~~~d~dLEwr~~~~~~~iL~D~D~ts~~~~  265 (539)
T PF08337_consen  188 KTLTLNVVPQEEGSEEIPVKVLDCDTITQVKEKILDAVYK-NTPYSQRP-RADDVDLEWRQGRGGRLILQDEDSTSKVEG  265 (539)
T ss_dssp             -EEEEEEECTTTSSTCEEEEEETTSBHHHHHHHHHHHHTT-TS-GGGS---GGGEEEEEEETTSEEEEESSSSTTSEEET
T ss_pred             EEEEEEEEecCCCCceEEEEEEecCcccHHHHHHHHHHHc-CCCCCCCC-CccccceeeecCCCCcccccCCCCCcccCC
Confidence            34566654432 3344578888999999999999988 32 2  12233 367777633 2   33 666543       


Q ss_pred             ------cccccCCCCCCCCCceEEEEEEecC
Q 034110           69 ------TVGQCKIPYGEVPGGVIIMHVVVQP   93 (103)
Q Consensus        69 ------tL~~~~i~~g~~~~~~~t~hlv~~~   93 (103)
                            ||..|+|.+|      ++|-|+.+.
T Consensus       266 ~wkrLNTL~HY~V~dg------a~vaLv~k~  290 (539)
T PF08337_consen  266 GWKRLNTLAHYKVPDG------ATVALVPKQ  290 (539)
T ss_dssp             TEEE--BHHHHT--TT------EEEEEEES-
T ss_pred             CceEeccHhhcCCCCC------ceEEEeecc
Confidence                  5667999999      677777664

g. P51805 from SWISSPROT). Plexins are receptors for semaphorins, and plexin signalling is important in pathfinding and patterning of both neurons and developing blood vessels [, ]. The cytoplasmic region, which has been called a SEX domain [], and is involved in downstream signalling pathways, by interaction with proteins such as Rac1, RhoD, Rnd1 and other plexins []. ; PDB: 3H6N_A 4E71_A 4E74_A 3IG3_A 2REX_C 2JPH_A 2R2O_A 3HM6_X 3SU8_X 3SUA_E ....

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

Probab=84.31  E-value=6.9  Score=23.53  Aligned_cols=69  Identities=16%  Similarity=0.150  Sum_probs=48.2

Q ss_pred             EEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEe----c--CeecCCCCcccccCCCCCCCCC
Q 034110           11 FRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLIS----S--GKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus        11 ~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~----~--Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      +++.||. ...+++++++|+.+|=+.|.+.  +.        +.+-.=|.|    .  ...|+.+++|.+.....+    
T Consensus         1 V~llD~~-~~~~~v~~~~t~~~l~~~v~~~l~l~--------e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~~~----   67 (80)
T PF09379_consen    1 VRLLDGT-TKTFEVDPKTTGQDLLEQVCDKLGLK--------EKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKKNN----   67 (80)
T ss_dssp             EEESSEE-EEEEEEETTSBHHHHHHHHHHHHTTS--------SGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBTSS----
T ss_pred             CCCcCCC-cEEEEEcCCCcHHHHHHHHHHHcCCC--------CccEEEEEEeecCCCcceeccCcccHHHHcCCCC----
Confidence            4678994 4579999999999999999998  32        145555555    2  247888899988766522    


Q ss_pred             ceEEEEEEec
Q 034110           83 GVIIMHVVVQ   92 (103)
Q Consensus        83 ~~~t~hlv~~   92 (103)
                      .+.++|+-++
T Consensus        68 ~~~~l~frvk   77 (80)
T PF09379_consen   68 PPFTLYFRVK   77 (80)
T ss_dssp             SSEEEEEEES
T ss_pred             CCEEEEEEEE
Confidence            2367777654

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 ....

>smart00666 PB1 PB1 domain

Probab=84.05  E-value=6.1  Score=23.93  Aligned_cols=46  Identities=13%  Similarity=0.289  Sum_probs=34.5

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecC
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSG   61 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~G   61 (103)
                      +.|+++.  |.++..+.++++.|-.+|+.+|...++-       ..+..+|-|..
T Consensus         2 ~~vK~~~--~~~~~~~~~~~~~s~~dL~~~i~~~~~~-------~~~~~~l~Y~D   47 (81)
T smart00666        2 VDVKLRY--GGETRRLSVPRDISFEDLRSKVAKRFGL-------DNQSFTLKYQD   47 (81)
T ss_pred             ccEEEEE--CCEEEEEEECCCCCHHHHHHHHHHHhCC-------CCCCeEEEEEC
Confidence            3455555  4478889999999999999999999761       13577777763

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.

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

Probab=83.76  E-value=6  Score=23.99  Aligned_cols=47  Identities=15%  Similarity=0.138  Sum_probs=33.7

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecC
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSG   61 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~G   61 (103)
                      +.|++...++ ....+.+..+.|..+|+++|++.++.       .....+|-|..
T Consensus         2 ~~vK~~~~~~-~~~~~~~~~~~s~~~L~~~i~~~~~~-------~~~~~~l~Y~D   48 (84)
T PF00564_consen    2 VRVKVRYGGD-IRRIISLPSDVSFDDLRSKIREKFGL-------LDEDFQLKYKD   48 (84)
T ss_dssp             EEEEEEETTE-EEEEEEECSTSHHHHHHHHHHHHHTT-------STSSEEEEEEE
T ss_pred             EEEEEEECCe-eEEEEEcCCCCCHHHHHHHHHHHhCC-------CCccEEEEeeC
Confidence            4555555555 32238899999999999999999771       14788887764

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 ....

>PF10209 DUF2340: Uncharacterized conserved protein (DUF2340); InterPro: IPR018794 This entry consists of small proteins of approximately 150 amino acids whose function is unknown

Probab=83.71  E-value=3.8  Score=28.20  Aligned_cols=57  Identities=19%  Similarity=0.275  Sum_probs=40.5

Q ss_pred             EEeCC-cchHHHHHHHHHhhCCCCCccCC---CCCcceEEEecC-----------------eec---CCCCcccccCCCC
Q 034110           22 FRYSS-ASTVDMLKQRIVSDWPKGKTIVP---KAVTEIKLISSG-----------------KIL---ENNKTVGQCKIPY   77 (103)
Q Consensus        22 ~~v~~-~~tV~~lK~~i~~~~p~~~e~~p---~~~~~qrLI~~G-----------------k~L---~D~~tL~~~~i~~   77 (103)
                      -.++. ++||.+|++.+.+.++....-.|   -..+.+|+++..                 -+|   +|+.+|.+|||.+
T Consensus        20 ~~vdL~~~Tv~~l~~~v~~~I~t~~~~~Pfrn~~yDtlKIy~~AHg~Kt~nLvInle~De~~iL~~~~~~~tL~~~gv~n   99 (122)
T PF10209_consen   20 HNVDLKDTTVKDLKEQVKQDIKTRPGLPPFRNVKYDTLKIYTKAHGSKTNNLVINLEDDEDWILDVSDDDKTLKELGVEN   99 (122)
T ss_pred             ecCCcccCcHHHHHHHHHHHHhcCCCCCCceeeecceEEEEecCCCCCcCCceeeccCCcceeeecCCCCCcHHHcCCCc
Confidence            35776 89999999999998654422111   146677776642                 367   7889999999987


Q ss_pred             C
Q 034110           78 G   78 (103)
Q Consensus        78 g   78 (103)
                      .
T Consensus       100 E  100 (122)
T PF10209_consen  100 E  100 (122)
T ss_pred             c
Confidence            6

>TIGR01687 moaD_arch MoaD family protein, archaeal

Probab=82.73  E-value=9  Score=23.69  Aligned_cols=60  Identities=15%  Similarity=0.281  Sum_probs=37.0

Q ss_pred             CCeeeeEEeCCcchHHHHHHHHHhhCCCCCccC-C---CCCcceEEEecCeecCCCCcccccCCCCCC
Q 034110           16 GSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIV-P---KAVTEIKLISSGKILENNKTVGQCKIPYGE   79 (103)
Q Consensus        16 g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~-p---~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~   79 (103)
                      |.....++++ ..||.+|.+.+.+++|..+..+ .   .--..+.+..+|+...++..   ..+.+||
T Consensus        14 g~~~~~v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~~~~---~~l~dgd   77 (88)
T TIGR01687        14 GKKSEEIEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDWGLG---TELKDGD   77 (88)
T ss_pred             CCceEEEEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCccCC---CCCCCCC
Confidence            4333346666 8899999999999987422111 0   00234777788888765432   4567774

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

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

Probab=82.25  E-value=7.6  Score=23.06  Aligned_cols=52  Identities=15%  Similarity=0.239  Sum_probs=38.4

Q ss_pred             eEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCC
Q 034110           21 PFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGE   79 (103)
Q Consensus        21 ~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~   79 (103)
                      ...+....||.+|.+.+..++|.-.     ......+..+|+...+ . -.+..+++||
T Consensus        15 ~~~~~~~~tv~~ll~~l~~~~p~~~-----~~~~~~v~vN~~~v~~-~-~~~~~l~~gD   66 (77)
T PF02597_consen   15 EIEVPEGSTVRDLLEALAERYPELA-----LRDRVAVAVNGEIVPD-D-GLDTPLKDGD   66 (77)
T ss_dssp             EEEESSTSBHHHHHHHHCHHTGGGH-----TTTTEEEEETTEEEGG-G-TTTSBEETTE
T ss_pred             EEecCCCCcHHHHHHHHHhhccccc-----cCccEEEEECCEEcCC-c-cCCcCcCCCC
Confidence            4678889999999999999976211     1478899999999988 2 3344556773

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

>PF08783 DWNN: DWNN domain; InterPro: IPR014891 The ~75-residue DWNN (Domain With No Name) domain is highly conserved through eukaryotic species but is absent in prokaryotes

Probab=81.54  E-value=4.1  Score=25.54  Aligned_cols=32  Identities=16%  Similarity=0.383  Sum_probs=24.7

Q ss_pred             EEEEeCCCCeeeeEEeC-CcchHHHHHHHHHhh
Q 034110            9 IKFRLYDGSDIGPFRYS-SASTVDMLKQRIVSD   40 (103)
Q Consensus         9 l~~~~~~g~~~~~~~v~-~~~tV~~lK~~i~~~   40 (103)
                      |.|++.+.++...+.++ ...+|.+||+.|.++
T Consensus         1 V~YKFkS~k~~~~i~fdG~~Isv~dLKr~I~~~   33 (74)
T PF08783_consen    1 VHYKFKSQKDYDTITFDGTSISVFDLKREIIEK   33 (74)
T ss_dssp             EEEEETT-SSEEEEEESSSEEEHHHHHHHHHHH
T ss_pred             CeEEecccCCccEEEECCCeeEHHHHHHHHHHH
Confidence            45677788777778886 457999999999877

The DWNN domain is found only at the N terminus of the RBBP6 family of proteins which includes: Mammalian RBBP6, a splicing-associated protein that plays a role in the induction of apoptosis and regulation of the cell cycle. Drosophila melanogaster (Fruit fly) SNAMA (something that sticks like glue), a protein that appears to play a role in apoptosis. All of the identified RBBP6 homologues include the DWNN domain, a CCHC-type zinc finger (see PDOC50158 from PROSITEDOC) and a RING-type zinc finger (see PDOC00449 from PROSITEDOC). The three domain form is found in plants, protozoa, fungi and microsporidia. The RBBP6 homologues in vertebrates, insects and worms are longer and include additional domains. In addition to forming part of the full-length RBBP6 protein, the DWNN domain is also expressed in vertebrates as a small protein containing a DWNN domain and a short C-terminal tail (RBBP6 variant 3). The DWNN domain adopts a fold similar to the ubiquitin one, characterised by two alpha-helices and four beta-sheets ordered as beta-beta-alpha-beta-alpha-beta along the sequence. The similarity of DWNN domain to ubiquitin and the presence of the RING finger suggest that the DWNN domain may act as an ubiquitin-like modifier, possibly playing a role in the regulation of the splicing machinery [, ]. ; GO: 0008270 zinc ion binding, 0005634 nucleus; PDB: 2C7H_A.

>smart00144 PI3K_rbd PI3-kinase family, Ras-binding domain

Probab=81.50  E-value=13  Score=24.52  Aligned_cols=69  Identities=13%  Similarity=0.134  Sum_probs=43.7

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCc-ceEEEecCe--ecCCCCcccccC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVT-EIKLISSGK--ILENNKTVGQCK   74 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~-~qrLI~~Gk--~L~D~~tL~~~~   74 (103)
                      +.+-|.+...+..+...+.+++++++.+|-+.+..++ .........++ +--|=-.|+  .|..+..|.++.
T Consensus        16 ~~i~v~i~~~~~~~~~t~~v~~~~~p~~li~~~l~k~-~~~~~~~~~~~~dyvLkV~G~~Eyl~~~~~L~~~~   87 (108)
T smart00144       16 NKILIVVHLEKDQQTKTLKVNPNCTPDSVLAQAFTKM-LSLHDQVDPTSEDYILKVCGRDEYLLGDHPLGSFE   87 (108)
T ss_pred             CeEEEEEEEccCceeEEEEECCCCCHHHHHHHHHHHH-HhccccccCCCCcEEEEecCcEEEEeCCeeeechH
Confidence            4566777776666667899999999999998888763 11111111132 444544555  666677777655

Certain members of the PI3K family possess Ras-binding domains in their N-termini. These regions show some similarity (although not highly significant similarity) to Ras-binding RA domains (unpublished observation).

>PRK06437 hypothetical protein; Provisional

Probab=80.94  E-value=9.8  Score=22.90  Aligned_cols=51  Identities=12%  Similarity=0.067  Sum_probs=34.9

Q ss_pred             eCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCC
Q 034110           13 LYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGE   79 (103)
Q Consensus        13 ~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~   79 (103)
                      .++|..-..++++...||.+|=+.+.  ++         +..+-+..+|+++.     .++-+.+||
T Consensus         6 ~v~g~~~~~~~i~~~~tv~dLL~~Lg--i~---------~~~vaV~vNg~iv~-----~~~~L~dgD   56 (67)
T PRK06437          6 RVKGHINKTIEIDHELTVNDIIKDLG--LD---------EEEYVVIVNGSPVL-----EDHNVKKED   56 (67)
T ss_pred             EecCCcceEEEcCCCCcHHHHHHHcC--CC---------CccEEEEECCEECC-----CceEcCCCC
Confidence            34452323578888889888765542  44         77888899999997     344566775

>PF14453 ThiS-like: ThiS-like ubiquitin

Probab=80.19  E-value=5.2  Score=23.93  Aligned_cols=42  Identities=12%  Similarity=0.102  Sum_probs=31.7

Q ss_pred             CCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCccc
Q 034110           14 YDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVG   71 (103)
Q Consensus        14 ~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~   71 (103)
                      .+|   ..+++.+++|...||.++...           ++  -+||+|-..+++..|.
T Consensus         5 vN~---k~~~~~~~~tl~~lr~~~k~~-----------~D--I~I~NGF~~~~d~~L~   46 (57)
T PF14453_consen    5 VNE---KEIETEENTTLFELRKESKPD-----------AD--IVILNGFPTKEDIELK   46 (57)
T ss_pred             ECC---EEEEcCCCcCHHHHHHhhCCC-----------CC--EEEEcCcccCCccccC
Confidence            466   357889999999999887644           33  5699999988876654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	103
1se9_A	126	Structure Of At3g01050, A Ubiquitin-Fold Protein Fr		4e-21

>pdb|1SE9|A Chain A, Structure Of At3g01050, A Ubiquitin-Fold Protein From Arabidopsis Thaliana Length = 126

Iteration: 1
 Score = 96.3 bits (238), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 44/86 (51%), Positives = 61/86 (70%)
Query: 7   IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILEN 66
           ++IKFRL DGSDIGP  +  A+TV  LK+ ++S+WP+ K   PK V E+KLIS+GK+LEN
Sbjct: 17  LEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLEN 76
Query: 67  NKTVGQCKIPYGEVPGGVIIMHVVVQ 92
           +KTV   + P   + G V  MHV++Q
Sbjct: 77  SKTVKDYRSPVSNLAGAVTTMHVIIQ 102

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	103
1se9_A	126	Ubiquitin family; ubiquitin-like, cell-free, wheat	6e-43
2gow_A	125	HCG-1 protein, ubiquitin-like protein 3; BC059385,	8e-29
1wgh_A	116	Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fo	1e-28
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	4e-05
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	7e-05
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	2e-04
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	2e-04
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	4e-04
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	4e-04
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	5e-04
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	6e-04
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	6e-04
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	7e-04
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	8e-04
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	8e-04

>1se9_A Ubiquitin family; ubiquitin-like, cell-free, wheat GERM, structural genomics, protein structure initiative, CESG; NMR {Arabidopsis thaliana} SCOP: d.15.1.1 Length = 126

 Score =  135 bits (341), Expect = 6e-43
 Identities = 44/99 (44%), Positives = 65/99 (65%)

Query: 3   DEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGK 62
               ++IKFRL DGSDIGP  +  A+TV  LK+ ++S+WP+ K   PK V E+KLIS+GK
Sbjct: 13  VHNQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGK 72

Query: 63  ILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTE 101
           +LEN+KTV   + P   + G V  MHV++Q  + + + +
Sbjct: 73  VLENSKTVKDYRSPVSNLAGAVTTMHVIIQAPVTEKEKK 111

>2gow_A HCG-1 protein, ubiquitin-like protein 3; BC059385, structural genomics, protein structure initiative, PSI; NMR {Homo sapiens} Length = 125

 Score = 99.7 bits (248), Expect = 8e-29
 Identities = 21/102 (20%), Positives = 47/102 (46%), Gaps = 6/102 (5%)

Query: 3   DEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKG-KTIVPKAVTEIKLISSG 61
             ++I+++  L  G     F +S   +   + + +  +WP   +     +   ++LI  G
Sbjct: 14  PADMINLRLILVSGK-TKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQG 72

Query: 62  KILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTEDR 103
           + L  N T+G  K+P     G   +MH+V + +L +  ++ +
Sbjct: 73  RFLHGNVTLGALKLP----FGKTTVMHLVARETLPEPNSQGQ 110

>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 Length = 116

 Score = 98.6 bits (245), Expect = 1e-28
 Identities = 21/104 (20%), Positives = 47/104 (45%), Gaps = 6/104 (5%)

Query: 1   MPDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKG-KTIVPKAVTEIKLIS 59
               ++I+++  L  G     F +S   +   + + +  +WP   +     +   ++LI 
Sbjct: 11  HVPADMINLRLILVSGKT-KEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIY 69

Query: 60  SGKILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTEDR 103
            G+ L  N T+G  K+P     G   +MH+V + +L +  ++ +
Sbjct: 70  QGRFLHGNVTLGALKLP----FGKTTVMHLVARETLPEPNSQGQ 109

>1oqy_A HHR23A, UV excision repair protein RAD23 homolog A; DNA repair, proteasome-mediated degradation, protein- protein interaction, replication; NMR {Homo sapiens} SCOP: a.5.2.1 a.5.2.1 a.189.1.1 d.15.1.1 PDB: 1qze_A 1tp4_A Length = 368

 Score = 39.6 bits (91), Expect = 4e-05
 Identities = 21/99 (21%), Positives = 38/99 (38%), Gaps = 9/99 (9%)

Query: 3   DEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGK 62
               + I  +          R     TV +LK++I ++  KG+   P  V   KLI +GK
Sbjct: 4   GSSAVTITLKTLQQQTF-KIRMEPDETVKVLKEKIEAE--KGRDAFP--VAGQKLIYAGK 58

Query: 63  ILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTE 101
           IL ++  +   +I         +++ V    +   T   
Sbjct: 59  ILSDDVPIRDYRID----EKNFVVVMVTKTKAGQGTSAP 93

>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 Length = 85

 Score = 37.2 bits (87), Expect = 7e-05
 Identities = 19/67 (28%), Positives = 31/67 (46%), Gaps = 5/67 (7%)

Query: 9  IKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNK 68
          I  +          R     TV +LK++I ++  KG+   P  V   KLI +GKIL ++ 
Sbjct: 8  ITLKTLQQQTF-KIRMEPDETVKVLKEKIEAE--KGRDAFP--VAGQKLIYAGKILSDDV 62

Query: 69 TVGQCKI 75
           +   +I
Sbjct: 63 PIRDYRI 69

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

 Score = 36.1 bits (84), Expect = 2e-04
 Identities = 11/73 (15%), Positives = 31/73 (42%), Gaps = 8/73 (10%)

Query: 3  DEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGK 62
          + + +++  +  D      F   +   V   K+ I +        +P    + +LI  G+
Sbjct: 2  EPDSLEVLVKTLDSQTR-TFIVGAQMNVKEFKEHIAA-----SVSIP--SEKQRLIYQGR 53

Query: 63 ILENNKTVGQCKI 75
          +L+++K + +  +
Sbjct: 54 VLQDDKKLQEYNV 66

>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 Length = 95

 Score = 36.1 bits (84), Expect = 2e-04
 Identities = 20/67 (29%), Positives = 30/67 (44%), Gaps = 5/67 (7%)

Query: 9  IKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNK 68
          +  +                TV  LK++I S+  KGK   P  V   KLI +GKIL ++ 
Sbjct: 3  VTLKTLQQQTF-KIDIDPEETVKALKEKIESE--KGKDAFP--VAGQKLIYAGKILNDDT 57

Query: 69 TVGQCKI 75
           + + KI
Sbjct: 58 ALKEYKI 64

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

 Score = 35.8 bits (83), Expect = 4e-04
 Identities = 22/85 (25%), Positives = 34/85 (40%), Gaps = 13/85 (15%)

Query: 9   IKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNK 68
           +   +  G D      +  STV   K+ I          +P  V   +LI SGKIL++++
Sbjct: 29  LNIHIKSGQDKWEVNVAPESTVLQFKEAI-----NKANGIP--VANQRLIYSGKILKDDQ 81

Query: 69  TVGQCKIPYGEVPGGVIIMHVVVQP 93
           TV    I  G        +H+V   
Sbjct: 82  TVESYHIQDGHS------VHLVKSQ 100

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

 Score = 35.9 bits (83), Expect = 4e-04
 Identities = 22/99 (22%), Positives = 35/99 (35%), Gaps = 19/99 (19%)

Query: 7   IDIKFRLYDGSDIGPFRYSSASTVDMLKQRI--VSDWPKGKTIVPKAVTEIKLISSGKIL 64
             ++ RL  G D+      S  TV  +K+R+                    +   SG+ L
Sbjct: 24  CQLRLRLSTGKDL-KLVVRSTDTVFHMKRRLHAAEGVE---------PGSQRWFFSGRPL 73

Query: 65  ENNKTVGQCKIPYGEVPGGVIIMHVVV-QPSLAKTKTED 102
            +     + KIP   V      + V+V QP    T  E+
Sbjct: 74  TDKMKFEELKIPKDYV------VQVIVSQPVQNPTPVEN 106

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

 Score = 35.4 bits (82), Expect = 5e-04
 Identities = 19/92 (20%), Positives = 37/92 (40%), Gaps = 15/92 (16%)

Query: 2  PDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSG 61
              LI +  +     D   F  +   T+  LK+ I       +        ++ LI +G
Sbjct: 18 GSPHLIKVTVK--TPKDKEDFSVTDTCTIQQLKEEISQ-----RFKAH--PDQLVLIFAG 68

Query: 62 KILENNKTVGQCKIPYGEVPGGVIIMHVVVQP 93
          KIL++  ++ QC +  G        +H+V++ 
Sbjct: 69 KILKDPDSLAQCGVRDGLT------VHLVIKR 94

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

 Score = 35.4 bits (82), Expect = 6e-04
 Identities = 19/90 (21%), Positives = 37/90 (41%), Gaps = 15/90 (16%)

Query: 2  PDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSG 61
           D  LI +  +     +   F  +   T+  LK+ I       +        ++ LI +G
Sbjct: 13 QDPHLIKVTVKTPKDKE--DFSVTDTCTIQQLKEEISQ-----RFKAH--PDQLVLIFAG 63

Query: 62 KILENNKTVGQCKIPYGEVPGGVIIMHVVV 91
          KIL++  ++ QC +  G        +H+V+
Sbjct: 64 KILKDPDSLAQCGVRDGLT------VHLVI 87

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

 Score = 35.1 bits (81), Expect = 6e-04
 Identities = 20/92 (21%), Positives = 32/92 (34%), Gaps = 15/92 (16%)

Query: 2  PDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSG 61
          P   +I +  +         F  +  S V   K++I                 + LI +G
Sbjct: 13 PSSRIIRVSVKTPQDCHE--FFLAENSNVRRFKKQISK-----YLHCN--ADRLVLIFTG 63

Query: 62 KILENNKTVGQCKIPYGEVPGGVIIMHVVVQP 93
          KIL +   + Q  I  G        +HVVV+ 
Sbjct: 64 KILRDQDILSQRGILDGST------VHVVVRS 89

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

 Score = 35.1 bits (81), Expect = 7e-04
 Identities = 16/72 (22%), Positives = 35/72 (48%), Gaps = 12/72 (16%)

Query: 6  LIDIKFRLYDGSDIGPFRYSSASTVDMLKQRI--VSDWPKGKTIVPKAVTEIKLISSGKI 63
          ++ + F+ +    + P     ++T+   K ++                 ++IKLI SGK+
Sbjct: 1  MVSLTFKNFKKEKV-PLDLEPSNTILETKTKLAQSISCE---------ESQIKLIYSGKV 50

Query: 64 LENNKTVGQCKI 75
          L+++KTV +C +
Sbjct: 51 LQDSKTVSECGL 62

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

 Score = 34.5 bits (80), Expect = 8e-04
 Identities = 22/87 (25%), Positives = 34/87 (39%), Gaps = 17/87 (19%)

Query: 9  IKFRLYDGSDIGPFRYSSASTVDMLKQRI--VSDWPKGKTIVPKAVTEIKLISSGKILEN 66
          +   +  G D      +  STV   K+ I   +  P         V   +LI SGKIL++
Sbjct: 5  LNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIP---------VANQRLIYSGKILKD 55

Query: 67 NKTVGQCKIPYGEVPGGVIIMHVVVQP 93
          ++TV    I  G        +H+V   
Sbjct: 56 DQTVESYHIQDGHS------VHLVKSQ 76

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

 Score = 34.6 bits (80), Expect = 8e-04
 Identities = 11/75 (14%), Positives = 31/75 (41%), Gaps = 8/75 (10%)

Query: 1  MPDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISS 60
          + + + +++  +  D      F   +   V   K+ I          +P    + +LI  
Sbjct: 12 VEEPDSLEVLVKTLDSQTR-TFIVGAQMNVKEFKEHI-----AASVSIP--SEKQRLIYQ 63

Query: 61 GKILENNKTVGQCKI 75
          G++L+++K + +  +
Sbjct: 64 GRVLQDDKKLQEYNV 78

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	103
1se9_A	126	Ubiquitin family; ubiquitin-like, cell-free, wheat	99.97
2gow_A	125	HCG-1 protein, ubiquitin-like protein 3; BC059385,	99.93
1wgh_A	116	Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fo	99.93
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	99.81
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	99.8
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	99.79
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	99.79
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	99.79
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	99.78
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	99.78
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	99.78
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	99.78
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	99.78
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	99.78
2daf_A	118	FLJ35834 protein; hypothetical protein FLJ35834, u	99.78
2kdb_A	99	Homocysteine-responsive endoplasmic reticulum- res	99.78
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	99.78
4hcn_B	98	Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidas	99.77
3plu_A	93	Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-	99.77
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	99.77
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	99.76
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	99.76
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	99.76
3v6c_B	91	Ubiquitin; structural genomics, structural genomic	99.76
1uh6_A	100	Ubiquitin-like 5; beta-grAsp fold, structural geno	99.76
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	99.76
4a20_A	98	Ubiquitin-like protein MDY2; protein binding, GET-	99.76
1wju_A	100	NEDD8 ultimate buster-1; ubiquitin-like domain, st	99.76
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	99.75
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	99.75
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	99.75
2lxa_A	87	Ubiquitin-like protein MDY2; ubiquitin-like domain	99.75
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	99.75
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	99.75
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	99.74
3vdz_A	111	Ubiquitin-40S ribosomal protein S27A; gadolinium,	99.74
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	99.74
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	99.74
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	99.74
1wia_A	95	Hypothetical ubiquitin-like protein (riken cDNA 20	99.74
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	99.74
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	99.73
2fnj_B	118	Transcription elongation factor B polypeptide 2; b	99.73
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	99.73
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	99.72
4ajy_B	118	Transcription elongation factor B polypeptide 2; E	99.72
1we6_A	111	Splicing factor, putative; structural genomics, ub	99.72
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	99.72
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	99.72
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	99.72
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	99.71
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	99.71
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	99.71
1v2y_A	105	3300001G02RIK protein; hypothetical protein, ubiqu	99.71
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	99.7
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	99.7
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	99.7
3u5c_f	152	40S ribosomal protein S31; translation, ribosome,	99.7
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	99.69
1x1m_A	107	Ubiquitin-like protein SB132; structural genomics,	99.68
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	99.67
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	99.49
1wxv_A	92	BAG-family molecular chaperone regulator-1; struct	99.66
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	99.66
1wgg_A	96	Ubiquitin carboxyl-terminal hydrolase 14; ubiquiti	99.65
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	99.65
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	99.65
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	99.64
4b6w_A	86	Tubulin-specific chaperone; CAP-Gly, ubiquitin-lik	99.64
1v5t_A	90	8430435I17RIK protein; hypothetical protein, ubiqu	99.63
4dbg_A	105	Ranbp-type and C3HC4-type zinc finger-containing;	99.63
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	99.63
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	99.63
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	99.61
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	99.6
2kjr_A	95	CG11242; UBL, ubiquitin, ubiquitin-like, structura	99.57
2dzj_A	88	Synaptic glycoprotein SC2; ubiquitin-like fold, st	99.57
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	99.55
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	99.54
2kj6_A	97	Tubulin folding cofactor B; methods development, N	99.53
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	99.53
1v6e_A	95	Cytoskeleton-associated protein 1; tubulin-specifi	99.51
2dzm_A	100	FAS-associated factor 1; ubiquitin-like domain, HF	99.47
1t0y_A	122	Tubulin folding cofactor B; ubiquitin-like, cytosk	99.46
1wf9_A	107	NPL4 family protein; beta-grAsp fold like domain,	99.45
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	99.43
3shq_A	320	UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila	99.4
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	99.37
2d07_B	93	Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Ho	99.34
2kzr_A	86	Ubiquitin thioesterase OTU1; structural genomics,	99.31
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	99.31
1wm3_A	72	Ubiquitin-like protein SMT3B; ubiquitin fold, half	99.26
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	99.25
2eke_C	106	Ubiquitin-like protein SMT3; UBC9, SUMO binding mo	99.24
3a4r_A	79	Nfatc2-interacting protein; ubiquitin fold, coiled	99.21
1wjn_A	97	Tubulin-folding protein TBCE; ubiquitin-like domai	99.11
3kyd_D	115	Small ubiquitin-related modifier 1; SUMO, thioeste	98.86
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	98.77
3tix_A	207	Ubiquitin-like protein SMT3, RNA-induced transcri	98.6
4efo_A	94	Serine/threonine-protein kinase TBK1; ubiquitin li	98.29
3v7o_A	227	Minor nucleoprotein VP30; ssgcid, seattle structur	98.16
2pjh_A	80	Protein NPL4, nuclear protein localization protein	98.11
3qx1_A	84	FAS-associated factor 1; UBX, protein binding, P97	97.98
3uf8_A	209	Ubiquitin-like protein SMT3, peptidyl-prolyl CIS-	97.97
2jxx_A	97	Nfatc2-interacting protein; nuclear factor of acti	97.96
3goe_A	82	DNA repair protein RAD60; SUMO-like domain, sumoyl	97.85
3ix6_A	360	TS, tsase, thymidylate synthase; niaid, ssgcid, se	97.66
2dzk_A	109	UBX domain-containing protein 2; ubiquitin-like fo	97.44
2cr5_A	109	Reproduction 8; UBX domain, D0H8S2298E protein, st	97.43
2bps_A	81	YUKD protein; ubiquitin-like protein, ubiquitin; 2	97.42
1wj4_A	124	KIAA0794 protein; UBX domain, beta-grAsp fold, str	97.41
4da1_A	389	Protein phosphatase 1K, mitochondrial; metal-ION-a	97.33
2l76_A	95	Nfatc2-interacting protein; ubiquitin-like domain,	97.31
3ivf_A	371	Talin-1; FERM domain, cell membrane, cell projecti	97.26
1s3s_G	127	P47 protein; AAA ATPase, protein-protein complex,	97.14
2kc2_A	128	Talin-1, F1; FERM, adhesion, cell membrane, cell p	96.92
4e71_A	111	Plexin-B2, MM1; transmembrane, signaling, RBD, str	96.46
2r2o_A	138	Plexin-B1; effector domain, structural genomics, s	96.45
3h6n_A	127	Plexin-D1; structural genomics consortium, SGC, me	95.89
4e74_A	117	Plexin-A4; RBD, structural genomics, structural ge	95.02
2al3_A	90	TUG long isoform; TUG UBL1 insulin, endocytosis/ex	93.66
3hm6_X	644	Plexin-B1; structural genomics consortium, SGC, me	93.17
3kuz_A	126	Plexin-C1; structural genomics, structural genomic	92.45
3ig3_A	627	Plxna3 protein; plexin intracellular GAP RBD inact	91.8
4a3p_A	217	Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {H	91.53
2v1y_A	108	Phosphatidylinositol-4,5-bisphosphate 3-kinase Ca	89.48
3jyu_A	231	Ubiquitin carboxyl-terminal hydrolase; domain in u	89.33
2y3a_A	1092	Phosphatidylinositol-4,5-bisphosphate 3-kinase Ca	85.67
3ge3_C	84	Toluene-4-monooxygenase system protein B; DIIRON h	84.34
2c7h_A	86	RBBP6, retinoblastoma-binding protein 6, isoform 3	82.0

>1se9_A Ubiquitin family; ubiquitin-like, cell-free, wheat GERM, structural genomics, protein structure initiative, CESG; NMR {Arabidopsis thaliana} SCOP: d.15.1.1

Probab=99.97  E-value=2.2e-30  Score=177.07  Aligned_cols=96  Identities=46%  Similarity=0.808  Sum_probs=91.3

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCc
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGG   83 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~   83 (103)
                      ++.+.|+||+.+|++|.++++++++||++||++|+++||.++|++|+++++|||||+||+|+|+.||++|+|..|+||++
T Consensus        14 ~~~~~i~~kt~~G~~i~~l~v~psdTV~~lK~kI~~~~p~dkegiP~~~~qQrLIy~GK~LeD~~TLsdy~I~~~~~~~~   93 (126)
T 1se9_A           14 HNQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVSNLAGA   93 (126)
T ss_dssp             CCCEEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCTTSCTTC
T ss_pred             cccEEEEEEECCCCEEEeeecCccCHHHHHHHHHHhhcccccccCCCChhhEEEEECCeECcCCCcHHHcCCCcCCccCC
Confidence            58899999999999998899999999999999999999999999997779999999999999999999999999999988


Q ss_pred             eEEEEEEecCCCCCCc
Q 034110           84 VIIMHVVVQPSLAKTK   99 (103)
Q Consensus        84 ~~t~hlv~~~~~~~k~   99 (103)
                      ++|||||+++.++++|
T Consensus        94 v~tmhlVlrl~g~~kk  109 (126)
T 1se9_A           94 VTTMHVIIQAPVTEKE  109 (126)
T ss_dssp             CEEEEEEECCCSSCCC
T ss_pred             cEEEEEEeccCCcccc
Confidence            9999999999988776

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

Probab=99.93  E-value=1.1e-25  Score=153.46  Aligned_cols=93  Identities=23%  Similarity=0.552  Sum_probs=83.9

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCC-CccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKG-KTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~-~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      .+.+.|+|++.+| +..+++|++++||++||++|++.||.+ .|++|.++++|||||+||+|+|+.||++|+|..+++  
T Consensus        15 ~~~m~I~vktl~G-~~~~lev~~s~TV~~lK~~I~~~~p~dwke~ip~~~~~qrLIy~GK~LeD~~TL~~y~I~~~~~--   91 (125)
T 2gow_A           15 ADMINLRLILVSG-KTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKT--   91 (125)
T ss_dssp             TTCEEEEEECTTS-CEEEEEECTTSBHHHHHHHHHSSCCCSCCCCTTCCGGGEEEESSSSEEESSCBTGGGCCCTTSE--
T ss_pred             CCeEEEEEEeCCC-CEEEEEeCCccHHHHHHHHHHHHCCcccccCCCCChHHEEEEECCcCCCCCCcHHHcCCCCCCc--
Confidence            3679999999999 566899999999999999999999999 488876699999999999999999999999998854  


Q ss_pred             ceEEEEEEecCCCCCCcCc
Q 034110           83 GVIIMHVVVQPSLAKTKTE  101 (103)
Q Consensus        83 ~~~t~hlv~~~~~~~k~~~  101 (103)
                        +||||++++.+++++++
T Consensus        92 --~tlhlv~r~~~~~~~~~  108 (125)
T 2gow_A           92 --TVMHLVARETLPEPNSQ  108 (125)
T ss_dssp             --EEEEEEECSCCSSSSSC
T ss_pred             --eEEEEEecCCCCccccc
Confidence              78999999998877754

>1wgh_A Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fold, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: d.15.1.1

Probab=99.93  E-value=2.1e-25  Score=150.38  Aligned_cols=92  Identities=23%  Similarity=0.535  Sum_probs=82.3

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCC-ccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGK-TIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~-e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      ++.+.|+|++.+| +.++++|++++||++||++|+++||.|| |++|..+++|||||+||+|+|+.||++|+|..+++  
T Consensus        14 ~~~m~I~vKtl~G-~t~~lev~~s~TV~~lK~kI~~~~p~dwke~~p~p~~qqrLIy~GK~LeD~~TL~~y~I~~~~~--   90 (116)
T 1wgh_A           14 ADMINLRLILVSG-KTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKT--   90 (116)
T ss_dssp             SSSEEEEEECSSS-CEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTCCSSCE--
T ss_pred             CCeEEEEEEeCCC-CEEEEEECCcCHHHHHHHHHHHhcccccccCCCCChHHEEEEECCcCCCCCCcHHHcCCCCCCc--
Confidence            4689999999999 5568999999999999999999999994 67655599999999999999999999999988754  


Q ss_pred             ceEEEEEEecCCCCCCcC
Q 034110           83 GVIIMHVVVQPSLAKTKT  100 (103)
Q Consensus        83 ~~~t~hlv~~~~~~~k~~  100 (103)
                        +||||++++.++.+++
T Consensus        91 --~tlhLvlr~~~~~~~~  106 (116)
T 1wgh_A           91 --TVMHLVARETLPEPNS  106 (116)
T ss_dssp             --EEEEEEECSSCSSSCC
T ss_pred             --eEEEEEccCCCCCCCc
Confidence              7899999999887764

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

Probab=99.81  E-value=2.1e-19  Score=115.08  Aligned_cols=85  Identities=15%  Similarity=0.164  Sum_probs=71.5

Q ss_pred             CCceEEEEEEeCCCCe-eeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCccccc--CCCCCC
Q 034110            3 DEELIDIKFRLYDGSD-IGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQC--KIPYGE   79 (103)
Q Consensus         3 ~~~~v~l~~~~~~g~~-~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~--~i~~g~   79 (103)
                      ++..+.|.|+..+|.. ...+++++++||.+||++|++.+|   ..+|  +++|||||+||+|+|+.+|++|  +|.++ 
T Consensus         4 ~~~~m~i~Vk~~~~~~~~~~v~v~~~~TV~~lK~~I~~~~~---~~i~--~~~QrLi~~Gk~L~D~~tL~~~~~~i~~~-   77 (93)
T 1wgd_A            4 GSSGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYP---ERPR--PEDQRLIYSGKLLLDHQCLRDLLPKQEKR-   77 (93)
T ss_dssp             CSCCCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHST---TCCC--TTTCEEEETTEECCSSSCHHHHSCSSSCS-
T ss_pred             CCcEEEEEEEeCCCCeEEEEEecCCCCcHHHHHHHHHHHhc---CCCC--hHHeEEEECCEECcCcCCHHHHhcCCCCC-
Confidence            4667999999998852 224567799999999999999864   2344  9999999999999999999999  99988 


Q ss_pred             CCCceEEEEEEecCCCCCC
Q 034110           80 VPGGVIIMHVVVQPSLAKT   98 (103)
Q Consensus        80 ~~~~~~t~hlv~~~~~~~k   98 (103)
                           .++||++++.+++.
T Consensus        78 -----~~i~lv~~~~gg~~   91 (93)
T 1wgd_A           78 -----HVLHLVCNVKSGPS   91 (93)
T ss_dssp             -----EEEEEECCCCCCCC
T ss_pred             -----CEEEEEeCCCCCCC
Confidence                 78999999887754

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

Probab=99.80  E-value=5.1e-19  Score=109.53  Aligned_cols=74  Identities=19%  Similarity=0.136  Sum_probs=66.5

Q ss_pred             eEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCc
Q 034110            6 LIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGG   83 (103)
Q Consensus         6 ~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~   83 (103)
                      .++|.++..+|+.+ .+++++++||.+||++|++.  +|         +++|||+|+|+.|+|+.+|++|+|.+|     
T Consensus         4 ~m~i~Vk~~~g~~~-~~~v~~~~tV~~lK~~i~~~~gip---------~~~qrL~~~G~~L~d~~tL~~~~i~~~-----   68 (79)
T 3phx_B            4 PLSILVRNNKGRSS-TYEVRLTQTVAHLKQQVSGLEGVQ---------DDLFWLTFEGKPLEDQLPLGEYGLKPL-----   68 (79)
T ss_dssp             CEEEEEECTTSCEE-EEEECTTSBHHHHHHHHHHHHTCC---------GGGEEEEETTEECCTTSBGGGGTCCTT-----
T ss_pred             CEEEEEEeCCCCEE-EEEECCcChHHHHHHHHHhhcCCC---------HHHEEEEECCEECCCCCcHHHCCCCCC-----
Confidence            46788888999654 68999999999999999988  66         999999999999999999999999998     


Q ss_pred             eEEEEEEecCCC
Q 034110           84 VIIMHVVVQPSL   95 (103)
Q Consensus        84 ~~t~hlv~~~~~   95 (103)
                       .++|++++..|
T Consensus        69 -~~l~l~~rl~G   79 (79)
T 3phx_B           69 -STVFMNLRLRG   79 (79)
T ss_dssp             -CEEEEEECCBC
T ss_pred             -CEEEEEEecCC
Confidence             68999998754

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

Probab=99.79  E-value=9.8e-19  Score=110.76  Aligned_cols=77  Identities=18%  Similarity=0.391  Sum_probs=67.8

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVP   81 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~   81 (103)
                      ...++|.++..+|..+ .+++++++||.+||++|++.  +|         +++|||||+||.|+|+.+|++|+| +|   
T Consensus         3 ~~~m~i~Vk~~~g~~~-~~~v~~~~tV~~lK~~i~~~~gip---------~~~qrLi~~Gk~L~d~~tL~~~~i-~g---   68 (90)
T 4dwf_A            3 PDSLEVLVKTLDSQTR-TFIVGAQMNVKEFKEHIAASVSIP---------SEKQRLIYQGRVLQDDKKLQEYNV-GG---   68 (90)
T ss_dssp             CCEEEEEEEETTCCEE-EEEEETTCBHHHHHHHHHHHHTCC---------GGGEEEEETTEECCTTSBGGGGTC-TT---
T ss_pred             CcEEEEEEEcCCCCEE-EEEECCCCCHHHHHHHHHHHhCCC---------HHHEEEEECCeECCCCCCHHHcCC-CC---
Confidence            4568899999999654 78999999999999999988  55         999999999999999999999999 77   


Q ss_pred             CceEEEEEEecCCCCC
Q 034110           82 GGVIIMHVVVQPSLAK   97 (103)
Q Consensus        82 ~~~~t~hlv~~~~~~~   97 (103)
                         .++||+++++++.
T Consensus        69 ---~~i~l~~~~~~~~   81 (90)
T 4dwf_A           69 ---KVIHLVERAPPQT   81 (90)
T ss_dssp             ---EEEEEEECCCC--
T ss_pred             ---cEEEEEecCCCCC
Confidence               7899999977554

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

Probab=99.79  E-value=8.6e-19  Score=110.60  Aligned_cols=72  Identities=19%  Similarity=0.432  Sum_probs=65.2

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVP   81 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~   81 (103)
                      .+.++|.++..+|.. ..+++++++||.+||++|++.  +|         +++|||||+|+.|+|+.+|++|+| +|   
T Consensus        15 ~~~m~i~Vk~~~g~~-~~~~v~~~~tV~~lK~~i~~~~gip---------~~~qrLi~~Gk~L~D~~tL~~~~i-~g---   80 (88)
T 4eew_A           15 PDSLEVLVKTLDSQT-RTFIVGAQMNVKEFKEHIAASVSIP---------SEKQRLIYQGRVLQDDKKLQEYNV-GG---   80 (88)
T ss_dssp             CCEEEEEEEETTSCE-EEEEEETTCBHHHHHHHHHHHHTCC---------GGGEEEEETTEECCTTSBGGGGTC-TT---
T ss_pred             CCeEEEEEEcCCCCE-EEEEECCCCCHHHHHHHHHHHhCCC---------HHHEEEEECCEECCCCCcHHHcCC-CC---
Confidence            466899999999965 478999999999999999988  66         999999999999999999999999 68   


Q ss_pred             CceEEEEEEec
Q 034110           82 GGVIIMHVVVQ   92 (103)
Q Consensus        82 ~~~~t~hlv~~   92 (103)
                         .++||++|
T Consensus        81 ---~~i~lv~R   88 (88)
T 4eew_A           81 ---KVIHLVER   88 (88)
T ss_dssp             ---EEEEEEEC
T ss_pred             ---cEEEEEEC
Confidence               78999976

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

Probab=99.79  E-value=9.6e-19  Score=107.88  Aligned_cols=74  Identities=20%  Similarity=0.252  Sum_probs=66.8

Q ss_pred             eEEEEEEeCCCCeeeeEE-eCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            6 LIDIKFRLYDGSDIGPFR-YSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         6 ~v~l~~~~~~g~~~~~~~-v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      .+.|.++..+|+.+..++ +++++||.+||++|++.  +|         +++|||+|+|+.|+|+.+|++|+|.+|    
T Consensus         2 ~m~i~Vk~~~g~~~~~l~~v~~~~tv~~lK~~i~~~~gip---------~~~qrL~~~g~~L~d~~tL~~~~i~~g----   68 (78)
T 2faz_A            2 SMWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVE---------PGLQRLFYRGKQMEDGHTLFDYEVRLN----   68 (78)
T ss_dssp             CEEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCCC---------GGGEEEEETTEECCTTCBTTTTTCCTT----
T ss_pred             cEEEEEEECCCCEEEEEeccCCCCCHHHHHHHHHHHHCcC---------hhhEEEEECCEECCCCCCHHHcCCCCC----
Confidence            467888989997765788 99999999999999998  66         999999999999999999999999988    


Q ss_pred             ceEEEEEEecCC
Q 034110           83 GVIIMHVVVQPS   94 (103)
Q Consensus        83 ~~~t~hlv~~~~   94 (103)
                        .++|++++++
T Consensus        69 --~~i~l~~r~~   78 (78)
T 2faz_A           69 --DTIQLLVRQS   78 (78)
T ss_dssp             --CEEEEEECCC
T ss_pred             --CEEEEEEeCC
Confidence              6899999864

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

Probab=99.78  E-value=9e-19  Score=111.30  Aligned_cols=74  Identities=27%  Similarity=0.412  Sum_probs=65.2

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceE
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVI   85 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~   85 (103)
                      .|.++..+|+.+ .+++++++||.+||++|++.  +|         +++|||||+|+.|+|+.+|++|+|.+|      .
T Consensus         2 ~I~Vk~~~g~~~-~l~v~~~~TV~~LK~~I~~~~gip---------~~~qrLi~~Gk~L~D~~tL~~~~i~~g------~   65 (88)
T 4fbj_B            2 LIKVKTLTGKEI-EIDIEPTDKVERIKERVEEKEGIP---------PQQQRLIYSGKQMNDEKTAADYKILGG------S   65 (88)
T ss_dssp             EEEEEETTCCEE-EEECCTTCBHHHHHHHHHHHHCCC---------GGGCEEEETTEECCTTSBTTTTTCCTT------C
T ss_pred             EEEEEcCCCCEE-EEEECCCCCHHHHHHHHHHHHCcC---------hhHEEEEECCeECCCCCcHHHcCCCCC------C
Confidence            578888899665 78999999999999999988  55         999999999999999999999999998      6


Q ss_pred             EEEEEecCCCCC
Q 034110           86 IMHVVVQPSLAK   97 (103)
Q Consensus        86 t~hlv~~~~~~~   97 (103)
                      ++||+++..++.
T Consensus        66 ~l~l~~rl~Gg~   77 (88)
T 4fbj_B           66 VLHLVLALRGGG   77 (88)
T ss_dssp             EEEEECBCC---
T ss_pred             EEEEEEECCCCC
Confidence            899999988764

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

Probab=99.78  E-value=1e-18  Score=109.67  Aligned_cols=77  Identities=26%  Similarity=0.403  Sum_probs=69.6

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVP   81 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~   81 (103)
                      +..+.|.++..+|..+ .+++++++||.+||++|++.  +|         ++.|||+|+|+.|+|+.+|++|+|.++   
T Consensus        10 ~~~m~i~vk~~~g~~~-~~~v~~~~tV~~lK~~i~~~~gip---------~~~qrL~~~G~~L~d~~tL~~~~i~~~---   76 (88)
T 3dbh_I           10 GGSMLIKVKTLTGKEI-EIDIEPTDKVERIKERVEEKEGIP---------PQQQRLIYSGKQMNDEKTAADYKILGG---   76 (88)
T ss_dssp             CCCEEEEEECTTSCEE-EEEECTTCBHHHHHHHHHHHHCCC---------GGGCCEEETTEECCTTSBGGGGTCCTT---
T ss_pred             CCcEEEEEEcCCCCEE-EEEECCCCCHHHHHHHHHHHHCcC---------HHHEEEEECCeECCCCCcHHHcCCCCC---
Confidence            4678999999999654 79999999999999999988  66         999999999999999999999999988   


Q ss_pred             CceEEEEEEecCCCC
Q 034110           82 GGVIIMHVVVQPSLA   96 (103)
Q Consensus        82 ~~~~t~hlv~~~~~~   96 (103)
                         .++|++++..++
T Consensus        77 ---~~i~l~~rl~GG   88 (88)
T 3dbh_I           77 ---SVLHLVLRLRGG   88 (88)
T ss_dssp             ---CEEEECCCCCCC
T ss_pred             ---CEEEEEEeCCCC
Confidence               689999998764

>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=99.78  E-value=1.1e-18  Score=108.00  Aligned_cols=76  Identities=18%  Similarity=0.291  Sum_probs=68.9

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      +.++|.++..+|+.+ .+++++++||.+||++|++.  +|         +++|||+|+|+.|+|+.||++|+|.+|    
T Consensus         2 ~~m~i~vk~~~g~~~-~~~v~~~~tv~~lk~~i~~~~gi~---------~~~qrL~~~G~~L~d~~tl~~~~i~~~----   67 (79)
T 2uyz_B            2 EYIKLKVIGQDSSEI-HFKVKMTTHLKKLKESYCQRQGVP---------MNSLRFLFEGQRIADNHTPKELGMEEE----   67 (79)
T ss_dssp             CEEEEEEECTTCCEE-EEEEETTSCTHHHHHHHHHHHTCC---------GGGEEEEETTEECCTTCCHHHHTCCTT----
T ss_pred             CeEEEEEECCCCCEE-EEEECCCChHHHHHHHHHHHHCCC---------cccEEEEECCEEeCCCCCHHHcCCCCC----
Confidence            568999999999665 68999999999999999998  66         999999999999999999999999999    


Q ss_pred             ceEEEEEEecCCCC
Q 034110           83 GVIIMHVVVQPSLA   96 (103)
Q Consensus        83 ~~~t~hlv~~~~~~   96 (103)
                        .++|++++..|+
T Consensus        68 --~~i~l~~~~~GG   79 (79)
T 2uyz_B           68 --DVIEVYQEQTGG   79 (79)
T ss_dssp             --EEEEEEECCCC-
T ss_pred             --CEEEEEEeccCC
Confidence              789999998764

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

Probab=99.78  E-value=1.7e-18  Score=111.82  Aligned_cols=77  Identities=17%  Similarity=0.180  Sum_probs=69.5

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCC-CcccccCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENN-KTVGQCKIPYGEVP   81 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~-~tL~~~~i~~g~~~   81 (103)
                      ..++|.++..+| . ..+++++++||.+||++|++.  +|         +++|||+|+||.|+|+ .+|++|+|.+|   
T Consensus        14 ~~~~I~Vk~~~~-~-~~l~v~~~~TV~~LK~~I~~~~gip---------~~~QrLi~~Gk~L~D~~~tL~~ygI~~g---   79 (94)
T 2kan_A           14 RKIHVTVKFPSK-Q-FTVEVDRTETVSSLKDKIHIVENTP---------IKRMQLYYSGIELADDYRNLNEYGITEF---   79 (94)
T ss_dssp             CCEEEEEECSSC-E-EEEEECTTCBHHHHHHHHHHHSSSC---------TTTEEEEETTEEECCTTSBHHHHTCCTT---
T ss_pred             CCEEEEEEcCCc-E-EEEEECCCCcHHHHHHHHHHHHCcC---------HHHEEEEECCEECCCCcccHHHCCCCCC---
Confidence            568888998887 4 578999999999999999998  55         9999999999999999 99999999988   


Q ss_pred             CceEEEEEEecCCCCCC
Q 034110           82 GGVIIMHVVVQPSLAKT   98 (103)
Q Consensus        82 ~~~~t~hlv~~~~~~~k   98 (103)
                         .++||++++.++++
T Consensus        80 ---stl~lv~r~~gg~~   93 (94)
T 2kan_A           80 ---SEIVVFLKSINRAK   93 (94)
T ss_dssp             ---EEEEEEECCCSSCC
T ss_pred             ---CEEEEEEeCCCCCC
Confidence               78999999988754

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

Probab=99.78  E-value=2.5e-18  Score=108.51  Aligned_cols=80  Identities=24%  Similarity=0.281  Sum_probs=70.5

Q ss_pred             CceEEEEEEeCCCCeeeeE-EeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPF-RYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEV   80 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~-~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~   80 (103)
                      .+.+.|.++..+|...+.+ ++++++||.+||++|++.  +|         +++|||+|+|+.|+|+.+|++|+|.++  
T Consensus         5 ~~~m~i~Vk~~~g~~~~~l~~v~~~~tV~~lK~~i~~~~gip---------~~~qrL~~~gk~L~d~~tL~~~~i~~g--   73 (89)
T 1wy8_A            5 SSGMWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVR---------PECQRLFYRGKQLENGYTLFDYDVGLN--   73 (89)
T ss_dssp             SSCEEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCC---------TTTEEEEETTEECCSSSBHHHHTCCTT--
T ss_pred             CCcEEEEEEECCCCceEEEEecCCCCCHHHHHHHHHHHHCcC---------hhhEEEEECCeECCCCCCHHHCCCCCC--
Confidence            5678999999988434478 599999999999999998  55         999999999999999999999999988  


Q ss_pred             CCceEEEEEEecCCCCCC
Q 034110           81 PGGVIIMHVVVQPSLAKT   98 (103)
Q Consensus        81 ~~~~~t~hlv~~~~~~~k   98 (103)
                          .++||++++.++..
T Consensus        74 ----~~i~l~~~~~gG~~   87 (89)
T 1wy8_A           74 ----DIIQLLVRPDSGPS   87 (89)
T ss_dssp             ----CEEEEEECCCCSSC
T ss_pred             ----CEEEEEEeCCCCCC
Confidence                68999999887753

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

Probab=99.78  E-value=2.9e-18  Score=107.69  Aligned_cols=78  Identities=18%  Similarity=0.171  Sum_probs=70.5

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVP   81 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~   81 (103)
                      ...++|.++..+|+. ..+++++++||.+||++|++.  +|         +++|||+|+|+.|+|+.+|++|+|.++   
T Consensus         5 ~~~m~i~Vk~~~g~~-~~~~v~~~~tV~~lK~~i~~~~gi~---------~~~qrL~~~Gk~L~d~~tL~~~~i~~g---   71 (87)
T 1wh3_A            5 SSGIQVFVKNPDGGS-YAYAINPNSFILGLKQQIEDQQGLP---------KKQQQLEFQGQVLQDWLGLGIYGIQDS---   71 (87)
T ss_dssp             SSSEEEEEEETTTEE-EEEEECSSSBHHHHHHHHHHHTCCC---------TTTEEEEETTEECCSSSBHHHHTCCTT---
T ss_pred             CCCEEEEEEcCCCCE-EEEEeCCCChHHHHHHHHHHHhCCC---------hHHEEEEECCEEccCCCCHHHCCCCCC---
Confidence            467889999999954 478999999999999999998  55         999999999999999999999999988   


Q ss_pred             CceEEEEEEecCCCCC
Q 034110           82 GGVIIMHVVVQPSLAK   97 (103)
Q Consensus        82 ~~~~t~hlv~~~~~~~   97 (103)
                         .++|++++..++.
T Consensus        72 ---~~i~l~~~~~GG~   84 (87)
T 1wh3_A           72 ---DTLILSKKKGSGP   84 (87)
T ss_dssp             ---EEEEEEECSCCCS
T ss_pred             ---CEEEEEEeccCCC
Confidence               7899999988764

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

Probab=99.78  E-value=7.9e-19  Score=118.48  Aligned_cols=79  Identities=22%  Similarity=0.235  Sum_probs=69.2

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVP   81 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~   81 (103)
                      +..++|++++..+.+...++++++.||++||+++++.  +|         ++.|||||+||+|+|++||++|||.+|   
T Consensus        13 ~~~itvkv~l~~~~~k~tv~v~~d~TV~dLKe~ls~~~~iP---------~e~qrLIy~GKiLKD~eTL~~~gIk~g---   80 (118)
T 2daf_A           13 DSLATVKVVLIPVGQEIVIPFKVDTILKYLKDHFSHLLGIP---------HSVLQIRYSGKILKNNETLVQHGVKPQ---   80 (118)
T ss_dssp             SSCEEEEEEETTTCCEEEEEECSSSCSHHHHHHHHHHHTCC---------TTTEEEEETTEEECSSCCHHHHSCCSS---
T ss_pred             CccEEEEEEEcCCCcEEEEEeCCCCcHHHHHHHHHhhhCCC---------hHHEEEEECCeEcCCcchHHHcCCCCC---
Confidence            4568888886654455689999999999999999998  66         999999999999999999999999999   


Q ss_pred             CceEEEEEEecCCCCC
Q 034110           82 GGVIIMHVVVQPSLAK   97 (103)
Q Consensus        82 ~~~~t~hlv~~~~~~~   97 (103)
                         .|+||+++...+.
T Consensus        81 ---~TIhLvi~s~~p~   93 (118)
T 2daf_A           81 ---EIVQVEIFSTNPD   93 (118)
T ss_dssp             ---CEEEEEEEESCTT
T ss_pred             ---CEEEEEEecCCCc
Confidence               7899999977654

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

Probab=99.78  E-value=6.1e-19  Score=115.49  Aligned_cols=76  Identities=17%  Similarity=0.210  Sum_probs=63.8

Q ss_pred             CceEEEEEEeCCCCe-eeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCccccc--CCCCCCC
Q 034110            4 EELIDIKFRLYDGSD-IGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQC--KIPYGEV   80 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~-~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~--~i~~g~~   80 (103)
                      +..+.|.|+..+|.. ...+++++++||.+||++|++.++    +.|+ +++|||||+||+|+|+.+|++|  +|.++  
T Consensus        21 ~~~m~I~VK~~~g~~~~i~l~v~~~~TV~~LK~~I~~~~~----g~pp-~~~QrLIy~Gk~L~D~~tL~~y~~~I~~~--   93 (99)
T 2kdb_A           21 GHPVTLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYP----SKPL-TKDQRLVYSGRLLPDHLQLKDILRKQDEY--   93 (99)
T ss_dssp             --CEEEEEECTTSSSCCEEEEECTTSBHHHHHHHHHHHST----TCCC-TTTCCEEETTEEECTTSBTHHHHTTTCSE--
T ss_pred             CCeEEEEEEcCCCCEEEEEEEcCCCCHHHHHHHHHHHHhc----CCCC-hhhEEEEECCEECCCCCCHHHHhcCCCCC--
Confidence            356999999998862 236889999999999999999865    2331 6999999999999999999999  99988  


Q ss_pred             CCceEEEEEE
Q 034110           81 PGGVIIMHVV   90 (103)
Q Consensus        81 ~~~~~t~hlv   90 (103)
                          .|||||
T Consensus        94 ----~tihLv   99 (99)
T 2kdb_A           94 ----HMVHLV   99 (99)
T ss_dssp             ----EEEEEC
T ss_pred             ----CEEEeC
Confidence                789985

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

Probab=99.78  E-value=1.7e-18  Score=110.63  Aligned_cols=78  Identities=22%  Similarity=0.345  Sum_probs=66.7

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCce
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGV   84 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~   84 (103)
                      .+|.++..+|..+ .+++++++||.+||++|++.  +|         ++.|||+|+|+.|+|+.+|++|+|.+|      
T Consensus         2 m~i~vk~~~g~~~-~~~v~~~~TV~~LK~~i~~~~gip---------~~~qrL~~~G~~L~d~~tL~~~~i~~~------   65 (96)
T 3k9o_B            2 MQIFVKTLTGKTI-TLEVEPSDTIENVKAKIQDKEGIP---------PDQQRLIFAGKQLEDGRTLSDYNIQKE------   65 (96)
T ss_dssp             CEEEEEETTCCEE-EEECCTTCBHHHHHHHHHHHHCCC---------GGGEEEEETTEECCTTSBTGGGTCCTT------
T ss_pred             cEEEEEeCCCCEE-EEEECCCCCHHHHHHHHHhhhCCC---------hhHEEEEECCEECCCCCcHHHcCCCCC------
Confidence            4688888999554 78999999999999999998  66         999999999999999999999999988      


Q ss_pred             EEEEEEecCCCCCCcC
Q 034110           85 IIMHVVVQPSLAKTKT  100 (103)
Q Consensus        85 ~t~hlv~~~~~~~k~~  100 (103)
                      .++||+++..++.++.
T Consensus        66 ~~i~l~~r~~gG~~~~   81 (96)
T 3k9o_B           66 STLHLVLRLRGYADLR   81 (96)
T ss_dssp             CEEEEEECCCC-----
T ss_pred             CEEEEEEEcCCCCccc
Confidence            6899999999886654

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

Probab=99.77  E-value=2.2e-18  Score=111.41  Aligned_cols=76  Identities=25%  Similarity=0.388  Sum_probs=68.7

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      ..++|.++..+|..+ .+++++++||.+||++|++.  +|         +++|||+|+|+.|+|+.+|++|+|.+|    
T Consensus        21 ~~m~I~Vk~~~g~~~-~l~v~~~~TV~~LK~~I~~~~gip---------~~~qrLi~~Gk~L~D~~tL~~~~i~~g----   86 (98)
T 4hcn_B           21 RPMQIFVKTLTGKTI-TLEVESSDTIDNVKSKIQDKEGIP---------PDQQRLIFAGKQLEDGRTLSDYNIQKE----   86 (98)
T ss_dssp             -CCEEEEEETTCCEE-EEECCTTCBHHHHHHHHHHHHCCC---------GGGCEEEETTEECCTTCBSGGGTCCTT----
T ss_pred             CeEEEEEEeCCCCEE-EEEECCCCcHHHHHHHHHHHhCCC---------hhHEEEEECCEECCCCCcHHHCCCCCC----
Confidence            568899999999654 79999999999999999998  55         999999999999999999999999998    


Q ss_pred             ceEEEEEEecCCCC
Q 034110           83 GVIIMHVVVQPSLA   96 (103)
Q Consensus        83 ~~~t~hlv~~~~~~   96 (103)
                        .+|||+++..++
T Consensus        87 --~~i~l~~rl~GG   98 (98)
T 4hcn_B           87 --STLHLVLRLRGG   98 (98)
T ss_dssp             --EEEEEECBCSCC
T ss_pred             --CEEEEEEecCCC
Confidence              789999998764

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

Probab=99.77  E-value=2.2e-18  Score=112.18  Aligned_cols=71  Identities=11%  Similarity=0.190  Sum_probs=64.3

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVP   81 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~   81 (103)
                      ++-++|.++...|+.+ .++++|++||++||++|+++  +|         +++|||||+||+|+|+.||++|+|.+|   
T Consensus        19 ~~mIqI~Vk~~~Gkk~-~v~v~p~DTI~~LK~~I~~k~Gip---------~~qQrLif~Gk~LkD~~TL~dY~I~dg---   85 (93)
T 3plu_A           19 SHMIEVVVNDRLGKKV-RVKCLGEDSVGDFKKVLSLQIGTQ---------PNKIVLQKGGSVLKDHISLEDYEVHDQ---   85 (93)
T ss_dssp             -CEEEEEEECTTSCEE-EEEEETTSBHHHHHHHHHHHHTCC---------GGGEEEEETTEECCTTSBTGGGTCCTT---
T ss_pred             CceEEEEEECCCCCEE-EEEECCcCHHHHHHHHHHHHhCCC---------HHHEEEEeCCEEccCcCCHHHcCCCCC---
Confidence            4568899999999765 69999999999999999988  65         999999999999999999999999999   


Q ss_pred             CceEEEEEE
Q 034110           82 GGVIIMHVV   90 (103)
Q Consensus        82 ~~~~t~hlv   90 (103)
                         +|+||.
T Consensus        86 ---stLhL~   91 (93)
T 3plu_A           86 ---TNLELY   91 (93)
T ss_dssp             ---CEEEEE
T ss_pred             ---CEEEEE
Confidence               789985

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

Probab=99.77  E-value=3.8e-18  Score=106.53  Aligned_cols=81  Identities=25%  Similarity=0.366  Sum_probs=65.3

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCce
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGV   84 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~   84 (103)
                      ..++|.++..+|+.+ .+++++++||.+||++|++.+.  .+.+|  +++|||+|+|+.|+|+.+|++|+|.+|      
T Consensus         4 ~~m~i~vk~~~g~~~-~~~v~~~~TV~~lK~~i~~~~~--~~gip--~~~qrLi~~Gk~L~D~~tL~~~~i~~g------   72 (85)
T 2wyq_A            4 MAVTITLKTLQQQTF-KIRMEPDETVKVLKEKIEAEKG--RDAFP--VAGQKLIYAGKILSDDVPIRDYRIDEK------   72 (85)
T ss_dssp             CCEEEEEEETTSCEE-EEEECTTSBHHHHHHHHHHHHC--TTTCC--GGGEEEEETTEECCTTSBGGGGCCCTT------
T ss_pred             ceEEEEEEECCCCEE-EEEECCCCCHHHHHHHHHhhcc--ccCCC--HHHeEEEECCEECcCCCCHHHcCCCCC------
Confidence            357888999999654 7899999999999999999521  01233  999999999999999999999999988      


Q ss_pred             EEEEEEecCCCC
Q 034110           85 IIMHVVVQPSLA   96 (103)
Q Consensus        85 ~t~hlv~~~~~~   96 (103)
                      .++|++.+++.+
T Consensus        73 ~~i~l~~~~~~~   84 (85)
T 2wyq_A           73 NFVVVMVTKTKA   84 (85)
T ss_dssp             SEEEEEEC----
T ss_pred             CEEEEEEcCCCC
Confidence            689999887644

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

Probab=99.76  E-value=4e-18  Score=105.30  Aligned_cols=76  Identities=21%  Similarity=0.349  Sum_probs=67.3

Q ss_pred             CCceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCC
Q 034110            3 DEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEV   80 (103)
Q Consensus         3 ~~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~   80 (103)
                      +.+.+.|+++..+|.. ..+++++++||++||++|++.  +|         ++.|||+|+|+.|+|+.+|++|+|.+|  
T Consensus         4 ~~~~m~i~vk~~~g~~-~~~~v~~~~tV~~LK~~i~~~~~i~---------~~~qrL~~~gk~L~d~~tL~~~~i~~g--   71 (81)
T 2dzi_A            4 GSSGMQLTVKALQGRE-CSLQVPEDELVSTLKQLVSEKLNVP---------VRQQRLLFKGKALADGKRLSDYSIGPN--   71 (81)
T ss_dssp             SSSSEEEEEEETTSCE-EEEEECSSCBHHHHHHHHHHHTCCC---------TTTCEEEETTEECCTTSBGGGGTCCSS--
T ss_pred             CCCcEEEEEEeCCCCE-EEEEECCCCcHHHHHHHHHHHHCcC---------HHHEEEEECCeECCCCCcHHHcCCCCC--
Confidence            3567889999888954 478999999999999999998  55         999999999999999999999999988  


Q ss_pred             CCceEEEEEEecCC
Q 034110           81 PGGVIIMHVVVQPS   94 (103)
Q Consensus        81 ~~~~~t~hlv~~~~   94 (103)
                          .++|++++++
T Consensus        72 ----~~i~l~~~~~   81 (81)
T 2dzi_A           72 ----SKLNLVVKPL   81 (81)
T ss_dssp             ----BCCEEECCCC
T ss_pred             ----CEEEEEEeCC
Confidence                6799998864

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

Probab=99.76  E-value=4.9e-18  Score=105.58  Aligned_cols=77  Identities=18%  Similarity=0.277  Sum_probs=68.2

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      +.++|.++..+|.. ..+++++++||.+||++|++.  +|         ++.|||+|+|+.|+|+.+|++|+|.++    
T Consensus         2 s~m~i~vk~~~g~~-~~~~v~~~~tV~~lK~~i~~~~~i~---------~~~qrL~~~g~~L~d~~tL~~~~i~~~----   67 (85)
T 3mtn_B            2 SHMQIFVKTLTGKT-ITLEVEPSDTIENVKAKIQDKEGIP---------PDQQRLIFAGKQLEDGRTLSDYNIQKW----   67 (85)
T ss_dssp             -CEEEEEECTTSCE-EEEEECTTCBHHHHHHHHHHHHCCC---------GGGCEEEETTEECCTTSBTGGGTCCTT----
T ss_pred             CeEEEEEEcCCCCE-EEEEECCCCCHHHHHHHHHHHHCcC---------hHHEEEEECCEECCCCCCHHHcCCCCC----
Confidence            35788999999955 478999999999999999998  66         999999999999999999999999988    


Q ss_pred             ceEEEEEEecCCCCC
Q 034110           83 GVIIMHVVVQPSLAK   97 (103)
Q Consensus        83 ~~~t~hlv~~~~~~~   97 (103)
                        .++|++++..+++
T Consensus        68 --~~l~l~~r~~GG~   80 (85)
T 3mtn_B           68 --STLFLLLRLRGGG   80 (85)
T ss_dssp             --CEEEEECCCCCC-
T ss_pred             --CEEEEEEECcCCC
Confidence              6899999988763

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

Probab=99.76  E-value=2.9e-18  Score=106.75  Aligned_cols=76  Identities=18%  Similarity=0.256  Sum_probs=66.0

Q ss_pred             eEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCc
Q 034110            6 LIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGG   83 (103)
Q Consensus         6 ~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~   83 (103)
                      .++|.++..+|.. ..+++++++||.+||++|++.  +|         +++|||+|+|+.|+|+.+|++|+|.++     
T Consensus         3 ~m~i~vk~~~g~~-~~~~v~~~~tV~~lK~~i~~~~~ip---------~~~qrL~~~g~~L~d~~tL~~~~i~~~-----   67 (85)
T 3n3k_B            3 HMRIVVKTLMGRT-IILEVEPSDTIENVKAKIQDKEGIP---------PDQQRLIFAGKQLEDGRTLSDYNIHNH-----   67 (85)
T ss_dssp             -CEEEEECGGGCE-EEEECCTTCBHHHHHHHHHHHHCCC---------GGGEEEEETBEECCTTCBTTTTTCCTT-----
T ss_pred             eEEEEEEeCCCCE-EEEEECCCCcHHHHHHHHHHHHCCC---------HHHEEEEECCeECCCCCCHHHCCCCCC-----
Confidence            4678888888855 478999999999999999998  66         999999999999999999999999988     


Q ss_pred             eEEEEEEecCCCCC
Q 034110           84 VIIMHVVVQPSLAK   97 (103)
Q Consensus        84 ~~t~hlv~~~~~~~   97 (103)
                       .++|++++..+++
T Consensus        68 -~~i~l~~rl~GG~   80 (85)
T 3n3k_B           68 -SALYLLLKLRGGG   80 (85)
T ss_dssp             -CEEEEEECCC---
T ss_pred             -CEEEEEEeccCCC
Confidence             6899999988764

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

Probab=99.76  E-value=5.3e-18  Score=107.95  Aligned_cols=74  Identities=23%  Similarity=0.393  Sum_probs=67.1

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVP   81 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~   81 (103)
                      ...++|.++..+|..+ .+++++++||.+||++|++.  +|         ++.|||+|+|+.|+|+.+|++|+|.+|   
T Consensus        15 ~~~m~i~Vk~~~g~~~-~l~v~~~~TV~~LK~~I~~~~gip---------~~~qrL~~~Gk~L~D~~tL~~~gi~~g---   81 (91)
T 3v6c_B           15 RGSMQIFVNTLTGTHI-TLEVEPSDTIENVKAKIQDKEGIP---------PDQQRLIFAGKQLEDGRTLSDYNIQKE---   81 (91)
T ss_dssp             CCSEEEEEECTTSCEE-EEEECTTCBHHHHHHHHHHHHCCC---------GGGCEEEETTEECCTTCBTGGGTCCTT---
T ss_pred             CCeEEEEEEeCCCCEE-EEEECCCCCHHHHHHHHHhhhCCC---------hhhEEEEECCeECCCcCcHHHCCCCCC---
Confidence            4578999999999654 78999999999999999998  66         999999999999999999999999999   


Q ss_pred             CceEEEEEEecC
Q 034110           82 GGVIIMHVVVQP   93 (103)
Q Consensus        82 ~~~~t~hlv~~~   93 (103)
                         .++||+++.
T Consensus        82 ---~~i~l~~rl   90 (91)
T 3v6c_B           82 ---STLHLVLRL   90 (91)
T ss_dssp             ---CEEEEECCC
T ss_pred             ---CEEEEEEec
Confidence               689999875

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

Probab=99.76  E-value=2.9e-18  Score=112.85  Aligned_cols=72  Identities=17%  Similarity=0.240  Sum_probs=65.3

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVP   81 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~   81 (103)
                      ++-++|.++...|+.+ .+++++++||++||++|++.  +|         +++|||||+||+|+|+.||++|+|.++   
T Consensus        26 ~~mm~I~VKtl~Gk~i-~lev~p~dTV~~lK~~Ia~k~Gip---------~~qQrLi~~Gk~L~D~~TL~dygI~~g---   92 (100)
T 1uh6_A           26 ATMIEVVCNDRLGKKV-RVKCNTDDTIGDLKKLIAAQTGTR---------WNKIVLKKWYTIFKDHVSLGDYEIHDG---   92 (100)
T ss_dssp             CCEEEEEEECSSSSCE-EEEEETTSBHHHHHHHHHHHHCCC---------GGGCEEEETTEECCSSCBHHHHTCCTT---
T ss_pred             CCeEEEEEECCCCCEE-EEEeCCCCcHHHHHHHHHHHhCCC---------HHHEEEEECCEECCCCCCHHHcCCCCC---
Confidence            4569999999989665 68999999999999999998  66         999999999999999999999999988   


Q ss_pred             CceEEEEEEe
Q 034110           82 GGVIIMHVVV   91 (103)
Q Consensus        82 ~~~~t~hlv~   91 (103)
                         .|+||+-
T Consensus        93 ---stlhL~~   99 (100)
T 1uh6_A           93 ---MNLELYY   99 (100)
T ss_dssp             ---EEEEEEC
T ss_pred             ---CEEEEEe
Confidence               7899863

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

Probab=99.76  E-value=5.8e-18  Score=102.94  Aligned_cols=73  Identities=27%  Similarity=0.423  Sum_probs=64.5

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceE
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVI   85 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~   85 (103)
                      +|+++..+|..+ .+++++++||.+||++|++.  +|         ++.|||+|+|+.|+|+.+|++|+|.+|      .
T Consensus         2 ~i~vk~~~g~~~-~~~v~~~~tv~~lK~~i~~~~~i~---------~~~q~L~~~g~~L~d~~tL~~~~i~~g------~   65 (76)
T 1ndd_A            2 LIKVKTLTGKEI-EIDIEPTDKVERIKERVEEKEGIP---------PQQQRLIYSGKQMNDEKTAADYKILGG------S   65 (76)
T ss_dssp             EEEEECTTSCEE-EEECCTTCBHHHHHHHHHHHHCCC---------GGGEEEEETTEECCTTSBGGGGTCCTT------C
T ss_pred             EEEEECCCCCEE-EEEECCCChHHHHHHHHHHHHCcC---------hHHEEEEECCEECCCCCcHHHcCCCCC------C
Confidence            578888889554 78999999999999999988  66         999999999999999999999999988      6


Q ss_pred             EEEEEecCCCC
Q 034110           86 IMHVVVQPSLA   96 (103)
Q Consensus        86 t~hlv~~~~~~   96 (103)
                      ++|++++..++
T Consensus        66 ~i~l~~~~~GG   76 (76)
T 1ndd_A           66 VLHLVLALRGG   76 (76)
T ss_dssp             EEEEEECCC--
T ss_pred             EEEEEEeCCCC
Confidence            89999998764

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

Probab=99.76  E-value=4.1e-18  Score=111.42  Aligned_cols=78  Identities=22%  Similarity=0.451  Sum_probs=64.3

Q ss_pred             CceEEEEEEeCCCCeeeeE--EeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCC-CCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPF--RYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKI-PYGEV   80 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~--~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i-~~g~~   80 (103)
                      ++.+.|.|+..+|+.+ .+  ++++++||++||++|++...    ++|  +++|||||+||+|+|+.+|++|+| .+|  
T Consensus        17 ~~~m~I~VKtl~g~~~-~i~v~v~~~~TV~~lK~~I~~~~~----gip--~~~QrLi~~Gk~L~D~~tL~dy~I~~~g--   87 (98)
T 4a20_A           17 NAAVHLTLKKIQAPKF-SIEHDFSPSDTILQIKQHLISEEK----ASH--ISEIKLLLKGKVLHDNLFLSDLKVTPAN--   87 (98)
T ss_dssp             -CCEEEEEEECSSSCE-EEEEEECTTCBHHHHHHHHHHTTS----CSC--GGGEEEEETTEEECTTCBGGGSCCBTTB--
T ss_pred             CCCEEEEEEcCCCCEE-EEEEecCCCChHHHHHHHHHHHhc----CCC--hhhEEEEECCEECcCcCCHHHcCcCCCC--
Confidence            4679999999999643 45  66799999999999944321    344  999999999999999999999999 888  


Q ss_pred             CCceEEEEEEecCC
Q 034110           81 PGGVIIMHVVVQPS   94 (103)
Q Consensus        81 ~~~~~t~hlv~~~~   94 (103)
                          .++||+++.+
T Consensus        88 ----~ti~lmvskp   97 (98)
T 4a20_A           88 ----STITVMIKPN   97 (98)
T ss_dssp             ----CEEEEEECCC
T ss_pred             ----CEEEEEEeCC
Confidence                6799988764

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

Probab=99.76  E-value=3.5e-18  Score=112.47  Aligned_cols=73  Identities=16%  Similarity=0.119  Sum_probs=61.0

Q ss_pred             eEEEEEEeCC----CCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCC
Q 034110            6 LIDIKFRLYD----GSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGE   79 (103)
Q Consensus         6 ~v~l~~~~~~----g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~   79 (103)
                      -..|++++.+    | ....+++++++||.+||++|++.  +|         +++|||||+||+|+|+.||++|+|.+| 
T Consensus        15 ~ati~V~~~~~~~~~-~~~~lev~~~~TV~~lK~kI~~k~gip---------~~qQrLI~~GKiL~D~~TL~~y~I~~g-   83 (100)
T 1wju_A           15 IATIEVFLPPRLKKD-RKNLLETRLHITGRELRSKIAETFGLQ---------ENYIKIVINKKQLQLGKTLEEQGVAHN-   83 (100)
T ss_dssp             EEEEEEECCTTTCCS-SSEEEEEESSSBHHHHHHHHHHHTTCC---------STTCEEEETTEECCTTSBHHHHTCCSS-
T ss_pred             eEEEEEEecCCCCCC-cEEEEEeCCcCHHHHHHHHHHHHHCcC---------HHHeEEEeCCeECCCCCcHHHcCCCCC-
Confidence            3466667777    5 34579999999999999999999  55         999999999999999999999999999 


Q ss_pred             CCCceEEEEEEecCCC
Q 034110           80 VPGGVIIMHVVVQPSL   95 (103)
Q Consensus        80 ~~~~~~t~hlv~~~~~   95 (103)
                           .++| ++++.+
T Consensus        84 -----sti~-vl~lrg   93 (100)
T 1wju_A           84 -----VKAM-VLELKQ   93 (100)
T ss_dssp             -----EEEE-EECCCC
T ss_pred             -----CEEE-EEEECC
Confidence                 6774 454443

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

Probab=99.75  E-value=2.5e-18  Score=109.16  Aligned_cols=76  Identities=18%  Similarity=0.135  Sum_probs=64.6

Q ss_pred             eEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCc
Q 034110            6 LIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGG   83 (103)
Q Consensus         6 ~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~   83 (103)
                      .++|.++..+|+. ..+++++++||.+||++|++.  +|         +++|||+|+|+.|+|+.+|++|+|.+|     
T Consensus         4 ~m~I~Vk~~~g~~-~~~~v~~~~TV~~LK~~I~~~~gip---------~~~qrL~~~Gk~L~D~~tL~~~~I~~g-----   68 (88)
T 2hj8_A            4 PLSILVRNNKGRS-STYEVRLTQTVAHLKQQVSGLEGVQ---------DDLFWLTFEGKPLEDQLPLGEYGLKPL-----   68 (88)
T ss_dssp             EEEEEEEETTSCE-EEEEEESSSBHHHHHHHHHHHTCSC---------TTTEEEESSSSCCCTTSBHHHHHCSTT-----
T ss_pred             cEEEEEECCCCCE-EEEEECCCCcHHHHHHHHHHHhCCC---------hhHEEEEECCEECCCCCcHHHcCCCCC-----
Confidence            4778888888955 478999999999999999998  55         999999999999999999999999988     


Q ss_pred             eEEEEEEecCCCCC
Q 034110           84 VIIMHVVVQPSLAK   97 (103)
Q Consensus        84 ~~t~hlv~~~~~~~   97 (103)
                       .++||++++.+++
T Consensus        69 -~~i~l~~~~~gg~   81 (88)
T 2hj8_A           69 -STVFMNLRLRGGL   81 (88)
T ss_dssp             -CEEEEEEC-----
T ss_pred             -CEEEEEEEcCCCc
Confidence             6899999988764

>1we7_A SF3A1 protein; structural genomics, ubiquitin-like domain, riken structural genomics/proteomics initiative, RSGI, gene regulation; NMR {Mus musculus} SCOP: d.15.1.1 PDB: 1zkh_A

Probab=99.75  E-value=6.8e-18  Score=112.15  Aligned_cols=79  Identities=16%  Similarity=0.315  Sum_probs=70.4

Q ss_pred             ceEEEEEEeCC----------CCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccc
Q 034110            5 ELIDIKFRLYD----------GSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQ   72 (103)
Q Consensus         5 ~~v~l~~~~~~----------g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~   72 (103)
                      ..|+|++++.+          | ....+++++++||.+||++|++.  +|         +++|||+|+|+.|+|+.+|++
T Consensus        24 ~~i~l~V~~p~~~~~~~~~L~G-~~~~l~v~~~~TV~~LK~~I~~~~gip---------~~~QrL~~~Gk~L~D~~tL~~   93 (115)
T 1we7_A           24 GPVSIKVQVPNMQDKTEWKLNG-QGLVFTLPLTDQVSVIKVKIHEATGMP---------AGKQKLQYEGIFIKDSNSLAY   93 (115)
T ss_dssp             SCEEEEEEECCCSSSCSSCCSS-EEEEEEECSCSBTHHHHHHHHHHSSCC---------TTTEEEEETTEEECTTSBHHH
T ss_pred             CCEEEEEEcCCCccccccccCC-eEEEEEECCCCCHHHHHHHHHHHHCCC---------hHHEEEEECCEECCCCCCHHH
Confidence            47888888874          4 45679999999999999999998  55         999999999999999999999


Q ss_pred             cCCCCCCCCCceEEEEEEecCCCCCCc
Q 034110           73 CKIPYGEVPGGVIIMHVVVQPSLAKTK   99 (103)
Q Consensus        73 ~~i~~g~~~~~~~t~hlv~~~~~~~k~   99 (103)
                      |+|.+|      .++||+++..++++|
T Consensus        94 y~i~~g------~~i~lv~rl~GGk~~  114 (115)
T 1we7_A           94 YNMASG------AVIHLALKERSGPSS  114 (115)
T ss_dssp             HTCCSS------CEEEEEECCCSCCSC
T ss_pred             CCCCCC------CEEEEEEEcCCCCCC
Confidence            999988      689999999988665

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

Probab=99.75  E-value=1e-17  Score=101.82  Aligned_cols=73  Identities=22%  Similarity=0.345  Sum_probs=65.7

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceE
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVI   85 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~   85 (103)
                      +|+++..+|.. ..+++++++||.+||++|++.  +|         ++.|||+|+|+.|+|+.+|++|+|.+|      .
T Consensus         2 ~i~vk~~~g~~-~~i~v~~~~tv~~lK~~i~~~~~i~---------~~~q~L~~~g~~L~d~~tL~~~~i~~g------~   65 (76)
T 3a9j_A            2 QIFVKTLTGKT-ITLEVEPSDTIENVKAKIQDKEGIP---------PDQQRLIFAGKQLEDGRTLSDYNIQRE------S   65 (76)
T ss_dssp             EEEEEETTSCE-EEEECCTTCBHHHHHHHHHHHHCCC---------GGGEEEEETTEECCTTCBTGGGTCCTT------C
T ss_pred             EEEEEcCCCCE-EEEEECCCCcHHHHHHHHHHHHCcC---------HHHeEEEECCeECCCCCcHHHcCCCCC------C
Confidence            57788888855 478999999999999999998  66         999999999999999999999999988      6


Q ss_pred             EEEEEecCCCC
Q 034110           86 IMHVVVQPSLA   96 (103)
Q Consensus        86 t~hlv~~~~~~   96 (103)
                      ++|++++..|+
T Consensus        66 ~i~l~~~~~GG   76 (76)
T 3a9j_A           66 TLHLVLRLRGG   76 (76)
T ss_dssp             EEEEEECCCCC
T ss_pred             EEEEEEeCCCC
Confidence            89999998775

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

Probab=99.75  E-value=2e-18  Score=110.65  Aligned_cols=75  Identities=21%  Similarity=0.447  Sum_probs=62.2

Q ss_pred             EEEEEEeCCCCeeeeEEeC--CcchHHHHHHHH-HhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCC-CCCCCCC
Q 034110            7 IDIKFRLYDGSDIGPFRYS--SASTVDMLKQRI-VSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKI-PYGEVPG   82 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~--~~~tV~~lK~~i-~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i-~~g~~~~   82 (103)
                      +.|.|+..+|..+ .++++  +++||.+||++| ++.     +++|  +++|||||+||+|+|+.+|++|+| .+|    
T Consensus         2 mqI~VKtl~g~~~-~i~v~v~~~~TV~~lK~~I~~~~-----~gip--~~~QrLi~~Gk~L~D~~tL~~y~I~~~~----   69 (87)
T 2lxa_A            2 VHLTLKKIQAPKF-SIEHDFSPSDTILQIKQHLISEE-----KASH--ISEIKLLLKGKVLHDNLFLSDLKVTPAN----   69 (87)
T ss_dssp             CEEEEEECSSSCE-ECCEECCTTCBHHHHHHHHHHTT-----SCSS--STTEEEEETTEECCTTCBHHHHCCCGGG----
T ss_pred             EEEEEEcCCCCEE-EEEEcCCCCCcHHHHHHHHHHHh-----cCCC--hHHEEEEECCEECcCcCCHHHcCCCCCC----
Confidence            4788999999654 56644  999999999999 655     1333  999999999999999999999999 567    


Q ss_pred             ceEEEEEEecCCC
Q 034110           83 GVIIMHVVVQPSL   95 (103)
Q Consensus        83 ~~~t~hlv~~~~~   95 (103)
                        +++||+.++.-
T Consensus        70 --stl~v~~~~~~   80 (87)
T 2lxa_A           70 --STITVMIKPNL   80 (87)
T ss_dssp             --CEEEEEECCCC
T ss_pred             --CEEEEEcCCCc
Confidence              68999988763

>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=99.75  E-value=5.8e-18  Score=109.49  Aligned_cols=76  Identities=18%  Similarity=0.291  Sum_probs=69.0

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      ..++|.++..+|+.+ .+++++++||.+||++|++.  +|         +++|||||+|+.|+|+.||++|+|.+|    
T Consensus        20 ~~m~I~Vk~~~g~~~-~l~v~~~~tv~~lK~~i~~~~gip---------~~~qrLif~Gk~L~d~~tl~dy~i~~g----   85 (97)
T 1wyw_B           20 EYIKLKVIGQDSSEI-HFKVKMTTHLKKLKESYCQRQGVP---------MNSLRFLFEGQRIADNHTPKELGMEEE----   85 (97)
T ss_dssp             CEEEEEEECTTCCEE-EEEEETTSCTHHHHHHHHHHHTCC---------GGGEEEEETTEECCTTCCHHHHTCCTT----
T ss_pred             CcEEEEEEeCCCCEE-EEEECCCCcHHHHHHHHHHHHCCC---------hhhEEEEECCeEcCCCCCHHHCCCCCC----
Confidence            358999999999665 69999999999999999998  66         999999999999999999999999999    


Q ss_pred             ceEEEEEEecCCCC
Q 034110           83 GVIIMHVVVQPSLA   96 (103)
Q Consensus        83 ~~~t~hlv~~~~~~   96 (103)
                        .++||+++..|+
T Consensus        86 --~~I~l~~~~~GG   97 (97)
T 1wyw_B           86 --DVIEVYQEQTGG   97 (97)
T ss_dssp             --CEEEEEESSSCC
T ss_pred             --CEEEEEEecCCC
Confidence              689999998764

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

Probab=99.75  E-value=5.4e-18  Score=107.37  Aligned_cols=72  Identities=25%  Similarity=0.350  Sum_probs=64.8

Q ss_pred             eEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCee-cCCCCcccccCCCCCCCCC
Q 034110            6 LIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKI-LENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         6 ~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~-L~D~~tL~~~~i~~g~~~~   82 (103)
                      -..|.++..+|+.+ .+++++++||++||++|++.  +|         +++|||||+|+. |+|+.+|++|+|.+|    
T Consensus        10 ~~~i~vk~l~g~~~-~l~v~~~~TV~~LK~~I~~~~gip---------~~~QrLi~~Gk~lL~D~~tL~~y~I~~g----   75 (84)
T 2kk8_A           10 HMKFLVENLNGSSF-ELEVDYRDTLLVVKQKIERSQHIP---------VSKQTLIVDGIVILREDLTVEQCQIVPT----   75 (84)
T ss_dssp             CEEEEEEETTSCEE-EEEECTTSBHHHHHHHHHHHHTCC---------GGGEEEEETTEECCCSSSBHHHHTCCTT----
T ss_pred             ceEEEEEecCCcEE-EEEECCCChHHHHHHHHHHHHCcC---------hHHEEEEECCEEecCCcCCHHHcCCCCC----
Confidence            46788888999654 79999999999999999999  55         999999999999 999999999999988    


Q ss_pred             ceEEEEEEecC
Q 034110           83 GVIIMHVVVQP   93 (103)
Q Consensus        83 ~~~t~hlv~~~   93 (103)
                        .++||+++|
T Consensus        76 --s~i~lv~~p   84 (84)
T 2kk8_A           76 --SDIQLEVSS   84 (84)
T ss_dssp             --SCEEEEECC
T ss_pred             --CEEEEEEcC
Confidence              679999875

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

Probab=99.74  E-value=9.5e-18  Score=109.32  Aligned_cols=77  Identities=23%  Similarity=0.417  Sum_probs=69.3

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVP   81 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~   81 (103)
                      ...+.|.++..+| .+ .+++++++||.+||++|++.  +|         +++|||||+|+.|+|+.+|++|+|.+|   
T Consensus        20 ~~~m~I~Vk~~~g-~~-~l~v~~~~TV~~LK~~I~~~~gip---------~~~QrLi~~Gk~L~D~~tL~~ygI~~g---   85 (100)
T 1yqb_A           20 PHLIKVTVKTPKD-KE-DFSVTDTCTIQQLKEEISQRFKAH---------PDQLVLIFAGKILKDPDSLAQCGVRDG---   85 (100)
T ss_dssp             TTEEEEEEECSSC-EE-EEEEETTCBHHHHHHHHHHHHTCC---------GGGEEEEETTEECCTTSBHHHHTCCTT---
T ss_pred             CCeEEEEEEcCCC-cE-EEEECCCCcHHHHHHHHHHHHCcC---------hhhEEEEECCEECCCcCcHHHCCCCCC---
Confidence            4678999999998 44 78999999999999999998  66         999999999999999999999999988   


Q ss_pred             CceEEEEEEecCCCCC
Q 034110           82 GGVIIMHVVVQPSLAK   97 (103)
Q Consensus        82 ~~~~t~hlv~~~~~~~   97 (103)
                         .++||+++..+++
T Consensus        86 ---stI~l~~r~~~~p   98 (100)
T 1yqb_A           86 ---LTVHLVIKRQHRA   98 (100)
T ss_dssp             ---CEEEEEECCCCSC
T ss_pred             ---CEEEEEEcCCCCC
Confidence               6899999987654

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

Probab=99.74  E-value=1.2e-17  Score=110.63  Aligned_cols=76  Identities=22%  Similarity=0.361  Sum_probs=68.5

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      ..++|+++..+|..+ .+++++++||.+||++|++.  +|         +++|||+|+|+.|+|+.+|++|+|.++    
T Consensus        34 ~~m~I~Vk~~~G~~~-~l~v~~~~TV~~LK~~I~~~~gip---------~~~QrLi~~Gk~L~D~~tL~~~gI~~g----   99 (111)
T 3vdz_A           34 LAMQIFVKTLTGKTI-TLEVEPSDTIENVKAKIQDKEGIP---------PDQQRLIFAGKQLEDGRTLSDYNIQKE----   99 (111)
T ss_dssp             GCEEEEEECSSSCEE-EEEECTTCBHHHHHHHHHHHHCCC---------GGGEEEEETTEECCTTSBTTTTTCCTT----
T ss_pred             ccEEEEEEeCCCCEE-EEEeCCCCCHHHHHHHHHHHhCCC---------hHHEEEEECCEECCCCCcHHHCCCCCC----
Confidence            468899999999654 79999999999999999998  66         999999999999999999999999988    


Q ss_pred             ceEEEEEEecCCCC
Q 034110           83 GVIIMHVVVQPSLA   96 (103)
Q Consensus        83 ~~~t~hlv~~~~~~   96 (103)
                        .++||+++..++
T Consensus       100 --s~I~l~~rl~GG  111 (111)
T 3vdz_A          100 --STLHLVLRLRGG  111 (111)
T ss_dssp             --CEEEEEECCCC-
T ss_pred             --CEEEEEEecCCC
Confidence              689999998764

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

Probab=99.74  E-value=8.5e-18  Score=106.77  Aligned_cols=76  Identities=21%  Similarity=0.319  Sum_probs=63.5

Q ss_pred             eEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCc
Q 034110            6 LIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGG   83 (103)
Q Consensus         6 ~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~   83 (103)
                      ...|.++..+|+. ..+++++++||.+||++|++.  +|         ++.|||+|+|+.|+|+.+|++|+|.+|     
T Consensus         9 ~~~i~v~~~~G~~-~~l~v~~~~TV~~LK~~I~~~~gip---------~~~qrL~~~Gk~L~D~~tL~~~gi~~g-----   73 (88)
T 1sif_A            9 GLQLFIKTLTGKT-FTVEMEPSDTIENLKAKIQDKEGIP---------PDQQRLIFAGKQLEDGRTLSDYNIQKE-----   73 (88)
T ss_dssp             -CEEEEEETTSCE-EEEECCTTSBHHHHHHHHHHHHCCC---------GGGCEEEETTEECCTTSBSGGGTCCTT-----
T ss_pred             ceEEEEEeCCCCE-EEEEECCCChHHHHHHHHHHHHCcC---------hhhEEEEECCEECCCCCcHHHcCCCCC-----
Confidence            3578889999955 478999999999999999998  66         999999999999999999999999988     


Q ss_pred             eEEEEEEecCCCCC
Q 034110           84 VIIMHVVVQPSLAK   97 (103)
Q Consensus        84 ~~t~hlv~~~~~~~   97 (103)
                       .++||++++.+++
T Consensus        74 -~~i~l~~r~~GG~   86 (88)
T 1sif_A           74 -STLHLVLRLRGGG   86 (88)
T ss_dssp             -CEEEEEC------
T ss_pred             -CEEEEEEeCCCCC
Confidence             6899999988763

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

Probab=99.74  E-value=2.2e-17  Score=101.00  Aligned_cols=70  Identities=30%  Similarity=0.386  Sum_probs=62.9

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCce
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGV   84 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~   84 (103)
                      ++|+++. +|+ ...+++++++||.+||++|++.  +|         ++.|||+|+|+.|+|+.+|++|+|.+|      
T Consensus         5 m~i~vk~-~g~-~~~~~v~~~~tV~~LK~~i~~~~~i~---------~~~qrL~~~gk~L~d~~tL~~~~i~~g------   67 (77)
T 2bwf_A            5 LNIHIKS-GQD-KWEVNVAPESTVLQFKEAINKANGIP---------VANQRLIYSGKILKDDQTVESYHIQDG------   67 (77)
T ss_dssp             EEEEEEE-TTE-EEEEEECTTCBHHHHHHHHHHHHCCC---------GGGEEEEETTEECCTTSBTGGGTCCTT------
T ss_pred             EEEEEEE-CCE-EEEEEECCCCcHHHHHHHHHHHhCCC---------HHHEEEEECCeEcCCCCCHHHcCCCCC------
Confidence            7888888 774 4578999999999999999988  66         999999999999999999999999988      


Q ss_pred             EEEEEEecC
Q 034110           85 IIMHVVVQP   93 (103)
Q Consensus        85 ~t~hlv~~~   93 (103)
                      .++|++.++
T Consensus        68 ~~i~l~~~~   76 (77)
T 2bwf_A           68 HSVHLVKSQ   76 (77)
T ss_dssp             CEEEEEECC
T ss_pred             CEEEEEEcC
Confidence            689998765

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

Probab=99.74  E-value=2.2e-17  Score=106.13  Aligned_cols=80  Identities=26%  Similarity=0.354  Sum_probs=66.3

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEEE
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIM   87 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t~   87 (103)
                      .|.++..+|..+ .+++++++||.+||++|++.+.  .+++|  +++|||||+||.|+|+.+|++|+|.+|      .++
T Consensus         2 ~I~Vk~~~g~~~-~~~v~~~~TV~~LK~~I~~~~~--~~gip--~~~qrLi~~Gk~L~D~~tL~~ygI~~g------~~i   70 (95)
T 1uel_A            2 QVTLKTLQQQTF-KIDIDPEETVKALKEKIESEKG--KDAFP--VAGQKLIYAGKILNDDTALKEYKIDEK------NFV   70 (95)
T ss_dssp             EEEEEETTCCEE-EEECCTTSBHHHHHHHHHHHHC--TTTCC--TTTEEEEETTEECCTTSBGGGGTCCSS------SEE
T ss_pred             EEEEEeCCCCEE-EEEECCCCHHHHHHHHHHhhcc--cCCCC--hhhEEEEECCEECCCcCcHHHCCCCCC------CEE
Confidence            577888889654 7899999999999999998721  01233  999999999999999999999999988      689


Q ss_pred             EEEecCCCCCC
Q 034110           88 HVVVQPSLAKT   98 (103)
Q Consensus        88 hlv~~~~~~~k   98 (103)
                      ||+++.+.+++
T Consensus        71 ~l~~~~~~~~~   81 (95)
T 1uel_A           71 VVMVTKPKAVS   81 (95)
T ss_dssp             EEEESSCCCCC
T ss_pred             EEEEeCCCCCC
Confidence            99988665544

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

Probab=99.74  E-value=2.3e-17  Score=105.69  Aligned_cols=80  Identities=19%  Similarity=0.336  Sum_probs=69.7

Q ss_pred             CCCceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCC-CcccccCCCCCCC
Q 034110            2 PDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENN-KTVGQCKIPYGEV   80 (103)
Q Consensus         2 ~~~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~-~tL~~~~i~~g~~   80 (103)
                      ++++.+.|.++..+|+. ..+++++++||.+||++|++..          +++|||||+||.|+|+ .+|++|+|.+|  
T Consensus         3 ~~~~~m~i~Vk~~~g~~-~~~~v~~~~TV~~LK~~i~~~~----------~~~qrLi~~Gk~L~D~~~tL~~y~i~~g--   69 (95)
T 1wia_A            3 SGSSGINVRLKFLNDTE-ELAVARPEDTVGTLKSKYFPGQ----------ESQMKLIYQGRLLQDPARTLSSLNITNN--   69 (95)
T ss_dssp             CCCCSEEEEEEETTTEE-EEEEECSSSBHHHHHHHHSSST----------TTTCEEEETTEECCCSSCBTTTTTCCTT--
T ss_pred             CCCCeEEEEEEeCCCCE-EEEEECCCCcHHHHHHHHHhhC----------cCcEEEEECCEEccCCcCCHHHcCCCCC--
Confidence            34678999999999955 4789999999999999999873          7899999999999999 99999999988  


Q ss_pred             CCceEEEEEEecCCCCCC
Q 034110           81 PGGVIIMHVVVQPSLAKT   98 (103)
Q Consensus        81 ~~~~~t~hlv~~~~~~~k   98 (103)
                          .+|||+++.+.+..
T Consensus        70 ----~~i~l~~~~~~~~~   83 (95)
T 1wia_A           70 ----CVIHCHRSPPGAAV   83 (95)
T ss_dssp             ----EEEEEECCCCCCCC
T ss_pred             ----CEEEEEECCCCCCC
Confidence                78999998765543

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

Probab=99.74  E-value=7e-18  Score=110.86  Aligned_cols=75  Identities=24%  Similarity=0.418  Sum_probs=63.7

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEE
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVII   86 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t   86 (103)
                      ++|.|+..+|+. +.+++++++||.+||++|++.+     ++|  +++|||||+||+|+|+.+|++|+|.+|      .+
T Consensus         2 m~I~Vk~~~g~~-~~l~v~~~~TV~~LK~~I~~~~-----gip--~~~QrLi~~Gk~L~D~~tL~~~~i~~g------~~   67 (106)
T 3m62_B            2 VSLTFKNFKKEK-VPLDLEPSNTILETKTKLAQSI-----SCE--ESQIKLIYSGKVLQDSKTVSECGLKDG------DQ   67 (106)
T ss_dssp             -CEEEECTTCCE-EEECCCTTSBHHHHHHHHHHTT-----TSC--GGGCEEEETTEECCTTSBTTTTTCCTT------CE
T ss_pred             EEEEEEeCCCCE-EEEEECCCCcHHHHHHHHHHHH-----CCC--hhhEEEEECCEECCCcCCHHHcCCCCC------CE
Confidence            467888888965 4789999999999999999982     233  999999999999999999999999999      68


Q ss_pred             EEEEecCCC
Q 034110           87 MHVVVQPSL   95 (103)
Q Consensus        87 ~hlv~~~~~   95 (103)
                      +||+++.+.
T Consensus        68 i~lv~~~~~   76 (106)
T 3m62_B           68 VVFMVSQKK   76 (106)
T ss_dssp             EEEECCC--
T ss_pred             EEEEEcCCC
Confidence            999998554

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

Probab=99.73  E-value=7.4e-18  Score=108.08  Aligned_cols=77  Identities=25%  Similarity=0.304  Sum_probs=68.4

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVP   81 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~   81 (103)
                      ++.++|+++.. |.. +.+++++++||.+||++|++.  +|         +++|||+|.|+.|+|+.+|++|+|.+|   
T Consensus        15 ~~~m~i~Vk~~-g~~-~~~~v~~~~TV~~LK~~I~~~~gip---------~~~qrL~~~Gk~L~D~~tL~~~gi~~g---   80 (96)
T 1wx8_A           15 SRIIRVSVKTP-QDC-HEFFLAENSNVRRFKKQISKYLHCN---------ADRLVLIFTGKILRDQDILSQRGILDG---   80 (96)
T ss_dssp             SCEEEEEEECS-SSE-EEEEEETTCCHHHHHHHHHHHTCSC---------TTTBCCEETTEECCTTSCHHHHTCCTT---
T ss_pred             CCcEEEEEEEC-CeE-EEEEECCCCCHHHHHHHHHHHhCCC---------HHHEEEEECCEECCCcCCHHHCCCCCC---
Confidence            35688888888 755 478999999999999999998  55         999999999999999999999999988   


Q ss_pred             CceEEEEEEecCCCCC
Q 034110           82 GGVIIMHVVVQPSLAK   97 (103)
Q Consensus        82 ~~~~t~hlv~~~~~~~   97 (103)
                         .+|||++++.+++
T Consensus        81 ---~~i~l~~~~~~g~   93 (96)
T 1wx8_A           81 ---STVHVVVRSHSGP   93 (96)
T ss_dssp             ---EEEECCBCCSSCS
T ss_pred             ---CEEEEEEeCCCCC
Confidence               7899999987654

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

Probab=99.73  E-value=1.4e-17  Score=112.41  Aligned_cols=76  Identities=20%  Similarity=0.220  Sum_probs=60.9

Q ss_pred             eEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCC-CC
Q 034110            6 LIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEV-PG   82 (103)
Q Consensus         6 ~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~-~~   82 (103)
                      ++.|+++-  |+....+++++++||.+||++|++.  +|         +++|||||+||+|+|+.||++|+|.+... +.
T Consensus         2 ~mfl~ir~--~ktti~lev~~sdTV~~lK~kI~~~egIP---------~~qQrLi~~Gk~LeD~~TLsdy~I~~~~a~~q   70 (118)
T 2fnj_B            2 DVFLMIRR--HKTTIFTDAKESSTVFELKRIVEGILKRP---------PEEQRLYKDDQLLDDGKTLGECGFTSQTARPQ   70 (118)
T ss_dssp             EEEEEEEE--BTEEEEEEEETTSBHHHHHHHHHHHHCCC---------GGGEEEEETTEECCTTSBHHHHTCCTTTSBTT
T ss_pred             cEEEEEec--CCEEEEEEeCCcChHHHHHHHHHHHhCCC---------HHHeEEEECCeECCCCCCHHHcCcccccccCC
Confidence            45666654  5444578999999999999999988  66         99999999999999999999999994110 00


Q ss_pred             ceEEEEEEec
Q 034110           83 GVIIMHVVVQ   92 (103)
Q Consensus        83 ~~~t~hlv~~   92 (103)
                      ..+|+||+++
T Consensus        71 ~~stL~L~lr   80 (118)
T 2fnj_B           71 APATVGLAFR   80 (118)
T ss_dssp             BCEEEEEEEB
T ss_pred             CCCEEEEEec
Confidence            1189999999

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

Probab=99.73  E-value=4e-17  Score=110.46  Aligned_cols=78  Identities=23%  Similarity=0.354  Sum_probs=65.3

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVP   81 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~   81 (103)
                      +..++|.++.. |.. ..+++++++||.+||++|++.  +|         +++|||||+||.|+|+.+|++|+|.+|   
T Consensus        30 ~~~m~I~Vk~~-g~~-~~l~v~~~~TV~~LK~~I~~~~gip---------~~~QrLi~~Gk~L~D~~tL~dygI~~g---   95 (125)
T 1j8c_A           30 PKIIKVTVKTP-KEK-EEFAVPENSSVQQFKEAISKRFKSQ---------TDQLVLIFAGKILKDQDTLIQHGIHDG---   95 (125)
T ss_dssp             CCCEEEEEECS-SCE-EEEEECTTCCHHHHHHHHHHHHCSC---------SSSEEEEETTEEESTTSCGGGTTCSSS---
T ss_pred             CCcEEEEEEeC-CeE-EEEEECCCCcHHHHHHHHHHHHCcC---------cceEEEEECCEEcCCCCCHHHcCCCCC---
Confidence            45788999888 755 478999999999999999998  66         999999999999999999999999988   


Q ss_pred             CceEEEEEEecCCCCCC
Q 034110           82 GGVIIMHVVVQPSLAKT   98 (103)
Q Consensus        82 ~~~~t~hlv~~~~~~~k   98 (103)
                         .+|||+++..++..
T Consensus        96 ---stI~lv~~~~gg~~  109 (125)
T 1j8c_A           96 ---LTVHLVIKRDPNSS  109 (125)
T ss_dssp             ---EEEEEEEC------
T ss_pred             ---CEEEEEeccCCCCC
Confidence               78999999876643

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

Probab=99.72  E-value=4e-17  Score=106.42  Aligned_cols=76  Identities=22%  Similarity=0.371  Sum_probs=67.0

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVP   81 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~   81 (103)
                      ...+.|.++.. |.. ..+++++++||.+||++|++.  +|         ++.|||+|+|+.|+|+.+|++|+|.+|   
T Consensus        23 ~~~m~I~Vk~~-g~~-~~l~v~~~~TV~~LK~~I~~~~gip---------~~~qrLi~~Gk~L~D~~tL~~~gI~~g---   88 (101)
T 2klc_A           23 PKIMKVTVKTP-KEK-EEFAVPENSSVQQFKEEISKRFKSH---------TDQLVLIFAGKILKDQDTLSQHGIHDG---   88 (101)
T ss_dssp             CCCEEEEEECS-SCE-EEEEECSCCCHHHHHHHHHHHHTCC---------GGGEEEEETTEEECTTCCTGGGTCCTT---
T ss_pred             CCeEEEEEEeC-CcE-EEEEECCCCCHHHHHHHHHHHHCcC---------hhhEEEEECCEECCCcCcHHHcCCCCC---
Confidence            35688888888 644 578999999999999999998  66         999999999999999999999999988   


Q ss_pred             CceEEEEEEecCCCC
Q 034110           82 GGVIIMHVVVQPSLA   96 (103)
Q Consensus        82 ~~~~t~hlv~~~~~~   96 (103)
                         .++||++++++.
T Consensus        89 ---~~I~l~~~~~~~  100 (101)
T 2klc_A           89 ---LTVHLVIKTQNR  100 (101)
T ss_dssp             ---CEEEEEECCSSC
T ss_pred             ---CEEEEEEcCCCC
Confidence               689999987654

>4ajy_B Transcription elongation factor B polypeptide 2; E3 ubiquitin ligase, transcription factor, hypoxic signaling transcription; 1.73A {Homo sapiens} PDB: 1lqb_A 1vcb_A 2c9w_B 2izv_B 2jz3_B 2xai_C 3dcg_A 3zrc_A* 3zrf_A 3ztc_A* 3ztd_A* 3zun_A* 1lm8_B 4b95_A* 2fnj_B 4b9k_A* 4awj_A*

Probab=99.72  E-value=2.4e-17  Score=111.30  Aligned_cols=78  Identities=19%  Similarity=0.218  Sum_probs=63.2

Q ss_pred             eEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCC-CC
Q 034110            6 LIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEV-PG   82 (103)
Q Consensus         6 ~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~-~~   82 (103)
                      ++.|+++-  ++....+++++++||.+||++|++.  +|         +++|||||+||+|+|++||++|+|..+.. +.
T Consensus         2 ~vFl~Ikr--~ktTI~ldve~sdTV~~lK~kI~~~~giP---------p~qQrLI~~Gk~LeD~kTL~dy~I~~~ta~~q   70 (118)
T 4ajy_B            2 DVFLMIRR--HKTTIFTDAKESSTVFELKRIVEGILKRP---------PDEQRLYKDDQLLDDGKTLGECGFTSQTARPQ   70 (118)
T ss_dssp             EEEEEEEE--BTEEEEEEEETTSBHHHHHHHHHHHHCCC---------GGGEEEEETTEECCTTSBTTTTTCCGGGSBTT
T ss_pred             ceEEEEec--CCEEEEEEcCCCChHHHHHHHHHHHHCCC---------HHHeEEEeCCeECCCcCCHHHcCCCcCcccCC
Confidence            45666654  4444568999999999999999988  66         99999999999999999999999998222 22


Q ss_pred             ceEEEEEEecCC
Q 034110           83 GVIIMHVVVQPS   94 (103)
Q Consensus        83 ~~~t~hlv~~~~   94 (103)
                      ..+|+||++|..
T Consensus        71 ~~atl~Lvlr~~   82 (118)
T 4ajy_B           71 APATVGLAFRAD   82 (118)
T ss_dssp             BCEEEEEEECCS
T ss_pred             CCCEEEEEEecC
Confidence            238999999963

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

Probab=99.72  E-value=2.2e-17  Score=108.95  Aligned_cols=78  Identities=19%  Similarity=0.279  Sum_probs=69.5

Q ss_pred             ceEEEEEEeC---CCCeeeeEEeCC-cchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCC
Q 034110            5 ELIDIKFRLY---DGSDIGPFRYSS-ASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYG   78 (103)
Q Consensus         5 ~~v~l~~~~~---~g~~~~~~~v~~-~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g   78 (103)
                      ..++|.+++.   +|.. ..+++++ ++||.+||++|++.  +|         +++|||+|+|++|+|+.+|++|+|.+|
T Consensus        26 ~~i~i~Vk~~~~~~g~~-~~l~v~~l~~TV~~LK~~I~~~~gip---------~~~QrL~~~Gk~L~D~~tL~~y~I~~g   95 (111)
T 1we6_A           26 GPATIRVSKPNENDGQF-MEITVQSLSENVGSLKEKIAGEIQIP---------ANKQKLSGKAGFLKDNMSLAHYNVGAG   95 (111)
T ss_dssp             SCEEEEECCTTCSSSCC-EEEEESCSSSBHHHHHHHHHHHTTCC---------TTTSEEECSSSBCCTTSBTTTTTCSSS
T ss_pred             CcEEEEEEecccCCCcE-EEEEecCCCCcHHHHHHHHHHHHCCC---------HHHeEEEECCEECCCCCcHHHCCCCCC
Confidence            4688999988   7744 5789998 99999999999998  55         999999999999999999999999988


Q ss_pred             CCCCceEEEEEEecCCCCCC
Q 034110           79 EVPGGVIIMHVVVQPSLAKT   98 (103)
Q Consensus        79 ~~~~~~~t~hlv~~~~~~~k   98 (103)
                            .++||+++..++++
T Consensus        96 ------~~l~l~~r~~GGk~  109 (111)
T 1we6_A           96 ------EILTLSLRERSGPS  109 (111)
T ss_dssp             ------CEEEEECSSCCSSC
T ss_pred             ------CEEEEEEEcCCCCC
Confidence                  68999999988753

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

Probab=99.72  E-value=4.1e-17  Score=106.99  Aligned_cols=76  Identities=22%  Similarity=0.297  Sum_probs=67.7

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      ..++|.++..+|+. +.+++++++||.+||++|++.  +|         +++|||+|+|+.|+|+.+|++|+|.+|    
T Consensus        22 ~~m~I~Vk~~~g~~-~~l~v~~~~TV~~LK~~I~~~~gip---------~~~qrLi~~Gk~L~D~~tL~~ygI~~g----   87 (106)
T 1ttn_A           22 YECQLRLRLSTGKD-LKLVVRSTDTVFHMKRRLHAAEGVE---------PGSQRWFFSGRPLTDKMKFEELKIPKD----   87 (106)
T ss_dssp             CSEEEEEEETTTEE-EEEEECTTSHHHHHHHHHHHTTCCC---------STTCEEEETTEECCTTSHHHHCCCSSS----
T ss_pred             CeEEEEEEcCCCCE-EEEEeCCCCcHHHHHHHHHHHHCcC---------cccEEEEECCEECCCCCcHHHcCCCCC----
Confidence            35889999999955 468999999999999999988  55         999999999999999999999999988    


Q ss_pred             ceEEEEEEecCCCC
Q 034110           83 GVIIMHVVVQPSLA   96 (103)
Q Consensus        83 ~~~t~hlv~~~~~~   96 (103)
                        .++||+++.+.+
T Consensus        88 --~ti~lv~~~~~~   99 (106)
T 1ttn_A           88 --YVVQVIVSQPVQ   99 (106)
T ss_dssp             --CEEEEECCCSSC
T ss_pred             --CEEEEEEeCCCC
Confidence              689999986644

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

Probab=99.72  E-value=4.8e-17  Score=106.42  Aligned_cols=77  Identities=23%  Similarity=0.417  Sum_probs=68.6

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVP   81 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~   81 (103)
                      ...++|+++..+| .+ .+++++++||.+||++|++.  +|         +++|||||+||.|+|+.+|++|+|.+|   
T Consensus        15 ~~~m~I~Vk~~~g-~~-~l~v~~~~TV~~LK~~I~~~~gip---------~~~qrLi~~Gk~L~D~~tL~~~gi~~g---   80 (106)
T 1wx7_A           15 PHLIKVTVKTPKD-KE-DFSVTDTCTIQQLKEEISQRFKAH---------PDQLVLIFAGKILKDPDSLAQCGVRDG---   80 (106)
T ss_dssp             SSEEEEEEECSSC-EE-EEEEETTCCHHHHHHHHHHHHTCC---------TTTEEEEETTEECCTTSCHHHHTCCTT---
T ss_pred             CceEEEEEEeCCC-cE-EEEECCCCcHHHHHHHHHHHHCcC---------hhhEEEEECCEECCCcCcHHHcCCCCC---
Confidence            3568899999888 44 78999999999999999998  66         999999999999999999999999988   


Q ss_pred             CceEEEEEEecCCCCC
Q 034110           82 GGVIIMHVVVQPSLAK   97 (103)
Q Consensus        82 ~~~~t~hlv~~~~~~~   97 (103)
                         .+|||+++..++.
T Consensus        81 ---~~i~l~~~~~~~~   93 (106)
T 1wx7_A           81 ---LTVHLVIKRQHRA   93 (106)
T ss_dssp             ---EEEEEEECCCCCS
T ss_pred             ---CEEEEEEcCCCCC
Confidence               7899999877553

>3rt3_B Ubiquitin-like protein ISG15; ubiquitin-like domain, isgylation, antiviral protein-viral P complex; 2.01A {Homo sapiens} PDB: 3sdl_C 3r66_C 3pse_B 1z2m_A

Probab=99.72  E-value=4.2e-17  Score=112.48  Aligned_cols=76  Identities=18%  Similarity=0.139  Sum_probs=66.1

Q ss_pred             eEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCc
Q 034110            6 LIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGG   83 (103)
Q Consensus         6 ~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~   83 (103)
                      .+.|.++..+|+. ..+++++++||.+||++|++.  +|         +++|||+|+|+.|+|+.+|++|+|.+|     
T Consensus        81 ~m~i~vk~~~g~~-~~~~v~~~~tV~~lK~~i~~~~gip---------~~~q~L~~~G~~L~d~~tL~~y~i~~g-----  145 (159)
T 3rt3_B           81 PLSILVRNNKGRS-STYEVRLTQTVAHLKQQVSGLEGVQ---------DDLFWLTFEGKPLEDQLPLGEYGLKPL-----  145 (159)
T ss_dssp             CEEEEEECTTSCE-EEEEECTTSBHHHHHHHHHHHHTCC---------GGGEEEEETTEECCTTSBGGGGTCCTT-----
T ss_pred             cEEEEEECCCCCE-EEEEeCCCCCHHHHHHHHHHHHCCC---------HHHEEEEECCeecCCCCCHHHcCCCCC-----
Confidence            4567778888855 478999999999999999988  66         999999999999999999999999999     


Q ss_pred             eEEEEEEecCCCCC
Q 034110           84 VIIMHVVVQPSLAK   97 (103)
Q Consensus        84 ~~t~hlv~~~~~~~   97 (103)
                       .++||+++..|++
T Consensus       146 -~~l~l~~rl~GG~  158 (159)
T 3rt3_B          146 -STVFMNLRLRGGG  158 (159)
T ss_dssp             -CEEEEEECCC---
T ss_pred             -CEEEEEEecCCCC
Confidence             6899999999875

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

Probab=99.71  E-value=6e-17  Score=107.81  Aligned_cols=77  Identities=23%  Similarity=0.322  Sum_probs=69.4

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      +.+.|.++..+|+. ..+++++++||.+||++|++.  +|         +++|||+|+|+.|+|+.+|++|+|.+|    
T Consensus         8 ~~~~i~vk~l~G~~-~~l~v~~~~TV~~LK~~I~~~~gip---------~~~qrLi~~Gk~L~D~~tL~~ygI~~g----   73 (114)
T 2kdi_A            8 GEFQIFAKTLTGKT-ITLEVESSDTIDNVKSKIQDKEGIP---------PDQQRLIWAGKQLEDGRTLSDYNIQRE----   73 (114)
T ss_dssp             CCCEEEEEETTCCE-EEEECCTTCBHHHHHHHHHHHHCCC---------GGGEEEEETTEECCTTCBTTTTTCCSS----
T ss_pred             CcEEEEEEeCCCcE-EEEEECCCCcHHHHHHHHHHHHCcC---------hHHEEEEECCEECCCCCcHHHCCCCCC----
Confidence            45788899999955 578999999999999999998  66         999999999999999999999999988    


Q ss_pred             ceEEEEEEecCCCCC
Q 034110           83 GVIIMHVVVQPSLAK   97 (103)
Q Consensus        83 ~~~t~hlv~~~~~~~   97 (103)
                        .++||++++.++.
T Consensus        74 --stI~l~~~~~GG~   86 (114)
T 2kdi_A           74 --STLHLVLRLRGGS   86 (114)
T ss_dssp             --CEEEEEECCCSSC
T ss_pred             --CEEEEEEEcCCCc
Confidence              6899999988763

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

Probab=99.71  E-value=6.7e-17  Score=104.04  Aligned_cols=74  Identities=22%  Similarity=0.351  Sum_probs=65.7

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceE
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVI   85 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~   85 (103)
                      +|+++..+|.. ..+++++++||.+||++|++.  +|         ++.|||+|+|+.|+|+.+|++|+|.+|      .
T Consensus         2 ~I~Vk~~~g~~-~~~~v~~~~TV~~LK~~I~~~~gi~---------~~~qrL~~~Gk~L~D~~tL~~~gi~~g------~   65 (98)
T 1yx5_B            2 QIFVKTLTGKT-ITLEVEPSDTIENVKAKIQDKEGIP---------PDQQRLIFAGKQLEDGRTLSDYNIQKE------S   65 (98)
T ss_dssp             EEEEEETTSCE-EEEECCTTCBHHHHHHHHHHHTCCC---------GGGEEEEETTEECCTTSBTGGGTCCTT------C
T ss_pred             EEEEEeCCCCE-EEEEECCCCcHHHHHHHHHHHHCcC---------hhhEEEEECCEECCCCCCHHHcCCCCC------C
Confidence            57888888955 478999999999999999998  55         999999999999999999999999988      6


Q ss_pred             EEEEEecCCCCC
Q 034110           86 IMHVVVQPSLAK   97 (103)
Q Consensus        86 t~hlv~~~~~~~   97 (103)
                      ++|++++..++.
T Consensus        66 ~i~l~~~~~gG~   77 (98)
T 1yx5_B           66 TLHLVLRLRGGR   77 (98)
T ss_dssp             EEEEEECCCCC-
T ss_pred             EEEEEEeCCCCC
Confidence            899999988654

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

Probab=99.71  E-value=2.7e-17  Score=105.58  Aligned_cols=73  Identities=19%  Similarity=0.218  Sum_probs=63.8

Q ss_pred             eEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCc
Q 034110            6 LIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGG   83 (103)
Q Consensus         6 ~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~   83 (103)
                      .++|.++.  |+. ..+++++++||.+||++|++.  +|         +++|||+|+|+.|+|+.+|++|+|.++     
T Consensus        19 ~m~I~Vk~--g~~-~~l~v~~~~TV~~LK~~I~~~~gip---------~~~qrLi~~Gk~L~D~~tL~~y~I~~g-----   81 (93)
T 2l7r_A           19 SMQLFVRA--QEL-HTFEVTGQETVAQIKAHVASLEGIA---------PEDQVVLLAGAPLEDEATLGQCGVEAL-----   81 (93)
T ss_dssp             -CEEEEES--SSE-EEEECCSSCBHHHHHHHHHHHHTCC---------GGGCEEEETTEECCTTSBHHHHTCCSS-----
T ss_pred             cEEEEEEC--CCE-EEEEeCCCCcHHHHHHHHHHHhCcC---------hhHEEEEECCEECCCCCcHHHCCCCCC-----
Confidence            45666665  644 579999999999999999998  66         999999999999999999999999988     


Q ss_pred             eEEEEEEecCCCC
Q 034110           84 VIIMHVVVQPSLA   96 (103)
Q Consensus        84 ~~t~hlv~~~~~~   96 (103)
                       .++||++++.++
T Consensus        82 -stI~lv~rl~GG   93 (93)
T 2l7r_A           82 -TTLEVAGRMLGG   93 (93)
T ss_dssp             -CEEEEECCCCCC
T ss_pred             -CEEEEEEecCCC
Confidence             689999998764

>1v2y_A 3300001G02RIK protein; hypothetical protein, ubiquitin-like fold, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.15.1.1

Probab=99.71  E-value=2.6e-17  Score=108.98  Aligned_cols=86  Identities=16%  Similarity=0.118  Sum_probs=67.3

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCC------CCcceEEEecCeecC-CCCcccccC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPK------AVTEIKLISSGKILE-NNKTVGQCK   74 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~------~~~~qrLI~~Gk~L~-D~~tL~~~~   74 (103)
                      ..+..|+++..+|+.+ +++|++++||++||+.|++.  +|.+-..-+.      -.++|||||+|+.|. |+.||++|+
T Consensus         5 ~~~M~I~Vk~l~g~~~-~v~V~~~~TV~dLK~~I~~~~~i~~~~q~g~~~isw~~~w~q~~Li~~Gk~L~dD~~tL~dyg   83 (105)
T 1v2y_A            5 SSGMTVRVCKMDGEVM-PVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKLRDYG   83 (105)
T ss_dssp             CCSEEEEEECSSSCEE-EEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSBHHHHT
T ss_pred             CCcEEEEEEecCCCEE-EEEECCCChHHHHHHHHHHHhCCCcccccCcceeeeeecceeEEEEeCCcCccCCcCCHHHcC
Confidence            4578999999999665 79999999999999999998  3300000000      015789999999996 679999999


Q ss_pred             CCCCCCCCceEEEEEEecCCCC
Q 034110           75 IPYGEVPGGVIIMHVVVQPSLA   96 (103)
Q Consensus        75 i~~g~~~~~~~t~hlv~~~~~~   96 (103)
                      |.+|      .++|++++..+.
T Consensus        84 I~~g------~~l~lv~~lr~~   99 (105)
T 1v2y_A           84 IRNR------DEVSFIKKLGQK   99 (105)
T ss_dssp             CCSS------EEEEEEECSCSC
T ss_pred             CCCC------CEEEEEehhccC
Confidence            9999      789999997654

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

Probab=99.70  E-value=1.1e-16  Score=105.72  Aligned_cols=76  Identities=22%  Similarity=0.361  Sum_probs=68.1

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      ..++|+++..+|..+ .+++++++||.+||++|++.  +|         ++.|||+|+|+.|+|+.+|++|+|.+|    
T Consensus        34 ~~m~I~Vk~~~g~~~-~l~v~~~~TV~~LK~~I~~~~gip---------~~~qrLi~~Gk~L~D~~tL~~~gI~~g----   99 (111)
T 2ojr_A           34 LAMQIFVKTLTGKTI-TLEVEPSDTIENVKAKIQDKEGIP---------PDQQRLIFAGKQLEDGRTLSDYNIQKE----   99 (111)
T ss_dssp             SCEEEEEECSSSCEE-EEEECTTCBHHHHHHHHHHHHCCC---------TTTEEEEETTEECCSSCBTTTTTCCTT----
T ss_pred             CeEEEEEEcCCCCEE-EEEeCCCCCHHHHHHHHHHHHCcC---------cccEEEEECCEECCCCCcHHHcCCCCC----
Confidence            468999999889554 78999999999999999998  66         999999999999999999999999988    


Q ss_pred             ceEEEEEEecCCCC
Q 034110           83 GVIIMHVVVQPSLA   96 (103)
Q Consensus        83 ~~~t~hlv~~~~~~   96 (103)
                        .++||+++..++
T Consensus       100 --s~I~l~~rl~GG  111 (111)
T 2ojr_A          100 --STLHLVLRLRGG  111 (111)
T ss_dssp             --CEEEEEECCCC-
T ss_pred             --CEEEEEEeCCCC
Confidence              689999998764

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

Probab=99.70  E-value=7.3e-17  Score=114.00  Aligned_cols=76  Identities=25%  Similarity=0.381  Sum_probs=66.5

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceE
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVI   85 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~   85 (103)
                      +|.++..+|+.+ .+++++++||.+||++|++.  +|         +++|||+|+|+.|+|+.+|++|+|.+|      .
T Consensus         2 qI~Vk~~~Gk~~-~l~v~~~~TV~~LK~~I~~~~gip---------~~~QrLi~~Gk~L~D~~tL~~y~I~~g------s   65 (169)
T 3l0w_B            2 QIFVKTLTGKTI-TLEVESSDTIDNVKSKIQDKEGIP---------PDQQRLIFAGKQLEDGRTLSDYNIQKE------S   65 (169)
T ss_dssp             EEEEEETTSCEE-EEECCTTCBHHHHHHHHHHHHCCC---------TTTEEEEETTEECCTTSBGGGGTCCTT------C
T ss_pred             EEEEEeCCCCEE-EEEeCCCCCHHHHHHHHHHHHCcC---------HHHEEEEECCccccCcCcHHHcCCCCC------C
Confidence            578888999654 68999999999999999998  55         999999999999999999999999998      6


Q ss_pred             EEEEEecCCCCCCc
Q 034110           86 IMHVVVQPSLAKTK   99 (103)
Q Consensus        86 t~hlv~~~~~~~k~   99 (103)
                      ++||+++..++.+.
T Consensus        66 tI~Lvlrl~GG~k~   79 (169)
T 3l0w_B           66 TLHLVLRLRGGGGE   79 (169)
T ss_dssp             EEEEEECCCC---C
T ss_pred             EEEEEEEecccccc
Confidence            89999999887654

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

Probab=99.70  E-value=8.8e-17  Score=104.75  Aligned_cols=77  Identities=8%  Similarity=0.106  Sum_probs=65.5

Q ss_pred             ceEEEEEEeCCCC---eeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCC-CcccccCCCCC
Q 034110            5 ELIDIKFRLYDGS---DIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENN-KTVGQCKIPYG   78 (103)
Q Consensus         5 ~~v~l~~~~~~g~---~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~-~tL~~~~i~~g   78 (103)
                      ..+.|+++..+|.   ..+.+++++++||.+||++|++.  +|         +++|||+|+|+.|+|+ .+|++|+|.+|
T Consensus         6 ~~m~I~Vk~~~~~~~~~~~~i~v~~~~TV~~LK~~I~~~~gip---------~~~qrL~~~gk~L~D~~~tL~~ygI~~g   76 (102)
T 1v5o_A            6 SGMLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVP---------AEEAQIVYMEQLLTDDHCSLGSYGLKDG   76 (102)
T ss_dssp             CCEEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTCCC---------GGGBCEEETTEEECCSSSBHHHHTCCTT
T ss_pred             CeEEEEEEECCCCcCceEEEEEcCCCCCHHHHHHHHHHHHCcC---------hHHeEEEECCEECCCCcccHHHCCCCCC
Confidence            4477778776553   45579999999999999999998  55         9999999999999888 79999999998


Q ss_pred             CCCCceEEEEEEecCCCC
Q 034110           79 EVPGGVIIMHVVVQPSLA   96 (103)
Q Consensus        79 ~~~~~~~t~hlv~~~~~~   96 (103)
                            .++||+.+..++
T Consensus        77 ------~~l~l~~~~~gg   88 (102)
T 1v5o_A           77 ------DMVVLLQKDNVG   88 (102)
T ss_dssp             ------EEEEECBCCCCC
T ss_pred             ------CEEEEEECCCCC
Confidence                  789999886654

>3u5c_f 40S ribosomal protein S31; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3u5g_f

Probab=99.70  E-value=1.2e-18  Score=121.78  Aligned_cols=77  Identities=25%  Similarity=0.352  Sum_probs=0.0

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceE
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVI   85 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~   85 (103)
                      +|.++..+|.. ..+++++++||.+||++|++.  +|         +++|||||+|+.|+|+.+|++|+|.+|      .
T Consensus         2 qI~VK~l~G~~-~~l~V~~~~TV~~LK~~I~~~~gip---------~~~QrLi~~Gk~L~D~~tL~dygI~~g------s   65 (152)
T 3u5c_f            2 QIFVKTLTGKT-ITLEVESSDTIDNVKSKIQDKEGIP---------PDQQRLIFAGKQLEDGRTLSDYNIQKE------S   65 (152)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             EEEEEeCCCCE-EEEEECCCCCHHHHHHHHHHHhCCC---------HHHEEEEECCEEccccCcHHHcCCCCC------C
Confidence            56777788855 478999999999999999988  55         999999999999999999999999988      7


Q ss_pred             EEEEEecCCCCCCcC
Q 034110           86 IMHVVVQPSLAKTKT  100 (103)
Q Consensus        86 t~hlv~~~~~~~k~~  100 (103)
                      +|||++++.+++||+
T Consensus        66 tL~Lvlrl~GGgKkr   80 (152)
T 3u5c_f           66 TLHLVLRLRGGGKKR   80 (152)
T ss_dssp             ---------------
T ss_pred             EEEEEeeccCCCcCc
Confidence            899999999887764

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

Probab=99.69  E-value=2.7e-17  Score=107.44  Aligned_cols=73  Identities=29%  Similarity=0.365  Sum_probs=62.2

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      ..+.|+++. +|.. ..+++++++||.+||++|++.  +|         +++|||+|+|+.|+|+.+|++|+|.+|    
T Consensus        27 m~i~I~Vk~-~g~~-~~l~v~~~~TV~~LK~~I~~~~gip---------~~~QrLi~~Gk~L~D~~tL~~~gI~~g----   91 (101)
T 3m63_B           27 MSLNIHIKS-GQDK-WEVNVAPESTVLQFKEAINKANGIP---------VANQRLIYSGKILKDDQTVESYHIQDG----   91 (101)
T ss_dssp             --CCEEEEC-SSCC-CCBCCCTTSBHHHHHHHHHHHHSCC---------STTCCEEETTEECCTTSBTTTTTCCTT----
T ss_pred             cEEEEEEEE-CCEE-EEEEeCCCCCHHHHHHHHHHHHCcC---------hHHEEEEECCEECCCcCcHHHCCCCCC----
Confidence            357777776 6644 478999999999999999998  55         999999999999999999999999998    


Q ss_pred             ceEEEEEEecCC
Q 034110           83 GVIIMHVVVQPS   94 (103)
Q Consensus        83 ~~~t~hlv~~~~   94 (103)
                        .++||+.+.+
T Consensus        92 --~tI~lv~~~P  101 (101)
T 3m63_B           92 --HSVHLVKSQP  101 (101)
T ss_dssp             --EEEEECCCC-
T ss_pred             --CEEEEEeCCC
Confidence              7899987653

>1x1m_A Ubiquitin-like protein SB132; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.15.1.1

Probab=99.68  E-value=1.9e-16  Score=104.02  Aligned_cols=81  Identities=25%  Similarity=0.315  Sum_probs=66.6

Q ss_pred             ceEEEEEEeCCC---CeeeeEEe--------CC-cchHHHHHHHHHhhCCCCCccCCCCCcc-eEEEecCeecCCCCccc
Q 034110            5 ELIDIKFRLYDG---SDIGPFRY--------SS-ASTVDMLKQRIVSDWPKGKTIVPKAVTE-IKLISSGKILENNKTVG   71 (103)
Q Consensus         5 ~~v~l~~~~~~g---~~~~~~~v--------~~-~~tV~~lK~~i~~~~p~~~e~~p~~~~~-qrLI~~Gk~L~D~~tL~   71 (103)
                      ..+.|.++..+|   .. +.++|        ++ ++||.+||++|++..|   +.+|  +++ |||||+||.|+|+.+|+
T Consensus        11 ~~~~i~Vk~~~~~~~~~-~~l~v~~~~~~~v~~~~~TV~~LK~~i~~~~~---~gip--~~~~qrLi~~Gk~L~D~~tL~   84 (107)
T 1x1m_A           11 SDWHLAVKLADQPLAPK-SILQLPETELGEYSLGGYSISFLKQLIAGKLQ---ESVP--DPELIDLIYCGRKLKDDQTLD   84 (107)
T ss_dssp             CSCCEEEEETTCTTSCC-EEECCCCCSSCSSCCCCCBHHHHHHHHHHHCT---TTCC--CSSSEEEEETTEECCTTCBHH
T ss_pred             CceEEEEEeCCCCCccE-EEEEecCccccccCcccCCHHHHHHHHHHHhc---cCCC--hhhcEEEEECCeECCCCCcHH
Confidence            457888888888   44 35774        44 4999999999999854   2455  889 99999999999999999


Q ss_pred             ccCCCCCCCCCceEEEEEEecCCCCC
Q 034110           72 QCKIPYGEVPGGVIIMHVVVQPSLAK   97 (103)
Q Consensus        72 ~~~i~~g~~~~~~~t~hlv~~~~~~~   97 (103)
                      +|+|.+|      .+|||+++..+.+
T Consensus        85 ~y~i~~g------~~i~lv~~~~~~~  104 (107)
T 1x1m_A           85 FYGIQPG------STVHVLRKSWSGP  104 (107)
T ss_dssp             HHTCCTT------CEEEEEESSCCSS
T ss_pred             HcCCCCC------CEEEEEeCCCCCC
Confidence            9999988      6899999877554

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

Probab=99.67  E-value=1.7e-16  Score=114.39  Aligned_cols=78  Identities=22%  Similarity=0.316  Sum_probs=70.3

Q ss_pred             eEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCc
Q 034110            6 LIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGG   83 (103)
Q Consensus         6 ~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~   83 (103)
                      .++|.++..+|+.+ .+++++++||.+||++|++.  +|         +++|||||+|+.|+|+.+|++|+|.++     
T Consensus       105 eMqI~VKtl~Gkt~-~l~V~~s~TV~~LK~kI~~~~gIp---------~~~QrLi~~Gk~L~D~~tL~dygI~~g-----  169 (189)
T 3q3f_A          105 GGQIFVKTLTGKTI-TLEVEPSDTIENVKAKIQDKEGIP---------PDQQRLIFAGKQLEDGRTLSDYNIQKE-----  169 (189)
T ss_dssp             CEEEEEECTTSCEE-EEEECTTCBHHHHHHHHHHHHCCC---------GGGCCEEETTEECCTTCBGGGGTCCTT-----
T ss_pred             ceeeeeecCCCCEE-EEEeCCCCcHHHHHHHHHhccCCC---------HHHEEEEECCEECCCCCCHHHCCCCCC-----
Confidence            47888899999654 79999999999999999988  65         999999999999999999999999998     


Q ss_pred             eEEEEEEecCCCCCCc
Q 034110           84 VIIMHVVVQPSLAKTK   99 (103)
Q Consensus        84 ~~t~hlv~~~~~~~k~   99 (103)
                       .++||+++..++.+-
T Consensus       170 -stI~LvlrlrGG~~~  184 (189)
T 3q3f_A          170 -STLHLVLRLRGGGQT  184 (189)
T ss_dssp             -CEEEECCCCCCCCCC
T ss_pred             -CEEEEEEEcCCCCcc
Confidence             689999999887654

>3b1l_X E3 ubiquitin-protein ligase parkin; proteasome, ALFA-beta-protein; 1.85A {Mus musculus} PDB: 1mg8_A 2zeq_A 2knb_A 1iyf_A

Probab=99.49  E-value=3.9e-18  Score=104.49  Aligned_cols=72  Identities=25%  Similarity=0.426  Sum_probs=63.4

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceE
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVI   85 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~   85 (103)
                      .|.++..+|+.+ .+++++++||.+||++|++.  +|         ++.|||+|+|+.|+|+.+|++|+|.+|      .
T Consensus         2 ~i~Vk~~~g~~~-~~~v~~~~tV~~lK~~i~~~~gi~---------~~~qrL~~~gk~L~d~~tL~~~~i~~g------~   65 (76)
T 3b1l_X            2 IVFVRFNSSYGF-PVEVDSDTSILQLKEVVAKQQGVP---------ADQLRVIFAGKELPNHLTVQNCDLEQQ------S   65 (76)
Confidence            466777888554 68999999999999999988  55         999999999999999999999999988      6


Q ss_pred             EEEEEecCCC
Q 034110           86 IMHVVVQPSL   95 (103)
Q Consensus        86 t~hlv~~~~~   95 (103)
                      ++|+++++.|
T Consensus        66 ~i~l~~rlrg   75 (76)
T 3b1l_X           66 IVHIVQRPRR   75 (76)
Confidence            8999998764

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

Probab=99.66  E-value=6.5e-16  Score=98.36  Aligned_cols=76  Identities=17%  Similarity=0.156  Sum_probs=64.1

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCc-----chHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCC-CCcccccCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSA-----STVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILEN-NKTVGQCKI   75 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~-----~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D-~~tL~~~~i   75 (103)
                      +..+.|+++.. |.. +.++++++     +||.+||++|++.  +|         +++|||||.|+.|+| +.+|++|+|
T Consensus         5 ~~~~~v~Vk~~-~~~-~~i~v~~~~~~~~~TV~~LK~~i~~~~gip---------~~~qrL~~~Gk~L~D~~~~L~~~~i   73 (92)
T 1wxv_A            5 SSGLTVTVTHS-NEK-HDLHVTSQQGSSEPVVQDLAQVVEEVIGVP---------QSFQKLIFKGKSLKEMETPLSALGI   73 (92)
T ss_dssp             CSSEEEEEECS-SSE-EEEEECCCSSSSSCBHHHHHHHHHHHTCCC---------TTTCEEEETTEEECCSSSBHHHHTC
T ss_pred             CCeEEEEEEEC-CEE-EEEEECCCcCcccCcHHHHHHHHHHHHCcC---------HHHEEEEECCeecCCCcccHHHCCC
Confidence            45688888874 534 47899995     9999999999988  55         999999999999988 668999999


Q ss_pred             CCCCCCCceEEEEEEecCCCC
Q 034110           76 PYGEVPGGVIIMHVVVQPSLA   96 (103)
Q Consensus        76 ~~g~~~~~~~t~hlv~~~~~~   96 (103)
                      .+|      .++||+.++..+
T Consensus        74 ~~g------~~i~l~~~~~~~   88 (92)
T 1wxv_A           74 QDG------CRVMLIGKKNSG   88 (92)
T ss_dssp             CSS------EEEEEESCCSCS
T ss_pred             CCC------CEEEEEecCCCC
Confidence            988      789998876654

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

Probab=99.66  E-value=8.3e-16  Score=107.57  Aligned_cols=76  Identities=21%  Similarity=0.333  Sum_probs=68.4

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      ..++|.++..+|+. ..+++++++||.+||++|++.  +|         +++|||+|+|+.|+|+.+|++|+|.++    
T Consensus        19 ~~m~i~Vk~~~g~~-~~l~v~~~~tV~~lK~~I~~~~gip---------~~~QrL~~~g~~L~d~~tL~~~~i~~~----   84 (172)
T 3u30_A           19 SHMQIFVKTLTGKT-ITLEVEPSDTIENVKAKIQDKEGIP---------PDQQRLIFAGKQLEDGRTLSDYNIQKE----   84 (172)
T ss_dssp             CCEEEEEEETTTEE-EEEEECTTCBHHHHHHHHHHHHCCC---------GGGEEEEETTEECCTTCBTGGGTCCTT----
T ss_pred             CcEEEEEEeCCCCE-EEEEECCCCcHHHHHHHHHHHHCcC---------hHHEEEEECCccccccCCHhHcCCccc----
Confidence            56889999999955 479999999999999999998  66         999999999999999999999999988    


Q ss_pred             ceEEEEEEecCCCC
Q 034110           83 GVIIMHVVVQPSLA   96 (103)
Q Consensus        83 ~~~t~hlv~~~~~~   96 (103)
                        .++||+++..++
T Consensus        85 --~~l~l~~~~~gg   96 (172)
T 3u30_A           85 --STLHLVLRLRGG   96 (172)
T ss_dssp             --CEEEEEECCCCC
T ss_pred             --ceeeeeeccccc
Confidence              689999887654

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

Probab=99.65  E-value=6.4e-16  Score=100.03  Aligned_cols=73  Identities=10%  Similarity=0.149  Sum_probs=63.5

Q ss_pred             CceEEEEEEeCCCCeee-eEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIG-PFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEV   80 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~-~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~   80 (103)
                      ++.++|+++. .| ..+ .+++++++||.+||++|++.  +|         +++|||||.||.|+|+ +|++|+|.+|  
T Consensus         5 ~~~m~i~Vk~-~g-~~~~~l~v~~~~TV~~lK~~I~~~tgip---------~~~QkLi~~Gk~L~D~-tL~~~~I~~g--   70 (96)
T 1wgg_A            5 SSGYSVTVKW-GK-EKFEGVELNTDEPPMVFKAQLFALTGVQ---------PARQKVMVKGGTLKDD-DWGNIKMKNG--   70 (96)
T ss_dssp             CCEEEEEEEE-TT-EEEEEEEEESSSCHHHHHHHHHHHTCCC---------TTTSCCEETTEECCSS-CCCSCCCCSS--
T ss_pred             CcEEEEEEEE-CC-EEEEEEEECCCCcHHHHHHHHHHHHCcC---------HHHeEEEECCcCCCCC-CHHHCCCCCC--
Confidence            5678888886 56 445 58999999999999999998  55         9999999999999999 9999999988  


Q ss_pred             CCceEEEEEEecCC
Q 034110           81 PGGVIIMHVVVQPS   94 (103)
Q Consensus        81 ~~~~~t~hlv~~~~   94 (103)
                          .++||+..+.
T Consensus        71 ----~~i~l~~~~~   80 (96)
T 1wgg_A           71 ----MTVLMMGSAD   80 (96)
T ss_dssp             ----CEEECCCCCC
T ss_pred             ----CEEEEEecch
Confidence                6799887754

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

Probab=99.65  E-value=8.6e-16  Score=97.16  Aligned_cols=64  Identities=25%  Similarity=0.309  Sum_probs=56.9

Q ss_pred             CCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEEEEEEe
Q 034110           14 YDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIMHVVV   91 (103)
Q Consensus        14 ~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t~hlv~   91 (103)
                      .+|.. +.+++++++||.+||++|++.  +|         +++|||+|+||.|+|+.+|++|+|.+|      .++||+.
T Consensus        19 ~~g~~-~~l~v~~~~TV~~LK~~I~~~~gip---------~~~qrL~~~Gk~L~D~~tL~~~gi~~g------~~l~l~~   82 (85)
T 2kd0_A           19 FGGKS-IPLSVSPDCTVKDLKSQLQPITNVL---------PRGQKLIFKGKVLVETSTLKQSDVGSG------AKLMLMA   82 (85)
T ss_dssp             ETTEE-EEEEECTTSBHHHHHHHHHHHHCCC---------TTTCEEEETTEECCTTCBTTTTTCCTT------EEEEEEC
T ss_pred             ECCEE-EEEEECCCCcHHHHHHHHHHHHCcC---------hHHEEEEECCeECCCcCCHHHCCCCCC------CEEEEEE
Confidence            46644 578999999999999999988  66         999999999999999999999999988      7899876


Q ss_pred             cC
Q 034110           92 QP   93 (103)
Q Consensus        92 ~~   93 (103)
                      .+
T Consensus        83 s~   84 (85)
T 2kd0_A           83 SQ   84 (85)
T ss_dssp             CC
T ss_pred             eC
Confidence            54

>3b08_A Polyubiquitin-C, ubiquitin; protein complex, signaling protein-metal binding protein COM; HET: TRE; 1.70A {Homo sapiens} PDB: 2w9n_A* 3b0a_A* 3axc_A 2zvn_A 2zvo_A 2y5b_B

Probab=99.65  E-value=1.3e-15  Score=103.20  Aligned_cols=75  Identities=21%  Similarity=0.326  Sum_probs=66.1

Q ss_pred             eEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCc
Q 034110            6 LIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGG   83 (103)
Q Consensus         6 ~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~   83 (103)
                      .+.|.++..+|.. ..+++++++||.+||++|++.  +|         ++.|||+|.|+.|+|+.+|++|+|.+|     
T Consensus        76 ~~~i~Vk~~~g~~-~~~~v~~~~tv~~lK~~i~~~~gi~---------~~~qrL~~~g~~L~d~~tL~~~~i~~~-----  140 (152)
T 3b08_A           76 GMQIFVKTLTGKT-ITLEVEPSDTIENVKAKIQDKEGIP---------PDQQRLIFAGKQLEDGRTLSDYNIQKE-----  140 (152)
T ss_dssp             CEEEEEEESSSCE-EEEEECTTCBHHHHHHHHHHHHCCC---------GGGEEEEETTEECCTTSBTGGGTCCTT-----
T ss_pred             ccceeeeecCCCE-EEEEeCCCCcHHHHHHHHHHHhCcC---------hhhEEEEECCEECCCCCCHHHcCCCCC-----
Confidence            3567777888855 478999999999999999998  66         999999999999999999999999988     


Q ss_pred             eEEEEEEecCCCC
Q 034110           84 VIIMHVVVQPSLA   96 (103)
Q Consensus        84 ~~t~hlv~~~~~~   96 (103)
                       .++||++++.|+
T Consensus       141 -~~i~l~~r~~GG  152 (152)
T 3b08_A          141 -STLHLVLRLRGG  152 (152)
T ss_dssp             -CEEEEEECCCC-
T ss_pred             -CEEEEEEecCCC
Confidence             689999998875

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

Probab=99.64  E-value=7e-16  Score=107.95  Aligned_cols=75  Identities=21%  Similarity=0.326  Sum_probs=62.2

Q ss_pred             eEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCc
Q 034110            6 LIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGG   83 (103)
Q Consensus         6 ~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~   83 (103)
                      .+.|.++..+|+. ..+++++++||.+||++|++.  +|         +++|||+|+|+.|+|+.+|++|+|.+|     
T Consensus        96 g~~i~Vk~~~g~~-~~l~v~~~~tV~~lK~~I~~~~gip---------~~~q~L~~~g~~L~D~~tL~~y~i~~g-----  160 (172)
T 3u30_A           96 GMQIFVKTLTGKT-ITLEVEPSDTIENVKAKIQDKEGIP---------PDQQRLIFAGKQLEDGRTLSDYNIQKE-----  160 (172)
T ss_dssp             CEEEEEEESSCCE-EEEEECTTCBHHHHHHHHHHHHCCC---------GGGCCEEETTEECCTTSBSGGGTCCTT-----
T ss_pred             cccceeecccCcc-eeEEecCCCCHHHHHHHHHHHhCCC---------ceeEEEEECCccCCCCCcHHHhCCCCC-----
Confidence            3556667778855 478999999999999999998  55         999999999999999999999999999     


Q ss_pred             eEEEEEEecCCCC
Q 034110           84 VIIMHVVVQPSLA   96 (103)
Q Consensus        84 ~~t~hlv~~~~~~   96 (103)
                       .++||+++..++
T Consensus       161 -~tl~l~~rlrgG  172 (172)
T 3u30_A          161 -STLHLVLRLRGG  172 (172)
T ss_dssp             -CEEEECC-----
T ss_pred             -CEEEEEEecCCC
Confidence             789999997764

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

Probab=99.64  E-value=1.8e-15  Score=96.56  Aligned_cols=76  Identities=18%  Similarity=0.293  Sum_probs=61.8

Q ss_pred             eEEEEEEeC-CCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEe-------cCeecCCCCcccccCCCC
Q 034110            6 LIDIKFRLY-DGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLIS-------SGKILENNKTVGQCKIPY   77 (103)
Q Consensus         6 ~v~l~~~~~-~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~-------~Gk~L~D~~tL~~~~i~~   77 (103)
                      .|.|.+... .+.......|++++||.+||++|+..     +++|  +++|||||       .|++|+|+.+|++|+|.+
T Consensus         2 ~V~v~iths~~~~~~~E~r~~~s~TI~~lK~ki~~~-----~Gip--~~~QrLi~~~~~~~~~g~~l~d~~tL~~Y~i~~   74 (86)
T 4b6w_A            2 VVKVSLTHSASRMRVPEKRYGLAQTIESIKENVFTH-----FATP--PEYMQLQLIDDRGITIEKNMANDKQLGYYQCRD   74 (86)
T ss_dssp             EEEEEEEETTCSCCEEEEEEETTSBHHHHHHHHHTT-----SCCC--GGGEEEEEECTTSCEEESSCCTTSBGGGGTCCT
T ss_pred             EEEEEEEEcCCCCeEEEEEcCccCcHHHHHHHHHHH-----HCCC--HHHEEEEEecCCCCceeeEcCCCCCHHHCCCCC
Confidence            355666553 34355678999999999999999988     2333  99999996       699999999999999999


Q ss_pred             CCCCCceEEEEEEecCC
Q 034110           78 GEVPGGVIIMHVVVQPS   94 (103)
Q Consensus        78 g~~~~~~~t~hlv~~~~   94 (103)
                      |      .++||+-..|
T Consensus        75 g------~~ihlvd~~P   85 (86)
T 4b6w_A           75 E------FVIHVVDLQP   85 (86)
T ss_dssp             T------CEEEEEECCC
T ss_pred             C------CEEEEEeCCC
Confidence            9      7899986644

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

Probab=99.63  E-value=1e-15  Score=97.60  Aligned_cols=74  Identities=22%  Similarity=0.146  Sum_probs=63.7

Q ss_pred             CceEEEEEEeCCCCeeeeE-EeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEE---ecCeecCCCCcccccCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPF-RYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLI---SSGKILENNKTVGQCKIPY   77 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~-~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI---~~Gk~L~D~~tL~~~~i~~   77 (103)
                      ++.++|+++. .| ..+.+ ++++++||.+||++|++.  +|         +++|||+   |.|++|+|+.+|++|+|.+
T Consensus         5 ~~~m~i~Vk~-~g-~~~~i~~v~~~~TV~~lK~~I~~~~gip---------~~~QkLi~~k~~Gk~L~D~~~L~~~~i~~   73 (90)
T 1v5t_A            5 SSGLPIIVKW-GG-QEYSVTTLSEDDTVLDLKQFLKTLTGVL---------PERQKLLGLKVKGKPAENDVKLGALKLKP   73 (90)
T ss_dssp             CCSCCEEEEE-TT-EEEEECSCCSSSBHHHHHHHHHHHTCCC---------TTTCEEESCEETTEECCTTSBHHHHTCCT
T ss_pred             CceEEEEEEE-CC-EEEEEEEeCCCCCHHHHHHHHHHHHCcC---------HHHeEEEeeccCCcCcCCCCCHHHcCCCC
Confidence            4557777776 56 44578 999999999999999998  55         9999999   9999999999999999998


Q ss_pred             CCCCCceEEEEEEecCC
Q 034110           78 GEVPGGVIIMHVVVQPS   94 (103)
Q Consensus        78 g~~~~~~~t~hlv~~~~   94 (103)
                      |      .++||+..+.
T Consensus        74 g------~~l~l~~~~~   84 (90)
T 1v5t_A           74 N------TKIMMMGTRE   84 (90)
T ss_dssp             T------EEEEEECCCS
T ss_pred             C------CEEEEEecCc
Confidence            8      7899987654

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

Probab=99.63  E-value=2.9e-15  Score=99.22  Aligned_cols=74  Identities=11%  Similarity=0.057  Sum_probs=60.6

Q ss_pred             EEEEEEeCCC-CeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCC-CCCCCCC
Q 034110            7 IDIKFRLYDG-SDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKI-PYGEVPG   82 (103)
Q Consensus         7 v~l~~~~~~g-~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i-~~g~~~~   82 (103)
                      +.|.|.-..+ .....++++|++||.+||++|+++  +|         +++|||||+|++|+|++||++|+| .+|    
T Consensus        25 l~v~v~d~~s~~~~i~l~V~ps~TV~~LK~~I~~k~Gip---------p~~QRli~ggkll~D~~TL~~ygI~~~G----   91 (105)
T 4dbg_A           25 LWVSVEDAQMHTVTIWLTVRPDMTVASLKDMVFLDYGFP---------PVLQQWVIGQRLARDQETLHSHGVRQNG----   91 (105)
T ss_dssp             EEEEEEESSSCCEEEEEEECTTCBHHHHHHHHHHHHCCC---------GGGEEEEETTEEECTTCBTGGGTCCSTT----
T ss_pred             EEEEEEccCCCCceEEEEECCcChHHHHHHHHHHHhCCC---------HHHEEEeccCeEccCcCcHHHcCCCCCC----
Confidence            4455555554 234578999999999999999988  76         999999999999999999999999 477    


Q ss_pred             ceEEEEEEecCCC
Q 034110           83 GVIIMHVVVQPSL   95 (103)
Q Consensus        83 ~~~t~hlv~~~~~   95 (103)
                        .++||++-...
T Consensus        92 --~t~hL~l~~~~  102 (105)
T 4dbg_A           92 --DSAYLYLLSAR  102 (105)
T ss_dssp             --CEEEEEECCC-
T ss_pred             --CEEEEEEEecc
Confidence              68999886543

>3u5e_m 60S ribosomal protein L40; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3u5i_m 4b6a_m 4a18_K 4a19_K 4a1b_K 4a1d_K 4adx_5 3izc_p 3izs_p 3iz5_p 3izr_p

Probab=99.63  E-value=2.6e-17  Score=111.24  Aligned_cols=74  Identities=24%  Similarity=0.348  Sum_probs=0.5

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceE
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVI   85 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~   85 (103)
                      +|.++..+|.. ..+++++++||.+||++|++.  +|         +++|||+|+|+.|+|+.+|++|+|.+|      .
T Consensus         2 ~I~Vk~~~G~~-~~l~v~~~~TV~~LK~~I~~~~gip---------~~~QrLi~~Gk~L~D~~tL~~~~I~~g------s   65 (128)
T 3u5e_m            2 QIFVKTLTGKT-ITLEVESSDTIDNVKSKIQDKEGIP---------PDQQRLIFAGKQLEDGRTLSDYNIQKE------S   65 (128)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             EEEEEeCCCCE-EEEEeCCCCCHHHHHHHHHHHhCcC---------hHHEEEEECCEECCCCCchhhhccCCC------C
Confidence            46677788855 478999999999999999988  55         999999999999999999999999998      7


Q ss_pred             EEEEEecCCCCC
Q 034110           86 IMHVVVQPSLAK   97 (103)
Q Consensus        86 t~hlv~~~~~~~   97 (103)
                      ++||+++..++.
T Consensus        66 ti~l~~rl~GG~   77 (128)
T 3u5e_m           66 TLHLVLRLRGGI   77 (128)
T ss_dssp             -----------C
T ss_pred             EEEEEEEcCCCC
Confidence            899999988774

>3rt3_B Ubiquitin-like protein ISG15; ubiquitin-like domain, isgylation, antiviral protein-viral P complex; 2.01A {Homo sapiens} PDB: 3sdl_C 3r66_C 3pse_B 1z2m_A

Probab=99.63  E-value=2.1e-15  Score=103.96  Aligned_cols=71  Identities=21%  Similarity=0.308  Sum_probs=64.4

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEE-e-cCeecCCCCcccccCCCCCCCCC
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLI-S-SGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI-~-~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      ++|.+++.+|+.+ .+++++++||.+||++|++.  +|         +++|||+ | +|+.|+|+.+|++|+|.+|    
T Consensus         3 m~i~vk~~~g~~~-~l~v~~~~tV~~lK~~I~~~~gip---------~~~QrL~~~~~g~~L~d~~tL~~y~i~~~----   68 (159)
T 3rt3_B            3 WDLTVKMLAGNEF-QVSLSSSMSVSELKAQITQKIGVH---------AFQQRLAVHPSGVALQDRVPLASQGLGPG----   68 (159)
T ss_dssp             CEEEEEETTSCEE-EEECCTTCCHHHHHHHHHHHHCCC---------GGGEEEEEETTCCBCCTTSCGGGGTCCTT----
T ss_pred             eEEEEEECCCCEE-EEEeCCCCcHHHHHHHHHHHhCCC---------HHHEEEEEcCCCCCCCCCCCHHHcCCCCC----
Confidence            5788888999654 78999999999999999998  66         9999999 9 8999999999999999998    


Q ss_pred             ceEEEEEEecC
Q 034110           83 GVIIMHVVVQP   93 (103)
Q Consensus        83 ~~~t~hlv~~~   93 (103)
                        .++|++++.
T Consensus        69 --~~l~l~~~~   77 (159)
T 3rt3_B           69 --STVLLVVDK   77 (159)
T ss_dssp             --CEEEEEECC
T ss_pred             --CEEEEEccC
Confidence              689999984

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

Probab=99.61  E-value=1.5e-15  Score=97.88  Aligned_cols=73  Identities=29%  Similarity=0.308  Sum_probs=62.2

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVP   81 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~   81 (103)
                      ++.+.|+++. .| ..+.+++++++||.+||++|++.  +|         +++|||+|.|++|+ +.+|++|+|.++   
T Consensus        15 ~~~~~i~Vk~-~g-~~~~i~v~~~~TV~~LK~~I~~~tgip---------~~~QrL~~~Gk~Ld-d~tL~~~~i~~g---   79 (95)
T 1v86_A           15 KELVDLKIIW-NK-TKHDVKVPLDSTGSELKQKIHSITGLP---------PAMQKVMYKGLVPE-DKTLREIKVTSG---   79 (95)
T ss_dssp             CCCEEEEEEE-TT-EEEEEEECTTSBHHHHHHHHHHHHCSC---------STTCCCBSSSBCCS-SSBHHHHCCCTT---
T ss_pred             CceEEEEEEE-CC-EEEEEEECCCCcHHHHHHHHHHHHCcC---------HHHeEEEECCeeCC-cCcHHHCCCCCC---
Confidence            3568888875 46 44579999999999999999998  66         99999999999994 559999999988   


Q ss_pred             CceEEEEEEecCC
Q 034110           82 GGVIIMHVVVQPS   94 (103)
Q Consensus        82 ~~~~t~hlv~~~~   94 (103)
                         .+|||+..+.
T Consensus        80 ---~~i~lv~~~~   89 (95)
T 1v86_A           80 ---AKIMVVGSTI   89 (95)
T ss_dssp             ---EEEEECCSSC
T ss_pred             ---CEEEEEeccc
Confidence               7899987754

>3b08_A Polyubiquitin-C, ubiquitin; protein complex, signaling protein-metal binding protein COM; HET: TRE; 1.70A {Homo sapiens} PDB: 2w9n_A* 3b0a_A* 3axc_A 2zvn_A 2zvo_A 2y5b_B

Probab=99.60  E-value=5.8e-15  Score=99.98  Aligned_cols=73  Identities=22%  Similarity=0.343  Sum_probs=64.9

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceE
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVI   85 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~   85 (103)
                      .|+++..+|+. ..+++++++||.+||++|++.  +|         +++|||+|+|+.|+|+.+|++|+|.+|      .
T Consensus         2 ~i~vk~~~g~~-~~~~v~~~~tv~~lK~~i~~~~gip---------~~~q~L~~~g~~L~d~~tL~~~~i~~~------~   65 (152)
T 3b08_A            2 QIFVKTLTGKT-ITLEVEPSDTIENVKAKIQDKEGIP---------PDQQRLIFAGKQLEDGRTLSDYNIQKE------S   65 (152)
T ss_dssp             EEEEEETTSCE-EEEECCTTCBHHHHHHHHHHHHCCC---------GGGEEEEETTEECCTTSBTGGGTCCTT------C
T ss_pred             EEEEEeCCCCE-EEEEECCCCCHHHHHHHHHHHHCcC---------hHHeEEEECCeECcCcccHHHhccCCC------C
Confidence            57788888855 478999999999999999998  66         999999999999999999999999988      6


Q ss_pred             EEEEEecCCCC
Q 034110           86 IMHVVVQPSLA   96 (103)
Q Consensus        86 t~hlv~~~~~~   96 (103)
                      ++|++.+..++
T Consensus        66 ~l~l~~~~~~~   76 (152)
T 3b08_A           66 TLHLVLRLRGG   76 (152)
T ss_dssp             EEEEEECCTTC
T ss_pred             eeEEEeecccc
Confidence            89999887653

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

Probab=99.57  E-value=1.8e-14  Score=93.44  Aligned_cols=72  Identities=17%  Similarity=0.174  Sum_probs=61.1

Q ss_pred             CceEEEEEEeCCCC-eeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEec--Ce---ec-CCCCcccccC
Q 034110            4 EELIDIKFRLYDGS-DIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISS--GK---IL-ENNKTVGQCK   74 (103)
Q Consensus         4 ~~~v~l~~~~~~g~-~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~--Gk---~L-~D~~tL~~~~   74 (103)
                      +..|.|.++...+. ....+++++++||++||++|++.  +|         +++|||+|.  |+   .| +|+.+|++|+
T Consensus        13 ~~~v~l~It~s~~~~~~~~~~v~~~~TV~~LK~kI~~~~GiP---------~~~QrL~~~~~g~~~~~L~~D~~tL~~Y~   83 (95)
T 2kjr_A           13 SDFIKVNVSNSHNDAVAFEVKLAKDLTVAQLKTKLEILTGGC---------AGTMKVQVFKGDTCVSTMDNNDAQLGYYA   83 (95)
T ss_dssp             CCEEEEEEEESSCSCEEEEEEEETTCBHHHHHHHHHHHHCSC---------TTTEEEEEEETTEEEEECCCTTSBHHHHC
T ss_pred             CCeEEEEEEECCCCceEEEEEeCccCHHHHHHHHHHHHHCcC---------HHHeEEEEecCCcccceeCCCCCCHhHCC
Confidence            46788888876653 24578999999999999999998  55         999999998  45   44 9999999999


Q ss_pred             CCCCCCCCceEEEEEE
Q 034110           75 IPYGEVPGGVIIMHVV   90 (103)
Q Consensus        75 i~~g~~~~~~~t~hlv   90 (103)
                      |.+|      .++||+
T Consensus        84 i~~g------stihlv   93 (95)
T 2kjr_A           84 NSDG------LRLHVV   93 (95)
T ss_dssp             CSSS------CEEEEE
T ss_pred             cCCC------CEEEEE
Confidence            9999      789986

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

Probab=99.57  E-value=9.5e-15  Score=93.36  Aligned_cols=69  Identities=10%  Similarity=0.136  Sum_probs=59.7

Q ss_pred             eEEEEEEeCCCCee-eeE-EeCCcchHHHHHHHHHhh---CCCCCccCCCCCcceEEEec--CeecCCCCcccccCCCCC
Q 034110            6 LIDIKFRLYDGSDI-GPF-RYSSASTVDMLKQRIVSD---WPKGKTIVPKAVTEIKLISS--GKILENNKTVGQCKIPYG   78 (103)
Q Consensus         6 ~v~l~~~~~~g~~~-~~~-~v~~~~tV~~lK~~i~~~---~p~~~e~~p~~~~~qrLI~~--Gk~L~D~~tL~~~~i~~g   78 (103)
                      .+.|.++...|+.+ +.+ ++++++||.+||++|++.   ||         +++|||+|.  ||+|+|+.||++|+|.+|
T Consensus        10 ~M~I~Vk~~~g~~~~~~l~~v~~~~TV~~lK~~I~~~~~~i~---------~~~QrL~~~~~Gk~L~D~~tL~~y~i~~~   80 (88)
T 2dzj_A           10 HYEVEILDAKTREKLCFLDKVEPHATIAEIKNLFTKTHPQWY---------PARQSLRLDPKGKSLKDEDVLQKLPVGTT   80 (88)
T ss_dssp             CEEEEEEESSSCCCCEEEEEECSSCBHHHHHHHHHHHCSSSC---------TTTCCEESSTTSCCCCTTCBTTTSSCCSE
T ss_pred             EEEEEEECCCCCEEeeEEeEcCCCCcHHHHHHHHHHHhcCCC---------hHHeEEEecCCCcCcCCCCCHHHcCCCCC
Confidence            37788888887664 357 999999999999999984   66         999999977  999999999999999988


Q ss_pred             CCCCceEEEEE
Q 034110           79 EVPGGVIIMHV   89 (103)
Q Consensus        79 ~~~~~~~t~hl   89 (103)
                            .++|+
T Consensus        81 ------stl~~   85 (88)
T 2dzj_A           81 ------ATLYF   85 (88)
T ss_dssp             ------EEEEE
T ss_pred             ------CEEEE
Confidence                  67775

>1oqy_A HHR23A, UV excision repair protein RAD23 homolog A; DNA repair, proteasome-mediated degradation, protein- protein interaction, replication; NMR {Homo sapiens} SCOP: a.5.2.1 a.5.2.1 a.189.1.1 d.15.1.1 PDB: 1qze_A 1tp4_A

Probab=99.55  E-value=1.1e-14  Score=113.75  Aligned_cols=83  Identities=22%  Similarity=0.360  Sum_probs=68.1

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCce
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGV   84 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~   84 (103)
                      ..+.|.|+..+|+. +.++|++++||.+||++|++.+.  .+.+|  +++|||||+||+|+|+.+|++|+|.+|+     
T Consensus         6 ~~M~I~VKtl~Gk~-~~leV~~~~TV~~LK~~I~~~~~--~~gip--~~~QrLiy~GK~L~D~~tL~dygI~~gs-----   75 (368)
T 1oqy_A            6 SAVTITLKTLQQQT-FKIRMEPDETVKVLKEKIEAEKG--RDAFP--VAGQKLIYAGKILSDDVPIRDYRIDEKN-----   75 (368)
T ss_dssp             CCCCEEEEETTTEE-EEECCCTTCBHHHHHHHHHHHTC--SSSCC--STEEEEESSSSEECSSSBTTTTCCCTTS-----
T ss_pred             ceEEEEEEeCCCCE-EEEEeCCCChHHHHHHHHHHHhC--cCCCC--hhheEEEECCeecCCcCCHHHcCCCCCC-----
Confidence            45788999999955 47999999999999999999531  13344  9999999999999999999999999884     


Q ss_pred             EEEEEEecCCCCC
Q 034110           85 IIMHVVVQPSLAK   97 (103)
Q Consensus        85 ~t~hlv~~~~~~~   97 (103)
                      ..+||+.++.++.
T Consensus        76 tIv~lv~k~~~~~   88 (368)
T 1oqy_A           76 FVVVMVTKTKAGQ   88 (368)
T ss_dssp             CEEEEEECCCSSS
T ss_pred             EEEEEEecCCCCC
Confidence            3458888876543

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

Probab=99.54  E-value=6.1e-16  Score=111.67  Aligned_cols=73  Identities=18%  Similarity=0.247  Sum_probs=1.7

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEEE
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIM   87 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t~   87 (103)
                      +|.+++.+|.. ..++|++++||.+||++|++.     +++|  +++|||||+|++|+|+.||+     ++      +||
T Consensus         2 qI~VKtL~Gkt-itLeV~~sdTV~~LK~kI~~k-----eGIP--~~qQRLIf~GK~LeD~~TLs-----~~------STL   62 (189)
T 2xzm_9            2 QVQVKTLEGET-KIYTLEQGTSVLDLKSQISQD-----MGFE--IDMMTLVNNGFIAPNTELVT-----DD------VTY   62 (189)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             EEEEEcCCCCE-EEEEECCcChHHHHHHHHHHH-----hCcC--hhHEEEEecCeECCCCCccc-----CC------CEE
Confidence            56777888854 479999999999999999988     2233  99999999999999999998     45      689


Q ss_pred             EEEecCCCCCCc
Q 034110           88 HVVVQPSLAKTK   99 (103)
Q Consensus        88 hlv~~~~~~~k~   99 (103)
                      ||++++.++.++
T Consensus        63 hLvlRLrGG~~k   74 (189)
T 2xzm_9           63 YLSLKLLGGKKK   74 (189)
T ss_dssp             ---------CCC
T ss_pred             EEEEecCCCccc
Confidence            999999987664

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

Probab=99.53  E-value=3.9e-14  Score=92.24  Aligned_cols=74  Identities=12%  Similarity=0.186  Sum_probs=61.8

Q ss_pred             CceEEEEEEeCCCC-eeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCe---e----cCCCCccccc
Q 034110            4 EELIDIKFRLYDGS-DIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGK---I----LENNKTVGQC   73 (103)
Q Consensus         4 ~~~v~l~~~~~~g~-~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk---~----L~D~~tL~~~   73 (103)
                      ++.|.|.+...... ....++|++++||++||++|+..  +|         +++|||||.|+   .    ++|+++|++|
T Consensus        12 ~~~v~l~It~s~~~~~~~e~~v~~~~TV~~LK~kIe~~~Gip---------~~~QrLi~~g~~g~~~~~L~~D~~tL~~Y   82 (97)
T 2kj6_A           12 DDSVHLHITHANLKSFSADARFSPQMSVEAVKEKLWKKCGTS---------VNSMALELYDDSGSKVAVLSDDSRPLGFF   82 (97)
T ss_dssp             CCCEEEEEEETTSSCCCEEEEECTTCCHHHHHHHHHHHHCCC---------TTSEEEEEECSSSCBCCCSSGGGSCHHHH
T ss_pred             CceEEEEEEECCCCceEEEEEeCCCChHHHHHHHHHHHHCcC---------HHHeEEEEecCCCcccceecCCcCCHHHC
Confidence            56788888875442 23578999999999999999998  65         99999999984   3    5999999999


Q ss_pred             CCCCCCCCCceEEEEEEec
Q 034110           74 KIPYGEVPGGVIIMHVVVQ   92 (103)
Q Consensus        74 ~i~~g~~~~~~~t~hlv~~   92 (103)
                      +|.+|      .++||+-.
T Consensus        83 ~I~~g------~~Ihlvd~   95 (97)
T 2kj6_A           83 SPFDG------FRLHIIDL   95 (97)
T ss_dssp             CCCSC------CEEEEEEC
T ss_pred             CCCCC------CEEEEEeC
Confidence            99999      78998753

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

Probab=99.53  E-value=3.2e-14  Score=109.06  Aligned_cols=73  Identities=23%  Similarity=0.399  Sum_probs=64.6

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      ..++|.++..+|+.+ .+++++++||.+||++|++.  +|         +++|||+|+||.|+|+.+|++|+|.++    
T Consensus       232 ~~MqI~VKtl~Gk~~-~leV~~s~TV~dLK~kI~~~~GIp---------~~~QRLi~~Gk~L~D~~TLsdygI~~g----  297 (307)
T 3ai5_A          232 GSMQIFVKTLTGKTI-TLEVEPSDTIENVKAKIQDKEGIP---------PDQQRLIFAGKQLEDGRTLSDYNIQKE----  297 (307)
T ss_dssp             CCEEEEEECTTSCEE-EEEECTTCBHHHHHHHHHHHHCCC---------GGGCEEEETTEECCTTSBTGGGTCCTT----
T ss_pred             CeEEEEEEeCCCCEE-EEEECCCCcHHHHHHHHHHHHCcC---------hHHEEEEeCCeecCCCCCHHHcCCCCC----
Confidence            457888998889654 78999999999999999998  66         999999999999999999999999988    


Q ss_pred             ceEEEEEEecC
Q 034110           83 GVIIMHVVVQP   93 (103)
Q Consensus        83 ~~~t~hlv~~~   93 (103)
                        .++||+++.
T Consensus       298 --stL~LvlRL  306 (307)
T 3ai5_A          298 --STLHLVLRL  306 (307)
T ss_dssp             --CEEEEEC--
T ss_pred             --CEEEEEEeC
Confidence              689999875

>1v6e_A Cytoskeleton-associated protein 1; tubulin-specific chaperone B, tubulin folding cofactor B, microtubule, ubiquitin-like fold, structural genomics; NMR {Mus musculus} SCOP: d.15.1.1

Probab=99.51  E-value=7.9e-14  Score=89.59  Aligned_cols=78  Identities=18%  Similarity=0.152  Sum_probs=62.2

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecC---ee----cCCCCcccccCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSG---KI----LENNKTVGQCKIP   76 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~G---k~----L~D~~tL~~~~i~   76 (103)
                      +..|.|.++.........+++++++||.+||++|++.     +++|  +++|||+|.|   +.    |+|+.+|++|+|.
T Consensus         5 ~~~v~l~I~~~~~~~~~~~~v~~~~TV~~lK~ki~~~-----~gip--~~~qrL~~~~~~g~~~~~l~~D~~tL~~y~i~   77 (95)
T 1v6e_A            5 SSGVMVFISSSLNSFRSEKRYSRSLTIAEFKCKLELV-----VGSP--ASCMELELYGADDKFYSKLDQEDALLGSYPVD   77 (95)
T ss_dssp             CCCEEEEEEETTSSSCEEEEECTTSBHHHHHHHHHHH-----TCSC--TTTCBCEEECSSSCEEEECCCSSSBTTSSSCC
T ss_pred             CcEEEEEEEECCCCeeEEEEcCccCHHHHHHHHHHHH-----HCCC--HHHeEEEEeCCCCccccccCCCcCCHhHCCCC
Confidence            4568888877655313578999999999999999998     2233  9999999987   43    5899999999999


Q ss_pred             CCCCCCceEEEEEEecCC
Q 034110           77 YGEVPGGVIIMHVVVQPS   94 (103)
Q Consensus        77 ~g~~~~~~~t~hlv~~~~   94 (103)
                      +|      .++||+-..+
T Consensus        78 ~g------~~l~v~d~~P   89 (95)
T 1v6e_A           78 DG------CRIHVIDHSG   89 (95)
T ss_dssp             TT------CEEEEBCCSC
T ss_pred             CC------CEEEEEECCc
Confidence            98      6899875433

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

Probab=99.47  E-value=8.5e-14  Score=91.23  Aligned_cols=71  Identities=17%  Similarity=0.314  Sum_probs=59.1

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEe--cCeecCCCCcccccCCCCCCCCC
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLIS--SGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~--~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      +.+++++ .|+.+ .+++++++||++||++|++.  +|         +++|||+|  .|+ |+|+.+|++|+|..|    
T Consensus        10 ~~~~vk~-~Gk~~-~v~v~~~~TV~~LK~~I~~~tgIp---------p~~QkLi~~~~gk-L~D~~tLs~~~I~~g----   73 (100)
T 2dzm_A           10 LDFRVEY-RDRNV-DVVLEDTCTVGEIKQILENELQIP---------VSKMLLKGWKTGD-VEDSTVLKSLHLPKN----   73 (100)
T ss_dssp             EEEEEEC-SSCEE-EEEEETTSBHHHHHHHHHHHHCCC---------TTTCCEECCSSSC-CCTTSBHHHHCCCSE----
T ss_pred             EEEEEEe-CCeEE-EEEECCCCcHHHHHHHHHHHHCCC---------hhHeEEEccCCCC-CCCcCCHHHcCCCCC----
Confidence            3344444 56454 79999999999999999998  66         99999997  677 999999999999988    


Q ss_pred             ceEEEEEEecCCC
Q 034110           83 GVIIMHVVVQPSL   95 (103)
Q Consensus        83 ~~~t~hlv~~~~~   95 (103)
                        .+|||++....
T Consensus        74 --stL~lvl~~~~   84 (100)
T 2dzm_A           74 --NSLYVLTPDLP   84 (100)
T ss_dssp             --EEEEECCSSSC
T ss_pred             --CEEEEEecCCC
Confidence              79999988664

>1t0y_A Tubulin folding cofactor B; ubiquitin-like, cytoskeleton, microtubule, CESG, structural genomics, protein structure initiative, PSI; NMR {Caenorhabditis elegans} SCOP: d.15.1.1

Probab=99.46  E-value=7e-13  Score=88.95  Aligned_cols=74  Identities=12%  Similarity=0.162  Sum_probs=60.8

Q ss_pred             eEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecC---ee----cCCCCcccccCCC
Q 034110            6 LIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSG---KI----LENNKTVGQCKIP   76 (103)
Q Consensus         6 ~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~G---k~----L~D~~tL~~~~i~   76 (103)
                      .|.|.|....+.....+++++++||.+||++|+..  +|         +++|||+|.|   +.    ++|+.+|++|+|.
T Consensus         6 ~v~l~V~~~~~~~~~e~~v~~~~TV~~lK~ki~~~~Gip---------~~~qrL~~~g~~~~~~~~l~~D~~tL~~y~i~   76 (122)
T 1t0y_A            6 VYDLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTT---------VDSMRIQLFDGDDQLKGELTDGAKSLKDLGVR   76 (122)
T ss_dssp             EEEEEEEESSCCSCEEEEEETTSBHHHHHHHHHHHHCCC---------TTTEEEEEECSSSSEEEECCCCSSBTTTTTCC
T ss_pred             EEEEEEEECCCCccEEEEeCCCCcHHHHHHHHHHHhCCC---------HHHeEEEEecCCCccccccCCCcCCHHHCCCC
Confidence            57777776555213578999999999999999998  66         9999999988   43    4899999999999


Q ss_pred             CCCCCCceEEEEEEecCC
Q 034110           77 YGEVPGGVIIMHVVVQPS   94 (103)
Q Consensus        77 ~g~~~~~~~t~hlv~~~~   94 (103)
                      +|      .++||+...+
T Consensus        77 ~g------~~ihvvd~~p   88 (122)
T 1t0y_A           77 DG------YRIHAVDVTG   88 (122)
T ss_dssp             SS------EEEEEEECTT
T ss_pred             CC------CEEEEEeCCC
Confidence            98      8999987544

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

Probab=99.45  E-value=2.1e-13  Score=89.53  Aligned_cols=76  Identities=16%  Similarity=0.222  Sum_probs=63.8

Q ss_pred             CceEEEEEEeCCCCeeeeEEeC-CcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCe-----------e----cCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYS-SASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGK-----------I----LENN   67 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~-~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk-----------~----L~D~   67 (103)
                      .+...|+||..+|..  .++++ +++||.+||++|++...     +|  +++|||+|.|+           .    ++|+
T Consensus         5 ~~~M~irvrs~~G~~--~v~v~~~~~Tv~~LK~kI~~~~g-----ip--~~~QrL~~~~~~~~~k~~~~~~~l~~~l~d~   75 (107)
T 1wf9_A            5 SSGTMLRVRSRDGLE--RVSVDGPHITVSQLKTLIQDQLQ-----IP--IHNQTLSTNRNLLLAKSPSDFLAFTDMADPN   75 (107)
T ss_dssp             CCCEEEEEECSSCEE--EEEECCTTSBHHHHHHHHHHHSC-----CC--TTTCCCBSSGGGGTCCSHHHHTTCCSSCCTT
T ss_pred             CCeEEEEEECCCCCE--EEEECCCCCcHHHHHHHHHHHhC-----cC--cccCEEEECCccccccCccccccccccCCCC
Confidence            455789999999943  47999 99999999999999822     22  99999999998           4    6899


Q ss_pred             CcccccCCCCCCCCCceEEEEEEecCC
Q 034110           68 KTVGQCKIPYGEVPGGVIIMHVVVQPS   94 (103)
Q Consensus        68 ~tL~~~~i~~g~~~~~~~t~hlv~~~~   94 (103)
                      .+|++|+|.+|      .++||+....
T Consensus        76 ~tL~~~gi~~G------~~L~l~~~~~   96 (107)
T 1wf9_A           76 LRISSLNLAHG------SMVYLAYEGE   96 (107)
T ss_dssp             CBGGGTCCCTT------CEEECCCSSC
T ss_pred             CCHHHCCCCCC------CEEEEEeCCC
Confidence            99999999999      6799887644

>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=99.43  E-value=8.1e-13  Score=85.41  Aligned_cols=78  Identities=17%  Similarity=0.228  Sum_probs=69.6

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVP   81 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~   81 (103)
                      .+.++|+++..+|+.+ .+.|.+++++..|++.++++  +|         ++++||+|.|+.|.+++|+++|++.+|   
T Consensus         5 ~~~i~ikVk~~~g~~i-~~~v~~~t~l~kl~~~y~~~~gi~---------~~~~rf~FdG~~l~~~~Tp~dl~medg---   71 (94)
T 2io1_B            5 NDHINLKVAGQDGSVV-QFKIKRHTPLSKLMKAYCERQGLS---------MRQIRFRFDGQPINETDTPAQLEMEDE---   71 (94)
T ss_dssp             -CEEEEEEECTTSCEE-EEEEETTSCTHHHHHHHHHHHTCC---------GGGEEEEETTEECCTTCCTTTTTCCTT---
T ss_pred             CCeEEEEEECCCCCEE-EEEECCCCHHHHHHHHHHHHhCCC---------cccEEEEECCEEcCCCCCHHHcCCCCC---
Confidence            4679999999999766 68999999999999999988  55         899999999999999999999999999   


Q ss_pred             CceEEEEEEecCCCCC
Q 034110           82 GGVIIMHVVVQPSLAK   97 (103)
Q Consensus        82 ~~~~t~hlv~~~~~~~   97 (103)
                         .+||++++..++.
T Consensus        72 ---D~Idv~~~~~GG~   84 (94)
T 2io1_B           72 ---DTIDVFQQQTGGV   84 (94)
T ss_dssp             ---CEEEEEECCEESC
T ss_pred             ---CEEEEEEeccCCC
Confidence               4799999887763

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

Probab=99.40  E-value=5.5e-13  Score=102.40  Aligned_cols=75  Identities=16%  Similarity=0.267  Sum_probs=62.1

Q ss_pred             CCceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEE---ecCeecCCCCcccccCCCC
Q 034110            3 DEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLI---SSGKILENNKTVGQCKIPY   77 (103)
Q Consensus         3 ~~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI---~~Gk~L~D~~tL~~~~i~~   77 (103)
                      +++.+.|+++. +|+. +.+++++++||++||++|++.  +|         +++||||   |+|++|+|+.+|++|+|..
T Consensus         2 ~~~~i~i~Vk~-~g~~-~~v~v~~~~Tv~~lK~~I~~~tgVp---------p~~QkLi~~k~~Gk~l~D~~~L~~~~ik~   70 (320)
T 3shq_A            2 EVKEVVVIVKW-SGKE-YPVDLTDQDTVEVLRHEIFRKTQVR---------PERQKLLNLKYKGKTAADNVKISALELKP   70 (320)
T ss_dssp             --CEEEEEEEE-TTEE-EEEEEETTSBHHHHHHHHHHHHCCC---------GGGCEETTCBSSSSBCCTTSBTTSSCCC-
T ss_pred             CCceEEEEEEE-CCEE-EEEEECCCCcHHHHHHHHHHHHCcC---------HHHeEEeecccCCcccCccccHHHcCCCC
Confidence            45678888886 5644 579999999999999999988  66         9999999   8999999999999999999


Q ss_pred             CCCCCceEEEEEEecCC
Q 034110           78 GEVPGGVIIMHVVVQPS   94 (103)
Q Consensus        78 g~~~~~~~t~hlv~~~~   94 (103)
                      |      .++||+-.+.
T Consensus        71 g------~~l~L~gs~~   81 (320)
T 3shq_A           71 N------FKLMMVGSTE   81 (320)
T ss_dssp             -------CEEEEECCCC
T ss_pred             C------CEEEEEccch
Confidence            8      6899876654

>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=99.37  E-value=6.2e-12  Score=80.90  Aligned_cols=78  Identities=17%  Similarity=0.228  Sum_probs=69.3

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVP   81 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~   81 (103)
                      .+.+.|+++..+|+.+ .+.+.+++++..|++..++.  +|         ++++||+|.|+.|.+++|+++|++.+|   
T Consensus         3 ~~~i~ikVk~~~g~~v-~~~vk~~t~l~kl~~~y~~~~gi~---------~~~~rf~FdG~~l~~~~Tp~dl~medg---   69 (91)
T 2io0_B            3 NDHINLKVAGQDGSVV-QFKIKRHTPLSKLMKAYCERQGLS---------MRQIRFRFDGQPINETDTPAQLEMEDE---   69 (91)
T ss_dssp             -CEEEEEEECTTSCEE-EEEEETTSCTHHHHHHHHHHTTCC---------STTEEEEETTEECCTTCCTTTTTCCTT---
T ss_pred             CCeEEEEEECCCCCEE-EEEECCCChHHHHHHHHHHHhCCC---------cccEEEEECCEEcCCCCCHHHcCCCCC---
Confidence            3578999999999766 69999999999999999988  54         899999999999999999999999999   


Q ss_pred             CceEEEEEEecCCCCC
Q 034110           82 GGVIIMHVVVQPSLAK   97 (103)
Q Consensus        82 ~~~~t~hlv~~~~~~~   97 (103)
                         .+||++++..++.
T Consensus        70 ---D~Idv~~~q~gg~   82 (91)
T 2io0_B           70 ---DTIDVFQQQTGGV   82 (91)
T ss_dssp             ---EEEEEEECCCCCC
T ss_pred             ---CEEEEEEeccCCc
Confidence               6799999887764

>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=99.34  E-value=1.2e-11  Score=79.58  Aligned_cols=76  Identities=17%  Similarity=0.237  Sum_probs=66.2

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      +.+.|+++..+|+.+ .+.+.+++++..|++.+++.  +|         ++++||+|.|+.|.++.|+++|++.+|    
T Consensus        16 ~~i~ikV~~~~g~~i-~~~v~~~t~l~kl~~~y~~~~gi~---------~~~~rf~fdG~~l~~~~Tp~dl~medg----   81 (93)
T 2d07_B           16 DHINLKVAGQDGSVV-QFKIKRHTPLSKLMKAYCERQGLS---------MRQIRFRFDGQPINETDTPAQLEMEDE----   81 (93)
T ss_dssp             CEEEEEEECTTSCEE-EEEEETTSCHHHHHHHHHHHHTCC---------GGGEEEEETTEECCTTCCTTTTTCCTT----
T ss_pred             CeEEEEEECCCCCEE-EEEEccCCHHHHHHHHHHHHhCCC---------ccceEEEECCEEcCCCCCHHHcCCCCC----
Confidence            578888888889766 68999999999999999988  55         899999999999999999999999999    


Q ss_pred             ceEEEEEEecCCCC
Q 034110           83 GVIIMHVVVQPSLA   96 (103)
Q Consensus        83 ~~~t~hlv~~~~~~   96 (103)
                        .+||++++..|+
T Consensus        82 --D~Idv~~~q~GG   93 (93)
T 2d07_B           82 --DTIDVFQQQTGG   93 (93)
T ss_dssp             --EEEEEEECC---
T ss_pred             --CEEEEEeeccCC
Confidence              679999887654

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

Probab=99.31  E-value=2.6e-12  Score=80.97  Aligned_cols=71  Identities=15%  Similarity=0.239  Sum_probs=58.0

Q ss_pred             EEEEEeCCCCeeeeEE-eCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecC--eecC---CCCcccccCCCCCCCC
Q 034110            8 DIKFRLYDGSDIGPFR-YSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSG--KILE---NNKTVGQCKIPYGEVP   81 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~-v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~G--k~L~---D~~tL~~~~i~~g~~~   81 (103)
                      .|++|+.+|..+  +. +++++||.+||+.|++..     ++|  ++.|||+|++  |.|+   |+.+|++|+|..|   
T Consensus         2 ~i~vr~~~G~~~--v~~l~~~~Tv~~Lk~~I~~~~-----gi~--~~~qrL~~~~p~k~l~l~~~~~tL~~~gl~~g---   69 (86)
T 2kzr_A            2 RVRCKAKGGTHL--LQGLSSRTRLRELQGQIAAIT-----GIA--PGSQRILVGYPPECLDLSDRDITLGDLPIQSG---   69 (86)
T ss_dssp             CEEEEETTEEEE--ECSCCTTCBHHHHHHHHHHHT-----CCC--TTTCCCEESSCCCCCCCCCSSCBTTTSSCCTT---
T ss_pred             EEEEEcCCCCEE--eeecCCCCCHHHHHHHHHHHh-----CCC--ccceEEEeCCCCcccccCCCCCCHHHcCCCCC---
Confidence            588999999543  66 999999999999999982     222  8999999974  8874   7899999999988   


Q ss_pred             CceEEEEEEecC
Q 034110           82 GGVIIMHVVVQP   93 (103)
Q Consensus        82 ~~~~t~hlv~~~   93 (103)
                         .++|+.-..
T Consensus        70 ---~~l~v~~~~   78 (86)
T 2kzr_A           70 ---DMLIVEEDQ   78 (86)
T ss_dssp             ---CEEECCCCS
T ss_pred             ---CEEEEEeCC
Confidence               578876554

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

Probab=99.31  E-value=1.4e-11  Score=81.11  Aligned_cols=77  Identities=17%  Similarity=0.242  Sum_probs=69.4

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      +.+.|+++..+|+.+ .+.|.+++++..|++.++++  +|         ++++||+|.|+.|.+++|+++|++.+|    
T Consensus        23 ~~I~IkVk~~~g~~i-~~kVk~~t~l~kL~~~y~ek~gi~---------~~~~rf~FdG~~l~~~~Tp~dl~medg----   88 (104)
T 1wz0_A           23 DHINLKVAGQDGSVV-QFKIKRHTPLSKLMKAYCERQGLS---------MRQIRFRFDGQPINETDTPAQLEMEDE----   88 (104)
T ss_dssp             CCEEEEEECSSSCEE-EEEECTTSCHHHHHHHHHHHHTCC---------TTTSCEESSSSBCCTTSCTTTTTCCTT----
T ss_pred             CeEEEEEECCCCCEE-EEEEcCCChHHHHHHHHHHHhCCC---------cceEEEEECCEEcCCCCCHHHcCCCCC----
Confidence            578899998899766 69999999999999999988  65         889999999999999999999999999    


Q ss_pred             ceEEEEEEecCCCCC
Q 034110           83 GVIIMHVVVQPSLAK   97 (103)
Q Consensus        83 ~~~t~hlv~~~~~~~   97 (103)
                        .+||++++..++.
T Consensus        89 --D~Idv~~~q~GG~  101 (104)
T 1wz0_A           89 --DTIDVFQQQTSGP  101 (104)
T ss_dssp             --EEEEECCCCCCCS
T ss_pred             --CEEEEEEeccCCC
Confidence              6799999887764

>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=99.26  E-value=4.4e-11  Score=73.30  Aligned_cols=68  Identities=18%  Similarity=0.268  Sum_probs=61.1

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCce
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGV   84 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~   84 (103)
                      ++|+++..+|+.+ .+.+.+++++..|++..++.  +|         ++++||+|.|+.|.+++|++++++.+|      
T Consensus         2 i~lkV~~~~g~~v-~~~v~~~t~l~kl~~~y~~~~gi~---------~~~~rf~fdG~~l~~~~Tp~~l~medg------   65 (72)
T 1wm3_A            2 INLKVAGQDGSVV-QFKIKRHTPLSKLMKAYCERQGLS---------MRQIRFRFDGQPINETDTPAQLEMEDE------   65 (72)
T ss_dssp             EEEEEECTTSCEE-EEEECTTSCTHHHHHHHHHHHTCC---------TTTCEEEETTEECCTTCCTTTTTCCTT------
T ss_pred             EEEEEECCCCCEE-EEEECCCChHHHHHHHHHHHhCCC---------cceEEEEECCEEcCCCCCHHHcCCCCC------
Confidence            6788888899766 69999999999999999988  55         899999999999999999999999999      


Q ss_pred             EEEEEE
Q 034110           85 IIMHVV   90 (103)
Q Consensus        85 ~t~hlv   90 (103)
                      .++|+.
T Consensus        66 D~Idv~   71 (72)
T 1wm3_A           66 DTIDVF   71 (72)
T ss_dssp             EEEEEE
T ss_pred             CEEEEE
Confidence            578875

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

Probab=99.25  E-value=2.6e-11  Score=80.61  Aligned_cols=76  Identities=16%  Similarity=0.276  Sum_probs=68.7

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      +.+.|+++..+|+.+ .+.|.+++++..|++..++.  +|         ++++||+|.|+.|.+++|+++|++.+|    
T Consensus        25 ~~I~IkVk~~~g~~i-~fkVk~~t~l~kL~~ay~ek~gi~---------~~~~rfiFdG~~L~~~~Tp~dl~mEDg----   90 (110)
T 2k8h_A           25 ALVAVKVVNADGAEM-FFRIKSRTALKKLIDTYCKKQGIS---------RNSVRFLFDGTPIDETKTPEELGMEDD----   90 (110)
T ss_dssp             CCEEEEEEETTSCCE-EEEECTTSSHHHHHHHHHHHHTCC---------SSSCEEESSSCBCCSSSHHHHHHCSSE----
T ss_pred             CeEEEEEECCCCCEE-EEEECCCChHHHHHHHHHHHhCCC---------cccEEEEECCEEcCCCCCHHHcCCCCC----
Confidence            569999999999766 69999999999999999988  65         889999999999999999999999999    


Q ss_pred             ceEEEEEEecCCCC
Q 034110           83 GVIIMHVVVQPSLA   96 (103)
Q Consensus        83 ~~~t~hlv~~~~~~   96 (103)
                        .+||+++...++
T Consensus        91 --D~Idv~~~q~Gg  102 (110)
T 2k8h_A           91 --DVIDAMVEQTGG  102 (110)
T ss_dssp             --EEEEEECCCCCC
T ss_pred             --CEEEEEEcccCc
Confidence              679998887765

>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=99.24  E-value=7.6e-11  Score=77.93  Aligned_cols=75  Identities=12%  Similarity=0.174  Sum_probs=65.2

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      +.++|+++. +|+.+ .+.+.+++++..|++..+++  ++         ++++||+|.|+.|.+++|++++++.+|    
T Consensus        30 ~~I~IkV~~-~g~~i-~fkIk~tt~l~kL~~ay~ek~gi~---------~~~~rF~FdG~rl~~~~Tp~dl~medg----   94 (106)
T 2eke_C           30 THINLKVSD-GSSEI-FFKIKKTTPLRRLMEAFAKRQGKE---------MDSLRFLYDGIRIQADQTPEDLDMEDN----   94 (106)
T ss_dssp             SEEEEEEEC-SSCEE-EEEEETTSCTHHHHHHHHHHHTCC---------GGGEEEEETTEECCTTCCTTTTTCCTT----
T ss_pred             CeEEEEEec-CCcEE-EEEeCCCCHHHHHHHHHHHHhCCC---------cccEEEEECCeEcCCCCCHHHcCCCCC----
Confidence            568999988 89665 68999999999999999988  55         899999999999999999999999999    


Q ss_pred             ceEEEEEEecCCCC
Q 034110           83 GVIIMHVVVQPSLA   96 (103)
Q Consensus        83 ~~~t~hlv~~~~~~   96 (103)
                        .+||++++..|+
T Consensus        95 --D~Idv~~~q~GG  106 (106)
T 2eke_C           95 --DIIEAHREQIGG  106 (106)
T ss_dssp             --EEEEEEECC---
T ss_pred             --CEEEEEeecccC
Confidence              579998887654

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

Probab=99.21  E-value=1e-10  Score=73.04  Aligned_cols=71  Identities=10%  Similarity=0.175  Sum_probs=63.2

Q ss_pred             CceEEEEEEeCCCC-eeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCC
Q 034110            4 EELIDIKFRLYDGS-DIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEV   80 (103)
Q Consensus         4 ~~~v~l~~~~~~g~-~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~   80 (103)
                      .+.+.|+++..+|+ .+ .+.+.+++++..|++..+++  +|         ++++||+|.|+.|.+++|++++++.+|| 
T Consensus         5 ~~~i~ikV~~~~g~~~i-~~~i~~~t~l~kl~~~y~~~~gi~---------~~~~rf~fdG~~l~~~~Tp~~l~medgD-   73 (79)
T 3a4r_A            5 SQELRLRVQGKEKHQML-EISLSPDSPLKVLMSHYEEAMGLS---------GHKLSFFFDGTKLSGKELPADLGLESGD-   73 (79)
T ss_dssp             CCCEEEEEECSSTTCEE-EEEECTTSCHHHHHHHHHHHHTCT---------TCCCEEEETTEECCSCCCHHHHTCCTTC-
T ss_pred             CCEEEEEEEeCCCCEEE-EEEECCCChHHHHHHHHHHHhCCC---------cccEEEEECCEEcCCCCCHHHcCCCCCC-
Confidence            56799999999996 55 68999999999999999988  55         8899999999999999999999999994 


Q ss_pred             CCceEEEEEE
Q 034110           81 PGGVIIMHVV   90 (103)
Q Consensus        81 ~~~~~t~hlv   90 (103)
                           +||+.
T Consensus        74 -----~Idv~   78 (79)
T 3a4r_A           74 -----LIEVW   78 (79)
T ss_dssp             -----EEEEE
T ss_pred             -----EEEEe
Confidence                 67763

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

Probab=99.11  E-value=6.9e-10  Score=71.16  Aligned_cols=76  Identities=20%  Similarity=0.215  Sum_probs=60.0

Q ss_pred             ceEEEEEEeC---CCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecC------ee-c-CCCCccccc
Q 034110            5 ELIDIKFRLY---DGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSG------KI-L-ENNKTVGQC   73 (103)
Q Consensus         5 ~~v~l~~~~~---~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~G------k~-L-~D~~tL~~~   73 (103)
                      .-|.|+|+..   +| ......+++++||.+||++|+..+     .+|  ++.|||.|.+      .. | +|..+|..|
T Consensus         8 ~~v~l~I~~~~~~~~-~~~e~~l~~~~TV~~LK~~i~~~~-----gip--~~~q~L~~~~~~~~~~~~~L~~d~~~L~~y   79 (97)
T 1wjn_A            8 QLLTLKIKCSNQPER-QILEKQLPDSMTVQKVKGLLSRLL-----KVP--VSELLLSYESSKMPGREIELENDLQPLQFY   79 (97)
T ss_dssp             CEEEEEEEESSCSSS-CCEEEEEETTSBHHHHHHHHHTTT-----TCC--TTTCEEEEECTTSCSCEEECCCSSSBSGGG
T ss_pred             ccEEEEEEecCCCCC-cEEEEECCCCCCHHHHHHHHHHHH-----CCC--hhHeEEEEEcCCCCceeeccCCCcccHhhc
Confidence            4577888763   45 556789999999999999999992     122  9999999883      22 4 788999999


Q ss_pred             CCCCCCCCCceEEEEEEecCC
Q 034110           74 KIPYGEVPGGVIIMHVVVQPS   94 (103)
Q Consensus        74 ~i~~g~~~~~~~t~hlv~~~~   94 (103)
                      ++.+|      .++|+....+
T Consensus        80 ~i~~G------~~I~V~d~~p   94 (97)
T 1wjn_A           80 SVENG------DCLLVRWSGP   94 (97)
T ss_dssp             TCCTT------CEEEEECCSS
T ss_pred             CCCCC------CEEEEEecCC
Confidence            99999      6799877543

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

Probab=98.86  E-value=2.2e-08  Score=67.00  Aligned_cols=74  Identities=19%  Similarity=0.339  Sum_probs=64.8

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      +.|+|+++..+|..+ .+.|.+++++..|++...++  ++         ++++||+|.|+.|.++.|.+++++.+||   
T Consensus        39 ~~I~LKV~~qdg~ev-~fkIk~tt~L~KLm~aY~er~Gl~---------~~~irFlFDG~rI~~~~TP~dL~MEDgD---  105 (115)
T 3kyd_D           39 EYIKLKVIGQDSSEI-HFKVKMTTHLKKLKESYCQRQGVP---------MNSLRFLFEGQRIADNHTPKELGMEEED---  105 (115)
T ss_dssp             CEEEEEEECTTSCEE-EEEEETTSCTHHHHHHHHHHHTCC---------TTSEEEEETTEECCTTCCTTTTTCCTTC---
T ss_pred             CeEEEEEEcCCCCEE-EEEEccCChHHHHHHHHHHHhCCC---------hhhEEEEECCeECCCCCCHHHcCCCCCC---
Confidence            568888888889776 58999999999999999988  55         9999999999999999999999999994   


Q ss_pred             ceEEEEEEecCC
Q 034110           83 GVIIMHVVVQPS   94 (103)
Q Consensus        83 ~~~t~hlv~~~~   94 (103)
                         +|++.++..
T Consensus       106 ---~IdV~~~Q~  114 (115)
T 3kyd_D          106 ---VIEVYQEQC  114 (115)
T ss_dssp             ---EEEEEECCC
T ss_pred             ---EEEEEeecc
Confidence               688776643

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

Probab=98.77  E-value=6.5e-08  Score=70.16  Aligned_cols=78  Identities=12%  Similarity=0.163  Sum_probs=67.5

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      +.|+|+++. +|..+ .+.+.+++++..|++..+++  +|         ++++||+|.|+.|.+++|.+++++.+|    
T Consensus        28 ~~I~LkV~~-~g~~v-~fkIk~~t~l~kL~~ay~er~Gi~---------~~~~RF~FdG~rI~~~~TP~dL~MEdg----   92 (200)
T 3pge_A           28 THINLKVSD-GSSEI-FFKIKKTTPLRRLMEAFAKRQGKE---------MDSLRFLYDGIRIQADQTPEDLDMEDN----   92 (200)
T ss_dssp             CCEEEEEEC-SSCEE-EEEECTTSCTHHHHHHHHHHHSSC---------GGGEEEEETTEECCTTCCTTTTTCCTT----
T ss_pred             CeEEEEEec-CCCEE-EEEEecCCHHHHHHHHHHHHhCCC---------hhhEEEEECCEEcCCCCCHHHcCCCCC----
Confidence            458888874 77665 69999999999999999888  55         999999999999999999999999999    


Q ss_pred             ceEEEEEEecCCCCCCc
Q 034110           83 GVIIMHVVVQPSLAKTK   99 (103)
Q Consensus        83 ~~~t~hlv~~~~~~~k~   99 (103)
                        .+||++++..++.+.
T Consensus        93 --D~Idv~~~q~gg~kd  107 (200)
T 3pge_A           93 --DIIEAHREQIGGGGE  107 (200)
T ss_dssp             --EEEEEEECCSCCC-C
T ss_pred             --CEEEEEeccCcCcCc
Confidence              579999998877643

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

Probab=98.60  E-value=1.9e-07  Score=67.77  Aligned_cols=77  Identities=12%  Similarity=0.153  Sum_probs=67.4

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      +.|+|++. .+|..+ .+.|.+++++..|++...++  +|         ++++||+|.|+.|.+++|.+++++.+|    
T Consensus        56 e~InLKVk-~dG~eV-~FKIKrtTpL~KLmeAYcERqGL~---------~~sIRFLFDGqRI~~ddTPeDLdMEDG----  120 (207)
T 3tix_A           56 THINLKVS-DGSSEI-FFKIKKTTPLRRLMEAFAKRQGKE---------MDSLTFLYDGIEIQADQTPEDLDMEDN----  120 (207)
T ss_dssp             CEEEEEEE-CSSCEE-EEEEETTSCTHHHHHHHHHHTTCC---------GGGSCEEETTEECCSSCCTTTTTCCTT----
T ss_pred             CcEEEEEe-cCCCEE-EEEEccCChHHHHHHHHHHHhCCC---------cccEEEEECCeecCCCCCHHHcCCCCC----
Confidence            46888886 477665 69999999999999999888  54         899999999999999999999999999    


Q ss_pred             ceEEEEEEecCCCCCC
Q 034110           83 GVIIMHVVVQPSLAKT   98 (103)
Q Consensus        83 ~~~t~hlv~~~~~~~k   98 (103)
                        .+|+++++..++..
T Consensus       121 --DtIDV~leQ~GG~~  134 (207)
T 3tix_A          121 --DIIEAHREQIGGLP  134 (207)
T ss_dssp             --EEEEECCCCCTTGG
T ss_pred             --CEEEEEEeccCCCc
Confidence              57999998887754

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

Probab=98.29  E-value=4.2e-06  Score=54.13  Aligned_cols=56  Identities=18%  Similarity=0.212  Sum_probs=42.0

Q ss_pred             EEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeec--CCCCcccccC
Q 034110           11 FRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKIL--ENNKTVGQCK   74 (103)
Q Consensus        11 ~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L--~D~~tL~~~~   74 (103)
                      |-+..+ ....+.+.++.||..+|++|+++     +++|  +++|+|||.|+.|  +.+..-..|-
T Consensus        18 f~~~~a-~~h~v~I~~~etv~~~ke~V~eq-----TgIp--~~~Q~LL~eg~~l~l~p~~~a~~~p   75 (94)
T 4efo_A           18 FSLQQM-TAHKIYIHSYNTATIFHELVYKQ-----TKII--SSNQELIYEGRRLVLEPGRLAQHFP   75 (94)
T ss_dssp             EETTTT-EEEEEEEETTCBHHHHHHHHHHH-----HCCC--GGGEEEEETTEEECCCTTCBGGGSC
T ss_pred             EEcccc-eEEEEEeccchHHHHHHHHHHHH-----hCCC--HHHHHHHhCCCccccCCCCccccCC
Confidence            444555 66679999999999999999999     2333  9999999999876  3444444443

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

Probab=98.16  E-value=2.7e-07  Score=67.74  Aligned_cols=79  Identities=13%  Similarity=0.173  Sum_probs=1.0

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCc
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGG   83 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~   83 (103)
                      .+.|+|++ ..+|..+ .+.|.+++.+..|++...++.     +++  ++++||+|.|+.|.+++|.+++++.+||    
T Consensus        19 ~e~InLKV-~qdGseV-~FKIKrtTpL~KLM~AYcERq-----GLs--~~siRFLFDGqRI~dddTPadL~MEDGD----   85 (227)
T 3v7o_A           19 ETHINLKV-SDGSSEI-FFKIKKTTPLRRLMEAFAKRQ-----GKE--MDSLRFLYDGIRIQADQTPEDLDMEDND----   85 (227)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCeEEEEE-eCCCCEE-EEEEccCChHHHHHHHHHHHh-----CCC--ccceEEEECCEecCCCCCHHHcCCCCCC----
Confidence            35677888 5577655 689999999999999888872     222  8999999999999999999999999994    


Q ss_pred             eEEEEEEecCCCCC
Q 034110           84 VIIMHVVVQPSLAK   97 (103)
Q Consensus        84 ~~t~hlv~~~~~~~   97 (103)
                        +|+++.+..|+.
T Consensus        86 --tIDV~leQ~GG~   97 (227)
T 3v7o_A           86 --IIEAHREQIGGL   97 (227)
T ss_dssp             ------------CC
T ss_pred             --EEEEEecccCCc
Confidence              689888877763

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

Probab=98.11  E-value=1.2e-06  Score=54.57  Aligned_cols=65  Identities=14%  Similarity=0.195  Sum_probs=47.6

Q ss_pred             eEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCee-----cCCCCcccccCCCCCC
Q 034110            6 LIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKI-----LENNKTVGQCKIPYGE   79 (103)
Q Consensus         6 ~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~-----L~D~~tL~~~~i~~g~   79 (103)
                      ...||||..+|..  -+++++++|+.+|+++|++..+     +|  ++.+.|.++-..     +.++.+|+++||..||
T Consensus         4 ~m~lRvrs~~G~~--Ri~v~~~~t~~~L~~~I~~~~~-----i~--~~~~~l~~~~~p~~~l~~~~~~~l~~lgl~hGd   73 (80)
T 2pjh_A            4 SIIIRVQSPDGVK--RITATKRETAATFLKKVAKEFG-----FQ--NNGFSVYINRNKTGEITASSSKSLHLLKIKHGD   73 (80)
T ss_dssp             CCCCEEECSSEEE--ECCCCSSCCHHHHHHHHHHHTC-----CC--TTTCCCCCSCCGGGGSSSCCCCTTTTTCCCTTC
T ss_pred             cEEEEEECCCCCE--EEEcCCcChHHHHHHHHHHHcC-----CC--CCcceEEecCCCCCcccCCCCCCHHHcCCCCCC
Confidence            3678999999943  3679999999999999999854     11  344444332222     3478899999999996

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

Probab=97.98  E-value=7.6e-05  Score=46.33  Aligned_cols=65  Identities=18%  Similarity=0.293  Sum_probs=52.5

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh-CCCCCccCCCCCcceEEE--ecCeec---CCCCcccccCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD-WPKGKTIVPKAVTEIKLI--SSGKIL---ENNKTVGQCKIPY   77 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~-~p~~~e~~p~~~~~qrLI--~~Gk~L---~D~~tL~~~~i~~   77 (103)
                      +....|+||+.+|+.+ .-.|..++||.+|.+.|... .+         ....+|+  |-.|.|   +.++||.++++..
T Consensus         5 ~~~~~i~iRlpdG~r~-~~~F~~~~tl~~v~~fv~~~~~~---------~~~f~L~t~fPrk~l~~~d~~~TL~e~gL~p   74 (84)
T 3qx1_A            5 EPVSKLRIRTPSGEFL-ERRFLASNKLQIVFDFVASKGFP---------WDEYKLLSTFPRRDVTQLDPNKSLLEVKLFP   74 (84)
T ss_dssp             CCEEEEEEECTTSCEE-EEEEETTSBHHHHHHHHHHTTCC---------TTTEEEECSSSCCBGGGSCTTSBTTTTTCCS
T ss_pred             CCeEEEEEECCCCCEE-EEEeCCCCCHHHHHHHHHHcCCC---------CCCeEEEeCCCCCCCcCCCCCCCHHHCCCCC
Confidence            5678999999999665 56999999999999999886 22         5667787  346777   4578999999986


Q ss_pred             C
Q 034110           78 G   78 (103)
Q Consensus        78 g   78 (103)
                      +
T Consensus        75 ~   75 (84)
T 3qx1_A           75 Q   75 (84)
T ss_dssp             E
T ss_pred             C
Confidence            6

>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=97.97  E-value=6e-05  Score=54.27  Aligned_cols=76  Identities=13%  Similarity=0.187  Sum_probs=64.1

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVP   81 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~   81 (103)
                      ++.|.|+++- +|..+ .+.+..++....|++..+++  +|         ++++||+|.|+.+.+++|..++.+.++   
T Consensus        19 ~~~i~ikv~~-~~~~v-~~~i~~~~~l~kl~~~y~~~~g~~---------~~~~~f~fdG~~i~~~~Tpk~L~~ed~---   84 (209)
T 3uf8_A           19 ETHINLKVSD-GSSEI-FFKIKKTTPLRRLMEAFAKRQGKE---------MDSLRFLYDGIRIQADQTPEDLDMEDN---   84 (209)
T ss_dssp             CSEEEEEEEC-SSCEE-EEEEETTSCTHHHHHHHHHHHTCC---------GGGCEEEETTEECCTTCCTTTTTCCTT---
T ss_pred             CCcEEEEEEc-CCCEE-EEEEeeCCHHHHHHHHHHHhhCCC---------hheEEEEECCEeccCCCChHHhhhccc---
Confidence            4678888875 66554 58999999999999999988  66         999999999999999999999999988   


Q ss_pred             CceEEEEEEecCCCC
Q 034110           82 GGVIIMHVVVQPSLA   96 (103)
Q Consensus        82 ~~~~t~hlv~~~~~~   96 (103)
                         .+|++..+..++
T Consensus        85 ---d~I~~~~eq~Gg   96 (209)
T 3uf8_A           85 ---DIIEAHREQIGG   96 (209)
T ss_dssp             ---EEEEEECSCTTC
T ss_pred             ---ccchhhcccccc
Confidence               467776666554

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

Probab=97.96  E-value=9.9e-05  Score=47.70  Aligned_cols=69  Identities=9%  Similarity=0.123  Sum_probs=57.4

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGE   79 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~   79 (103)
                      .+.|.|+++-.+|.....+.+.+++....|.....++.-     +  +++.+||+|.|..|..++|.+++++.+||
T Consensus        23 ~~~I~LkV~~~dg~~~v~fkIk~~t~l~kLm~aY~~~~g-----~--~~~~vrF~FDG~rI~~~~TP~dLdMEDgD   91 (97)
T 2jxx_A           23 SQQLQLRVQGKEKHQTLEVSLSRDSPLKTLMSHYEEAMG-----L--SGRKLSFFFDGTKLSGRELPADLGMESGD   91 (97)
T ss_dssp             CSEEEEEEEESSSSCEEEEEEETTSCHHHHHHHHHHHTT-----C--SSSCCEEEETTEECCSCSCHHHHTCCTTE
T ss_pred             CCeEEEEEEcCCCCEEEEEEECCCChHHHHHHHHHHHHC-----C--CcccEEEEECCEEcCCCCCHHHcCCCCCC
Confidence            467888888888852235899999999999998887722     1  18899999999999999999999999995

>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=97.85  E-value=0.00021  Score=44.90  Aligned_cols=66  Identities=21%  Similarity=0.285  Sum_probs=54.3

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCc-ceEEEecCeecCCCCcccccCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVT-EIKLISSGKILENNKTVGQCKIPYGEV   80 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~-~qrLI~~Gk~L~D~~tL~~~~i~~g~~   80 (103)
                      ..+++-+|-....++ -+.+.++++|.+|-..-..+  +|         ++ .+||.|-|..|..++++.+|.+.++|.
T Consensus         8 ~~~~~~~~~~~~~dl-~f~I~~~t~v~kLi~ayc~~~~I~---------~~~~IrllFDGdRLdp~~tp~DlemeD~D~   76 (82)
T 3goe_A            8 KLITLLLRSSKSEDL-RLSIPVDFTVKDLIKRYCTEVKIS---------FHERIRLEFEGEWLDPNDQVQSTELEDEDQ   76 (82)
T ss_dssp             CEEEEEEEESSSCCE-EEEEETTSBHHHHHHHHHHHHTCC---------CCTTCEEEETTEECCTTSBGGGSSCCTTCE
T ss_pred             HHHHHhhhccCCCCe-EEEecCCCCHHHHHHHHHHHcCCC---------cCceEEEEEcCcccCccCChhhhCCcCCce
Confidence            346677777666576 48999999999887666555  66         66 999999999999999999999999963

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

Probab=97.66  E-value=5.6e-06  Score=64.60  Aligned_cols=80  Identities=13%  Similarity=0.176  Sum_probs=0.8

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCc
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGG   83 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~   83 (103)
                      ++.|+|+++- +|..+ .+.+..+++...|++...++.     +++  ++++|++|.|+.|.+++|.+++++.+||    
T Consensus        19 ~~~I~LKV~~-~g~~v-~FkIk~~t~l~kLm~aY~~r~-----G~~--~~~~rFlFdG~rI~~~~TP~~L~MEDgD----   85 (360)
T 3ix6_A           19 ETHINLKVSD-GSSEI-FFKIKKTTPLRRLMEAFAKRQ-----GKE--MDSLRFLYDGIRIQADQTPEDLDMEDND----   85 (360)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCeEEEEEec-CCcEE-EEEEecCChHHHHHHHHHHHh-----CCC--cceEEEEECCeECCCCCChHHcCCCccc----
Confidence            4567777775 55444 689999999999999888772     122  8999999999999999999999999994    


Q ss_pred             eEEEEEEecCCCCCC
Q 034110           84 VIIMHVVVQPSLAKT   98 (103)
Q Consensus        84 ~~t~hlv~~~~~~~k   98 (103)
                        +|++..+..++-+
T Consensus        86 --~Idv~~~Q~g~~~   98 (360)
T 3ix6_A           86 --IIEAHREQIGGMR   98 (360)
T ss_dssp             -------------CH
T ss_pred             --hhhhhhccCchHH
Confidence              6888887776643

>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=97.44  E-value=0.0016  Score=42.42  Aligned_cols=73  Identities=14%  Similarity=0.198  Sum_probs=53.6

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEE--ecCeecC---CCCcccccCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLI--SSGKILE---NNKTVGQCKIPYG   78 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI--~~Gk~L~---D~~tL~~~~i~~g   78 (103)
                      .....|+||+.+|..+ .-.|..++||.+|.+.|......+       .....|+  |--|.|.   .++||+++++...
T Consensus        11 ~~~t~IqIRlpdG~rl-~~rF~~~~tl~~v~~fV~~~~~~~-------~~~f~L~t~fPrk~l~~~d~~~TL~elgL~ps   82 (109)
T 2dzk_A           11 STIARIQFRLPDGSSF-TNQFPSDAPLEEARQFAAQTVGNT-------YGNFSLATMFPRREFTREDYKRRLLDLELAPS   82 (109)
T ss_dssp             SCCEEEEEECSSSCEE-EEEECTTSBHHHHHHHHHHHHTTS-------SCSCEEECSSSCCBCCTTTTTSBTGGGTCSSE
T ss_pred             CCcEEEEEECCCCCEE-EEEeCCCCCHHHHHHHHHhccCCC-------CCceEEEcCCCCcCCcccccCCCHHHCCCCCc
Confidence            3578999999999655 579999999999999999872100       3445554  3466675   3789999999865


Q ss_pred             CCCCceEEEEEE
Q 034110           79 EVPGGVIIMHVV   90 (103)
Q Consensus        79 ~~~~~~~t~hlv   90 (103)
                            .++++.
T Consensus        83 ------a~L~v~   88 (109)
T 2dzk_A           83 ------ASVVLL   88 (109)
T ss_dssp             ------EEEEEE
T ss_pred             ------eEEEEE
Confidence                  556554

>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=97.43  E-value=0.00088  Score=43.58  Aligned_cols=71  Identities=14%  Similarity=0.251  Sum_probs=54.8

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh-CCCCCccCCCCCcceEEEe--cCeecC--CCCcccccCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD-WPKGKTIVPKAVTEIKLIS--SGKILE--NNKTVGQCKIPYGE   79 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~-~p~~~e~~p~~~~~qrLI~--~Gk~L~--D~~tL~~~~i~~g~   79 (103)
                      ..+.|.||+.+|+.+ .-.|..++||.+|.+.|... +.         +...+|+.  =.|.|.  .+.||+++++... 
T Consensus        22 ~~~~IqiRlpdG~r~-~rrF~~~~tl~~v~~fv~~~~~~---------~~~f~L~t~fPrk~l~~d~~~TL~e~gL~p~-   90 (109)
T 2cr5_A           22 EVVTVALRCPNGRVL-RRRFFKSWNSQVLLDWMMKVGYH---------KSLYRLSTSFPRRALEVEGGSSLEDIGITVD-   90 (109)
T ss_dssp             SEEEEEEECTTSCEE-EEEEESSSBTHHHHHHHHHHTCC---------TTTEEEECSSSCCBCCCCSSCBHHHHTCSSC-
T ss_pred             CcEEEEEECCCCCEE-EEEeCCCCCHHHHHHHHHhcCCC---------CCCeEEEeCCCCcCCCCCCCCCHHHcCCCCC-
Confidence            579999999999665 46999999999999999976 32         45566653  366775  5799999999976 


Q ss_pred             CCCceEEEEEEe
Q 034110           80 VPGGVIIMHVVV   91 (103)
Q Consensus        80 ~~~~~~t~hlv~   91 (103)
                           .+++|.-
T Consensus        91 -----a~L~Ve~   97 (109)
T 2cr5_A           91 -----TVLNVEE   97 (109)
T ss_dssp             -----EEEEEEE
T ss_pred             -----eEEEEEe
Confidence                 5566543

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

Probab=97.42  E-value=0.00021  Score=44.90  Aligned_cols=70  Identities=21%  Similarity=0.386  Sum_probs=54.8

Q ss_pred             EEEEEEe--CCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCC
Q 034110            7 IDIKFRL--YDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGE   79 (103)
Q Consensus         7 v~l~~~~--~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~   79 (103)
                      +.|++.+  ..| ..+.+.++...||..|++.+.+.+.-+  ..+.+--++|....|.+|.++++|++|+|++||
T Consensus         5 I~ITidl~~y~~-~~~DLRIP~~~tvK~Li~~l~ea~~l~--~~~~~~~~irv~NK~~~L~~~~~L~d~~ItnGD   76 (81)
T 2bps_A            5 IDITIDLKHYNG-SVFDLRLSDYHPVKKVIDIAWQAQSVS--MPPREGHWIRVVNKDKVFSGECKLSDCGITNGD   76 (81)
T ss_dssp             EEEEEECTTTTC-CEEEEEEETTSBTTHHHHHHHHHSCCC--SCCCTTCEEEEGGGTEEEETTSBTGGGTCCTTC
T ss_pred             EEEEEEeeccCC-ceEEEECCCchhHHHHHHHHHHHhCCC--cCCCCCCEEEEecCCEEEcCCCEEeeCCcCCCC
Confidence            5566665  566 446899999999999999999984321  222222489999999999999999999999996

>1wj4_A KIAA0794 protein; UBX domain, beta-grAsp fold, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: d.15.1.2

Probab=97.41  E-value=0.0014  Score=43.74  Aligned_cols=65  Identities=14%  Similarity=0.176  Sum_probs=51.5

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh-CCCCCccCCCCCcceEEE--ecCeec--C-CCCcccccCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD-WPKGKTIVPKAVTEIKLI--SSGKIL--E-NNKTVGQCKIPY   77 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~-~p~~~e~~p~~~~~qrLI--~~Gk~L--~-D~~tL~~~~i~~   77 (103)
                      +....|+||+.+|..+ .-.|..++||.+|.+.|... .+         .....|+  |-.|.|  + .++||.++++..
T Consensus        41 ~~~t~IqIRlPdG~rl-~~rF~~~~tl~~V~~fV~~~~~~---------~~~F~L~t~fPrk~l~~~d~~~TL~e~gL~p  110 (124)
T 1wj4_A           41 GPKAQLMLRYPDGKRE-QITLPEQAKLLALVKHVQSKGYP---------NERFELLTNFPRRKLSHLDYDITLQEAGLCP  110 (124)
T ss_dssp             SCEEEEEEECTTSCEE-EEEEETTSCHHHHHHHHHHHHCC---------TTTEEEECSSSCCEETSSCSSSCTTTTTCCS
T ss_pred             CCcEEEEEECCCCCEE-EEEeCCCCCHHHHHHHHHhcCCC---------CCCeEEecCCCCcCCccCCCCCCHHHCCCCC
Confidence            4679999999999654 57999999999999999876 33         4556666  447778  3 479999999886


Q ss_pred             C
Q 034110           78 G   78 (103)
Q Consensus        78 g   78 (103)
                      .
T Consensus       111 s  111 (124)
T 1wj4_A          111 Q  111 (124)
T ss_dssp             S
T ss_pred             c
Confidence            5

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

Probab=97.33  E-value=3.1e-05  Score=59.90  Aligned_cols=77  Identities=10%  Similarity=0.178  Sum_probs=0.0

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCce
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGV   84 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~   84 (103)
                      +.|.|+++- +|..+ .+.+..+++...|+....++..     ++  +.++||+|.|+.|.+++|.+++++.+||     
T Consensus        29 ~~i~lkv~~-~~~~~-~~~i~~~~~~~~l~~~y~~~~g-----~~--~~~~~f~f~G~~i~~~~Tp~~l~med~d-----   94 (389)
T 4da1_A           29 THINLKVSD-GSSEI-FFKIKKTTPLRRLMEAFAKRQG-----KE--MDSLRFLYDGIRIQADQAPEDLDMEDND-----   94 (389)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CcEEEEEec-CCcEE-EEEECCCChHHHHHHHHHHHhC-----CC--cceEEEEECCEEcCCCCCHHHcCCCCCC-----
Confidence            467777765 55444 5899999999999999888832     22  9999999999999999999999999995     


Q ss_pred             EEEEEEecCCCC
Q 034110           85 IIMHVVVQPSLA   96 (103)
Q Consensus        85 ~t~hlv~~~~~~   96 (103)
                       +|++.+...++
T Consensus        95 -~i~~~~~q~gg  105 (389)
T 4da1_A           95 -IIEAHREQIGG  105 (389)
T ss_dssp             ------------
T ss_pred             -Eeeeeeccccc
Confidence             56766665544

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

Probab=97.31  E-value=0.0028  Score=40.89  Aligned_cols=65  Identities=12%  Similarity=0.164  Sum_probs=55.3

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGE   79 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~   79 (103)
                      .+.|+|+++ .+|..+ -+.+-.++....|.....++  ++         ++++|++|.|..+.++.|.+++++.+||
T Consensus        19 ~~~IniKV~-~~g~ev-~FkIK~tt~l~KL~~aYc~r~gv~---------~~sirFlfDG~rI~~~~TP~~L~meD~D   85 (95)
T 2l76_A           19 PRLFPLKIR-CRADLV-RLPLRMSEPLQSVVDHMATHLGVS---------PSRILLLFGETELSPTATPRTLKLGVAD   85 (95)
T ss_dssp             CCCEEEEEE-CSSSEE-EEEECSSSCTHHHHHHHHHHHTSC---------GGGEEEEETTEECCTTSCHHHHTCCSSC
T ss_pred             CCeEEEEEE-cCCcEE-EEEEecCChHHHHHHHHHhhcCCC---------hhhEEEEECCcCCCCCCCHhHcCCCCCC
Confidence            356888888 456444 58999999999998887777  55         9999999999999999999999999996

>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=97.26  E-value=0.0026  Score=48.55  Aligned_cols=71  Identities=14%  Similarity=0.216  Sum_probs=53.9

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEe------cCeecCCCCcccccCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLIS------SGKILENNKTVGQCKIPYG   78 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~------~Gk~L~D~~tL~~~~i~~g   78 (103)
                      ..++|++.+. + .+..+.|++++||.++...|.+++|.   ..+.+.++=-|.-      .|+.|+++.||+.|++.++
T Consensus         2 ~~~~~~~~~~-~-~~~~~~f~~~~~v~~~~~~i~e~~~~---~~~~~~~~y~l~~~~~~~~~~~Wl~~~~~l~~y~~~~~   76 (371)
T 3ivf_A            2 VALSLKISIG-N-VVKTMQFEPSTMVYDACRMIRERIPE---ALAGPPNDFGLFLSDDDPKKGIWLEAGKALDYYMLRNG   76 (371)
T ss_dssp             CCEEEEEEET-T-EEEEEEECTTCBHHHHHHHHHTTCGG---GGSSCGGGEEEEECCSSGGGCEECCTTSBGGGGTCCTT
T ss_pred             ccEEEEEEec-c-eeEEEEECCCCCHHHHHHHHHHhccc---ccCCCHHHCeEeccCCCCCcCEeccCCCCHHHhCCCCC
Confidence            4688999998 4 66789999999999999999999862   1111133334433      4788999999999999988


Q ss_pred             CC
Q 034110           79 EV   80 (103)
Q Consensus        79 ~~   80 (103)
                      +.
T Consensus        77 ~~   78 (371)
T 3ivf_A           77 DT   78 (371)
T ss_dssp             CE
T ss_pred             ce
Confidence            53

>1s3s_G P47 protein; AAA ATPase, protein-protein complex, UBX domain, protein binding; HET: ADP; 2.90A {Rattus norvegicus} SCOP: d.15.1.2 PDB: 1i42_A 1jru_A

Probab=97.14  E-value=0.0026  Score=42.46  Aligned_cols=68  Identities=24%  Similarity=0.379  Sum_probs=52.0

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEE--ecCeecC-CCCcccccCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLI--SSGKILE-NNKTVGQCKIPYG   78 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI--~~Gk~L~-D~~tL~~~~i~~g   78 (103)
                      +....|+||+.||..+ .-.|..++||.+|.+.|....+.    .  ......|+  |-.|.|+ ++.||+++++...
T Consensus        50 ~~~t~IqIRlpdG~rl-~~rF~~~~tl~~v~~fV~~~~~~----~--~~~~f~L~t~fPrk~l~d~~~TL~eagL~ps  120 (127)
T 1s3s_G           50 EPTTNIQIRLADGGRL-VQKFNHSHRISDIRLFIVDARPA----M--AATSFVLMTTFPNKELADENQTLKEANLLNA  120 (127)
T ss_dssp             SCCCCEEEEETTTTEE-EEECCSSCBHHHHHHHHHHHCSG----G--GTSCEEEEETTTTEECCSTTCBHHHHTCSSC
T ss_pred             CCcEEEEEECCCCCEE-EEEeCCCCCHHHHHHHHHHhCcC----C--CCCCeEEecCCCCCCCCCCCCcHHHCCCcCc
Confidence            3568999999999755 57999999999999999987541    0  03455665  3467885 4799999999865

>2kc2_A Talin-1, F1; FERM, adhesion, cell membrane, cell projection, cytoplasm, cytoskeleton, membrane, phosphoprotein, structural protein; NMR {Mus musculus}

Probab=96.92  E-value=0.0012  Score=44.65  Aligned_cols=71  Identities=18%  Similarity=0.215  Sum_probs=51.2

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCc--------------------------cCCCCC--cceEE
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKT--------------------------IVPKAV--TEIKL   57 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e--------------------------~~p~~~--~~qrL   57 (103)
                      .|++++.|| .+..+.|+.+.+|.+++..|...  ++..-|                          ..|...  ..+||
T Consensus        13 ~LkV~llDg-~~ktl~VD~S~~V~~lv~~Ic~kigI~n~~ey~L~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~k~kL   91 (128)
T 2kc2_A           13 PLKIRMLDG-TVKTIMVDDSKTVTDMLMTICARIGITNHDEYSLVRELMEEKKDEGTGTLRKDKTLLRDEKKMEKLKQKL   91 (128)
T ss_dssp             EEEEECTTS-CEEEEEEEECSSHHHHHHHHHHHHTCCCCSSEEEEEECCCCCCCCCSSCCSSSSSCSCCSCCSCSSCCSC
T ss_pred             cEEEEcCCC-CEEEEEeCCCcCHHHHHHHHHHHhCCCCcccccccccccccccccCchhhccccccccchhHHHHHHHHh
Confidence            489999999 56689999999999999999988  331101                          001111  24555


Q ss_pred             Ee--cCeecCCCCcccccCCCCCC
Q 034110           58 IS--SGKILENNKTVGQCKIPYGE   79 (103)
Q Consensus        58 I~--~Gk~L~D~~tL~~~~i~~g~   79 (103)
                      -.  .+..|+++.||.+.||.+++
T Consensus        92 ~~dd~~~WLD~srtL~EQGI~e~~  115 (128)
T 2kc2_A           92 HTDDELNWLDHGRTLREQGVEEHE  115 (128)
T ss_dssp             CCSSSEEEECSSSCHHHHTCCTTS
T ss_pred             cccCCCCcccCCCcHHHcCCCCCC
Confidence            22  35789999999999999983

>4e71_A Plexin-B2, MM1; transmembrane, signaling, RBD, structural genomics consortium, SGC, signaling protein; 2.26A {Homo sapiens}

Probab=96.46  E-value=0.031  Score=36.88  Aligned_cols=80  Identities=18%  Similarity=0.289  Sum_probs=49.5

Q ss_pred             ceEEEEEEeCC-CCeeeeEEeCCcchHHHHHHHHHhhCCCCC--ccCCCCCcceEEEe----cCeecCCCC---------
Q 034110            5 ELIDIKFRLYD-GSDIGPFRYSSASTVDMLKQRIVSDWPKGK--TIVPKAVTEIKLIS----SGKILENNK---------   68 (103)
Q Consensus         5 ~~v~l~~~~~~-g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~--e~~p~~~~~qrLI~----~Gk~L~D~~---------   68 (103)
                      ..+.|.+...+ +.+..++.+=.++||.++|++|...+=++.  ...| .++++.|=+    +|++|.|..         
T Consensus        10 ~~ltl~v~~~~~~~~~i~vkVLdCDTItQvKeKiLd~vyk~~pyS~rP-~~~~~dLEwr~g~~~~iL~D~D~ts~~~~~w   88 (111)
T 4e71_A           10 APLTVSVIVQDEGVDAIPVKVLNCDTISQVKEKIIDQVYRGQPCSCWP-RPDSVVLEWRPGSTAQILSDLDLTSQREGRW   88 (111)
T ss_dssp             CEEEEEEEETTSCCCCEEEEEETTCBHHHHHHHHHHHHTC----------CCSEEEEEC--CCCEECCSSCTTSCC---C
T ss_pred             EEEEEEEEecCCCCCceeeeeeccCcHHHHHHHHHHHHHcCCccccCC-CCCceeeEEecCCCCccccccCccceecCcc
Confidence            44566665543 223356788899999999999998821221  1222 367777765    356776532         


Q ss_pred             ----cccccCCCCCCCCCceEEEEEEe
Q 034110           69 ----TVGQCKIPYGEVPGGVIIMHVVV   91 (103)
Q Consensus        69 ----tL~~~~i~~g~~~~~~~t~hlv~   91 (103)
                          ||..|+|++|      .+|-|+.
T Consensus        89 krLNTL~HY~V~dg------atl~l~~  109 (111)
T 4e71_A           89 KRVNTLMHYNVRDG------ATLILSK  109 (111)
T ss_dssp             CCCCBHHHHTCCTT------CEEEEEE
T ss_pred             eEecchhhcCCCCC------CEEEEEe
Confidence                6777999998      5666543

>2r2o_A Plexin-B1; effector domain, structural genomics, structural GEN consortium, SGC, glycoprotein, membrane, phosphorylation, R secreted, transmembrane; 2.00A {Homo sapiens} PDB: 2rex_A* 2jph_A

Probab=96.45  E-value=0.03  Score=38.23  Aligned_cols=83  Identities=20%  Similarity=0.298  Sum_probs=53.0

Q ss_pred             ceEEEEEEeCCC-----CeeeeEEeCCcchHHHHHHHHHhhCCCCC--ccCCCCCcceEEEe----cCe-ecCCC--C--
Q 034110            5 ELIDIKFRLYDG-----SDIGPFRYSSASTVDMLKQRIVSDWPKGK--TIVPKAVTEIKLIS----SGK-ILENN--K--   68 (103)
Q Consensus         5 ~~v~l~~~~~~g-----~~~~~~~v~~~~tV~~lK~~i~~~~p~~~--e~~p~~~~~qrLI~----~Gk-~L~D~--~--   68 (103)
                      ..+.|.+....|     .+-.++.|=.++||.++|++|...+=++.  .-+| .++++-|=+    +|+ +|.|.  .  
T Consensus        23 ~~ltl~v~~~~~~~~~~~~~i~VkVLdCDTItQvKeKiLDavYk~~PySqRP-~~~d~dLEwr~g~~g~liL~D~D~tS~  101 (138)
T 2r2o_A           23 RPLTLNALLAVGPGAGEAQGVPVKVLDCDTISQAKEKMLDQLYKGVPLTQRP-DPRTLDVEWRSGVAGHLILSDEDVTSE  101 (138)
T ss_dssp             CEEEEEEEEC-------CCCEEEEEETTCBHHHHHHHHHHHHTTTSCGGGCC-CGGGEEEEEECSSSCEEEECSSSTTCC
T ss_pred             EEEEEEEEccCCcccccCCceeEEEeccccHHHHHHHHHHHHHcCCccccCC-CccceeEEEecCCcCceEeeccCCccc
Confidence            356666655432     23457888899999999999998821221  2233 377777755    344 47554  2  


Q ss_pred             ---------cccccCCCCCCCCCceEEEEEEecCC
Q 034110           69 ---------TVGQCKIPYGEVPGGVIIMHVVVQPS   94 (103)
Q Consensus        69 ---------tL~~~~i~~g~~~~~~~t~hlv~~~~   94 (103)
                               ||+.|+|++|      .+|-|+.+..
T Consensus       102 ~~~~wkrLNTL~HY~V~Dg------a~l~l~~~~~  130 (138)
T 2r2o_A          102 VQGLWRRLNTLQHYKVPDG------ATVALVPCLT  130 (138)
T ss_dssp             EETTEEECCBHHHHTCCTT------CEEEEEEC--
T ss_pred             ccCCceeecchhccCCCCC------CEEEEEECCC
Confidence                     7888999999      6777766543

>3h6n_A Plexin-D1; structural genomics consortium, SGC, membrane, transmembrane, receptor, alternative splicing, cell membrane, glycoprotein, polymorphism; 2.00A {Homo sapiens}

Probab=95.89  E-value=0.13  Score=34.63  Aligned_cols=67  Identities=21%  Similarity=0.299  Sum_probs=45.4

Q ss_pred             eeeEEeCCcchHHHHHHHHHhhCCCC--CccCCCCCcceEEEe-cC---e-ecCCC-------------CcccccCCCCC
Q 034110           19 IGPFRYSSASTVDMLKQRIVSDWPKG--KTIVPKAVTEIKLIS-SG---K-ILENN-------------KTVGQCKIPYG   78 (103)
Q Consensus        19 ~~~~~v~~~~tV~~lK~~i~~~~p~~--~e~~p~~~~~qrLI~-~G---k-~L~D~-------------~tL~~~~i~~g   78 (103)
                      ..++.+=.++||.++|++|...+=++  +...| .++++.|=+ .|   + +|.|.             -||..|+|++|
T Consensus        18 ~i~VkVLdCDTItQvKeKiLd~vyk~~p~S~rP-~~~~~dLEwr~g~~~~~iL~D~D~ts~~~~~~krLNTL~HY~V~dg   96 (127)
T 3h6n_A           18 SLSVRAMDTDTLTQVKEKILEAFCKNVPYSQWP-RAEDVDLEWFASSTQSYILRDLDDTSVVEDGRKKLNTLAHYKIPEG   96 (127)
T ss_dssp             CEEEEEETTSBHHHHHHHHHHHHSTTSCGGGSC-CGGGEEEEEECSSSCEEECCSSSTTSCEETTEECCCBTTTTTCCTT
T ss_pred             ceeeeeeccCchhhhhHHHHHHHhccCCcccCC-CCcccceEEecCCCCceEeecCCCcceecCceeEeccccccCCCCC
Confidence            34678888999999999999882222  11233 478888866 34   3 47652             26677999998


Q ss_pred             CCCCceEEEEEEec
Q 034110           79 EVPGGVIIMHVVVQ   92 (103)
Q Consensus        79 ~~~~~~~t~hlv~~   92 (103)
                            .+|-|+.+
T Consensus        97 ------atv~l~~~  104 (127)
T 3h6n_A           97 ------ASLAMSLI  104 (127)
T ss_dssp             ------CEEEEEEC
T ss_pred             ------CEEEEEEc
Confidence                  66766644

>4e74_A Plexin-A4; RBD, structural genomics, structural genomics consor SGC, signaling protein; 1.58A {Homo sapiens} PDB: 3q3j_A*

Probab=95.02  E-value=0.18  Score=33.47  Aligned_cols=81  Identities=20%  Similarity=0.336  Sum_probs=49.9

Q ss_pred             ceEEEEEEeCCC--CeeeeEEeCCcchHHHHHHHHHhhCCCC--CccCCCCCcceEEEe-cC---e-ecCCC--------
Q 034110            5 ELIDIKFRLYDG--SDIGPFRYSSASTVDMLKQRIVSDWPKG--KTIVPKAVTEIKLIS-SG---K-ILENN--------   67 (103)
Q Consensus         5 ~~v~l~~~~~~g--~~~~~~~v~~~~tV~~lK~~i~~~~p~~--~e~~p~~~~~qrLI~-~G---k-~L~D~--------   67 (103)
                      ..+.|.+...+|  .+..++.+=.++||.++|++|...+=++  +...| .++++.|=+ .|   + +|.|.        
T Consensus        12 ~~ltl~v~~~~~~~~~~i~VkVLdCDTItQvKeKiLd~vyk~~p~S~rP-~~~~~dLEwr~g~~~~~iL~D~D~ts~~~~   90 (117)
T 4e74_A           12 KTLVLSCVSPDNANSPEVPVKILNCDTITQVKEKILDAIFKNVPCSHRP-KAADMDLEWRQGSGARMILQDEDITTKIEN   90 (117)
T ss_dssp             CEEEEEECCC----CCCEEEEEETTSBHHHHHHHHHHHHTTTSCGGGSC-CGGGEEEEEECTTSCEEEECSSSTTCCC--
T ss_pred             EEEEEEEEccCCCCCCceEeeeecCCchHHHHHHHHHHHhcCCCcccCC-CCCceeEEEecCCCCceEeecCCCccEecC
Confidence            345565544432  2334677778999999999999882122  12233 377888865 34   3 46552        


Q ss_pred             -----CcccccCCCCCCCCCceEEEEEEec
Q 034110           68 -----KTVGQCKIPYGEVPGGVIIMHVVVQ   92 (103)
Q Consensus        68 -----~tL~~~~i~~g~~~~~~~t~hlv~~   92 (103)
                           -||..|+|++|      .+|-|+.+
T Consensus        91 ~wkrLNTL~HY~V~dg------atl~l~~~  114 (117)
T 4e74_A           91 DWKRLNTLAHYQVPDG------SVVALVSK  114 (117)
T ss_dssp             -CCCCCBHHHHTCCTT------CEEEEEEC
T ss_pred             cceEeccccccCCCCC------CEEEEEeC
Confidence                 25667999998      66766554

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

Probab=93.66  E-value=0.45  Score=30.13  Aligned_cols=70  Identities=9%  Similarity=0.113  Sum_probs=55.5

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceE
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVI   85 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~   85 (103)
                      +|.+...+|.. ..+.+.|++++.+|=+..-+.  +.         +++-.|.|++|.|+=..++.-.||.+|      .
T Consensus        11 ~v~Vl~~n~rr-~~VKvtp~t~L~~VL~eaC~K~gl~---------~~~~~Lkh~~k~lDLSlpfRlsgLpnn------A   74 (90)
T 2al3_A           11 AVSVLAPNGRR-HTVKVTPSTVLLQVLEDTCRRQDFN---------PSEYDLKFQRTVLDLSLQWRFANLPNN------A   74 (90)
T ss_dssp             CEEEECTTSCE-EEECCCTTSBHHHHHHHHHHHTTCC---------GGGCEEEETTEEESSSCBHHHHCCCSS------C
T ss_pred             EEEEEcCCCcE-EEEEECCCCCHHHHHHHHHHHhCCC---------hhhCeEEeCCEeccccceeEecCCCCC------C
Confidence            78888889954 468999999999964444444  43         778899999999999999999999988      6


Q ss_pred             EEEEEecC
Q 034110           86 IMHVVVQP   93 (103)
Q Consensus        86 t~hlv~~~   93 (103)
                      .+-|+...
T Consensus        75 kLELv~~s   82 (90)
T 2al3_A           75 KLEMVPVS   82 (90)
T ss_dssp             EEEEECSS
T ss_pred             EEEEEEcc
Confidence            67766543

>3hm6_X Plexin-B1; structural genomics consortium, SGC, membrane, transmembrane receptor, cell membrane, glycoprotein, phosphoprotein; 2.40A {Homo sapiens} PDB: 3sua_D* 3su8_X*

Probab=93.17  E-value=0.74  Score=38.28  Aligned_cols=80  Identities=23%  Similarity=0.315  Sum_probs=50.7

Q ss_pred             eEEEEEEeCCC-----CeeeeEEeCCcchHHHHHHHHHhhCCCC--CccCCCCCcceEEEe-c---Ce-ecCCCC-----
Q 034110            6 LIDIKFRLYDG-----SDIGPFRYSSASTVDMLKQRIVSDWPKG--KTIVPKAVTEIKLIS-S---GK-ILENNK-----   68 (103)
Q Consensus         6 ~v~l~~~~~~g-----~~~~~~~v~~~~tV~~lK~~i~~~~p~~--~e~~p~~~~~qrLI~-~---Gk-~L~D~~-----   68 (103)
                      .+.|.+...+|     .+..++.+=.++||.++|++|...+=++  +.-+| .++++.|=+ .   |+ +|.|..     
T Consensus       257 ~ltL~v~~~~~~~~~~~~~i~VkVLdCDTItQVKeKiLDavYk~~pyS~rP-~~~~~dLEwr~g~~g~~iL~D~D~ts~~  335 (644)
T 3hm6_X          257 PLTLNALLAVGPGAGEAQGVPVKVLDCDTISQAKEKMLDQLYKGVPLTQRP-DPRTLDVEWRSGVAGHLILSDEDVTSEV  335 (644)
T ss_dssp             EEEEEEECC-------CCCEEEEEETTSBHHHHHHHHHHHHTTTSCGGGSC-CGGGEEEEEECSSSCEEEECSSSTTCCE
T ss_pred             eEEEEEeecCccccCCCCceeeEeeccCcHHHHHHHHHHHHHcCCCcccCC-CCCCcceEEeeCCCCceeecccCcccee
Confidence            45666655433     2334678889999999999999872112  12233 477887765 2   34 466644     


Q ss_pred             --------cccccCCCCCCCCCceEEEEEEec
Q 034110           69 --------TVGQCKIPYGEVPGGVIIMHVVVQ   92 (103)
Q Consensus        69 --------tL~~~~i~~g~~~~~~~t~hlv~~   92 (103)
                              ||+.|+|++|      .+|-|+.+
T Consensus       336 ~~~wkrLNTL~HY~V~dg------a~v~L~p~  361 (644)
T 3hm6_X          336 QGLWRRLNTLQHYKVPDG------ATVALVPC  361 (644)
T ss_dssp             ETTEEECCBTTTTTCCTT------CEEEEEEC
T ss_pred             cCcceeecchhhcCCCCC------cEEEEEec
Confidence                    7888999999      55655543

>3kuz_A Plexin-C1; structural genomics, structural genomics consortium, SGC; 2.30A {Homo sapiens}

Probab=92.45  E-value=1.4  Score=29.49  Aligned_cols=78  Identities=19%  Similarity=0.240  Sum_probs=45.7

Q ss_pred             eEEEEEEe---CCC-----CeeeeEEeCCcchHHHHHHHHHhh-CC-CCCccCCCCCcceEEEe-cC---eecCCC----
Q 034110            6 LIDIKFRL---YDG-----SDIGPFRYSSASTVDMLKQRIVSD-WP-KGKTIVPKAVTEIKLIS-SG---KILENN----   67 (103)
Q Consensus         6 ~v~l~~~~---~~g-----~~~~~~~v~~~~tV~~lK~~i~~~-~p-~~~e~~p~~~~~qrLI~-~G---k~L~D~----   67 (103)
                      .+.|.+..   ..+     .+..++.+=.++||.++|++|... +- .+....+ .++++.|=+ .|   ++|.|.    
T Consensus        19 tLtL~vv~~~~~~~~~~~~~~~v~VkVLdCDTItQVKEKILdavYk~k~~pys~-r~~d~dLEwr~g~~~~~L~D~D~tS   97 (126)
T 3kuz_A           19 TVALNVVFEKIPENESADVCRNISVNVLDCDTIGQAKEKIFQAFLSKNGSPYGL-QLNEIGLELQMGTRQKELLDIDSSS   97 (126)
T ss_dssp             EEEEEEEECCCTTSSCSCSCCEEEEEEETTCBHHHHHHHHHHHHHHHHSSCCSS-CGGGEEEEEEETTEEEEECSSCTTC
T ss_pred             EEEEEEEeeccCCCcCcCcCCceEeeeecCCcHHHHHHHHHHHHhccCCCcCCC-CccccceEEecCCCcceeeccCCcc
Confidence            45677666   332     233467888999999999999987 30 0111111 256676654 23   345332    


Q ss_pred             ----------CcccccCCCCCCCCCceEEEEEE
Q 034110           68 ----------KTVGQCKIPYGEVPGGVIIMHVV   90 (103)
Q Consensus        68 ----------~tL~~~~i~~g~~~~~~~t~hlv   90 (103)
                                -||+.|+|++|      .++-++
T Consensus        98 ~~~e~~wkrLNTL~HY~V~Dg------atlal~  124 (126)
T 3kuz_A           98 VILEDGITKLNTIGHYEISNG------STIKVF  124 (126)
T ss_dssp             CBCTTSCBCCCBTGGGTCCTT------CEEEEE
T ss_pred             eEecCCeeEeccccccCCCCC------CEEEEe
Confidence                      24556888888      556544

>3ig3_A Plxna3 protein; plexin intracellular GAP RBD inactive, membrane, transmembra membrane protein, signaling protein; 1.99A {Mus musculus} PDB: 3ryt_A*

Probab=91.80  E-value=1.7  Score=36.05  Aligned_cols=81  Identities=14%  Similarity=0.274  Sum_probs=51.1

Q ss_pred             eEEEEEEeCCC--CeeeeEEeCCcchHHHHHHHHHhhCCCC--CccCCCCCcceEEEe----cCe-ecCCC---------
Q 034110            6 LIDIKFRLYDG--SDIGPFRYSSASTVDMLKQRIVSDWPKG--KTIVPKAVTEIKLIS----SGK-ILENN---------   67 (103)
Q Consensus         6 ~v~l~~~~~~g--~~~~~~~v~~~~tV~~lK~~i~~~~p~~--~e~~p~~~~~qrLI~----~Gk-~L~D~---------   67 (103)
                      .+.|.+...+|  .+..++.|=.++||.++|++|...+=++  +.-.| .++++.|=+    .|+ +|.|.         
T Consensus       233 ~ltL~v~~~~~~~~~~i~vkVLdCDTItQVKeKiLdavYk~~pyS~rP-~~~~~dLEwr~g~~g~~iL~D~D~ts~~~~~  311 (627)
T 3ig3_A          233 TLTLHCVCPESEGSAQVPVKVLNCDSITQAKDKLLDTVYKGIPYSQRP-KAEDMDLEWRQGRMARIILQDEDITTKIECD  311 (627)
T ss_dssp             EEEEEEECTTTC--CEEEEEEETTCBHHHHHHHHHHHHTTTSCGGGSC-CGGGEEEEEESCSSCEEEECSSSTTCCEETT
T ss_pred             eEEEEEeccCCCCCCceeeEeeccCcHHHHHHHHHHHHHcCCCcccCC-CCCccceeEeeCCCCceeeccCCccccccCc
Confidence            45666655443  2334678889999999999999882112  12233 478888855    234 45442         


Q ss_pred             ----CcccccCCCCCCCCCceEEEEEEecC
Q 034110           68 ----KTVGQCKIPYGEVPGGVIIMHVVVQP   93 (103)
Q Consensus        68 ----~tL~~~~i~~g~~~~~~~t~hlv~~~   93 (103)
                          -||..|+|++|      .+|-|+.+.
T Consensus       312 wkrLNTL~HY~V~Dg------a~v~L~p~~  335 (627)
T 3ig3_A          312 WKRVNSLAHYQVTDG------SLVALVPKQ  335 (627)
T ss_dssp             EEECCBTTTTTCCTT------CEEEEEEC-
T ss_pred             eeEecchhhcCCCCC------ceEEEEecc
Confidence                26778999999      566665543

>4a3p_A Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {Homo sapiens} PDB: 4a3o_A 3pv1_A 3ppa_A* 3t9l_A 3lmn_A

Probab=91.53  E-value=1.5  Score=31.14  Aligned_cols=53  Identities=25%  Similarity=0.391  Sum_probs=39.1

Q ss_pred             eeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCc-ceEEE--e-cC--eecCC-CCcccccCCCCC
Q 034110           19 IGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVT-EIKLI--S-SG--KILEN-NKTVGQCKIPYG   78 (103)
Q Consensus        19 ~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~-~qrLI--~-~G--k~L~D-~~tL~~~~i~~g   78 (103)
                      .....++..+||.+|++.+...+-     +|  .+ ..||-  | .+  ..|+| +.||++++|.++
T Consensus       141 ~~~~~~Sk~~ti~~l~~~~~~~~~-----i~--~~~~~RlW~~~~~~~~~~L~~~~~tl~~~~l~~~  200 (217)
T 4a3p_A          141 VVTRRFSKADTIDTIEKEIRKIFS-----IP--DEKETRLWNKYMSNTFEPLNKPDSTIQDAGLYQG  200 (217)
T ss_dssp             EEEEEECTTSBHHHHHHHHHHHTT-----CC--TTSCEEEEEEEETTEEEECCCTTSBHHHHTCCTT
T ss_pred             ceEEEEcccchHHHHHHHHHHHhC-----CC--CCCceEEEEecCCCCeeecCCCCCCHHHhCCCCC
Confidence            345788999999999999999832     22  54 68883  3 22  25655 579999999988

>2v1y_A Phosphatidylinositol-4,5-bisphosphate 3-kinase Ca subunit alpha isoform; cancer, SH2 domain, SH3 domain, transferase, oncogen mutations, HOST-virus interaction; 2.4A {Bos taurus}

Probab=89.48  E-value=0.74  Score=29.99  Aligned_cols=35  Identities=14%  Similarity=0.134  Sum_probs=31.5

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD   40 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~   40 (103)
                      ..+.|.+.+.+|.- .+++++.+.|+.++|+.++++
T Consensus        18 ~~v~v~~LlPnGi~-i~l~~~~~~tl~eiK~~lw~e   52 (108)
T 2v1y_A           18 PRILVECLLPNGMI-VTLECLREATLITIKHELFKE   52 (108)
T ss_dssp             SEEEEEEECTTSCE-EEEEEETTCBHHHHHHHHHHH
T ss_pred             CcEEEEEEcCcEEE-EEEEeeccccHHHHHHHHHHH
Confidence            56999999999954 478999999999999999988

>3jyu_A Ubiquitin carboxyl-terminal hydrolase; domain in ubiquitin-specific peptidases (DUSP), proto- oncogene, ubiquitin-fold, UBL, protease, thioesterase; HET: 1PS; 2.37A {Mus musculus}

Probab=89.33  E-value=4.5  Score=28.88  Aligned_cols=50  Identities=18%  Similarity=0.260  Sum_probs=38.8

Q ss_pred             eeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCc-ceEEEe-c----CeecCC-CCcccccCCCCC
Q 034110           20 GPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVT-EIKLIS-S----GKILEN-NKTVGQCKIPYG   78 (103)
Q Consensus        20 ~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~-~qrLI~-~----Gk~L~D-~~tL~~~~i~~g   78 (103)
                      ....++..+||.+|++.+...  +|         .+ ..||-. .    ...|.| +.||+++++.++
T Consensus       154 ~~~~~Sk~~ti~~l~~~~~~~~~i~---------~~~~~RLW~~~~~~~~~~L~~~~~tl~d~~L~~~  212 (231)
T 3jyu_A          154 LSCHFSKADTIATIEKEMRKLFNIP---------AERETRLWNKYMSNTYEQLSKLDNTIQDAGLYQG  212 (231)
T ss_dssp             EEEEECTTCBHHHHHHHHHHHTTCC---------TTSCEEEEECSSSSSCEECCCTTSBTTTTTCCTT
T ss_pred             EEEEecccCcHHHHHHHHHHHhCCC---------CCCeEEEEEecCCCCHhhhcCCCCCHHHhCCCCC
Confidence            346779999999999999998  54         54 688843 2    236665 599999999988

>2y3a_A Phosphatidylinositol-4,5-bisphosphate 3-kinase Ca subunit beta isoform; transferase, phosphoinositide 3-kinase, RTK; HET: GD9; 3.30A {Mus musculus}

Probab=85.67  E-value=8.7  Score=33.76  Aligned_cols=80  Identities=13%  Similarity=0.214  Sum_probs=56.5

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh---CCCCCccCCCCCcceEEEecCe-----ec-CCCCcccccC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD---WPKGKTIVPKAVTEIKLISSGK-----IL-ENNKTVGQCK   74 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~---~p~~~e~~p~~~~~qrLI~~Gk-----~L-~D~~tL~~~~   74 (103)
                      .+.|.|-|.+++|. +.+++++.++|+.++|+.|+++   .|-.  ..-.++++-.+.+-.+     .+ ++.+.|.++.
T Consensus        49 ~~~v~vd~LLPnGi-~i~~~v~~~~Tl~~iK~~lw~~A~~~pl~--~~l~~~~~Y~f~~i~~~~e~ee~~de~~~l~~~~  125 (1092)
T 2y3a_A           49 DGAISVDFLLPTGI-YIQLEVPREATISYIKQMLWKQVHNYPMF--NLLMDIDSYMFACVNQTAVYEELEDETRRLCDVR  125 (1092)
T ss_dssp             CSEEEEEEECTTCC-EEEEEEETTCBHHHHHHHHHHHGGGSTTT--TSCCCGGGEEEEEEBSSSCEEECCCTTSBSGGGC
T ss_pred             CCceEEEEECCCce-EEEEEecCcccHHHHHHHHHHHHHhCCch--hccCCcceeEEEEecCCceEEEeecCceeeEeec
Confidence            46799999999995 4579999999999999999998   3311  1223477777777333     34 5558888876


Q ss_pred             CCCCCCCCceEEEEEEecC
Q 034110           75 IPYGEVPGGVIIMHVVVQP   93 (103)
Q Consensus        75 i~~g~~~~~~~t~hlv~~~   93 (103)
                      .-.+       .++++-+.
T Consensus       126 ~~~p-------~l~lve~~  137 (1092)
T 2y3a_A          126 PFLP-------VLKLVTRS  137 (1092)
T ss_dssp             BSSS-------CEEEEESC
T ss_pred             ccce-------EEEEEecC
Confidence            4433       36766663

>3ge3_C Toluene-4-monooxygenase system protein B; DIIRON hydroxylase, effector protein, T201A, aromatic hydrocarbons catabolism, FAD, flavoprotein; 1.52A {Pseudomonas mendocina} SCOP: d.15.12.0 PDB: 3dhh_C* 3dhg_C* 3dhi_C 3ge8_C 3i5j_C 3i63_C 3q14_C 3q2a_C* 3q3m_C* 3q3n_C* 3q3o_C* 3rmk_C* 3ri7_C*

Probab=84.34  E-value=5.5  Score=24.77  Aligned_cols=71  Identities=6%  Similarity=0.045  Sum_probs=49.3

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCee--cCCCCcccccCCCCCC
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKI--LENNKTVGQCKIPYGE   79 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~--L~D~~tL~~~~i~~g~   79 (103)
                      +-|.-++-+.-....+.++..+|+.++-++++...  -+--.++.+.-+|..++|+.  |.++.|+++.||..-+
T Consensus         4 ~Pl~~~F~gDFv~~Lv~VDt~dtmdqVA~k~A~h~--VGrrv~p~pg~lrVr~~G~~~~~Pr~mtVaeaGl~Pme   76 (84)
T 3ge3_C            4 FPVHAAFEKDFLVQLVVVDLNDSMDQVAEKVAYHC--VNRRVAPREGVMRVRKHRSTELFPRDMTIAESGLNPTE   76 (84)
T ss_dssp             EEEEEEETTCSBEEEEEEETTCBHHHHHHHHHHTT--BTTTBCCCSSCEEEEETTCSCBCCTTCBHHHHCCCTTC
T ss_pred             cceEEEeccccEEEEEEecCCCcHHHHHHHHhhhh--cceeeCCCCCcEEEEECCCcccCCCCCEeeccCCCcce
Confidence            33444444332333478899999999999999771  00011123558999999997  9999999999998654

>2c7h_A RBBP6, retinoblastoma-binding protein 6, isoform 3; P53-associated, mRNA processing, splicing-associated, oesophageal cancer; NMR {Homo sapiens}

Probab=82.00  E-value=7.1  Score=24.30  Aligned_cols=33  Identities=9%  Similarity=0.216  Sum_probs=26.1

Q ss_pred             EEEEEeCCCCeeeeEEeC-CcchHHHHHHHHHhh
Q 034110            8 DIKFRLYDGSDIGPFRYS-SASTVDMLKQRIVSD   40 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~-~~~tV~~lK~~i~~~   40 (103)
                      .|.|++.+.++...+.|+ ...+|.+||+.|.++
T Consensus         8 ~V~YKFkS~k~~~~v~fdG~~Isv~dLKr~I~~~   41 (86)
T 2c7h_A            8 CVHYKFSSKLNYDTVTFDGLHISLCDLKKQIMGR   41 (86)
T ss_dssp             EEEEEETTCSSEEEEEESSSEEEHHHHHHHHHHH
T ss_pred             EEEEEEeecCCcceEEEcCCEEEHHHHHHHHHHH
Confidence            356666777777778887 456999999999988

---

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	103
d1se9a_	101	d.15.1.1 (A:) Hypothetical protein At3g01050 {Thal	3e-31
d1wgha_	116	d.15.1.1 (A:) Ubiquitin-like protein 3, Ubl3 {Mous	5e-16
d1wgda_	93	d.15.1.1 (A:) Homocysteine-responsive endoplasmic	5e-04
d1oqya4	77	d.15.1.1 (A:1-77) Ubiquitin-like domain of Rad23 h	6e-04
d1x1ma1	94	d.15.1.1 (A:8-101) Ubiquitin-like protein 7 {Mouse	0.002
d1z2ma2	76	d.15.1.1 (A:79-154) Interferon-induced 15 kDa prot	0.003

>d1se9a_ d.15.1.1 (A:) Hypothetical protein At3g01050 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 101

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Hypothetical protein At3g01050
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score =  103 bits (259), Expect = 3e-31
 Identities = 44/98 (44%), Positives = 64/98 (65%)

Query: 2   PDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSG 61
                ++IKFRL DGSDIGP  +  A+TV  LK+ ++S+WP+ K   PK V E+KLIS+G
Sbjct: 3   EVHNQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAG 62

Query: 62  KILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTK 99
           K+LEN+KTV   + P   + G V  MHV++Q  + + +
Sbjct: 63  KVLENSKTVKDYRSPVSNLAGAVTTMHVIIQAPVTEKE 100

>d1wgha_ d.15.1.1 (A:) Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculus) [TaxId: 10090]} Length = 116

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 3, Ubl3
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 65.8 bits (160), Expect = 5e-16
 Identities = 21/104 (20%), Positives = 47/104 (45%), Gaps = 6/104 (5%)

Query: 1   MPDEELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKG-KTIVPKAVTEIKLIS 59
               ++I+++  L  G     F +S   +   + + +  +WP   +     +   ++LI 
Sbjct: 11  HVPADMINLRLILVSGKTK-EFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIY 69

Query: 60  SGKILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTEDR 103
            G+ L  N T+G  K+P     G   +MH+V + +L +  ++ +
Sbjct: 70  QGRFLHGNVTLGALKLP----FGKTTVMHLVARETLPEPNSQGQ 109

>d1wgda_ d.15.1.1 (A:) Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein, HERPUD1 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein, HERPUD1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.1 bits (78), Expect = 5e-04
 Identities = 12/70 (17%), Positives = 27/70 (38%), Gaps = 9/70 (12%)

Query: 25 SSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGV 84
              +V  LK  +   +P+          + +LI SGK+L +++ +        +     
Sbjct: 27 DRGWSVGHLKAHLSRVYPERP-----RPEDQRLIYSGKLLLDHQCLRDLLPKQEKRH--- 78

Query: 85 IIMHVVVQPS 94
           ++H+V    
Sbjct: 79 -VLHLVCNVK 87

>d1oqya4 d.15.1.1 (A:1-77) Ubiquitin-like domain of Rad23 homolog A (Hhr23a) {Human (Homo sapiens) [TaxId: 9606]} Length = 77

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of Rad23 homolog A (Hhr23a)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.7 bits (77), Expect = 6e-04
 Identities = 20/83 (24%), Positives = 35/83 (42%), Gaps = 9/83 (10%)

Query: 7  IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILEN 66
          + I  +          R     TV +LK++I  +  KG+   P  V   KLI +GKIL +
Sbjct: 3  VTITLKTLQQQTF-KIRMEPDETVKVLKEKI--EAEKGRDAFP--VAGQKLIYAGKILSD 57

Query: 67 NKTVGQCKIPYGEVPGGVIIMHV 89
          +  +   +I         +++ V
Sbjct: 58 DVPIRDYRID----EKNFVVVMV 76

>d1x1ma1 d.15.1.1 (A:8-101) Ubiquitin-like protein 7 {Mouse (Mus musculus) [TaxId: 10090]} Length = 94

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 7
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 32.5 bits (74), Expect = 0.002
 Identities = 14/64 (21%), Positives = 25/64 (39%), Gaps = 10/64 (15%)

Query: 28 STVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIM 87
           ++  LKQ I     +           I LI  G+ L++++T+    I  G        +
Sbjct: 38 YSISFLKQLIAGKLQESVP----DPELIDLIYCGRKLKDDQTLDFYGIQPGS------TV 87

Query: 88 HVVV 91
          HV+ 
Sbjct: 88 HVLR 91

>d1z2ma2 d.15.1.1 (A:79-154) Interferon-induced 15 kDa protein {Human (Homo sapiens) [TaxId: 9606]} Length = 76

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Interferon-induced 15 kDa protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 31.8 bits (72), Expect = 0.003
 Identities = 17/77 (22%), Positives = 26/77 (33%), Gaps = 8/77 (10%)

Query: 4  EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKI 63
          +E + I  R   G     +      TV  LKQ++      G   V        L   GK 
Sbjct: 1  DEPLSILVRNNKGRSS-TYEVRLTQTVAHLKQQV-----SGLEGVQ--DDLFWLTFEGKP 52

Query: 64 LENNKTVGQCKIPYGEV 80
          LE+   +G+  +     
Sbjct: 53 LEDQLPLGEYGLKPLST 69

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	103
d1se9a_	101	Hypothetical protein At3g01050 {Thale cress (Arabi	99.97
d1wgha_	116	Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculu	99.91
d1wh3a_	87	2'-5'-oligoadenylate synthetase-like protein, OASL	99.84
d1ttna1	80	Dendritic cell-derived ubiquitin-like protein {Hum	99.83
d1z2ma2	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.83
d2zeqa1	78	Ubiquitin-like domain of parkin {Mouse (Mus muscul	99.83
d1bt0a_	73	Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxI	99.83
d1ogwa_	76	Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}	99.83
d1wx9a1	73	Large proline-rich protein BAT3 {Human (Homo sapie	99.82
d2faza1	76	Ubiquitin-like PHD and RING finger domain-containi	99.82
d1wy8a1	76	Ubiquitin-like PHD and RING finger domain-containi	99.81
d2bwfa1	73	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.8
d1z2ma1	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.8
d1wgda_	93	Homocysteine-responsive endoplasmic reticulum-resi	99.79
d1uela_	95	Ubiquitin-like domain of Rad23 homolog B (Hhr23B)	99.79
d1yqba1	84	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	99.78
d1zkha1	86	Splicing factor 3 subunit 1, C-terminal domain {Hu	99.77
d1wx8a1	83	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	99.77
d1oqya4	77	Ubiquitin-like domain of Rad23 homolog A (Hhr23a)	99.77
d1j8ca_	103	Ubiquitin-like N-terminal domain of PLIC-2 {Human	99.76
d1m94a_	73	Ubiquitin-like modifier protein hub1 {Baker's yeas	99.76
d1wiaa_	95	Ubiquitin-like protein bab25500 (2010008E23Rik) {M	99.76
d1we6a_	111	Splicing factor 3 subunit 1, C-terminal domain {Th	99.75
d1uh6a_	100	Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculu	99.74
d2c9wb1	103	Elongin B {Human (Homo sapiens) [TaxId: 9606]}	99.72
d1wjua_	100	NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens	99.7
d1x1ma1	94	Ubiquitin-like protein 7 {Mouse (Mus musculus) [Ta	99.7
d1wgga_	96	Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (M	99.68
d1v2ya_	105	Ubiquitin-like protein 3300001g02rik {Mouse (Mus m	99.67
d1v5oa_	102	1700011n24rik protein {Mouse (Mus musculus) [TaxId	99.66
d1v86a_	95	hypothetical D7wsu128e protein {Mouse (Mus musculu	99.64
d1v5ta_	90	8430435i17rik protein {Mouse (Mus musculus) [TaxId	99.63
d1wxva1	81	Bag-family molecular chaperone regulator-1 {Human	99.6
d1euvb_	79	SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomy	99.51
d1v6ea_	95	Ubiquitin-like domain of tubulin folding cofactor	99.5
d2uyzb1	77	SUMO-1 (smt3 homologue) {Human (Homo sapiens) [Tax	99.36
d1wjna_	97	Tubulin-folding protein TbcE {Mouse (Mus musculus)	99.36
d1t0ya_	90	Ubiquitin-like domain of tubulin folding cofactor	99.31
d1wm3a_	72	SUMO-2 {Human (Homo sapiens) [TaxId: 9606]}	98.41
d1wf9a1	94	NPL4-like protein 1 {Thale cress (Arabidopsis thal	98.35
d1i42a_	89	p47 {Rat (Rattus norvegicus) [TaxId: 10116]}	97.88
d2cr5a1	96	UBX domain-containing protein 6 (Reproduction 8) {	97.8
d1h8ca_	82	Fas-associated factor 1, Faf1 {Human (Homo sapiens	97.78
d1wj4a_	124	Hypothetical protein KIAA0794 {Human (Homo sapiens	97.24
d2al3a1	76	Tether containing UBX domain for GLUT4 (Tug) {Mous	94.46
d1vjka_	88	Molybdopterin synthase subunit MoaD {Pyrococcus fu	92.98
d1ip9a_	85	Bud emergence mediator Bemp1 {Baker's yeast (Sacch	91.19

>d1se9a_ d.15.1.1 (A:) Hypothetical protein At3g01050 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Hypothetical protein At3g01050
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.97  E-value=2.4e-31  Score=174.26  Aligned_cols=96  Identities=46%  Similarity=0.808  Sum_probs=91.3

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCc
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGG   83 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~   83 (103)
                      ++.++|+||+.+|+++.++.|++++||.+||++|++.||.+|+++|+++++|||||+||+|+|+.||++|+|..|+.+++
T Consensus         5 ~~~i~I~~r~~~G~~i~~~~v~~s~TV~~lK~~I~~~~~~~k~~iP~~~~~qRLIf~Gk~L~D~~tL~dy~i~~g~~~~~   84 (101)
T d1se9a_           5 HNQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVSNLAGA   84 (101)
T ss_dssp             CCCEEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCTTSCTTC
T ss_pred             cceEEEEEEeCCCCeecceecCccCHHHHHHHHHHHhccccccCCCCCcccEEEEECCeEecCCCCHHHcCCCCCCcCCC
Confidence            67899999999999998999999999999999999999999999999999999999999999999999999999988888


Q ss_pred             eEEEEEEecCCCCCCc
Q 034110           84 VIIMHVVVQPSLAKTK   99 (103)
Q Consensus        84 ~~t~hlv~~~~~~~k~   99 (103)
                      ++|||||+|++.+.+.
T Consensus        85 ~~tmHlVvrpp~~~~~  100 (101)
T d1se9a_          85 VTTMHVIIQAPVTEKE  100 (101)
T ss_dssp             CEEEEEEECCCSSCCC
T ss_pred             ceEEEEEeCCCCCccC
Confidence            8999999999887664

>d1wgha_ d.15.1.1 (A:) Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 3, Ubl3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.91  E-value=4.6e-24  Score=142.20  Aligned_cols=91  Identities=23%  Similarity=0.536  Sum_probs=79.1

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCC-ccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGK-TIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~-e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      ++.++|+|++.+|+. +.+.|++++||.+||++|.+.||.+| +..+..+++|||||+||+|+|+.+|++|+|..|.   
T Consensus        14 ~~~i~i~v~~l~Gk~-~~~~v~p~~TV~~lK~~I~~~~p~~~~e~~~~~~~~qRLiy~Gk~L~D~~tL~~~~i~~g~---   89 (116)
T d1wgha_          14 ADMINLRLILVSGKT-KEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGK---   89 (116)
T ss_dssp             SSSEEEEEECSSSCE-EEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTCCSSC---
T ss_pred             CCeEEEEEEEcCCCE-EEEEECCcchHHHHHHHHHhhcccccccccCCChHHeEEEECCEEecCCCCHHHcCCCCCC---
Confidence            467999999999955 68999999999999999999999987 4445559999999999999999999999999884   


Q ss_pred             ceEEEEEEecCCCCCCc
Q 034110           83 GVIIMHVVVQPSLAKTK   99 (103)
Q Consensus        83 ~~~t~hlv~~~~~~~k~   99 (103)
                       ..+|||++++..+...
T Consensus        90 -~~~lhlv~r~~~~~p~  105 (116)
T d1wgha_          90 -TTVMHLVARETLPEPN  105 (116)
T ss_dssp             -EEEEEEEECSSCSSSC
T ss_pred             -EEEEEEEeCCCCCCCC
Confidence             4689999997655443

>d1wh3a_ d.15.1.1 (A:) 2'-5'-oligoadenylate synthetase-like protein, OASL {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 2'-5'-oligoadenylate synthetase-like protein, OASL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=1.8e-20  Score=118.09  Aligned_cols=78  Identities=18%  Similarity=0.171  Sum_probs=70.5

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVP   81 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~   81 (103)
                      ...++|.+++.+|+. +++++++++||.+||++|+++  +|         +++|||||+||+|+|+.+|++|+|.++   
T Consensus         5 s~~mqI~Vk~~~g~~-~~l~v~~~~tV~~lK~~I~~~~gip---------~~~qrLi~~Gk~L~d~~tL~~y~I~~~---   71 (87)
T d1wh3a_           5 SSGIQVFVKNPDGGS-YAYAINPNSFILGLKQQIEDQQGLP---------KKQQQLEFQGQVLQDWLGLGIYGIQDS---   71 (87)
T ss_dssp             SSSEEEEEEETTTEE-EEEEECSSSBHHHHHHHHHHHTCCC---------TTTEEEEETTEECCSSSBHHHHTCCTT---
T ss_pred             CCcEEEEEECCCCCE-EEEEECCcCcHHHHHHHHHHHHCcC---------hHHeEEEeeceEcCCCCcHHHcCCCCC---
Confidence            467888899999954 579999999999999999988  66         999999999999999999999999998   


Q ss_pred             CceEEEEEEecCCCCC
Q 034110           82 GGVIIMHVVVQPSLAK   97 (103)
Q Consensus        82 ~~~~t~hlv~~~~~~~   97 (103)
                         +|+||+.+..+++
T Consensus        72 ---stl~l~~r~~~gp   84 (87)
T d1wh3a_          72 ---DTLILSKKKGSGP   84 (87)
T ss_dssp             ---EEEEEEECSCCCS
T ss_pred             ---CEEEEEecCCCCC
Confidence               8999999987654

>d1ttna1 d.15.1.1 (A:21-100) Dendritic cell-derived ubiquitin-like protein {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.83  E-value=1.1e-20  Score=117.54  Aligned_cols=75  Identities=23%  Similarity=0.313  Sum_probs=68.0

Q ss_pred             eEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCc
Q 034110            6 LIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGG   83 (103)
Q Consensus         6 ~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~   83 (103)
                      .++|++|+.+|+. ..+++++++||.+||++|++.  +|         +++|||||+||.|+|+.||++|+|.++     
T Consensus         3 e~qi~Vk~~~G~~-~~l~V~~~~tV~~lK~~I~~~~~ip---------~~~qrLi~~Gk~L~d~~tL~~y~I~~~-----   67 (80)
T d1ttna1           3 ECQLRLRLSTGKD-LKLVVRSTDTVFHMKRRLHAAEGVE---------PGSQRWFFSGRPLTDKMKFEELKIPKD-----   67 (80)
T ss_dssp             SEEEEEEETTTEE-EEEEECTTSHHHHHHHHHHHTTCCC---------STTCEEEETTEECCTTSHHHHCCCSSS-----
T ss_pred             eEEEEEEcCCCCE-EEEEECCcCcHHHHHHHHHHHhCCC---------cccEEEEECceEcCCCCcHHHcCCCCC-----
Confidence            5789999999955 579999999999999999998  55         999999999999999999999999998     


Q ss_pred             eEEEEEEecCCCC
Q 034110           84 VIIMHVVVQPSLA   96 (103)
Q Consensus        84 ~~t~hlv~~~~~~   96 (103)
                       +|+||+++.+.+
T Consensus        68 -sti~lvi~~p~~   79 (80)
T d1ttna1          68 -YVVQVIVSQPVQ   79 (80)
T ss_dssp             -CEEEEECCCSSC
T ss_pred             -CEEEEEecCCCC
Confidence             789999887654

>d1z2ma2 d.15.1.1 (A:79-154) Interferon-induced 15 kDa protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Interferon-induced 15 kDa protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=2.5e-20  Score=114.51  Aligned_cols=73  Identities=21%  Similarity=0.185  Sum_probs=66.8

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      +.++|.++..+|+. .++++++++||.+||++|++.  +|         +++|||+|+|+.|+|+.||++|+|.+|    
T Consensus         2 ~~~qi~Vk~~~G~~-~~l~v~~~~tV~~lK~~I~~~~gi~---------~~~qrL~~~gk~L~d~~tL~~y~I~~~----   67 (76)
T d1z2ma2           2 EPLSILVRNNKGRS-STYEVRLTQTVAHLKQQVSGLEGVQ---------DDLFWLTFEGKPLEDQLPLGEYGLKPL----   67 (76)
T ss_dssp             CCEEEEEECTTSCE-EEEEECTTSBHHHHHHHHHHHHTCC---------GGGEEEEETTEECCTTSBGGGGTCCTT----
T ss_pred             CCEEEEEEcCCCCE-EEEEECCCCcHHHHHHHHHHHhcCC---------hhHeEEEECCeECCCCCcHHHcCCCCC----
Confidence            56788899999965 579999999999999999998  66         999999999999999999999999999    


Q ss_pred             ceEEEEEEecC
Q 034110           83 GVIIMHVVVQP   93 (103)
Q Consensus        83 ~~~t~hlv~~~   93 (103)
                        +|+||++|+
T Consensus        68 --sti~l~lRL   76 (76)
T d1z2ma2          68 --STVFMNLRL   76 (76)
T ss_dssp             --CEEEEEECC
T ss_pred             --CEEEEEEeC
Confidence              789999874

>d2zeqa1 d.15.1.1 (A:1-78) Ubiquitin-like domain of parkin {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of parkin
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.83  E-value=1.9e-20  Score=116.15  Aligned_cols=73  Identities=25%  Similarity=0.397  Sum_probs=66.2

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCce
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGV   84 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~   84 (103)
                      ..|.+++.+|+. +++++++++||.+||++|++.  +|         +++|||||+||.|+|+.+|++|+|.++      
T Consensus         3 M~I~Vk~~~g~t-~~l~v~~~~tV~~lK~~i~~~~gip---------~~~qrLi~~Gk~L~d~~tL~~y~I~~~------   66 (78)
T d2zeqa1           3 MIVFVRFNSSYG-FPVEVDSDTSILQLKEVVAKRQGVP---------ADQLRVIFAGKELPNHLTVQNCDLEQQ------   66 (78)
T ss_dssp             EEEEEESSSSSC-EEEEECTTCBHHHHHHHHHHHHTCC---------GGGEEEEETTEEECTTCBGGGSSCCTT------
T ss_pred             eEEEEEcCCCCE-EEEEEcccccHHHHHHHHHHHHCcC---------hhHeEEEEeeeEcCCCCCHHHcCCCCC------
Confidence            467788889955 579999999999999999998  66         999999999999999999999999998      


Q ss_pred             EEEEEEecCCC
Q 034110           85 IIMHVVVQPSL   95 (103)
Q Consensus        85 ~t~hlv~~~~~   95 (103)
                      +|+||++|+.+
T Consensus        67 sti~lv~R~rg   77 (78)
T d2zeqa1          67 SIVHIVQRPRR   77 (78)
T ss_dssp             CEEEEEESSCC
T ss_pred             CEEEEEeccCC
Confidence            78999999875

>d1bt0a_ d.15.1.1 (A:) Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Rub1
species: Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.83  E-value=1.9e-20  Score=114.38  Aligned_cols=70  Identities=27%  Similarity=0.431  Sum_probs=64.1

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceE
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVI   85 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~   85 (103)
                      .|.+|..+|+. .++++++++||++||++|++.  +|         +++|||||+||+|+|+.||++|+|.+|      +
T Consensus         2 ~I~Vk~~~G~~-~~l~V~~~~tV~~lK~~i~~~~gi~---------~~~qrLi~~Gk~L~d~~tL~~y~I~~~------s   65 (73)
T d1bt0a_           2 LIKVKTLTGKE-IEIDIEPTDTIDRIKERVEEKEGIP---------PVQQRLIYAGKQLADDKTAKDYNIEGG------S   65 (73)
T ss_dssp             EEEEECTTSCE-EEEECCTTCBHHHHHHHHHHHHCCC---------GGGEEEEETTEECCTTSBTGGGTCCTT------C
T ss_pred             EEEEEeCCCCE-EEEEECCCCcHHHHHHHHHHHhCCC---------hHHEEEEECCeEcCCCCcHHHcCCCCC------C
Confidence            47788899965 579999999999999999998  66         999999999999999999999999999      7


Q ss_pred             EEEEEecC
Q 034110           86 IMHVVVQP   93 (103)
Q Consensus        86 t~hlv~~~   93 (103)
                      |+|+++|+
T Consensus        66 ti~lvlrL   73 (73)
T d1bt0a_          66 VLHLVLAL   73 (73)
T ss_dssp             EEEEEECC
T ss_pred             EEEEEeeC
Confidence            89999874

>d1ogwa_ d.15.1.1 (A:) Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.83  E-value=3e-20  Score=114.30  Aligned_cols=73  Identities=22%  Similarity=0.343  Sum_probs=66.7

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceE
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVI   85 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~   85 (103)
                      +|.|++.+|.. +++++++++||.+||++|++.  +|         +++|||+|+||.|+|+.||++|+|.+|      +
T Consensus         2 qI~Vk~l~G~~-~~l~v~~~~tV~~lK~~I~~~~gi~---------~~~qrL~~~Gk~L~d~~tL~~y~i~~~------s   65 (76)
T d1ogwa_           2 QIFVKTLTGKT-ITLEVEPSDTIENVKAKIQDKEGIP---------PDQQRLIFAGKQLEDGRTLSDYNIQKE------S   65 (76)
T ss_dssp             EEEEEETTSCE-EEEECCTTSBHHHHHHHHHHHHCCC---------GGGEEEEETTEECCTTSBGGGGTCCTT------C
T ss_pred             EEEEEcCCCCE-EEEEECCCCcHHHHHHhhhhhcCCC---------hHHEEeEECCeEcCCCCCHHHcCCCCC------C
Confidence            57788899955 579999999999999999998  76         999999999999999999999999999      7


Q ss_pred             EEEEEecCCCC
Q 034110           86 IMHVVVQPSLA   96 (103)
Q Consensus        86 t~hlv~~~~~~   96 (103)
                      ++||+++..++
T Consensus        66 ~I~L~~rlrgG   76 (76)
T d1ogwa_          66 TLHLVLRLRGG   76 (76)
T ss_dssp             EEEEEECTTCC
T ss_pred             EEEEEEecCCC
Confidence            89999998764

>d1wx9a1 d.15.1.1 (A:8-80) Large proline-rich protein BAT3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Large proline-rich protein BAT3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=8.9e-21  Score=116.17  Aligned_cols=71  Identities=20%  Similarity=0.452  Sum_probs=64.2

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCce
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGV   84 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~   84 (103)
                      ++|.+++.+|+. +.+++++++||++||++|++.  +|         +++|||||+||+|+|+.+|++|+|. +      
T Consensus         1 m~I~Vk~~~g~~-~~l~V~~~~tV~~lK~~I~~~~gip---------~~~qrLi~~Gk~L~d~~tL~dy~i~-~------   63 (73)
T d1wx9a1           1 LEVLVKTLDSQT-RTFIVGAQMNVKEFKEHIAASVSIP---------SEKQRLIYQGRVLQDDKKLQEYNVG-G------   63 (73)
T ss_dssp             EEEEEECTTSCE-EEEEECTTSBHHHHHHHHHHHHCCC---------TTTCCCEETTEECCSSSBHHHHTCT-T------
T ss_pred             CEEEEEcCCCCE-EEEEECCCChHHHHHHHHHHHhCCC---------hHHEEEEECCeEccCCCCHHHhCCC-C------
Confidence            468899999965 579999999999999999998  66         9999999999999999999999994 7      


Q ss_pred             EEEEEEecCC
Q 034110           85 IIMHVVVQPS   94 (103)
Q Consensus        85 ~t~hlv~~~~   94 (103)
                      .|+||++++|
T Consensus        64 ~ti~lv~r~P   73 (73)
T d1wx9a1          64 KVIHLVERAP   73 (73)
T ss_dssp             EEEBCCCSSC
T ss_pred             CEEEEEecCC
Confidence            6899999875

>d2faza1 d.15.1.1 (A:1-76) Ubiquitin-like PHD and RING finger domain-containing protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like PHD and RING finger domain-containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=5.7e-20  Score=113.63  Aligned_cols=72  Identities=21%  Similarity=0.257  Sum_probs=64.6

Q ss_pred             EEEEEeCCCCeeeeE-EeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCce
Q 034110            8 DIKFRLYDGSDIGPF-RYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGV   84 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~-~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~   84 (103)
                      .|.+|..+|+.+..+ .+++++||++||++|++.  +|         +++|||||+||.|+|+.+|++|+|.++      
T Consensus         2 ~I~Vktl~Gk~t~~l~~v~~~~tV~~lK~~I~~~~gip---------~~~qrLi~~Gk~L~D~~tL~~y~I~~~------   66 (76)
T d2faza1           2 WIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVE---------PGLQRLFYRGKQMEDGHTLFDYEVRLN------   66 (76)
T ss_dssp             EEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCCC---------GGGEEEEETTEECCTTCBTTTTTCCTT------
T ss_pred             EEEEEeCCCCcEEEEecCCCCCCHHHHHHHHHHHHCcC---------hHHeEEEEeeEeccCCCcHHHcCCCCC------
Confidence            477889999766666 499999999999999999  66         999999999999999999999999999      


Q ss_pred             EEEEEEecCC
Q 034110           85 IIMHVVVQPS   94 (103)
Q Consensus        85 ~t~hlv~~~~   94 (103)
                      .|+||++|.+
T Consensus        67 sti~lv~r~s   76 (76)
T d2faza1          67 DTIQLLVRQS   76 (76)
T ss_dssp             CEEEEEECCC
T ss_pred             CEEEEEEEcC
Confidence            7899999863

>d1wy8a1 d.15.1.1 (A:8-83) Ubiquitin-like PHD and RING finger domain-containing protein 2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.81  E-value=4.3e-20  Score=114.16  Aligned_cols=71  Identities=27%  Similarity=0.324  Sum_probs=64.2

Q ss_pred             EEEEEeCCCCeeeeE-EeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCce
Q 034110            8 DIKFRLYDGSDIGPF-RYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGV   84 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~-~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~   84 (103)
                      .|.+++.+|+....+ ++++++||++||++|+++  +|         +++|||||+||.|+|+.||++|+|.+|      
T Consensus         2 ~I~Vk~l~G~~t~~~~~v~~~~TV~~lK~~I~~~~gip---------~~~qrLi~~Gk~L~d~~tL~~y~I~~~------   66 (76)
T d1wy8a1           2 WIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVR---------PECQRLFYRGKQLENGYTLFDYDVGLN------   66 (76)
T ss_dssp             EEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCC---------TTTEEEEETTEECCSSSBHHHHTCCTT------
T ss_pred             EEEEEeCCCCceEEEeccCCCChHHHHHHHHHHHHCCC---------chhcEEEEEeeEecCCCCHHHcCCCCC------
Confidence            578888999665555 699999999999999999  55         999999999999999999999999999      


Q ss_pred             EEEEEEecC
Q 034110           85 IIMHVVVQP   93 (103)
Q Consensus        85 ~t~hlv~~~   93 (103)
                      +++||++||
T Consensus        67 s~i~lv~rp   75 (76)
T d1wy8a1          67 DIIQLLVRP   75 (76)
T ss_dssp             CEEEEEECC
T ss_pred             CEEEEEEcc
Confidence            689999986

>d2bwfa1 d.15.1.1 (A:2-74) DSK2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: DSK2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.80  E-value=1.3e-19  Score=110.74  Aligned_cols=69  Identities=32%  Similarity=0.402  Sum_probs=61.0

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCce
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGV   84 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~   84 (103)
                      +.|+++..+  +.+.+++++++||.+||++|++.  +|         +++|||||+||.|+|+.+|++|+|.+|      
T Consensus         2 i~I~Vk~~~--~~~~i~v~~~~tV~~lK~~I~~~~gip---------~~~qrLi~~Gk~L~D~~tL~~~~I~~g------   64 (73)
T d2bwfa1           2 LNIHIKSGQ--DKWEVNVAPESTVLQFKEAINKANGIP---------VANQRLIYSGKILKDDQTVESYHIQDG------   64 (73)
T ss_dssp             EEEEEEETT--EEEEEEECTTCBHHHHHHHHHHHHCCC---------GGGEEEEETTEECCTTSBTGGGTCCTT------
T ss_pred             EEEEEEeCC--eEEEEEECCCChHHHHHHHHHHHHCcC---------hHHeEEEECCeEccCCCcHHHCCCCCC------
Confidence            566666543  44689999999999999999999  66         999999999999999999999999999      


Q ss_pred             EEEEEEec
Q 034110           85 IIMHVVVQ   92 (103)
Q Consensus        85 ~t~hlv~~   92 (103)
                      +++|||.+
T Consensus        65 ~~i~lV~~   72 (73)
T d2bwfa1          65 HSVHLVKS   72 (73)
T ss_dssp             CEEEEEEC
T ss_pred             CEEEEEee
Confidence            78999876

>d1z2ma1 d.15.1.1 (A:3-78) Interferon-induced 15 kDa protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Interferon-induced 15 kDa protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=2.1e-19  Score=110.75  Aligned_cols=70  Identities=21%  Similarity=0.317  Sum_probs=64.7

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEe--cCeecCCCCcccccCCCCCCCCCc
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLIS--SGKILENNKTVGQCKIPYGEVPGG   83 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~--~Gk~L~D~~tL~~~~i~~g~~~~~   83 (103)
                      +|++++.+|+.+ .+++++++||.+||++|+++  +|         +++|||||  +||.|+|+.+|++|+|.+|     
T Consensus         2 ~l~Vk~l~G~~~-~v~V~~~~tV~~lK~~I~~~~gip---------~~~QrLi~~~~Gk~L~D~~tL~~y~i~~g-----   66 (76)
T d1z2ma1           2 DLTVKMLAGNEF-QVSLSSSMSVSELKAQITQKIGVH---------AFQQRLAVHPSGVALQDRVPLASQGLGPG-----   66 (76)
T ss_dssp             EEEEEESSSCEE-EEECCSSCCHHHHHHHHHHHHCCC---------GGGEEEEEETTCCBCCSSSCSGGGTCCTT-----
T ss_pred             EEEEEeCCCCEE-EEEECCCCcHHHHHHHHHHHhccC---------CccEEEEEcCCCeeccCCCcHHHcCCCCC-----
Confidence            689999999665 79999999999999999999  66         99999999  7999999999999999999     


Q ss_pred             eEEEEEEecC
Q 034110           84 VIIMHVVVQP   93 (103)
Q Consensus        84 ~~t~hlv~~~   93 (103)
                       .++||+++.
T Consensus        67 -~~i~lv~~~   75 (76)
T d1z2ma1          67 -STVLLVVDK   75 (76)
T ss_dssp             -CEEEEEECC
T ss_pred             -CEEEEEEEC
Confidence             789999874

>d1wgda_ d.15.1.1 (A:) Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein, HERPUD1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein, HERPUD1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=2.7e-19  Score=114.42  Aligned_cols=85  Identities=14%  Similarity=0.133  Sum_probs=69.4

Q ss_pred             CceEEEEEEeCCCCe-eeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSD-IGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~-~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      ...+.|+++..++.. -..+++++++||.+||++|++.|+   +.+|  +++|||||+||+|+|+.+|++|....++   
T Consensus         5 s~~i~l~Ik~~~~~~~~~~~~v~~~~TV~~LK~~I~~~~~---~~~~--~~~qrLIy~Gk~L~D~~~L~d~~~~~~~---   76 (93)
T d1wgda_           5 SSGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYP---ERPR--PEDQRLIYSGKLLLDHQCLRDLLPKQEK---   76 (93)
T ss_dssp             SCCCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHST---TCCC--TTTCEEEETTEECCSSSCHHHHSCSSSC---
T ss_pred             CCcEEEEEECCCCCceeEEEEcCCCCcHHHHHHHHHHHcC---CCCC--hHHEEEEECCeEccCCCCHHHhCcccCC---
Confidence            567899999987743 246888999999999999999865   2233  8999999999999999999999876553   


Q ss_pred             ceEEEEEEecCCCCC
Q 034110           83 GVIIMHVVVQPSLAK   97 (103)
Q Consensus        83 ~~~t~hlv~~~~~~~   97 (103)
                       ..+||||+++.+++
T Consensus        77 -~~viHLV~~~~~~p   90 (93)
T d1wgda_          77 -RHVLHLVCNVKSGP   90 (93)
T ss_dssp             -SEEEEEECCCCCCC
T ss_pred             -CCEEEEEecCCCCC
Confidence             27899999877654

>d1uela_ d.15.1.1 (A:) Ubiquitin-like domain of Rad23 homolog B (Hhr23B) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of Rad23 homolog B (Hhr23B)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=4.5e-19  Score=113.03  Aligned_cols=78  Identities=27%  Similarity=0.337  Sum_probs=65.0

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEEE
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIM   87 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t~   87 (103)
                      .|.|++.+|+. +.++|++++||.+||++|++...  ...+|  +++|||||+||+|+|+.+|++|+|.+|      .++
T Consensus         2 ~I~vk~~~g~~-~~l~v~~~~TV~~lK~~i~~~~~--~~~i~--~~~qrLi~~Gk~L~d~~tL~~y~I~~~------s~i   70 (95)
T d1uela_           2 QVTLKTLQQQT-FKIDIDPEETVKALKEKIESEKG--KDAFP--VAGQKLIYAGKILNDDTALKEYKIDEK------NFV   70 (95)
T ss_dssp             EEEEEETTCCE-EEEECCTTSBHHHHHHHHHHHHC--TTTCC--TTTEEEEETTEECCTTSBGGGGTCCSS------SEE
T ss_pred             EEEEEeCCCCE-EEEEECCCccHHHHHHHHHhhhc--ccCCC--ccceEEEECCeEccCCCcHHHcCCCCC------CEE
Confidence            46778899955 57999999999999999998621  11233  899999999999999999999999998      689


Q ss_pred             EEEecCCCC
Q 034110           88 HVVVQPSLA   96 (103)
Q Consensus        88 hlv~~~~~~   96 (103)
                      ||+++.+.+
T Consensus        71 ~lv~~~~~~   79 (95)
T d1uela_          71 VVMVTKPKA   79 (95)
T ss_dssp             EEEESSCCC
T ss_pred             EEEECCCCC
Confidence            999876543

>d1yqba1 d.15.1.1 (A:15-98) Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquilin-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=3.5e-19  Score=111.57  Aligned_cols=75  Identities=24%  Similarity=0.441  Sum_probs=67.5

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      ..++|++++.++ . ..+++++++||.+||++|++.  +|         +++|||+|+|+.|+|+.+|++|+|.+|    
T Consensus         6 ~~i~I~Vkt~~~-~-~~~~V~~~~tV~~lK~~i~~~~gi~---------~~~qrL~~~Gk~L~D~~tL~~y~i~~g----   70 (84)
T d1yqba1           6 HLIKVTVKTPKD-K-EDFSVTDTCTIQQLKEEISQRFKAH---------PDQLVLIFAGKILKDPDSLAQCGVRDG----   70 (84)
T ss_dssp             TEEEEEEECSSC-E-EEEEEETTCBHHHHHHHHHHHHTCC---------GGGEEEEETTEECCTTSBHHHHTCCTT----
T ss_pred             CEEEEEEEcCCC-c-EEEEECCCCcHHHHHHHHHHHHCcC---------chhEEEEEeeeeccccCcHHHcCCCCC----
Confidence            468889998877 4 479999999999999999998  66         999999999999999999999999999    


Q ss_pred             ceEEEEEEecCCCC
Q 034110           83 GVIIMHVVVQPSLA   96 (103)
Q Consensus        83 ~~~t~hlv~~~~~~   96 (103)
                        +|+||++++++.
T Consensus        71 --sti~lv~r~~~~   82 (84)
T d1yqba1          71 --LTVHLVIKRQHR   82 (84)
T ss_dssp             --CEEEEEECCCCS
T ss_pred             --CEEEEEECCCCC
Confidence              789999998764

>d1zkha1 d.15.1.1 (A:1-86) Splicing factor 3 subunit 1, C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Splicing factor 3 subunit 1, C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=8.5e-19  Score=110.59  Aligned_cols=66  Identities=17%  Similarity=0.358  Sum_probs=59.5

Q ss_pred             CCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEEEEEEe
Q 034110           14 YDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIMHVVV   91 (103)
Q Consensus        14 ~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t~hlv~   91 (103)
                      .+| +.+.+++++++||++||++|+++  +|         +++|+|+|+|++|+|+.||++|+|.+|      +++||++
T Consensus        19 L~G-~~~~l~v~~~~tV~~lK~~I~~~~~ip---------~~~q~Li~~Gk~L~D~~tL~dY~I~~g------sti~l~~   82 (86)
T d1zkha1          19 LNG-QVLVFTLPLTDQVSVIKVKIHEATGMP---------AGKQKLQYEGIFIKDSNSLAYYNMANG------AVIHLAL   82 (86)
T ss_dssp             CSS-CEEEEEECTTSBHHHHHHHHHHHTCCC---------TTTEEEEETTEEECTTSBHHHHTCCTT------EEEEEEE
T ss_pred             cCC-eEEEEEECCCChHHHHHHHHHhhhcCC---------hHHEEEEeCCcCcCCCCCHHHcCCCCC------CEEEEEE
Confidence            467 34579999999999999999999  66         999999999999999999999999999      8999999


Q ss_pred             cCCC
Q 034110           92 QPSL   95 (103)
Q Consensus        92 ~~~~   95 (103)
                      +..|
T Consensus        83 r~RG   86 (86)
T d1zkha1          83 KERG   86 (86)
T ss_dssp             SCCC
T ss_pred             ecCC
Confidence            8653

>d1wx8a1 d.15.1.1 (A:8-90) 4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 4931431F19Rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.77  E-value=2.9e-19  Score=111.69  Aligned_cols=73  Identities=26%  Similarity=0.335  Sum_probs=66.0

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVP   81 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~   81 (103)
                      +..+.|++++.++ .+ .+++++++||.+||++|++.  +|         +++|||+|+||.|+|+.+|++|+|.+|   
T Consensus         8 ~~~i~v~Vk~~~~-~~-~i~v~~~~tV~~lK~~I~~~~~v~---------~~~qrL~f~Gk~L~d~~tL~~~gI~~g---   73 (83)
T d1wx8a1           8 SRIIRVSVKTPQD-CH-EFFLAENSNVRRFKKQISKYLHCN---------ADRLVLIFTGKILRDQDILSQRGILDG---   73 (83)
T ss_dssp             SCEEEEEEECSSS-EE-EEEEETTCCHHHHHHHHHHHTCSC---------TTTBCCEETTEECCTTSCHHHHTCCTT---
T ss_pred             CCeEEEEEEcCCC-cE-EEEECCCChHHHHHHHHHHHhCCC---------hhHEEEEEEhhccccCCcHHHcCCCCC---
Confidence            4679999998776 43 79999999999999999998  55         999999999999999999999999999   


Q ss_pred             CceEEEEEEecC
Q 034110           82 GGVIIMHVVVQP   93 (103)
Q Consensus        82 ~~~~t~hlv~~~   93 (103)
                         ++|||++|.
T Consensus        74 ---s~I~lv~r~   82 (83)
T d1wx8a1          74 ---STVHVVVRS   82 (83)
T ss_dssp             ---EEEECCBCC
T ss_pred             ---CEEEEEEeC
Confidence               899999875

>d1oqya4 d.15.1.1 (A:1-77) Ubiquitin-like domain of Rad23 homolog A (Hhr23a) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of Rad23 homolog A (Hhr23a)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=5e-19  Score=109.04  Aligned_cols=75  Identities=25%  Similarity=0.387  Sum_probs=62.6

Q ss_pred             eEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceE
Q 034110            6 LIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVI   85 (103)
Q Consensus         6 ~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~   85 (103)
                      .+.|.|++.+| ..+++++++++||++||++|++..+  .+.+|  +++|||||+||.|+|+.+|++|+|.+|+      
T Consensus         2 ~~~i~vk~l~g-~~~~l~v~~~~TV~~lK~~i~~~~g--~~~i~--~~~qrLi~~Gk~L~D~~tL~~y~I~~~s------   70 (77)
T d1oqya4           2 AVTITLKTLQQ-QTFKIRMEPDETVKVLKEKIEAEKG--RDAFP--VAGQKLIYAGKILSDDVPIRDYRIDEKN------   70 (77)
T ss_dssp             CCCEEEEETTT-EEEEECCCTTCBHHHHHHHHHHHTC--SSSCC--STEEEEESSSSEECSSSBTTTTCCCTTS------
T ss_pred             cEEEEEECCCC-CEEEEEECCCCcHHHHHHHHHHhcC--CCCCC--hHHEEeEECCcCccCCCcHHHcCCCCCC------
Confidence            46789999999 4568999999999999999998722  12344  9999999999999999999999999994      


Q ss_pred             EEEEEe
Q 034110           86 IMHVVV   91 (103)
Q Consensus        86 t~hlv~   91 (103)
                      ++|+++
T Consensus        71 ~i~~~v   76 (77)
T d1oqya4          71 FVVVMV   76 (77)
T ss_dssp             CEEEEE
T ss_pred             EEEEEE
Confidence            456554

>d1j8ca_ d.15.1.1 (A:) Ubiquitin-like N-terminal domain of PLIC-2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.76  E-value=2.2e-18  Score=111.49  Aligned_cols=71  Identities=25%  Similarity=0.401  Sum_probs=64.6

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      ..+.|+++..++ . ..++|++++||.+||++|++.  +|         ++.|||||+||+|+|+.+|++|+|.+|    
T Consensus        31 ~~i~V~Vk~~~~-~-~~i~V~~~~tV~~LK~~I~~~~gi~---------~~~qrLi~~Gk~L~D~~tL~~~~I~~g----   95 (103)
T d1j8ca_          31 KIIKVTVKTPKE-K-EEFAVPENSSVQQFKEAISKRFKSQ---------TDQLVLIFAGKILKDQDTLIQHGIHDG----   95 (103)
T ss_dssp             CCEEEEEECSSC-E-EEEEECTTCCHHHHHHHHHHHHCSC---------SSSEEEEETTEEESTTSCGGGTTCSSS----
T ss_pred             CeEEEEEECCCc-c-EEEEECCCChHHHHHHHHHHHHCcC---------HHHeeeeeeeecccCCCcHHHcCCCCC----
Confidence            468899988777 4 478999999999999999999  66         999999999999999999999999999    


Q ss_pred             ceEEEEEEec
Q 034110           83 GVIIMHVVVQ   92 (103)
Q Consensus        83 ~~~t~hlv~~   92 (103)
                        .+|||++|
T Consensus        96 --~~I~lvlr  103 (103)
T d1j8ca_          96 --LTVHLVIK  103 (103)
T ss_dssp             --EEEEEEEC
T ss_pred             --CEEEEEEC
Confidence              89999986

>d1m94a_ d.15.1.1 (A:) Ubiquitin-like modifier protein hub1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like modifier protein hub1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.76  E-value=1.5e-18  Score=106.08  Aligned_cols=68  Identities=12%  Similarity=0.154  Sum_probs=62.5

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCce
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGV   84 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~   84 (103)
                      ++|.++...|+. ..+++++++||.+||++|+++  +|         +++|||+|+||.|+|+.||++|+|.+|      
T Consensus         2 i~i~vk~~~Gk~-~~v~V~~~~tV~~lK~~I~~~~~i~---------~~~q~Li~~Gk~L~d~~tL~~y~I~~g------   65 (73)
T d1m94a_           2 IEVVVNDRLGKK-VRVKCLAEDSVGDFKKVLSLQIGTQ---------PNKIVLQKGGSVLKDHISLEDYEVHDQ------   65 (73)
T ss_dssp             EEEEEEETTTEE-EEEEECTTSBHHHHHHHHHHHHCCT---------TTSEEEESSSCEECTTSBHHHHTCCTT------
T ss_pred             eEEEEECCCCCE-EEEEECCcCcHHHHHHHHHHhhccc---------ccEEEEEEEeEEecccCcHHHcCCCCC------
Confidence            578889999965 479999999999999999998  66         999999999999999999999999999      


Q ss_pred             EEEEEE
Q 034110           85 IIMHVV   90 (103)
Q Consensus        85 ~t~hlv   90 (103)
                      +|+||.
T Consensus        66 stl~L~   71 (73)
T d1m94a_          66 TNLELY   71 (73)
T ss_dssp             EEEEEE
T ss_pred             CEEEEE
Confidence            789985

>d1wiaa_ d.15.1.1 (A:) Ubiquitin-like protein bab25500 (2010008E23Rik) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein bab25500 (2010008E23Rik)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.76  E-value=2.7e-18  Score=110.27  Aligned_cols=77  Identities=19%  Similarity=0.346  Sum_probs=66.7

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecC-CCCcccccCCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILE-NNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~-D~~tL~~~~i~~g~~~~   82 (103)
                      ...+.|+|++.+|.. +.+++++++||.+||++|++. |         +++|||||+||+|. |..+|++|+|.+|    
T Consensus         5 ~s~m~i~vK~l~~~~-~~v~v~~~~TV~~lK~~i~~~-~---------~~~qrLi~~Gk~L~dd~~tL~~y~i~~g----   69 (95)
T d1wiaa_           5 SSGINVRLKFLNDTE-ELAVARPEDTVGTLKSKYFPG-Q---------ESQMKLIYQGRLLQDPARTLSSLNITNN----   69 (95)
T ss_dssp             CCSEEEEEEETTTEE-EEEEECSSSBHHHHHHHHSSS-T---------TTTCEEEETTEECCCSSCBTTTTTCCTT----
T ss_pred             CCcEEEEEEcCCCCE-EEEEECCcCcHHHHHHHHhcC-C---------cceeEEEECCEEcccCCCCHHHcCCCCC----
Confidence            567999999999955 579999999999999998643 4         78999999999995 6689999999999    


Q ss_pred             ceEEEEEEecCCCCC
Q 034110           83 GVIIMHVVVQPSLAK   97 (103)
Q Consensus        83 ~~~t~hlv~~~~~~~   97 (103)
                        .+|||+++++.+.
T Consensus        70 --~~v~l~~~~~~~~   82 (95)
T d1wiaa_          70 --CVIHCHRSPPGAA   82 (95)
T ss_dssp             --EEEEEECCCCCCC
T ss_pred             --CEEEEEEcCCCCC
Confidence              7899998866543

>d1we6a_ d.15.1.1 (A:) Splicing factor 3 subunit 1, C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Splicing factor 3 subunit 1, C-terminal domain
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.75  E-value=1.1e-18  Score=115.05  Aligned_cols=76  Identities=20%  Similarity=0.317  Sum_probs=66.2

Q ss_pred             eEEEEEEe---CCCCeeeeEEeCC-cchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCC
Q 034110            6 LIDIKFRL---YDGSDIGPFRYSS-ASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGE   79 (103)
Q Consensus         6 ~v~l~~~~---~~g~~~~~~~v~~-~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~   79 (103)
                      .+++++.+   .+| ++..+++.+ ++||.+||++|++.  +|         ++.|||+|+||+|+|+.||++|+|.+| 
T Consensus        27 ~~ti~V~v~~~~~G-~~i~l~v~~~sdtV~~lK~~I~~~~gip---------~~~QrLi~~Gk~L~D~~tL~~ynI~~g-   95 (111)
T d1we6a_          27 PATIRVSKPNENDG-QFMEITVQSLSENVGSLKEKIAGEIQIP---------ANKQKLSGKAGFLKDNMSLAHYNVGAG-   95 (111)
T ss_dssp             CEEEEECCTTCSSS-CCEEEEESCSSSBHHHHHHHHHHHTTCC---------TTTSEEECSSSBCCTTSBTTTTTCSSS-
T ss_pred             CEEEEEEcccCCCC-eEEEEEecCCccHHHHHHHHHHHHHCCC---------ccceEEEEeeEEccccCCHHHcCCCCC-
Confidence            45566665   356 566899987 89999999999998  66         999999999999999999999999999 


Q ss_pred             CCCceEEEEEEecCCCCC
Q 034110           80 VPGGVIIMHVVVQPSLAK   97 (103)
Q Consensus        80 ~~~~~~t~hlv~~~~~~~   97 (103)
                           .|+||+++..+++
T Consensus        96 -----sti~L~lr~rGG~  108 (111)
T d1we6a_          96 -----EILTLSLRERSGP  108 (111)
T ss_dssp             -----CEEEEECSSCCSS
T ss_pred             -----CEEEEEeeCCCCC
Confidence                 7899999998875

>d1uh6a_ d.15.1.1 (A:) Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 5, ubl5
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.74  E-value=3.4e-18  Score=110.76  Aligned_cols=72  Identities=18%  Similarity=0.253  Sum_probs=65.7

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      ..++|.++...|+.+ .++|++++||.+||++|+++  +|         +++|||+|+||+|+|+.+|++|+|.+|    
T Consensus        27 ~~i~V~V~~~~Gk~~-~v~V~p~~TV~~LK~~I~~~~gip---------~~~qrLi~~Gk~L~D~~tL~dygI~~G----   92 (100)
T d1uh6a_          27 TMIEVVCNDRLGKKV-RVKCNTDDTIGDLKKLIAAQTGTR---------WNKIVLKKWYTIFKDHVSLGDYEIHDG----   92 (100)
T ss_dssp             CEEEEEEECSSSSCE-EEEEETTSBHHHHHHHHHHHHCCC---------GGGCEEEETTEECCSSCBHHHHTCCTT----
T ss_pred             ceEEEEEECCCCCEE-EEEECCcChHHHHHHHHHHHHCCC---------cceEEEEEEeecccCcCCHHHcCCCCC----
Confidence            458999999999765 79999999999999999999  76         999999999999999999999999999    


Q ss_pred             ceEEEEEEec
Q 034110           83 GVIIMHVVVQ   92 (103)
Q Consensus        83 ~~~t~hlv~~   92 (103)
                        +|+||..+
T Consensus        93 --stI~L~~~  100 (100)
T d1uh6a_          93 --MNLELYYQ  100 (100)
T ss_dssp             --EEEEEECC
T ss_pred             --CEEEEEEC
Confidence              78998653

>d2c9wb1 d.15.1.1 (B:2-104) Elongin B {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.72  E-value=9e-18  Score=109.40  Aligned_cols=80  Identities=19%  Similarity=0.200  Sum_probs=67.0

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCC-CCc
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEV-PGG   83 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~-~~~   83 (103)
                      |.|+++...  ....+++++++||.+||++|++.  +|         +++|||||+||+|+|+.||++|||..++. +..
T Consensus         2 ifv~i~~~k--~Ti~l~v~~~~TV~~lK~~I~~~~gip---------~~~QrLi~~Gk~L~D~~TL~dYgI~~~~~~~~~   70 (103)
T d2c9wb1           2 VFLMIRRHK--TTIFTDAKESSTVFELKRIVEGILKRP---------PDEQRLYKDDQLLDDGKTLGECGFTSQTARPQA   70 (103)
T ss_dssp             EEEEEEEBT--EEEEEEECTTSBHHHHHHHHHHHHCCC---------GGGEEEEETTEECCTTSBHHHHTCCTTTSBTTB
T ss_pred             EEEEEeCCC--EEEEEEeCCCCcHHHHHHHHHHHhCCC---------cccEEEEECCEEcCCCCCHHHcCCCcccccccC
Confidence            556665533  34468999999999999999998  66         99999999999999999999999988765 556


Q ss_pred             eEEEEEEecCCCCC
Q 034110           84 VIIMHVVVQPSLAK   97 (103)
Q Consensus        84 ~~t~hlv~~~~~~~   97 (103)
                      +.++|+++++.+..
T Consensus        71 ~~~~~l~~~~~~~~   84 (103)
T d2c9wb1          71 PATVGLAFRADDTF   84 (103)
T ss_dssp             CEEEEEEEEETTEE
T ss_pred             CcEEEEEEecCCCc
Confidence            78999999876653

>d1wjua_ d.15.1.1 (A:) NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: NEDD8 ultimate buster-1, NUB1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.70  E-value=1.9e-17  Score=106.97  Aligned_cols=76  Identities=17%  Similarity=0.153  Sum_probs=63.0

Q ss_pred             eEEEEE--EeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCC
Q 034110            6 LIDIKF--RLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVP   81 (103)
Q Consensus         6 ~v~l~~--~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~   81 (103)
                      +++|.+  +...|+. +.+++++++||.+||++|++.  +|         +++|||||+||+|+|+.||++|+|.++   
T Consensus        17 ti~V~~~~~~~~g~~-~~lev~~~~TV~~LK~~I~~~~gi~---------~~~qkLi~~Gk~L~d~~tL~~~gI~~~---   83 (100)
T d1wjua_          17 TIEVFLPPRLKKDRK-NLLETRLHITGRELRSKIAETFGLQ---------ENYIKIVINKKQLQLGKTLEEQGVAHN---   83 (100)
T ss_dssp             EEEEECCTTTCCSSS-EEEEEESSSBHHHHHHHHHHHTTCC---------STTCEEEETTEECCTTSBHHHHTCCSS---
T ss_pred             EEEEEEeeccCCCeE-EEEEECCCcHHHHHHHHHHHHHCCC---------CeeEEEEEcccCcCCCcCHHHcCCCCC---
Confidence            455544  3356755 479999999999999999999  66         999999999999999999999999999   


Q ss_pred             CceEEEEEEecCCCCC
Q 034110           82 GGVIIMHVVVQPSLAK   97 (103)
Q Consensus        82 ~~~~t~hlv~~~~~~~   97 (103)
                         .++|++.....+.
T Consensus        84 ---s~i~vi~~~~~~~   96 (100)
T d1wjua_          84 ---VKAMVLELKQSSG   96 (100)
T ss_dssp             ---EEEEEECCCCCCC
T ss_pred             ---CEEEEEEcCCCCC
Confidence               7788877655443

>d1x1ma1 d.15.1.1 (A:8-101) Ubiquitin-like protein 7 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 7
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.70  E-value=3.3e-17  Score=105.22  Aligned_cols=58  Identities=28%  Similarity=0.394  Sum_probs=51.3

Q ss_pred             CcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEEEEEEecC
Q 034110           26 SASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIMHVVVQP   93 (103)
Q Consensus        26 ~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t~hlv~~~   93 (103)
                      .++||.+||++|++.+|   +..| ++++|||||+||.|+|+.+|++|+|.+|      .|+|||.|.
T Consensus        36 ~~~tV~~lK~~i~~~~~---~~~P-~p~~~rLIy~Gk~L~D~~tL~~y~I~~g------stihLV~r~   93 (94)
T d1x1ma1          36 GGYSISFLKQLIAGKLQ---ESVP-DPELIDLIYCGRKLKDDQTLDFYGIQPG------STVHVLRKS   93 (94)
T ss_dssp             CCCBHHHHHHHHHHHCT---TTCC-CSSSEEEEETTEECCTTCBHHHHTCCTT------CEEEEEESS
T ss_pred             CccCHHHHHHHHHHHcc---cCCC-ChhheEEEECCeEECCCccHHHcCCCCC------CEEEEEEeC
Confidence            47799999999999987   3344 3799999999999999999999999999      789999874

>d1wgga_ d.15.1.1 (A:) Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin carboxyl-terminal hydrolase 14
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.68  E-value=4.5e-17  Score=104.27  Aligned_cols=72  Identities=10%  Similarity=0.156  Sum_probs=64.0

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVP   81 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~   81 (103)
                      .+.+.|+++..++ .+..+++++++||.+||++|++.  +|         +++|||||.||.|+|+ +|++|+|.+|   
T Consensus         5 s~~~~I~VK~~~~-~~~~v~v~~~~tV~~lK~~i~~~~gvp---------~~~QkLi~~Gk~L~d~-tL~~~gi~~g---   70 (96)
T d1wgga_           5 SSGYSVTVKWGKE-KFEGVELNTDEPPMVFKAQLFALTGVQ---------PARQKVMVKGGTLKDD-DWGNIKMKNG---   70 (96)
T ss_dssp             CCEEEEEEEETTE-EEEEEEEESSSCHHHHHHHHHHHTCCC---------TTTSCCEETTEECCSS-CCCSCCCCSS---
T ss_pred             CCceEEEEEeCCC-CEEEEEECCCCcHHHHHHHhhhhcCcc---------ceeeEEeecCcccCCC-cHHHCCCCCC---
Confidence            5778999999888 55579999999999999999999  66         9999999999999986 7999999999   


Q ss_pred             CceEEEEEEec
Q 034110           82 GGVIIMHVVVQ   92 (103)
Q Consensus        82 ~~~~t~hlv~~   92 (103)
                         .+|||+..
T Consensus        71 ---~~i~lv~t   78 (96)
T d1wgga_          71 ---MTVLMMGS   78 (96)
T ss_dssp             ---CEEECCCC
T ss_pred             ---CEEEEEee
Confidence               67898754

>d1v2ya_ d.15.1.1 (A:) Ubiquitin-like protein 3300001g02rik {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 3300001g02rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.67  E-value=3e-17  Score=106.78  Aligned_cols=75  Identities=19%  Similarity=0.132  Sum_probs=66.1

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceE---------------EEecCeecCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIK---------------LISSGKILEN   66 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qr---------------LI~~Gk~L~D   66 (103)
                      ...+.|+++..+|.. ++++|++++||.+||++|++.  +|         +++||               |||+|+.|.|
T Consensus         5 ss~M~v~Vk~~~G~~-~~v~V~~~~TV~~LK~~I~~~~~ip---------~~~Qr~~~~~~~~~~~~~~~Li~~G~~L~d   74 (105)
T d1v2ya_           5 SSGMTVRVCKMDGEV-MPVVVVQNATVLDLKKAIQRYVQLK---------QEREGGVQHISWSYVWRTYHLTSAGEKLTE   74 (105)
T ss_dssp             CCSEEEEEECSSSCE-EEEEECTTCBHHHHHHHHHHHHHHH---------HHHTTCCCCCCHHHHHTTEEEESSSCEECC
T ss_pred             CCcEEEEEEeCCCCE-EEEEECCCChHHHHHHHHHHHHCcC---------HHHhcccccccccccccceEEEECCEECcc
Confidence            567899999999955 589999999999999999998  66         77776               9999999966


Q ss_pred             C-CcccccCCCCCCCCCceEEEEEEecCC
Q 034110           67 N-KTVGQCKIPYGEVPGGVIIMHVVVQPS   94 (103)
Q Consensus        67 ~-~tL~~~~i~~g~~~~~~~t~hlv~~~~   94 (103)
                      + .||++|+|.+|      .|+||+.++.
T Consensus        75 ~~~tL~~~gI~~g------~~l~lv~r~~   97 (105)
T d1v2ya_          75 DRKKLRDYGIRNR------DEVSFIKKLG   97 (105)
T ss_dssp             SSSBHHHHTCCSS------EEEEEEECSC
T ss_pred             cCCCHHHcCCCCC------CEEEEEEecC
Confidence            5 69999999999      7899998864

>d1v5oa_ d.15.1.1 (A:) 1700011n24rik protein {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 1700011n24rik protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.66  E-value=1.7e-16  Score=102.74  Aligned_cols=69  Identities=9%  Similarity=0.159  Sum_probs=59.0

Q ss_pred             EeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeec-CCCCcccccCCCCCCCCCceEEEE
Q 034110           12 RLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKIL-ENNKTVGQCKIPYGEVPGGVIIMH   88 (103)
Q Consensus        12 ~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L-~D~~tL~~~~i~~g~~~~~~~t~h   88 (103)
                      +-.+| .++++++++++||.+||+.|+.+  +|         +++|||||+||.| +|..||++|+|.+|      .++|
T Consensus        17 ~~~~~-~t~~l~V~~~~tV~~LK~~Ie~~~gip---------~~~Q~Li~~Gk~L~dd~~tL~~~gI~~g------~~i~   80 (102)
T d1v5oa_          17 RDLTE-VTFSLQVNPDFELSNFRVLCELESGVP---------AEEAQIVYMEQLLTDDHCSLGSYGLKDG------DMVV   80 (102)
T ss_dssp             CCCCC-CEEEEEECTTCBHHHHHHHHHHHTCCC---------GGGBCEEETTEEECCSSSBHHHHTCCTT------EEEE
T ss_pred             cCCCC-CEEEEEECCcccHHHHHHHHHHHhCCC---------cceEEEEeCCeEeecccCCHHHcCCCCC------CEEE
Confidence            34567 45689999999999999999988  66         9999999999999 56789999999999      6899


Q ss_pred             EEecCCCC
Q 034110           89 VVVQPSLA   96 (103)
Q Consensus        89 lv~~~~~~   96 (103)
                      |+.+...+
T Consensus        81 l~~r~~~~   88 (102)
T d1v5oa_          81 LLQKDNVG   88 (102)
T ss_dssp             ECBCCCCC
T ss_pred             EEECCCCC
Confidence            98875543

>d1v86a_ d.15.1.1 (A:) hypothetical D7wsu128e protein {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: hypothetical D7wsu128e protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.64  E-value=2.3e-16  Score=100.72  Aligned_cols=75  Identities=27%  Similarity=0.275  Sum_probs=64.1

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      +.++|+++. ++ +.+.++|++++||.+||++|++.  +|         +++|||||+|+ |+|+.+|++|+|.+|    
T Consensus        16 ~~i~v~V~~-~~-k~~~i~v~~~~TV~~LK~~I~~~tgvp---------~~~q~Li~~g~-l~D~~tL~~~~I~~g----   79 (95)
T d1v86a_          16 ELVDLKIIW-NK-TKHDVKVPLDSTGSELKQKIHSITGLP---------PAMQKVMYKGL-VPEDKTLREIKVTSG----   79 (95)
T ss_dssp             CCEEEEEEE-TT-EEEEEEECTTSBHHHHHHHHHHHHCSC---------STTCCCBSSSB-CCSSSBHHHHCCCTT----
T ss_pred             cEEEEEEEE-CC-EEEEEEECCCCcHHHHHHHHHHHhCCC---------hhHEEEEeccc-ccCCCcHHHCCCCCC----
Confidence            457777764 55 56789999999999999999999  66         99999999997 999999999999999    


Q ss_pred             ceEEEEEEecCCCCC
Q 034110           83 GVIIMHVVVQPSLAK   97 (103)
Q Consensus        83 ~~~t~hlv~~~~~~~   97 (103)
                        .+|||+.....++
T Consensus        80 --s~i~lvgs~~~gp   92 (95)
T d1v86a_          80 --AKIMVVGSTISGP   92 (95)
T ss_dssp             --EEEEECCSSCCCC
T ss_pred             --CEEEEEecCCCCC
Confidence              7899987765443

>d1v5ta_ d.15.1.1 (A:) 8430435i17rik protein {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 8430435i17rik protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.63  E-value=4.5e-16  Score=98.15  Aligned_cols=77  Identities=19%  Similarity=0.100  Sum_probs=64.3

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEE---ecCeecCCCCcccccCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLI---SSGKILENNKTVGQCKIPYG   78 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI---~~Gk~L~D~~tL~~~~i~~g   78 (103)
                      ...+.|+++..++ .+..+++++++||.+||++|++.  +|         +++||||   |.|+.|+|+.+|++|+|.+|
T Consensus         5 s~~~~i~Vk~~~~-~~~i~~v~~~~tV~~LK~~i~~~t~vp---------~~~QkLi~~~~~Gk~L~D~~tL~~~~i~~g   74 (90)
T d1v5ta_           5 SSGLPIIVKWGGQ-EYSVTTLSEDDTVLDLKQFLKTLTGVL---------PERQKLLGLKVKGKPAENDVKLGALKLKPN   74 (90)
T ss_dssp             CCSCCEEEEETTE-EEEECSCCSSSBHHHHHHHHHHHTCCC---------TTTCEEESCEETTEECCTTSBHHHHTCCTT
T ss_pred             CCcEEEEEEECCe-EEEEEEeCCCCcHHHHHHHHHHHHcCC---------HHHhhhhhhccCCcCCCCcCcHHHcCCCCC
Confidence            4567788886544 44334799999999999999999  55         9999999   69999999999999999999


Q ss_pred             CCCCceEEEEEEecCCCC
Q 034110           79 EVPGGVIIMHVVVQPSLA   96 (103)
Q Consensus        79 ~~~~~~~t~hlv~~~~~~   96 (103)
                            .+|||+..+..+
T Consensus        75 ------~~i~lv~s~~~~   86 (90)
T d1v5ta_          75 ------TKIMMMGTRESG   86 (90)
T ss_dssp             ------EEEEEECCCSSS
T ss_pred             ------CEEEEEeeCCCC
Confidence                  789998776544

>d1wxva1 d.15.1.1 (A:7-87) Bag-family molecular chaperone regulator-1 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.60  E-value=2.4e-15  Score=93.40  Aligned_cols=71  Identities=20%  Similarity=0.195  Sum_probs=57.3

Q ss_pred             EEEEEEeCCCCeeeeEEe-----CCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecC-CCCcccccCCCCC
Q 034110            7 IDIKFRLYDGSDIGPFRY-----SSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILE-NNKTVGQCKIPYG   78 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v-----~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~-D~~tL~~~~i~~g   78 (103)
                      ++|++..  +.+.+++++     ++++||++||++|++.  +|         ++.|||+|+|+.|. |+.+|++|+|.+|
T Consensus         2 i~i~V~~--~~~~~~i~v~~~~~~~~~Tv~~LK~~I~~~tgvp---------~~~QkL~~~G~~L~~d~~tL~~~gi~~g   70 (81)
T d1wxva1           2 LTVTVTH--SNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVP---------QSFQKLIFKGKSLKEMETPLSALGIQDG   70 (81)
T ss_dssp             EEEEEEC--SSSEEEEEECCCSSSSSCBHHHHHHHHHHHTCCC---------TTTCEEEETTEEECCSSSBHHHHTCCSS
T ss_pred             EEEEEEE--CCeeEEEEEecCCCCCccHHHHHHHHHHHHHCcC---------HHHEEeeecCeEeCcCCCChHHCCCCCC
Confidence            3455433  334456777     5789999999999999  66         99999999999995 6789999999999


Q ss_pred             CCCCceEEEEEEecCC
Q 034110           79 EVPGGVIIMHVVVQPS   94 (103)
Q Consensus        79 ~~~~~~~t~hlv~~~~   94 (103)
                            .++||+.+..
T Consensus        71 ------~~i~lv~~~~   80 (81)
T d1wxva1          71 ------CRVMLIGKKN   80 (81)
T ss_dssp             ------EEEEEESCCS
T ss_pred             ------CEEEEEEecC
Confidence                  7899987653

>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=99.51  E-value=5.7e-14  Score=86.34  Aligned_cols=75  Identities=12%  Similarity=0.174  Sum_probs=64.7

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      +.|+|+++. +|+.+ .+.+.+++++..|++.+++.  +|         ++++||+|.|+.|.|+.|+++|+|.+|    
T Consensus         3 ~~I~ikv~~-~~~~~-~f~v~~~~~~~~l~~~~~~~~~i~---------~~~~~l~f~G~~l~~~~T~~~~~i~dg----   67 (79)
T d1euvb_           3 THINLKVSD-GSSEI-FFKIKKTTPLRRLMEAFAKRQGKE---------MDSLRFLYDGIRIQADQTPEDLDMEDN----   67 (79)
T ss_dssp             SEEEEEEES-SSCEE-EEEEETTSCTHHHHHHHHHHTTCC---------GGGEEEEETTEECCTTCCTTTTTCCTT----
T ss_pred             cEEEEEECC-CCeEE-EEEECCCCcHHHHHHHHHHHhCCC---------hHhEEEEECCEEeCCCCCHHHCCCCCC----
Confidence            456777754 55455 58999999999999999998  55         899999999999999999999999999    


Q ss_pred             ceEEEEEEecCCCC
Q 034110           83 GVIIMHVVVQPSLA   96 (103)
Q Consensus        83 ~~~t~hlv~~~~~~   96 (103)
                        .++|++++..||
T Consensus        68 --d~I~v~~~q~GG   79 (79)
T d1euvb_          68 --DIIEAHREQIGG   79 (79)
T ss_dssp             --EEEEEEECCBCC
T ss_pred             --CEEEEEEeccCC
Confidence              689999987664

>d1v6ea_ d.15.1.1 (A:) Ubiquitin-like domain of tubulin folding cofactor B {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of tubulin folding cofactor B
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.50  E-value=4.8e-14  Score=89.90  Aligned_cols=77  Identities=16%  Similarity=0.166  Sum_probs=63.9

Q ss_pred             CceEEEEEEeC-CCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCe-------ecCCCCccccc
Q 034110            4 EELIDIKFRLY-DGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGK-------ILENNKTVGQC   73 (103)
Q Consensus         4 ~~~v~l~~~~~-~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk-------~L~D~~tL~~~   73 (103)
                      ...|.|-+... ++ ......|++++||.+||++|+..  +|         +++|||+|.|+       .++|+.+|++|
T Consensus         5 ss~v~v~I~s~~~~-~~~E~r~~~~~TV~~LK~kle~~tGip---------~~~qrL~~~~~~~~~~~~l~~d~~~L~~y   74 (95)
T d1v6ea_           5 SSGVMVFISSSLNS-FRSEKRYSRSLTIAEFKCKLELVVGSP---------ASCMELELYGADDKFYSKLDQEDALLGSY   74 (95)
T ss_dssp             CCCEEEEEEETTSS-SCEEEEECTTSBHHHHHHHHHHHTCSC---------TTTCBCEEECSSSCEEEECCCSSSBTTSS
T ss_pred             CCcEEEEEEECCCC-cEEEEEeCCCCCHHHHHHHHHHHhCcC---------chhEEEEEeCCCCceeecccCCcCCHHHC
Confidence            34566666663 33 33467899999999999999998  55         99999999998       68999999999


Q ss_pred             CCCCCCCCCceEEEEEEecCCCC
Q 034110           74 KIPYGEVPGGVIIMHVVVQPSLA   96 (103)
Q Consensus        74 ~i~~g~~~~~~~t~hlv~~~~~~   96 (103)
                      +|.+|      .+|||+.+.+.+
T Consensus        75 ~i~dg------~~ihlvd~~p~~   91 (95)
T d1v6ea_          75 PVDDG------CRIHVIDHSGSG   91 (95)
T ss_dssp             SCCTT------CEEEEBCCSCCS
T ss_pred             CCCCC------CEEEEEeCCCCC
Confidence            99999      789999887654

>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=99.36  E-value=2.4e-12  Score=78.65  Aligned_cols=75  Identities=19%  Similarity=0.292  Sum_probs=67.0

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPG   82 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~   82 (103)
                      +.|.|+++..+|+.+ .+.+..++++..|++..+++  +|         ++++||+|.|+.|.++.|++++++.+|    
T Consensus         1 e~I~ikv~~~dg~~v-~f~v~~~t~l~kl~~~y~~~~~~~---------~~~~~f~fdG~~l~~~~T~~~l~~edg----   66 (77)
T d2uyzb1           1 EYIKLKVIGQDSSEI-HFKVKMTTHLKKLKESYCQRQGVP---------MNSLRFLFEGQRIADNHTPKELGMEEE----   66 (77)
T ss_dssp             CEEEEEEECTTCCEE-EEEEETTSCTHHHHHHHHHHHTCC---------GGGEEEEETTEECCTTCCHHHHTCCTT----
T ss_pred             CEEEEEEECCCCCEE-EEEECCCChHHHHHHHHHHHhCCC---------hhHEEEEECCEECCCCCCHHHcCCCCC----
Confidence            468899999999765 58999999999999999988  65         999999999999999999999999999    


Q ss_pred             ceEEEEEEecCCC
Q 034110           83 GVIIMHVVVQPSL   95 (103)
Q Consensus        83 ~~~t~hlv~~~~~   95 (103)
                        .+||++++..|
T Consensus        67 --D~Idv~~~q~G   77 (77)
T d2uyzb1          67 --DVIEVYQEQTG   77 (77)
T ss_dssp             --EEEEEEECCCC
T ss_pred             --CEEEEEEecCC
Confidence              67999887654

>d1wjna_ d.15.1.1 (A:) Tubulin-folding protein TbcE {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Tubulin-folding protein TbcE
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.36  E-value=3e-12  Score=81.44  Aligned_cols=72  Identities=18%  Similarity=0.189  Sum_probs=59.1

Q ss_pred             CceEEEEEEeCCC--CeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCee-------c-CCCCccc
Q 034110            4 EELIDIKFRLYDG--SDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKI-------L-ENNKTVG   71 (103)
Q Consensus         4 ~~~v~l~~~~~~g--~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~-------L-~D~~tL~   71 (103)
                      .+.|+|+++..+.  .......+++++||.+||.+|+..  +|         +++|||+|.|+.       | +|+++|.
T Consensus         7 ~~~iti~i~~~~~~~~~~~~~kv~~~~TV~~LK~~i~~~~gip---------~~~qrL~y~~~~~~~~~~~l~~d~~tL~   77 (97)
T d1wjna_           7 GQLLTLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKVP---------VSELLLSYESSKMPGREIELENDLQPLQ   77 (97)
T ss_dssp             SCEEEEEEEESSCSSSCCEEEEEETTSBHHHHHHHHHTTTTCC---------TTTCEEEEECTTSCSCEEECCCSSSBSG
T ss_pred             CCeEEEEEEeCCCCCCceEEEEcCCCCCHHHHHHHHHHHHCcC---------hHHeEEEecCCCCCcccceecCCCcCHh
Confidence            4668899987542  234478999999999999999998  65         999999999983       4 4889999


Q ss_pred             ccCCCCCCCCCceEEEEEE
Q 034110           72 QCKIPYGEVPGGVIIMHVV   90 (103)
Q Consensus        72 ~~~i~~g~~~~~~~t~hlv   90 (103)
                      +|+|.+|      .++|+.
T Consensus        78 ~YgI~dg------~~I~V~   90 (97)
T d1wjna_          78 FYSVENG------DCLLVR   90 (97)
T ss_dssp             GGTCCTT------CEEEEE
T ss_pred             hccCCCC------CEEEEE
Confidence            9999999      567754

>d1t0ya_ d.15.1.1 (A:) Ubiquitin-like domain of tubulin folding cofactor B {Nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of tubulin folding cofactor B
species: Nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=99.31  E-value=1.2e-11  Score=77.68  Aligned_cols=60  Identities=13%  Similarity=0.180  Sum_probs=52.5

Q ss_pred             eEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCe-------ecCCCCcccccCCCCCCCCCceEEEEEEe
Q 034110           21 PFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGK-------ILENNKTVGQCKIPYGEVPGGVIIMHVVV   91 (103)
Q Consensus        21 ~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk-------~L~D~~tL~~~~i~~g~~~~~~~t~hlv~   91 (103)
                      ...+++++||.+||++|+..  +|         ++.|||+|.|+       .++|+++|.+|+|.+|      .+||++=
T Consensus        19 E~r~~~~~TV~~LK~kle~~~Gip---------~~~q~L~~~~~~~~~~~~l~dd~~~L~~ygi~dG------~~Ihvvd   83 (90)
T d1t0ya_          19 EKKYPAGMSLNDLKKKLELVVGTT---------VDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDG------YRIHAVD   83 (90)
T ss_dssp             EEEEETTSBHHHHHHHHHHHHCCC---------TTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSS------EEEEEEE
T ss_pred             EEecCCCCCHHHHHHHHHHHHCCC---------hhheEEEEeCCCCCcccccccCCCCHHHCCCCCC------CEEEEEe
Confidence            56789999999999999999  66         99999999998       5689999999999999      8899865


Q ss_pred             cCCC
Q 034110           92 QPSL   95 (103)
Q Consensus        92 ~~~~   95 (103)
                      ...+
T Consensus        84 ~~~~   87 (90)
T d1t0ya_          84 VTGG   87 (90)
T ss_dssp             CTTC
T ss_pred             CCCC
Confidence            5443

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

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

Probab=98.41  E-value=9e-07  Score=52.65  Aligned_cols=63  Identities=17%  Similarity=0.293  Sum_probs=55.5

Q ss_pred             EEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCC
Q 034110            7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGE   79 (103)
Q Consensus         7 v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~   79 (103)
                      |.|+++-.+|+.+ .+.+..+++...|.+..+++  ++         ++.++|+|.|+.|..++|.+++++.+||
T Consensus         2 I~lkv~~~~g~~v-~f~vk~~t~l~kl~~~y~~~~~~~---------~~~~~f~fdG~~i~~~~Tp~~l~med~D   66 (72)
T d1wm3a_           2 INLKVAGQDGSVV-QFKIKRHTPLSKLMKAYCERQGLS---------MRQIRFRFDGQPINETDTPAQLEMEDED   66 (72)
T ss_dssp             EEEEEECTTSCEE-EEEECTTSCTHHHHHHHHHHHTCC---------TTTCEEEETTEECCTTCCTTTTTCCTTE
T ss_pred             EEEEEECCCCCEE-EEEEcCCChHHHHHHHHHHHhCCC---------ccceEEEECCEEcCCCCCHHHcCCCCCC
Confidence            5677777788665 58999999999999988887  55         8899999999999999999999999995

>d1wf9a1 d.15.1.1 (A:8-101) NPL4-like protein 1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: NPL4-like protein 1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.35  E-value=2.7e-07  Score=58.06  Aligned_cols=65  Identities=18%  Similarity=0.240  Sum_probs=49.5

Q ss_pred             EEEEEeCCCCeeeeEEeC-CcchHHHHHHHHHhh--CCCCCccCCCCCcceEEEe--------------cCeec-CCCCc
Q 034110            8 DIKFRLYDGSDIGPFRYS-SASTVDMLKQRIVSD--WPKGKTIVPKAVTEIKLIS--------------SGKIL-ENNKT   69 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~-~~~tV~~lK~~i~~~--~p~~~e~~p~~~~~qrLI~--------------~Gk~L-~D~~t   69 (103)
                      -||+|..+|...  ++++ +..||.+||.+|+++  +|         .+.|+|--              .-.-| +|..+
T Consensus         2 iiRiRsrdG~eR--v~v~~~~~Tl~~LK~~Ie~~L~VP---------v~~Q~LSl~~~llL~k~P~~~~~~~~l~d~~~~   70 (94)
T d1wf9a1           2 MLRVRSRDGLER--VSVDGPHITVSQLKTLIQDQLQIP---------IHNQTLSTNRNLLLAKSPSDFLAFTDMADPNLR   70 (94)
T ss_dssp             EEEEECSSCEEE--EEECCTTSBHHHHHHHHHHHSCCC---------TTTCCCBSSGGGGTCCSHHHHTTCCSSCCTTCB
T ss_pred             eEEEEecCCceE--EEecCCCCcHHHHHHHHHHHhCCC---------cccceeecChhhhccCCccccchhhhccCCccC
Confidence            379999999543  6885 478999999999999  66         88888822              12234 45677


Q ss_pred             ccccCCCCCCCCCceEEEEE
Q 034110           70 VGQCKIPYGEVPGGVIIMHV   89 (103)
Q Consensus        70 L~~~~i~~g~~~~~~~t~hl   89 (103)
                      |++|+|.+|      +.+|+
T Consensus        71 L~sl~i~hG------sivyL   84 (94)
T d1wf9a1          71 ISSLNLAHG------SMVYL   84 (94)
T ss_dssp             GGGTCCCTT------CEEEC
T ss_pred             HHHcCccCc------eEEEE
Confidence            999999999      56775

>d1i42a_ d.15.1.2 (A:) p47 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: p47
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.88  E-value=5.1e-05  Score=46.37  Aligned_cols=68  Identities=24%  Similarity=0.393  Sum_probs=53.5

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEec--Ceec-CCCCcccccCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISS--GKIL-ENNKTVGQCKIPYG   78 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~--Gk~L-~D~~tL~~~~i~~g   78 (103)
                      +....|+||+.||..+ ...|.++++|.+|.+.|....+..      ......|+..  -|.| +++.||.++|+..+
T Consensus        12 ~p~t~I~iRlPdG~~~-~~~F~~~~tl~dv~~~v~~~~~~~------~~~~f~L~t~~Prr~l~d~~~TL~e~gL~~s   82 (89)
T d1i42a_          12 EPTTNIQIRLADGGRL-VQKFNHSHRISDIRLFIVDARPAM------AATSFVLMTTFPNKELADENQTLKEANLLNA   82 (89)
T ss_dssp             SCCEEEEEEETTTCCE-EEEECSSSCGGGHHHHHHHHCTTT------SSCCEEEEETTTTEECCCCSSCSGGGTTCCS
T ss_pred             CCcEEEEEEcCCCCEE-EEEECCchhHHHHHHHHHHhCccC------CCCCEEEecCCCCcccCCCcCcHHHCCCcCc
Confidence            5789999999999665 689999999999999998764311      1556788765  4566 67799999999854

>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=97.80  E-value=0.00013  Score=44.70  Aligned_cols=72  Identities=17%  Similarity=0.237  Sum_probs=53.6

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEec--Ceec--CCCCcccccCCCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISS--GKIL--ENNKTVGQCKIPYGE   79 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~--Gk~L--~D~~tL~~~~i~~g~   79 (103)
                      ++.+.|+||+.+|+.+ .-.|..++||.+|.+.|......        ....+|+..  .+.+  +.+.||+++|+... 
T Consensus        14 ~~~~~i~iRlPdG~r~-~r~F~~~dtl~~l~~fv~~~~~~--------~~~f~l~~~~Pr~~~~~d~~~TL~e~gl~p~-   83 (96)
T d2cr5a1          14 EEVVTVALRCPNGRVL-RRRFFKSWNSQVLLDWMMKVGYH--------KSLYRLSTSFPRRALEVEGGSSLEDIGITVD-   83 (96)
T ss_dssp             SSEEEEEEECTTSCEE-EEEEESSSBTHHHHHHHHHHTCC--------TTTEEEECSSSCCBCCCCSSCBHHHHTCSSC-
T ss_pred             CCeEEEEEECCCCCEE-EEEECCcccHHHHHHHHHHhccC--------cccceeecCCCceecCccCCCcHHHCCCCCC-
Confidence            3679999999999765 57999999999999999887321        344555443  3555  34689999999866 


Q ss_pred             CCCceEEEEEE
Q 034110           80 VPGGVIIMHVV   90 (103)
Q Consensus        80 ~~~~~~t~hlv   90 (103)
                           .+++|-
T Consensus        84 -----~~L~v~   89 (96)
T d2cr5a1          84 -----TVLNVE   89 (96)
T ss_dssp             -----EEEEEE
T ss_pred             -----CEEEEe
Confidence                 567653

>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=97.78  E-value=0.00011  Score=43.95  Aligned_cols=70  Identities=17%  Similarity=0.278  Sum_probs=53.6

Q ss_pred             CceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh-CCCCCccCCCCCcceEEE--ecCeec---CCCCcccccCCCC
Q 034110            4 EELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD-WPKGKTIVPKAVTEIKLI--SSGKIL---ENNKTVGQCKIPY   77 (103)
Q Consensus         4 ~~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~-~p~~~e~~p~~~~~qrLI--~~Gk~L---~D~~tL~~~~i~~   77 (103)
                      |....|+||+.+|..+ .-.|..++||.+|.+.|... ++         +....|+  |-.+.|   +++.||+++|+..
T Consensus         3 e~~~~i~iRlPdG~~~-~~~F~~~~tl~~v~~~v~~~~~~---------~~~~~l~~~~Pr~~l~~~d~~~TL~e~gL~p   72 (82)
T d1h8ca_           3 EPVSKLRIRTPSGEFL-ERRFLASNKLQIVFDFVASKGFP---------WDEYKLLSTFPRRDVTQLDPNKSLLEVKLFP   72 (82)
T ss_dssp             CCCEEEEEECTTSCEE-EEEECTTSBHHHHHHHHHHHTCC---------SSSEEEEETTTTEETTTCCTTSBHHHHCCCS
T ss_pred             CCcEEEEEECCCCCEE-EEEECCCCcHHHHHHHHHhcCCC---------CCceEEEecCcccccccccccCCHHHCCCCC
Confidence            5567899999999766 47999999999999999887 33         4445554  356667   3568999999975


Q ss_pred             CCCCCceEEEEE
Q 034110           78 GEVPGGVIIMHV   89 (103)
Q Consensus        78 g~~~~~~~t~hl   89 (103)
                      .      .++++
T Consensus        73 ~------~~L~v   78 (82)
T d1h8ca_          73 Q------ETLFL   78 (82)
T ss_dssp             E------EEEEE
T ss_pred             C------CEEEE
Confidence            5      56665

>d1wj4a_ d.15.1.2 (A:) Hypothetical protein KIAA0794 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: Hypothetical protein KIAA0794
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.24  E-value=0.0014  Score=42.02  Aligned_cols=64  Identities=14%  Similarity=0.234  Sum_probs=49.5

Q ss_pred             ceEEEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhh-CCCCCccCCCCCcceEEEe--cCeec---CCCCcccccCCCCC
Q 034110            5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSD-WPKGKTIVPKAVTEIKLIS--SGKIL---ENNKTVGQCKIPYG   78 (103)
Q Consensus         5 ~~v~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~-~p~~~e~~p~~~~~qrLI~--~Gk~L---~D~~tL~~~~i~~g   78 (103)
                      ....|.||+.||+.+ ...|..++||.+|.+.|... ++         ....+|+.  --+.|   +.+.||+++++...
T Consensus        42 p~~~l~iRlPdG~r~-~r~F~~~~tl~~l~~~v~~~~~~---------~~~~~L~~~fPr~~l~~~d~~~TL~e~gL~P~  111 (124)
T d1wj4a_          42 PKAQLMLRYPDGKRE-QITLPEQAKLLALVKHVQSKGYP---------NERFELLTNFPRRKLSHLDYDITLQEAGLCPQ  111 (124)
T ss_dssp             CEEEEEEECTTSCEE-EEEEETTSCHHHHHHHHHHHHCC---------TTTEEEECSSSCCEETSSCSSSCTTTTTCCSS
T ss_pred             CceEEEEECCCCCEE-EEEeCCCCcHHHHHHHHHhcccC---------CcceEEeecccccccccccccCcHHHcCCCCC
Confidence            478999999999765 57999999999999999877 55         34445543  34565   34689999999765

>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=94.46  E-value=0.1  Score=30.68  Aligned_cols=69  Identities=9%  Similarity=0.081  Sum_probs=55.0

Q ss_pred             EEEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEecCeecCCCCcccccCCCCCCCCCceEEE
Q 034110            8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIM   87 (103)
Q Consensus         8 ~l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~~~~~~~t~   87 (103)
                      +|.+...+|.. ..+.+.|++++.++=+..-..+-       -++++-.|-|.+|.|+=+.++.-.|+++|      +.+
T Consensus         2 ~V~Vl~~~~rR-~~VKvtP~t~l~~VL~eaC~k~~-------~~~~~~~Lkh~~k~ldLsl~~R~sgLpnn------akL   67 (76)
T d2al3a1           2 AVSVLAPNGRR-HTVKVTPSTVLLQVLEDTCRRQD-------FNPSEYDLKFQRTVLDLSLQWRFANLPNN------AKL   67 (76)
T ss_dssp             CEEEECTTSCE-EEECCCTTSBHHHHHHHHHHHTT-------CCGGGCEEEETTEEESSSCBHHHHCCCSS------CEE
T ss_pred             cEEEECCCCcE-EEEEeCCCcCHHHHHHHHHHHhC-------CChhHceeeeCCEEcCccceeeecCCCCC------CEE
Confidence            46777889954 46899999999988777666632       12888899999999999999999999988      556


Q ss_pred             EEE
Q 034110           88 HVV   90 (103)
Q Consensus        88 hlv   90 (103)
                      -|+
T Consensus        68 ELv   70 (76)
T d2al3a1          68 EMV   70 (76)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            654

>d1vjka_ d.15.3.1 (A:) Molybdopterin synthase subunit MoaD {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: MoaD
domain: Molybdopterin synthase subunit MoaD
species: Pyrococcus furiosus [TaxId: 2261]

Probab=92.98  E-value=0.17  Score=29.22  Aligned_cols=59  Identities=17%  Similarity=0.222  Sum_probs=38.9

Q ss_pred             CCeeeeEEeCCcchHHHHHHHHHhhCCCCCccC----CCCCcceEEEecCeecCCCCcccccCCCCCC
Q 034110           16 GSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIV----PKAVTEIKLISSGKILENNKTVGQCKIPYGE   79 (103)
Q Consensus        16 g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~----p~~~~~qrLI~~Gk~L~D~~tL~~~~i~~g~   79 (103)
                      |..-..+++++..||.+|.+.+.+++|.-....    -.....+++.-+|+...++..     +.+||
T Consensus        17 G~~~~~~~~~~~~Tv~~l~~~L~~~~~~~~~~l~~~~~~~~~~i~iavN~~~~~~d~~-----L~~gD   79 (88)
T d1vjka_          17 GVDEEEIELPEGARVRDLIEEIKKRHEKFKEEVFGEGYDEDADVNIAVNGRYVSWDEE-----LKDGD   79 (88)
T ss_dssp             SSSEEEEEECTTCBHHHHHHHHHHHCGGGGGSCBCSSSCTTSSBEEEETTBCCCTTCB-----CCTTC
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHChHHHHHhhhccccccccEEEEEcceEcCCCcC-----cCCCC
Confidence            444446788899999999999999977321111    011356777778888766544     55664

>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=91.19  E-value=0.24  Score=29.09  Aligned_cols=43  Identities=21%  Similarity=0.300  Sum_probs=32.7

Q ss_pred             EEEEeCCCCeeeeEEeCCcchHHHHHHHHHhhCCCCCccCCCCCcceEEEec
Q 034110            9 IKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISS   60 (103)
Q Consensus         9 l~~~~~~g~~~~~~~v~~~~tV~~lK~~i~~~~p~~~e~~p~~~~~qrLI~~   60 (103)
                      |++++.-+.++..+.+.++.+..+|+++|.+.+.         ....+|=|.
T Consensus        13 ikVKv~~~~D~~~~~l~~~it~~dL~~kI~~rf~---------~~~~~lkY~   55 (85)
T d1ip9a_          13 TKIKFYYKDDIFALMLKGDTTYKELRSKIAPRID---------TDNFKLQTK   55 (85)
T ss_dssp             EEEEECBTTCCEEEEECSCCCHHHHHHHHHHHHT---------SSCEEEEEC
T ss_pred             EEEEEEECCcEEEEEeCCCCCHHHHHHHHHHHhC---------CCceEEEEE
Confidence            4445554447788999999999999999999976         556777443