Citrus Sinensis ID: 034173

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100--
Protein Sequence
MGMGEISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLFNLDDLSFQFEFGS
Secondary Structure (PSIPRED)
ccccccccEEEEEEEEEcccccccEEEcccccHHHHHHHHHHHcccccccccEEEEEEcccccccccccccccEEEEEccccEEEEEEEEccccEEEEEEcc
Secondary Structure Prediction (SSPRO)
ccccccccEEEEEEEEEccccccEEEcccccEHHHHHHHHHHcccccccHHcEEEEEEcccccccccccccccEEEEEccccEEEEEEEEcccccEEEEccc
Coil and Loop (DISEMBL)
mgmgeiseSVEITVktigpappsrlsvsspikvRDLRKLIATssanhlpienlrLVFRgkvlddtqddddrddVYLQLsnggninislfnlddlsFQFEFGS
Flexible Loop (DISEMBL)
MGMGEISESVEItvktigpappsrlsvsspiKVRDLRKLIatssanhlpienlrlvFRGKVLDDTQDDDDRDDVYLQLSnggninislfnlDDLSFQFEFGS
Low Complexity Region (SEG)
MGMGEISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLddtqddddrddVYLQLSNGGNINISLFNLDDLSFQFEFGS
Disordered region (IsUnstruct)
********************************VRDLRKLIATSSANHLPIENLRLVFRGKV*****************************************
Disordered Region (DISOPRED)
***********ITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLFNLDDLSFQFEFG*
Disordered Region (DISEMBL)
********SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLFNLDDLSFQFEFGS
Disordered Region (DISPRO)
******SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLFNLDDLSFQFEFGS
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MGMGEISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLFNLDDLSFQFEFGS
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	102
255557629	230	conserved hypothetical protein [Ricinus	0.725	0.321	0.594	2e-16
224126517	230	predicted protein [Populus trichocarpa]	0.774	0.343	0.5	3e-16
225427236	231	PREDICTED: uncharacterized protein LOC10	0.745	0.329	0.580	1e-15
297742113	212	unnamed protein product [Vitis vinifera]	0.725	0.349	0.594	2e-15
357476699	205	hypothetical protein MTR_4g098640 [Medic	0.774	0.385	0.535	5e-14
357476697	221	hypothetical protein MTR_4g098640 [Medic	0.774	0.357	0.535	5e-14
388498058	221	unknown [Medicago truncatula]	0.774	0.357	0.535	5e-14
449461997	240	PREDICTED: uncharacterized protein LOC10	0.745	0.316	0.506	2e-13
351726676	224	uncharacterized protein LOC100499994 [Gl	0.754	0.343	0.524	3e-12
363807098	218	uncharacterized protein LOC100793775 [Gl	0.754	0.353	0.524	2e-11

>gi|255557629|ref|XP_002519844.1| conserved hypothetical protein [Ricinus communis] gi|223540890|gb|EEF42448.1| conserved hypothetical protein [Ricinus communis]

 Score = 89.7 bits (221), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 47/79 (59%), Positives = 61/79 (77%), Gaps = 5/79 (6%)

Query: 10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDD 69
          VEIT+KTIGP+P SRL V SPIKVRDLRKLIA    +HLPI+NLRL+ RG VL D++ D 
Sbjct: 22 VEITLKTIGPSPSSRLLVPSPIKVRDLRKLIAED--HHLPIQNLRLILRGNVLQDSKHD- 78

Query: 70 DRDDVYLQLSNGGNINISL 88
            DD Y++LSN  ++ +++
Sbjct: 79 --DDAYIKLSNSDSLIVAV 95

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224126517|ref|XP_002329574.1| predicted protein [Populus trichocarpa] gi|222870283|gb|EEF07414.1| predicted protein [Populus trichocarpa]

 Score = 89.4 bits (220), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 51/102 (50%), Positives = 68/102 (66%), Gaps = 23/102 (22%)

Query: 3  MGEISES----------------VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSAN 46
          MGEI+E                  EITVKTIGP+PPSRL + SPIKVRDLRKL+A +   
Sbjct: 1  MGEINEEDEAKSNHSNIDDNGNMAEITVKTIGPSPPSRLLLPSPIKVRDLRKLVAEN--R 58

Query: 47 HLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL 88
          HLPIENLRL+ RG VL D++D+DD     ++L+NG ++ +++
Sbjct: 59 HLPIENLRLILRGNVLHDSRDEDD-----IRLNNGDSLIVAV 95

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225427236|ref|XP_002280752.1| PREDICTED: uncharacterized protein LOC100254109 [Vitis vinifera]

 Score = 87.0 bits (214), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 47/81 (58%), Positives = 61/81 (75%), Gaps = 5/81 (6%)

Query: 8  ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQD 67
          + V+IT+KTIGP+PP RL V SPI V DLRKL+A  S  HLPIENLRL+ RG VL DT+D
Sbjct: 19 KMVDITLKTIGPSPPFRLRVPSPITVHDLRKLVA--SNGHLPIENLRLILRGNVLHDTKD 76

Query: 68 DDDRDDVYLQLSNGGNINISL 88
              DDV LQL++G ++ +++
Sbjct: 77 G---DDVSLQLNDGDSLIVAV 94

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297742113|emb|CBI33900.3| unnamed protein product [Vitis vinifera]

 Score = 86.7 bits (213), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 47/79 (59%), Positives = 60/79 (75%), Gaps = 5/79 (6%)

Query: 10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDD 69
          V+IT+KTIGP+PP RL V SPI V DLRKL+A  S  HLPIENLRL+ RG VL DT+D  
Sbjct: 2  VDITLKTIGPSPPFRLRVPSPITVHDLRKLVA--SNGHLPIENLRLILRGNVLHDTKDG- 58

Query: 70 DRDDVYLQLSNGGNINISL 88
            DDV LQL++G ++ +++
Sbjct: 59 --DDVSLQLNDGDSLIVAV 75

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357476699|ref|XP_003608635.1| hypothetical protein MTR_4g098640 [Medicago truncatula] gi|355509690|gb|AES90832.1| hypothetical protein MTR_4g098640 [Medicago truncatula]

 Score = 82.0 bits (201), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 45/84 (53%), Positives = 61/84 (72%), Gaps = 5/84 (5%)

Query: 5  EISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDD 64
          E  ++VEI +KTIGPAPPSRL V S IKVRDLR+LIA  S  HLPI+NL L+ RG  L D
Sbjct: 9  ESEKTVEIVLKTIGPAPPSRLRVPSSIKVRDLRRLIA--SNGHLPIDNLSLILRGTALCD 66

Query: 65 TQDDDDRDDVYLQLSNGGNINISL 88
           ++    DDV +QL++G ++ +++
Sbjct: 67 LKNG---DDVRMQLNDGDSLIVAV 87

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357476697|ref|XP_003608634.1| hypothetical protein MTR_4g098640 [Medicago truncatula] gi|355509689|gb|AES90831.1| hypothetical protein MTR_4g098640 [Medicago truncatula]

 Score = 81.6 bits (200), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 45/84 (53%), Positives = 61/84 (72%), Gaps = 5/84 (5%)

Query: 5  EISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDD 64
          E  ++VEI +KTIGPAPPSRL V S IKVRDLR+LIA  S  HLPI+NL L+ RG  L D
Sbjct: 9  ESEKTVEIVLKTIGPAPPSRLRVPSSIKVRDLRRLIA--SNGHLPIDNLSLILRGTALCD 66

Query: 65 TQDDDDRDDVYLQLSNGGNINISL 88
           ++    DDV +QL++G ++ +++
Sbjct: 67 LKNG---DDVRMQLNDGDSLIVAV 87

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388498058|gb|AFK37095.1| unknown [Medicago truncatula]

 Score = 81.6 bits (200), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 45/84 (53%), Positives = 61/84 (72%), Gaps = 5/84 (5%)

Query: 5  EISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDD 64
          E  ++VEI +KTIGPAPPSRL V S IKVRDLR+LIA  S  HLPI+NL L+ RG  L D
Sbjct: 9  ESEKTVEIVLKTIGPAPPSRLRVPSSIKVRDLRRLIA--SNGHLPIDNLSLILRGTALCD 66

Query: 65 TQDDDDRDDVYLQLSNGGNINISL 88
           ++    DDV +QL++G ++ +++
Sbjct: 67 LKNG---DDVRMQLNDGDSLIVAV 87

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449461997|ref|XP_004148728.1| PREDICTED: uncharacterized protein LOC101223066 [Cucumis sativus] gi|449527539|ref|XP_004170768.1| PREDICTED: uncharacterized protein LOC101231425 [Cucumis sativus]

 Score = 80.1 bits (196), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 41/81 (50%), Positives = 61/81 (75%), Gaps = 5/81 (6%)

Query: 8   ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQD 67
           ++VE+ V+TIGP  PSRL   S IKV DLRKL+A S  N LPI NL+L+ RGK+LDD ++
Sbjct: 30  DTVEVIVRTIGPTRPSRLLTPSTIKVCDLRKLVAES--NRLPIGNLKLILRGKILDDCKN 87

Query: 68  DDDRDDVYLQLSNGGNINISL 88
           +   DDVY++L++G ++ +++
Sbjct: 88  E---DDVYVRLNHGDSLTVAV 105

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351726676|ref|NP_001235343.1| uncharacterized protein LOC100499994 [Glycine max] gi|255628389|gb|ACU14539.1| unknown [Glycine max]

 Score = 75.9 bits (185), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 43/82 (52%), Positives = 60/82 (73%), Gaps = 5/82 (6%)

Query: 7  SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQ 66
          SE VEI ++TIGPA PSRL VSS IKVRDLR+LIA +  ++L I+NL L+ RG  L D +
Sbjct: 14 SEKVEIVLRTIGPARPSRLLVSSSIKVRDLRRLIAGN--DNLQIDNLSLILRGSALYDMK 71

Query: 67 DDDDRDDVYLQLSNGGNINISL 88
          +    DDVY+QL++G  + +++
Sbjct: 72 NG---DDVYIQLNDGDCLIVAV 90

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363807098|ref|NP_001242590.1| uncharacterized protein LOC100793775 [Glycine max] gi|255647291|gb|ACU24112.1| unknown [Glycine max]

 Score = 73.2 bits (178), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 43/82 (52%), Positives = 57/82 (69%), Gaps = 5/82 (6%)

Query: 7  SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQ 66
          SE VEI +KTIGPA PSRL V S IKV DLR+LIA +   +L I NL L+ RG  L DT+
Sbjct: 8  SEKVEIVLKTIGPARPSRLLVPSSIKVCDLRRLIARNE--NLQIYNLSLILRGSALYDTK 65

Query: 67 DDDDRDDVYLQLSNGGNINISL 88
          +    DDVY+QL++G  + +++
Sbjct: 66 NG---DDVYIQLNDGDCLIVAV 84

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	102
TAIR|locus:2062445	225	AT2G35360 "AT2G35360" [Arabido	0.509	0.231	0.537	2.6e-09

TAIR|locus:2062445 AT2G35360 "AT2G35360" [Arabidopsis thaliana (taxid:3702)]

 Score = 137 (53.3 bits), Expect = 2.6e-09, P = 2.6e-09
 Identities = 29/54 (53%), Positives = 37/54 (68%)

Query:     9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVL 62
             +VEIT KTIGPA PS++ V+S IK+RDLR  IA       P+  LR++ RGK L
Sbjct:    17 TVEITYKTIGPARPSQIRVASHIKIRDLRNAIAEKGK--FPVSTLRMILRGKAL 68


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        0.318   0.137   0.376    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      102        91   0.00091  102 3  11 22  0.49    29
                                                     29  0.39    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:  1
  No. of states in DFA:  410 (44 KB)
  Total size of DFA:  72 KB (2062 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:  10.01u 0.15s 10.16t   Elapsed:  00:00:00
  Total cpu time:  10.01u 0.15s 10.16t   Elapsed:  00:00:00
  Start:  Fri May 10 16:39:08 2013   End:  Fri May 10 16:39:08 2013

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

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Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: estExt_fgenesh4_pm.C_1180018 hypothetical protein (231 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	102
cd01809	72	cd01809, Scythe_N, Ubiquitin-like domain of Scythe	2e-06
cd01769	69	cd01769, UBL, Ubiquitin-like domain of UBL	3e-04
cd01805	77	cd01805, RAD23_N, Ubiquitin-like domain of RAD23	0.001

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

 Score = 41.8 bits (99), Expect = 2e-06
 Identities = 20/57 (35%), Positives = 32/57 (56%), Gaps = 3/57 (5%)

Query: 10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQ 66
          +EI VKT+  +     +V   I V DL++ IA      +P+E  RL++ G+VL D +
Sbjct: 1  IEIKVKTLD-SQTHTFTVEEEITVLDLKEKIA--EEVGIPVEQQRLIYSGRVLKDDE 54

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

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

 Score = 35.7 bits (83), Expect = 3e-04
 Identities = 24/72 (33%), Positives = 33/72 (45%), Gaps = 8/72 (11%)

Query: 13 TVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDD--TQDD-- 68
          TVKT+       L VS    V +L+  IA      +P E  RL++ GK+L D  T  D  
Sbjct: 1  TVKTLT-GKTFELEVSPDDTVAELKAKIAAKE--GVPPEQQRLIYAGKILKDDKTLSDYG 57

Query: 69 -DDRDDVYLQLS 79
            D   ++L L 
Sbjct: 58 IQDGSTLHLVLR 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|176400 cd01805, RAD23_N, Ubiquitin-like domain of RAD23

 Score = 34.6 bits (80), Expect = 0.001
 Identities = 11/40 (27%), Positives = 19/40 (47%)

Query: 25 LSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDD 64
          + V     V +L++ I        P E  +L++ GK+L D
Sbjct: 15 IEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKD 54

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	102
cd01807	74	GDX_N ubiquitin-like domain of GDX. GDX contains a	99.88
cd01791	73	Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also know	99.87
cd01797	78	NIRF_N amino-terminal ubiquitin-like domain of Np9	99.86
cd01792	80	ISG15_repeat1 ISG15 ubiquitin-like protein, first	99.85
cd01802	103	AN1_N ubiquitin-like domain of AN1. AN1 (also know	99.85
cd01804	78	midnolin_N Ubiquitin-like domain of midnolin. midn	99.85
cd01793	74	Fubi Fubi ubiquitin-like protein. Fubi is a ubiqui	99.85
PTZ00044	76	ubiquitin; Provisional	99.85
cd01805	77	RAD23_N Ubiquitin-like domain of RAD23. RAD23 belo	99.84
cd01810	74	ISG15_repeat2 ISG15 ubiquitin-like protein, second	99.84
cd01806	76	Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also kn	99.83
cd01794	70	DC_UbP_C dendritic cell derived ubiquitin-like pro	99.83
cd01790	79	Herp_N Homocysteine-responsive endoplasmic reticul	99.83
cd01798	70	parkin_N amino-terminal ubiquitin-like of parkin p	99.82
cd01803	76	Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40	99.82
cd01808	71	hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC	99.82
cd01809	72	Scythe_N Ubiquitin-like domain of Scythe protein.	99.81
PF00240	69	ubiquitin: Ubiquitin family; InterPro: IPR000626 U	99.78
cd01796	71	DDI1_N DNA damage inducible protein 1 ubiquitin-li	99.78
cd01812	71	BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-ter	99.77
cd01763	87	Sumo Small ubiquitin-related modifier (SUMO). Smal	99.73
cd01800	76	SF3a120_C Ubiquitin-like domain of Mammalian splic	99.73
cd01813	74	UBP_N UBP ubiquitin processing protease. The UBP (	99.72
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	99.72
KOG0005	70	consensus Ubiquitin-like protein [Cell cycle contr	99.69
KOG0010	493	consensus Ubiquitin-like protein [Posttranslationa	99.68
smart00213	64	UBQ Ubiquitin homologues. Ubiquitin-mediated prote	99.66
cd01814	113	NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and AT	99.66
cd01815	75	BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC	99.65
KOG0004	156	consensus Ubiquitin/40S ribosomal protein S27a fus	99.64
cd01799	75	Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HO	99.6
KOG0011	340	consensus Nucleotide excision repair factor NEF2,	99.56
cd01769	69	UBL Ubiquitin-like domain of UBL. UBLs function by	99.54
KOG0003	128	consensus Ubiquitin/60s ribosomal protein L40 fusi	99.54
PF11976	72	Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; Inter	99.45
cd01795	107	USP48_C USP ubiquitin-specific protease. The USP (	99.36
cd01789	84	Alp11_N Ubiquitin-like domain of Alp11 tubulin-fol	99.35
cd01801	77	Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-	99.33
PLN02560	308	enoyl-CoA reductase	99.32
KOG4248	1143	consensus Ubiquitin-like protein, regulator of apo	99.23
KOG0001	75	consensus Ubiquitin and ubiquitin-like proteins [P	99.17
PF13881	111	Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB	99.16
PF14560	87	Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2K	99.09
cd01788	119	ElonginB Ubiquitin-like domain of Elongin B. Elong	99.04
PF11543	80	UN_NPL4: Nuclear pore localisation protein NPL4; I	98.92
cd00196	69	UBQ Ubiquitin-like proteins. Ubiquitin homologs; I	98.82
KOG1872	473	consensus Ubiquitin-specific protease [Posttransla	98.3
KOG1769	99	consensus Ubiquitin-like proteins [Posttranslation	98.2
PF10302	97	DUF2407: DUF2407 ubiquitin-like domain; InterPro:	98.17
KOG0006	446	consensus E3 ubiquitin-protein ligase (Parkin prot	97.92
KOG3493	73	consensus Ubiquitin-like protein [Posttranslationa	97.91
PF08817	79	YukD: WXG100 protein secretion system (Wss), prote	97.84
PF00789	82	UBX: UBX domain; InterPro: IPR001012 The UBX domai	97.81
cd01811	80	OASL_repeat1 2'-5' oligoadenylate synthetase-like	97.8
KOG4495	110	consensus RNA polymerase II transcription elongati	97.66
KOG1639	297	consensus Steroid reductase required for elongatio	97.6
KOG4583	391	consensus Membrane-associated ER protein involved	97.58
smart00166	80	UBX Domain present in ubiquitin-regulatory protein	97.42
PF13019	162	Telomere_Sde2: Telomere stability and silencing	97.16
cd01774	85	Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 i	97.1
COG5417	81	Uncharacterized small protein [Function unknown]	97.07
cd01772	79	SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-subst	97.04
cd01767	77	UBX UBX (ubiquitin regulatory X) domain. The UBX (	96.83
PF11470	65	TUG-UBL1: GLUT4 regulating protein TUG; InterPro:	96.79
KOG3206	234	consensus Alpha-tubulin folding cofactor B [Posttr	96.72
cd01771	80	Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated fac	96.58
cd01773	82	Faf1_like1_UBX Faf1 ike-1 UBX domain. Faf1_like1 i	96.56
cd01770	79	p47_UBX p47-like ubiquitin domain. p47_UBX p47 is	96.33
KOG0013	231	consensus Uncharacterized conserved protein [Funct	96.22
COG5227	103	SMT3 Ubiquitin-like protein (sentrin) [Posttransla	95.91
PRK06437	67	hypothetical protein; Provisional	95.38
PLN02799	82	Molybdopterin synthase sulfur carrier subunit	95.28
cd06406	80	PB1_P67 A PB1 domain is present in p67 proteins wh	95.27
PF15044	76	CLU_N: Mitochondrial function, CLU-N-term	95.21
PRK08364	70	sulfur carrier protein ThiS; Provisional	95.06
cd00754	80	MoaD Ubiquitin domain of MoaD-like proteins. MoaD	94.48
PF14453	57	ThiS-like: ThiS-like ubiquitin	94.38
PF14732	87	UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquiti	94.06
cd06409	86	PB1_MUG70 The MUG70 protein is a product of the me	93.8
smart00666	81	PB1 PB1 domain. Phox and Bem1p domain, present in	93.53
PF10790	76	DUF2604: Protein of Unknown function (DUF2604); In	93.35
KOG0012	380	consensus DNA damage inducible protein [Replicatio	92.56
TIGR01682	80	moaD molybdopterin converting factor, subunit 1, n	92.53
cd06407	82	PB1_NLP A PB1 domain is present in NIN like protei	92.09
cd01760	72	RBD Ubiquitin-like domain of RBD-like S/T kinases.	91.63
PF09379	80	FERM_N: FERM N-terminal domain ; InterPro: IPR0189	91.46
PRK07440	70	hypothetical protein; Provisional	91.25
cd01775	97	CYR1_RA Ubiquitin domain of CYR1 adenylate cyclase	91.24
PF14836	88	Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A	90.94
smart00295	207	B41 Band 4.1 homologues. Also known as ezrin/radix	90.75
PF00564	84	PB1: PB1 domain; InterPro: IPR000270 The Phox and	90.65
KOG2982	418	consensus Uncharacterized conserved protein [Funct	90.58
PF11620	88	GABP-alpha: GA-binding protein alpha chain; InterP	89.96
cd00565	65	ThiS ThiaminS ubiquitin-like sulfur carrier protei	89.77
PF02597	77	ThiS: ThiS family; InterPro: IPR003749 ThiS (thiam	89.35
PF08783	74	DWNN: DWNN domain; InterPro: IPR014891 The ~75-res	89.3
COG5100	571	NPL4 Nuclear pore protein [Nuclear structure]	88.54
PF12754	309	Blt1: Cell-cycle control medial ring component; In	88.48
COG2104	68	ThiS Sulfur transfer protein involved in thiamine	87.78
cd05992	81	PB1 The PB1 domain is a modular domain mediating s	87.77
PF10209	122	DUF2340: Uncharacterized conserved protein (DUF234	87.61
TIGR01687	88	moaD_arch MoaD family protein, archaeal. Members o	87.36
PF08337	539	Plexin_cytopl: Plexin cytoplasmic RasGAP domain; I	87.26
TIGR01683	64	thiS thiamine biosynthesis protein ThiS. This mode	87.13
smart00455	70	RBD Raf-like Ras-binding domain.	86.61
PRK05863	65	sulfur carrier protein ThiS; Provisional	86.15
PRK05659	66	sulfur carrier protein ThiS; Validated	85.45
PRK06488	65	sulfur carrier protein ThiS; Validated	84.26
PF11834	69	DUF3354: Domain of unknown function (DUF3354); Int	83.86
PRK11130	81	moaD molybdopterin synthase small subunit; Provisi	82.04
PRK06083	84	sulfur carrier protein ThiS; Provisional	81.07

>cd01807 GDX_N ubiquitin-like domain of GDX

Probab=99.88  E-value=2e-22  Score=125.61  Aligned_cols=74  Identities=27%  Similarity=0.356  Sum_probs=70.4

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+|+||+.+|+.+ .++|++++||++||++|++  +.|+|+++|||+|+|+.|+|+.+     |++|||++|++||++++
T Consensus         1 m~i~vk~~~G~~~-~l~v~~~~tV~~lK~~i~~--~~gi~~~~q~L~~~G~~L~d~~~-----L~~~~i~~~~~l~l~~~   72 (74)
T cd01807           1 MFLTVKLLQGREC-SLQVSEKESVSTLKKLVSE--HLNVPEEQQRLLFKGKALADDKR-----LSDYSIGPNAKLNLVVR   72 (74)
T ss_pred             CEEEEEeCCCCEE-EEEECCCCcHHHHHHHHHH--HHCCCHHHeEEEECCEECCCCCC-----HHHCCCCCCCEEEEEEc
Confidence            7899999999988 8999999999999999999  99999999999999999998888     99999999999999988


Q ss_pred             cC
Q 034173           90 NL   91 (102)
Q Consensus        90 ~~   91 (102)
                      .|
T Consensus        73 ~~   74 (74)
T cd01807          73 PP   74 (74)
T ss_pred             CC
Confidence            54

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

>cd01791 Ubl5 UBL5 ubiquitin-like modifier

Probab=99.87  E-value=5.3e-22  Score=124.55  Aligned_cols=71  Identities=18%  Similarity=0.183  Sum_probs=67.0

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      +|+|+||++.|+.+ .+++++++||++||++|++  +.++|+++|||+|.|++|+|+.+     |++|||++|++||+-
T Consensus         1 ~~~i~vkt~~Gk~~-~~~v~~~~TV~~LK~~I~~--~~~~~~~~qrLi~~Gk~L~D~~t-----L~~ygi~~~stv~l~   71 (73)
T cd01791           1 MIEVVCNDRLGKKV-RVKCNPDDTIGDLKKLIAA--QTGTRPEKIVLKKWYTIFKDHIS-----LGDYEIHDGMNLELY   71 (73)
T ss_pred             CEEEEEECCCCCEE-EEEeCCCCcHHHHHHHHHH--HhCCChHHEEEEeCCcCCCCCCC-----HHHcCCCCCCEEEEE
Confidence            48999999999988 8999999999999999998  88999999999999999988888     999999999999974

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

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

Probab=99.86  E-value=1.7e-21  Score=123.39  Aligned_cols=75  Identities=23%  Similarity=0.263  Sum_probs=69.1

Q ss_pred             EEEEEEcCCCCCceEEE-ecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173           10 VEITVKTIGPAPPSRLS-VSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~-v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      |+|+||+.+|+....++ ++++.||++||++|++  ..|+|+++|||+|+||.|+|+.+     |++|||++|++|++++
T Consensus         1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~--~~gi~~~~QrLi~~Gk~L~D~~t-----L~~y~i~~~~~i~l~~   73 (78)
T cd01797           1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQE--LFNVEPECQRLFYRGKQMEDGHT-----LFDYNVGLNDIIQLLV   73 (78)
T ss_pred             CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHH--HhCCCHHHeEEEeCCEECCCCCC-----HHHcCCCCCCEEEEEE
Confidence            79999999998732775 7899999999999999  99999999999999999999888     9999999999999999


Q ss_pred             ecC
Q 034173           89 FNL   91 (102)
Q Consensus        89 ~~~   91 (102)
                      +.-
T Consensus        74 ~~~   76 (78)
T cd01797          74 RQD   76 (78)
T ss_pred             ecC
Confidence            863

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.

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

Probab=99.85  E-value=1.8e-21  Score=123.23  Aligned_cols=76  Identities=24%  Similarity=0.288  Sum_probs=71.8

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEE--EeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRL--VFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrL--i~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      |+|+||+.+|+.+ .+++++++||++||++|++  ..++|+++|||  +|+|++|+|+.+     |++|||++|++|+++
T Consensus         3 ~~i~Vk~~~G~~~-~~~v~~~~TV~~lK~~I~~--~~~i~~~~qrL~~~~~G~~L~D~~t-----L~~~gi~~gs~l~l~   74 (80)
T cd01792           3 WDLKVKMLGGNEF-LVSLRDSMTVSELKQQIAQ--KIGVPAFQQRLAHLDSREVLQDGVP-----LVSQGLGPGSTVLLV   74 (80)
T ss_pred             eEEEEEeCCCCEE-EEEcCCCCcHHHHHHHHHH--HhCCCHHHEEEEeccCCCCCCCCCC-----HHHcCCCCCCEEEEE
Confidence            8999999999988 8999999999999999998  88999999999  999999988888     999999999999999


Q ss_pred             EecCCC
Q 034173           88 LFNLDD   93 (102)
Q Consensus        88 ~~~~~~   93 (102)
                      ++++.+
T Consensus        75 ~~~~~~   80 (80)
T cd01792          75 VQNCSE   80 (80)
T ss_pred             EEccCC
Confidence            998853

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.

>cd01802 AN1_N ubiquitin-like domain of AN1

Probab=99.85  E-value=3.8e-21  Score=127.74  Aligned_cols=77  Identities=18%  Similarity=0.223  Sum_probs=73.0

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      ++.|+|+||+++|+.+ .++|++++||.+||++|++  +.|+|+++|||+|+|+.|+|+.+     |++|+|++|++||+
T Consensus        25 ~~~M~I~Vk~l~G~~~-~leV~~~~TV~~lK~kI~~--~~gip~~~QrLi~~Gk~L~D~~t-----L~dy~I~~~stL~l   96 (103)
T cd01802          25 YDTMELFIETLTGTCF-ELRVSPFETVISVKAKIQR--LEGIPVAQQHLIWNNMELEDEYC-----LNDYNISEGCTLKL   96 (103)
T ss_pred             CCCEEEEEEcCCCCEE-EEEeCCCCcHHHHHHHHHH--HhCCChHHEEEEECCEECCCCCc-----HHHcCCCCCCEEEE
Confidence            5679999999999988 8999999999999999998  99999999999999999998888     99999999999999


Q ss_pred             EEecC
Q 034173           87 SLFNL   91 (102)
Q Consensus        87 ~~~~~   91 (102)
                      +++.+
T Consensus        97 ~~~l~  101 (103)
T cd01802          97 VLAMR  101 (103)
T ss_pred             EEecC
Confidence            99865

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.

>cd01804 midnolin_N Ubiquitin-like domain of midnolin

Probab=99.85  E-value=4.4e-21  Score=121.20  Aligned_cols=75  Identities=21%  Similarity=0.249  Sum_probs=69.4

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      .|+|+||+..|+.+ ++++++++||++||++|++  +.++|+++|||+|+|++|+|+ +     |++|||++|++||++.
T Consensus         1 ~m~I~Vk~~~G~~~-~l~v~~~~TV~~LK~~I~~--~~~~~~~~qrL~~~Gk~L~d~-~-----L~~~gi~~~~~i~l~~   71 (78)
T cd01804           1 PMNLNIHSTTGTRF-DLSVPPDETVEGLKKRISQ--RLKVPKERLALLHRETRLSSG-K-----LQDLGLGDGSKLTLVP   71 (78)
T ss_pred             CeEEEEEECCCCEE-EEEECCcCHHHHHHHHHHH--HhCCChHHEEEEECCcCCCCC-c-----HHHcCCCCCCEEEEEe
Confidence            48999999999887 8999999999999999998  889999999999999999887 7     9999999999999987


Q ss_pred             ecCC
Q 034173           89 FNLD   92 (102)
Q Consensus        89 ~~~~   92 (102)
                      .-+.
T Consensus        72 ~~~~   75 (78)
T cd01804          72 TVEA   75 (78)
T ss_pred             eccc
Confidence            6543

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.

>cd01793 Fubi Fubi ubiquitin-like protein

Probab=99.85  E-value=5.4e-21  Score=119.21  Aligned_cols=73  Identities=16%  Similarity=0.201  Sum_probs=67.2

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+|+||+.  +.. .++|++++||++||++|++  +.|+|+++|||+|+|+.|+|+.+     |++|+|++++|||++++
T Consensus         1 mqi~vk~~--~~~-~l~v~~~~tV~~lK~~i~~--~~gip~~~q~Li~~Gk~L~D~~t-----L~~~~i~~~~tl~l~~~   70 (74)
T cd01793           1 MQLFVRAQ--NTH-TLEVTGQETVSDIKAHVAG--LEGIDVEDQVLLLAGVPLEDDAT-----LGQCGVEELCTLEVAGR   70 (74)
T ss_pred             CEEEEECC--CEE-EEEECCcCcHHHHHHHHHh--hhCCCHHHEEEEECCeECCCCCC-----HHHcCCCCCCEEEEEEe
Confidence            78999984  455 8999999999999999999  99999999999999999998888     99999999999999998


Q ss_pred             cCC
Q 034173           90 NLD   92 (102)
Q Consensus        90 ~~~   92 (102)
                      -+.
T Consensus        71 l~G   73 (74)
T cd01793          71 LLG   73 (74)
T ss_pred             cCC
Confidence            653

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.

>PTZ00044 ubiquitin; Provisional

Probab=99.85  E-value=6.3e-21  Score=118.71  Aligned_cols=75  Identities=16%  Similarity=0.308  Sum_probs=71.0

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+|+||+.+|+.+ .++++++.||.+||++|++  ..|+|+++|||+|+|+.|.|+.+     |++|+|++|++||++++
T Consensus         1 m~i~vk~~~G~~~-~l~v~~~~tv~~lK~~i~~--~~gi~~~~q~L~~~g~~L~d~~~-----l~~~~i~~~~~i~l~~~   72 (76)
T PTZ00044          1 MQILIKTLTGKKQ-SFNFEPDNTVQQVKMALQE--KEGIDVKQIRLIYSGKQMSDDLK-----LSDYKVVPGSTIHMVLQ   72 (76)
T ss_pred             CEEEEEeCCCCEE-EEEECCCCcHHHHHHHHHH--HHCCCHHHeEEEECCEEccCCCc-----HHHcCCCCCCEEEEEEE
Confidence            7899999999988 8999999999999999999  99999999999999999988888     99999999999999998


Q ss_pred             cCC
Q 034173           90 NLD   92 (102)
Q Consensus        90 ~~~   92 (102)
                      ..+
T Consensus        73 ~~g   75 (76)
T PTZ00044         73 LRG   75 (76)
T ss_pred             ccC
Confidence            653

>cd01805 RAD23_N Ubiquitin-like domain of RAD23

Probab=99.84  E-value=8.4e-21  Score=118.26  Aligned_cols=74  Identities=20%  Similarity=0.296  Sum_probs=70.2

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCC--CCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHL--PIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~i--p~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      |+|+||+.+|+.+ .+++++++||.+||++|++  ..++  |+++|||+|+|+.|+|+.+     |++|||++|++|+++
T Consensus         1 m~i~vk~~~g~~~-~l~v~~~~TV~~lK~~i~~--~~~i~~~~~~q~L~~~G~~L~d~~~-----L~~~~i~~~~~i~~~   72 (77)
T cd01805           1 MKITFKTLKQQTF-PIEVDPDDTVAELKEKIEE--EKGCDYPPEQQKLIYSGKILKDDTT-----LEEYKIDEKDFVVVM   72 (77)
T ss_pred             CEEEEEeCCCCEE-EEEECCCCcHHHHHHHHHH--hhCCCCChhHeEEEECCEEccCCCC-----HHHcCCCCCCEEEEE
Confidence            7899999999888 8999999999999999999  8898  9999999999999988888     999999999999999


Q ss_pred             EecC
Q 034173           88 LFNL   91 (102)
Q Consensus        88 ~~~~   91 (102)
                      ++.+
T Consensus        73 ~~~~   76 (77)
T cd01805          73 VSKP   76 (77)
T ss_pred             EecC
Confidence            9875

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).

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

Probab=99.84  E-value=1.1e-20  Score=117.78  Aligned_cols=72  Identities=17%  Similarity=0.208  Sum_probs=68.4

Q ss_pred             EEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEecC
Q 034173           12 ITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLFNL   91 (102)
Q Consensus        12 I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~~~   91 (102)
                      |+||++.|+.+ ++++++++||++||++|++  ..|+|+++|||+|+|+.|+|+.+     |++|||++|++|+++++..
T Consensus         1 i~vk~~~g~~~-~l~v~~~~tV~~lK~~I~~--~~gi~~~~q~L~~~G~~L~D~~t-----L~~~~i~~~~tl~l~~~l~   72 (74)
T cd01810           1 ILVRNDKGRSS-IYEVQLTQTVATLKQQVSQ--RERVQADQFWLSFEGRPMEDEHP-----LGEYGLKPGCTVFMNLRLR   72 (74)
T ss_pred             CEEECCCCCEE-EEEECCcChHHHHHHHHHH--HhCCCHHHeEEEECCEECCCCCC-----HHHcCCCCCCEEEEEEEcc
Confidence            68999999988 9999999999999999998  99999999999999999998888     9999999999999998864

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.

>cd01806 Nedd8 Nebb8-like ubiquitin protein

Probab=99.83  E-value=2.1e-20  Score=115.58  Aligned_cols=75  Identities=20%  Similarity=0.360  Sum_probs=70.6

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+|+||+.+|+.+ .++++++.||++||++|++  ..++|+++|||+|+|+.|.|+.+     |++|+|++|++||++++
T Consensus         1 m~i~v~~~~g~~~-~~~v~~~~tv~~lK~~i~~--~~g~~~~~qrL~~~g~~L~d~~t-----l~~~~i~~g~~i~l~~~   72 (76)
T cd01806           1 MLIKVKTLTGKEI-EIDIEPTDKVERIKERVEE--KEGIPPQQQRLIYSGKQMNDDKT-----AADYKLEGGSVLHLVLA   72 (76)
T ss_pred             CEEEEEeCCCCEE-EEEECCCCCHHHHHHHHhH--hhCCChhhEEEEECCeEccCCCC-----HHHcCCCCCCEEEEEEE
Confidence            7899999999988 8999999999999999998  89999999999999999988888     99999999999999998


Q ss_pred             cCC
Q 034173           90 NLD   92 (102)
Q Consensus        90 ~~~   92 (102)
                      ..+
T Consensus        73 ~~g   75 (76)
T cd01806          73 LRG   75 (76)
T ss_pred             ccC
Confidence            653

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.

>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein

Probab=99.83  E-value=9.4e-21  Score=117.82  Aligned_cols=69  Identities=23%  Similarity=0.239  Sum_probs=65.6

Q ss_pred             EEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173           12 ITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus        12 I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      ++||.++|+.+ .+++++++||++||++|++  ..|+|+++|||+|+|++|+|+.+     |++|+|++|++|||++
T Consensus         1 ~~vk~~~G~~~-~l~v~~~~TV~~lK~~I~~--~~gi~~~~q~Li~~G~~L~D~~~-----l~~~~i~~~~tv~~~~   69 (70)
T cd01794           1 LKVRLSTGKDV-KLSVSSKDTVGQLKKQLQA--AEGVDPCCQRWFFSGKLLTDKTR-----LQETKIQKDYVVQVIV   69 (70)
T ss_pred             CeEEcCCCCEE-EEEECCcChHHHHHHHHHH--HhCCCHHHeEEEECCeECCCCCC-----HHHcCCCCCCEEEEEe
Confidence            46899999998 9999999999999999998  89999999999999999998888     9999999999999987

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.

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

Probab=99.83  E-value=2.6e-20  Score=118.81  Aligned_cols=73  Identities=15%  Similarity=0.158  Sum_probs=63.7

Q ss_pred             cEEEEEEcCCCCCc-eEEEecCCCcHHHHHHHHHhccCC--CCCCCceEEEeCCeecCCCCCCCCCCccccC--CCCCCE
Q 034173            9 SVEITVKTIGPAPP-SRLSVSSPIKVRDLRKLIATSSAN--HLPIENLRLVFRGKVLDDTQDDDDRDDVYLQ--LSNGGN   83 (102)
Q Consensus         9 ~i~I~vK~~~~~~~-~~l~v~~~~TV~~LK~~Ia~~~~~--~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~--I~~g~t   83 (102)
                      +|+|+||+++++.+ ..+++++++||++||++|++  ..  .+|+++|||||+||+|+|+.+     |++|+  +.+|.|
T Consensus         1 ~i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~--~~~~~~~~~~QrLIy~GKiLkD~~t-----L~~~~~~~~~~~t   73 (79)
T cd01790           1 PVTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSR--VYPSKPLEQDQRLIYSGKLLPDHLK-----LRDVLRKQDEYHM   73 (79)
T ss_pred             CeEEEEECCCCCeEEEEEecCCcChHHHHHHHHHH--hcCCCCChhHeEEEEcCeeccchhh-----HHHHhhcccCCce
Confidence            48999999999985 14555899999999999998  54  466899999999999998888     99996  999999


Q ss_pred             EEEEE
Q 034173           84 INISL   88 (102)
Q Consensus        84 i~l~~   88 (102)
                      |||+.
T Consensus        74 iHLV~   78 (79)
T cd01790          74 VHLVC   78 (79)
T ss_pred             EEEEe
Confidence            99975

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.

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

Probab=99.82  E-value=2e-20  Score=115.25  Aligned_cols=70  Identities=20%  Similarity=0.294  Sum_probs=66.4

Q ss_pred             EEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           12 ITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        12 I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+||+.+|+.+ .+++++++||++||++|++  +.|+|+++|||+|+|+.|+|+.+     |++|||++|+|||++.|
T Consensus         1 i~vk~~~g~~~-~~~v~~~~tV~~lK~~i~~--~~gi~~~~q~Li~~G~~L~d~~~-----l~~~~i~~~stl~l~~~   70 (70)
T cd01798           1 VYVRTNTGHTF-PVEVDPDTDIKQLKEVVAK--RQGVPPDQLRVIFAGKELRNTTT-----IQECDLGQQSILHAVRR   70 (70)
T ss_pred             CEEEcCCCCEE-EEEECCCChHHHHHHHHHH--HHCCCHHHeEEEECCeECCCCCc-----HHHcCCCCCCEEEEEeC
Confidence            58999999988 8999999999999999999  99999999999999999998888     99999999999999864

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.

>cd01803 Ubiquitin Ubiquitin

Probab=99.82  E-value=4.3e-20  Score=114.18  Aligned_cols=74  Identities=22%  Similarity=0.329  Sum_probs=70.2

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+|+||+.+|+.+ .+++++++||++||++|++  ..++|+++|||+|+|+.|.|+.+     |++|++++|++||++++
T Consensus         1 m~i~v~~~~g~~~-~~~v~~~~tV~~lK~~i~~--~~g~~~~~q~L~~~g~~L~d~~~-----L~~~~i~~~~~i~l~~~   72 (76)
T cd01803           1 MQIFVKTLTGKTI-TLEVEPSDTIENVKAKIQD--KEGIPPDQQRLIFAGKQLEDGRT-----LSDYNIQKESTLHLVLR   72 (76)
T ss_pred             CEEEEEcCCCCEE-EEEECCcCcHHHHHHHHHH--HhCCCHHHeEEEECCEECCCCCc-----HHHcCCCCCCEEEEEEE
Confidence            7899999999988 8999999999999999998  99999999999999999988888     99999999999999998


Q ss_pred             cC
Q 034173           90 NL   91 (102)
Q Consensus        90 ~~   91 (102)
                      ..
T Consensus        73 ~~   74 (76)
T cd01803          73 LR   74 (76)
T ss_pred             cc
Confidence            54

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

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

Probab=99.82  E-value=4e-20  Score=114.36  Aligned_cols=71  Identities=23%  Similarity=0.399  Sum_probs=66.2

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+|+||+.+|+ . .+++++++||.+||++|++  ..++|+++|||+|+|+.|.|+.+     |++|||++|++||++++
T Consensus         1 ~~i~vk~~~g~-~-~l~v~~~~TV~~lK~~I~~--~~~i~~~~~~Li~~Gk~L~d~~t-----L~~~~i~~~stl~l~~~   71 (71)
T cd01808           1 IKVTVKTPKDK-E-EIEIAEDASVKDFKEAVSK--KFKANQEQLVLIFAGKILKDTDT-----LTQHNIKDGLTVHLVIK   71 (71)
T ss_pred             CEEEEEcCCCC-E-EEEECCCChHHHHHHHHHH--HhCCCHHHEEEEECCeEcCCCCc-----HHHcCCCCCCEEEEEEC
Confidence            57999999986 4 8999999999999999998  88999999999999999988888     99999999999999874

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.

>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein

Probab=99.81  E-value=7.6e-20  Score=112.03  Aligned_cols=72  Identities=31%  Similarity=0.505  Sum_probs=68.0

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+|+||+++|+.. .++++++.||.+||++|++  ..|+|+++|||+|+|+.|+|+.+     |++|||++|++||+.++
T Consensus         1 i~i~vk~~~g~~~-~~~v~~~~tv~~lK~~i~~--~~gi~~~~q~L~~~g~~L~d~~~-----L~~~~i~~~~~l~l~~~   72 (72)
T cd01809           1 IEIKVKTLDSQTH-TFTVEEEITVLDLKEKIAE--EVGIPVEQQRLIYSGRVLKDDET-----LSEYKVEDGHTIHLVKR   72 (72)
T ss_pred             CEEEEEeCCCCEE-EEEECCCCcHHHHHHHHHH--HHCcCHHHeEEEECCEECCCcCc-----HHHCCCCCCCEEEEEeC
Confidence            7899999999887 8999999999999999998  99999999999999999988888     99999999999999764

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.

>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=99.78  E-value=4.5e-19  Score=108.19  Aligned_cols=68  Identities=29%  Similarity=0.423  Sum_probs=64.1

Q ss_pred             EcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEec
Q 034173           15 KTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLFN   90 (102)
Q Consensus        15 K~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~~   90 (102)
                      |+++|+.+ .++|+++.||.+||++|++  ..++|+++|+|+|+|+.|+|+.+     |.+|||++|++|++++++
T Consensus         1 k~~~g~~~-~~~v~~~~tV~~lK~~i~~--~~~~~~~~~~L~~~G~~L~d~~t-----L~~~~i~~~~~I~l~~k~   68 (69)
T PF00240_consen    1 KTLSGKTF-TLEVDPDDTVADLKQKIAE--ETGIPPEQQRLIYNGKELDDDKT-----LSDYGIKDGSTIHLVIKP   68 (69)
T ss_dssp             EETTSEEE-EEEEETTSBHHHHHHHHHH--HHTSTGGGEEEEETTEEESTTSB-----TGGGTTSTTEEEEEEESS
T ss_pred             CCCCCcEE-EEEECCCCCHHHhhhhccc--ccccccccceeeeeeecccCcCc-----HHHcCCCCCCEEEEEEec
Confidence            67888877 9999999999999999999  99999999999999999988888     999999999999998875

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 ....

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

Probab=99.78  E-value=5.4e-19  Score=109.76  Aligned_cols=67  Identities=19%  Similarity=0.353  Sum_probs=62.2

Q ss_pred             EEEEcC-CCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCC-CCCCCCCccccCCCCCCEEEE
Q 034173           12 ITVKTI-GPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDT-QDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus        12 I~vK~~-~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~-~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      |+||+. +|+.+ .+++++++||++||++|++  ..|+|+++|||+|+|+.|.|+ .+     |++|||++|++|||
T Consensus         1 l~v~~~~~g~~~-~l~v~~~~TV~~lK~~I~~--~~gip~~~q~Li~~Gk~L~D~~~~-----L~~~gi~~~~~l~l   69 (71)
T cd01796           1 ITVYTARSETTF-SLDVDPDLELENFKALCEA--ESGIPASQQQLIYNGRELVDNKRL-----LALYGVKDGDLVVL   69 (71)
T ss_pred             CEEEECCCCCEE-EEEECCcCCHHHHHHHHHH--HhCCCHHHeEEEECCeEccCCccc-----HHHcCCCCCCEEEE
Confidence            578999 88777 8999999999999999998  999999999999999999876 57     99999999999997

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.

>cd01812 BAG1_N Ubiquitin-like domain of BAG1

Probab=99.77  E-value=1.1e-18  Score=106.89  Aligned_cols=70  Identities=24%  Similarity=0.366  Sum_probs=64.6

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      |+|+||+. |+.. ++++++++||.+||++|++  ..|+|+++|||+|+|+.|.|+.+     |++|||++|++|+++.
T Consensus         1 i~i~vk~~-g~~~-~i~v~~~~tv~~lK~~i~~--~~gi~~~~q~L~~~g~~l~d~~~-----L~~~~i~~g~~l~v~~   70 (71)
T cd01812           1 IRVRVKHG-GESH-DLSISSQATFGDLKKMLAP--VTGVEPRDQKLIFKGKERDDAET-----LDMSGVKDGSKVMLLE   70 (71)
T ss_pred             CEEEEEEC-CEEE-EEEECCCCcHHHHHHHHHH--hhCCChHHeEEeeCCcccCccCc-----HHHcCCCCCCEEEEec
Confidence            68999996 6666 8999999999999999998  99999999999999999988777     9999999999999864

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).

>cd01763 Sumo Small ubiquitin-related modifier (SUMO)

Probab=99.73  E-value=3.6e-17  Score=105.15  Aligned_cols=80  Identities=23%  Similarity=0.380  Sum_probs=74.6

Q ss_pred             CCCCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCE
Q 034173            4 GEISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGN   83 (102)
Q Consensus         4 ~~~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~t   83 (102)
                      ++.+..|+|+|++..|+.. .+.|.+++|+..||+++++  +.++|+++|||+|.|+.|.++.|     +++|++++|++
T Consensus         6 ~~~~~~i~I~v~~~~g~~~-~~~v~~~~~l~~l~~~y~~--~~gi~~~~~rf~f~G~~L~~~~T-----~~~l~m~d~d~   77 (87)
T cd01763           6 GEISEHINLKVKGQDGNEV-FFKIKRSTPLKKLMEAYCQ--RQGLSMNSVRFLFDGQRIRDNQT-----PDDLGMEDGDE   77 (87)
T ss_pred             CCCCCeEEEEEECCCCCEE-EEEEcCCCHHHHHHHHHHH--HhCCCccceEEEECCeECCCCCC-----HHHcCCCCCCE
Confidence            4567789999999999988 8999999999999999999  99999999999999999998888     99999999999


Q ss_pred             EEEEEecC
Q 034173           84 INISLFNL   91 (102)
Q Consensus        84 i~l~~~~~   91 (102)
                      |+++++-.
T Consensus        78 I~v~l~l~   85 (87)
T cd01763          78 IEVMLEQT   85 (87)
T ss_pred             EEEEEecc
Confidence            99998754

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.

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

Probab=99.73  E-value=1.1e-17  Score=104.89  Aligned_cols=68  Identities=19%  Similarity=0.294  Sum_probs=62.8

Q ss_pred             CCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEecCC
Q 034173           17 IGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLFNLD   92 (102)
Q Consensus        17 ~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~~~~   92 (102)
                      ++|+.+ ++++++++||.+||++|++  ..|+|+++|+|+|+|+.|+|+.+     |++|+|++|++|+|+++..+
T Consensus         5 l~g~~~-~l~v~~~~TV~~lK~~i~~--~~gip~~~q~L~~~G~~L~d~~t-----L~~~~i~~g~~l~v~~~~~g   72 (76)
T cd01800           5 LNGQML-NFTLQLSDPVSVLKVKIHE--ETGMPAGKQKLQYEGIFIKDSNS-----LAYYNLANGTIIHLQLKERG   72 (76)
T ss_pred             cCCeEE-EEEECCCCcHHHHHHHHHH--HHCCCHHHEEEEECCEEcCCCCc-----HHHcCCCCCCEEEEEEecCC
Confidence            366766 8999999999999999998  99999999999999999988888     99999999999999998764

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.

>cd01813 UBP_N UBP ubiquitin processing protease

Probab=99.72  E-value=1.2e-17  Score=104.83  Aligned_cols=69  Identities=26%  Similarity=0.252  Sum_probs=62.5

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEe---CCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVF---RGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~---~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      |+|.||- +|+.+ .++|++++||++||++|++  .+++|+++|||+|   +|+.++|+.+     |++|+|++|++|++
T Consensus         1 ~~i~vk~-~g~~~-~v~v~~~~Tv~~lK~~i~~--~tgvp~~~QKLi~~~~~Gk~l~D~~~-----L~~~~i~~g~~i~l   71 (74)
T cd01813           1 VPVIVKW-GGQEY-SVTTLSEDTVLDLKQFIKT--LTGVLPERQKLLGLKVKGKPAEDDVK-----ISALKLKPNTKIMM   71 (74)
T ss_pred             CEEEEEE-CCEEE-EEEECCCCCHHHHHHHHHH--HHCCCHHHEEEEeecccCCcCCCCcC-----HHHcCCCCCCEEEE
Confidence            5677887 55666 8999999999999999999  9999999999996   9999988888     99999999999998


Q ss_pred             E
Q 034173           87 S   87 (102)
Q Consensus        87 ~   87 (102)
                      +
T Consensus        72 m   72 (74)
T cd01813          72 M   72 (74)
T ss_pred             E
Confidence            6

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.

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=99.72  E-value=1.6e-17  Score=131.24  Aligned_cols=74  Identities=16%  Similarity=0.338  Sum_probs=70.3

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCC---CCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANH---LPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~---ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      |+|+||+++|+.+ .++|+++.||.+||++|++  ..+   +|+++|||||+||+|+|+.+     |++|+|++|++|++
T Consensus         1 MkItVKtl~g~~~-~IeV~~~~TV~dLK~kI~~--~~g~~~ip~~~QkLIy~GkiL~Dd~t-----L~dy~I~e~~~Ivv   72 (378)
T TIGR00601         1 MTLTFKTLQQQKF-KIDMEPDETVKELKEKIEA--EQGKDAYPVAQQKLIYSGKILSDDKT-----VREYKIKEKDFVVV   72 (378)
T ss_pred             CEEEEEeCCCCEE-EEEeCCcChHHHHHHHHHH--hhCCCCCChhHeEEEECCEECCCCCc-----HHHcCCCCCCEEEE
Confidence            7999999999988 9999999999999999998  777   99999999999999998888     99999999999999


Q ss_pred             EEecC
Q 034173           87 SLFNL   91 (102)
Q Consensus        87 ~~~~~   91 (102)
                      ++.+.
T Consensus        73 mv~k~   77 (378)
T TIGR00601        73 MVSKP   77 (378)
T ss_pred             EeccC
Confidence            99875

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).

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

Probab=99.69  E-value=1.4e-17  Score=101.26  Aligned_cols=70  Identities=20%  Similarity=0.388  Sum_probs=66.9

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      |.|+||+++++.+ .++++|+++|..+|+.|++  +.|+||.+|||||.|+.+.|+++     -++|++..|+.+|++
T Consensus         1 m~iKvktLt~KeI-eidIep~DkverIKErvEE--keGIPp~qqrli~~gkqm~DD~t-----A~~Y~~~~GSVlHlv   70 (70)
T KOG0005|consen    1 MLIKVKTLTGKEI-EIDIEPTDKVERIKERVEE--KEGIPPQQQRLIYAGKQMNDDKT-----AAHYNLLGGSVLHLV   70 (70)
T ss_pred             CeeeEeeeccceE-EEeeCcchHHHHHHHHhhh--hcCCCchhhhhhhcccccccccc-----HHHhhhccceeEeeC
Confidence            6799999999999 9999999999999999999  99999999999999999999988     999999999999973

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

Probab=99.68  E-value=6.6e-17  Score=130.21  Aligned_cols=74  Identities=24%  Similarity=0.368  Sum_probs=69.7

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      .|+|+||+.++ +. .+.|+.++||.+||+.|+.  ..++++++|+|||.||+|+|+++     |..|||+||.||||++
T Consensus        15 ~irV~Vkt~~d-k~-~~~V~~~ssV~qlKE~I~~--~f~a~~dqlvLIfaGrILKD~dT-----L~~~gI~Dg~TvHLVi   85 (493)
T KOG0010|consen   15 LIRVTVKTPKD-KY-EVNVASDSSVLQLKELIAQ--RFGAPPDQLVLIYAGRILKDDDT-----LKQYGIQDGHTVHLVI   85 (493)
T ss_pred             eeEEEEecCCc-ce-eEecccchHHHHHHHHHHH--hcCCChhHeeeeecCccccChhh-----HHHcCCCCCcEEEEEe
Confidence            49999999998 44 7999999999999999998  99999999999999999999999     9999999999999999


Q ss_pred             ecC
Q 034173           89 FNL   91 (102)
Q Consensus        89 ~~~   91 (102)
                      +..
T Consensus        86 k~~   88 (493)
T KOG0010|consen   86 KSQ   88 (493)
T ss_pred             ccC
Confidence            876

>smart00213 UBQ Ubiquitin homologues

Probab=99.66  E-value=2.8e-16  Score=93.40  Aligned_cols=64  Identities=33%  Similarity=0.577  Sum_probs=59.3

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCC
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGG   82 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~   82 (102)
                      |+|+||+.+ +.. .++|+++.||.+||++|++  ..++|+++|||+|+|+.|.|+.+     |++|||++|+
T Consensus         1 ~~i~vk~~~-~~~-~~~v~~~~tv~~lk~~i~~--~~~~~~~~~~L~~~g~~L~d~~t-----L~~~~i~~~~   64 (64)
T smart00213        1 IELTVKTLD-GTI-TLEVKPSDTVSELKEKIAE--LTGIPVEQQRLIYKGKVLEDDRT-----LADYNIQDGS   64 (64)
T ss_pred             CEEEEEECC-ceE-EEEECCCCcHHHHHHHHHH--HHCCCHHHEEEEECCEECCCCCC-----HHHcCCcCCC
Confidence            689999998 555 8999999999999999998  99999999999999999988877     9999999985

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

>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4

Probab=99.66  E-value=2.7e-16  Score=105.92  Aligned_cols=79  Identities=13%  Similarity=0.170  Sum_probs=69.3

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhcc---CCCCC--CCceEEEeCCeecCCCCCCCCCCccccC-----
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSS---ANHLP--IENLRLVFRGKVLDDTQDDDDRDDVYLQ-----   77 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~---~~~ip--~~~qrLi~~Gk~L~D~~t~~~~~L~~~~-----   77 (102)
                      +.+.|++|-.+|.-+....+++++||.+||++|++..   +.++|  +++|||||+||+|+|+.|     |++|+     
T Consensus         3 ~~~e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~T-----L~d~~~p~g~   77 (113)
T cd01814           3 EQIEIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSKT-----VGECRSPVGD   77 (113)
T ss_pred             ccEEEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCCc-----HHHhCCcccc
Confidence            5799999999998888899999999999999998511   33444  999999999999999888     99999     


Q ss_pred             -CCCCCEEEEEEecC
Q 034173           78 -LSNGGNINISLFNL   91 (102)
Q Consensus        78 -I~~g~ti~l~~~~~   91 (102)
                       +....|+||+++.+
T Consensus        78 ~~~~~~TmHvvlr~~   92 (113)
T cd01814          78 IAGGVITMHVVVQPP   92 (113)
T ss_pred             cCCCceEEEEEecCC
Confidence             77789999999876

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

>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP

Probab=99.65  E-value=1.9e-16  Score=100.06  Aligned_cols=53  Identities=28%  Similarity=0.380  Sum_probs=47.6

Q ss_pred             CCCcHHHHHHHHHhccCC--CC-CCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173           29 SPIKVRDLRKLIATSSAN--HL-PIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus        29 ~~~TV~~LK~~Ia~~~~~--~i-p~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      .++||.+||++|++  +.  ++ ++++|||||+||+|+|+.+     |++|||++|++||++.
T Consensus        19 ~~~TV~~LK~kI~~--~~~egi~~~dqQrLIy~GKiL~D~~T-----L~dygI~~gstlhLv~   74 (75)
T cd01815          19 GGYQVSTLKQLIAA--QLPDSLPDPELIDLIHCGRKLKDDQT-----LDFYGIQSGSTIHILR   74 (75)
T ss_pred             ccCcHHHHHHHHHH--hhccCCCChHHeEEEeCCcCCCCCCc-----HHHcCCCCCCEEEEEe
Confidence            35899999999998  74  46 5999999999999998888     9999999999999864

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.

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

Probab=99.64  E-value=1.8e-16  Score=111.64  Aligned_cols=74  Identities=22%  Similarity=0.324  Sum_probs=70.2

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+|+||++.++.+ .+++.+++||..+|.+|++  +.+||+++|||||.|+.|+|..+     |++|+|+-.+|||++++
T Consensus         1 m~ifVk~l~~kti-~~eve~~~ti~~~Kakiq~--~egIp~dqqrlifag~qLedgrt-----lSDY~Iqkestl~l~l~   72 (156)
T KOG0004|consen    1 MQIFVKTLTGKTI-TLEVEANDTIDNVKAKIQD--KEGIPPDQQRLIFAGKQLEDGRT-----LSDYNIQKESTLHLVLR   72 (156)
T ss_pred             Cccchhhccccce-eeeecccccHHHHHHhhhc--ccCCCchhhhhhhhhcccccCCc-----cccccccccceEEEEEE
Confidence            6899999999988 8999999999999999988  99999999999999999999888     99999999999999997


Q ss_pred             cC
Q 034173           90 NL   91 (102)
Q Consensus        90 ~~   91 (102)
                      -.
T Consensus        73 l~   74 (156)
T KOG0004|consen   73 LR   74 (156)
T ss_pred             ec
Confidence            54

>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1

Probab=99.60  E-value=3.6e-15  Score=93.91  Aligned_cols=69  Identities=16%  Similarity=0.166  Sum_probs=59.4

Q ss_pred             EEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecC-CCCCCCCCCccccCCC-CCCEEEEEE
Q 034173           11 EITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLD-DTQDDDDRDDVYLQLS-NGGNINISL   88 (102)
Q Consensus        11 ~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~-D~~t~~~~~L~~~~I~-~g~ti~l~~   88 (102)
                      .|.=|...+.+. .+++++++||++||++|++  +.|+||++||| |.|+.|. |+.+     |++||++ +|+++||-+
T Consensus         4 ~~~~~~~~~~t~-~l~v~~~~TV~~lK~kI~~--~~gip~~~QrL-~~G~~L~dD~~t-----L~~ygi~~~g~~~~l~~   74 (75)
T cd01799           4 SVEDAQSHTVTI-WLTVRPDMTVAQLKDKVFL--DYGFPPAVQRW-VIGQRLARDQET-----LYSHGIRTNGDSAFLYI   74 (75)
T ss_pred             EEeccccCCCeE-EEEECCCCcHHHHHHHHHH--HHCcCHHHEEE-EcCCeeCCCcCC-----HHHcCCCCCCCEEEEEe
Confidence            344455666676 8999999999999999999  99999999999 9999985 5567     9999999 889999864

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.

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

Probab=99.56  E-value=6.2e-15  Score=114.24  Aligned_cols=74  Identities=24%  Similarity=0.320  Sum_probs=70.5

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCC--CCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANH--LPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~--ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      |+|+||++.++.+ ++++.|+.||.++|++|+.  ..|  +|+++|+|||+||+|+|+.+     +.+|+|++++.|+||
T Consensus         1 m~lt~KtL~q~~F-~iev~Pe~tV~evK~kIet--~~g~dyP~~~QkLIy~GkiL~D~~t-----v~Eykv~E~~fiVvM   72 (340)
T KOG0011|consen    1 MKLTVKTLKQQTF-TIEVKPEDTVVEVKKKIET--EKGPDYPAEQQKLIYSGKILKDETT-----VGEYKVKEKKFIVVM   72 (340)
T ss_pred             CeeEeeeccCcee-EeecCcchhHHHHHHHHHh--ccCCCCchhhheeeecceeccCCcc-----hhhhccccCceEEEE
Confidence            7899999999999 9999999999999999998  666  99999999999999999888     999999999999999


Q ss_pred             EecC
Q 034173           88 LFNL   91 (102)
Q Consensus        88 ~~~~   91 (102)
                      +...
T Consensus        73 lsK~   76 (340)
T KOG0011|consen   73 LSKD   76 (340)
T ss_pred             EecC
Confidence            9775

>cd01769 UBL Ubiquitin-like domain of UBL

Probab=99.54  E-value=1.9e-14  Score=86.37  Aligned_cols=67  Identities=30%  Similarity=0.450  Sum_probs=61.6

Q ss_pred             EEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173           14 VKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus        14 vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      ||..+|..+ .+++++++||.+||++|++  ..++|+++|+|+|+|+.|+|..+     |.+|++.+|++|++..
T Consensus         2 v~~~~~~~~-~~~~~~~~ti~~lK~~i~~--~~~~~~~~~~l~~~g~~l~d~~~-----l~~~~v~~~~~i~v~~   68 (69)
T cd01769           2 VKTLTGKTF-ELEVSPDDTVAELKAKIAA--KEGVPPEQQRLIYAGKILKDDKT-----LSDYGIQDGSTLHLVL   68 (69)
T ss_pred             eEccCCCEE-EEEECCCChHHHHHHHHHH--HHCcChHHEEEEECCcCCCCcCC-----HHHCCCCCCCEEEEEE
Confidence            677778777 8999999999999999998  89999999999999999988877     9999999999999864

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.

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

Probab=99.54  E-value=5.4e-16  Score=104.02  Aligned_cols=74  Identities=22%  Similarity=0.331  Sum_probs=68.5

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+|++++..|+++ .+++.|+.||..||.+|..  +.|+||++|||+|.||+|+|..|     |++|||+-.+|||+.++
T Consensus         1 ~~~~~~~~~GKT~-~le~EpS~ti~~vKA~i~~--~~Gi~~~~~~L~~~~k~LED~~T-----la~Y~i~~~~Tl~~~~r   72 (128)
T KOG0003|consen    1 MQIFVKTLTGKTI-TLEVEPSDTIDNVKAKIQD--KEGIPPDQQRLIFAGKQLEDGRT-----LADYNIQKESTLHLVLR   72 (128)
T ss_pred             CcEEEEEeeCceE-EEEecccchHHHHHHHhcc--ccCCCHHHHHHHhcccccccCCc-----ccccCccchhhhhhhHH
Confidence            5688999999999 9999999999999999987  99999999999999999988888     99999999999998775


Q ss_pred             cC
Q 034173           90 NL   91 (102)
Q Consensus        90 ~~   91 (102)
                      -.
T Consensus        73 L~   74 (128)
T KOG0003|consen   73 LR   74 (128)
T ss_pred             Hh
Confidence            43

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

Probab=99.45  E-value=1.4e-13  Score=84.61  Aligned_cols=71  Identities=24%  Similarity=0.425  Sum_probs=64.6

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCC-CceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPI-ENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~-~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      |+|+|++.+|+.+ .+.|.++.++..|++.+++  +.++|+ +.++|+|.|+.|.++.|     +++++|++|++|+|.+
T Consensus         1 I~i~v~~~~~~~~-~~~v~~~~~~~~l~~~~~~--~~~i~~~~~~~l~fdG~~L~~~~T-----~~~~~ied~d~Idv~I   72 (72)
T PF11976_consen    1 ITIKVRSQDGKEI-KFKVKPTTTVSKLIEKYCE--KKGIPPEESIRLIFDGKRLDPNDT-----PEDLGIEDGDTIDVII   72 (72)
T ss_dssp             EEEEEEETTSEEE-EEEEETTSCCHHHHHHHHH--HHTTTT-TTEEEEETTEEE-TTSC-----HHHHT-STTEEEEEE-
T ss_pred             CEEEEEeCCCCEE-EEEECCCCcHHHHHHHHHH--hhCCCccceEEEEECCEEcCCCCC-----HHHCCCCCCCEEEEEC
Confidence            7899999999877 8999999999999999999  999999 99999999999988888     9999999999999864

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 ....

>cd01795 USP48_C USP ubiquitin-specific protease

Probab=99.36  E-value=2.4e-12  Score=85.38  Aligned_cols=62  Identities=23%  Similarity=0.152  Sum_probs=56.4

Q ss_pred             EEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEecC
Q 034173           24 RLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLFNL   91 (102)
Q Consensus        24 ~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~~~   91 (102)
                      .++|++++||.+||.+|..  ..++||+.|+|+|.|+.|.    ||+++|++|||..|+.|+|.+.+|
T Consensus        18 ~L~V~~~~TVg~LK~lImQ--~f~V~P~dQkL~~dG~~L~----DDsrTLssyGv~sgSvl~LlideP   79 (107)
T cd01795          18 ALLVSANQTLKELKIQIMH--AFSVAPFDQNLSIDGKILS----DDCATLGTLGVIPESVILLKADEP   79 (107)
T ss_pred             eEEeCccccHHHHHHHHHH--HhcCCcccceeeecCceec----cCCccHHhcCCCCCCEEEEEecCC
Confidence            6899999999999999988  9999999999999999885    344569999999999999999776

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,

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

Probab=99.35  E-value=6.7e-12  Score=80.29  Aligned_cols=76  Identities=21%  Similarity=0.274  Sum_probs=59.2

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEE-eCCe-----ecCCCCCCCCCCccccCCCCCCE
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLV-FRGK-----VLDDTQDDDDRDDVYLQLSNGGN   83 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi-~~Gk-----~L~D~~t~~~~~L~~~~I~~g~t   83 (102)
                      ++|.|++.......+..+++.+||.+||++++.  ..|+||+.|||. |.|+     .|.    +|+.+|.+|++++|.+
T Consensus         2 v~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~--~~G~~~~~mrL~l~~~~~~~~~~l~----~d~~~L~~y~~~dg~~   75 (84)
T cd01789           2 VTVNITSSADSFSFEKKYSRGLTIAELKKKLEL--VVGTPASSMRLQLFDGDDKLVSKLD----DDDALLGSYPVDDGCR   75 (84)
T ss_pred             EEEEEEeCCCceeeeEecCCCCcHHHHHHHHHH--HHCCCccceEEEEEcCCCCeEeecC----CCccEeeeccCCCCCE
Confidence            567777654333335669999999999999998  999999999994 8888     342    2334499999999999


Q ss_pred             EEEEEecC
Q 034173           84 INISLFNL   91 (102)
Q Consensus        84 i~l~~~~~   91 (102)
                      |||.=.+|
T Consensus        76 IhVvD~~p   83 (84)
T cd01789          76 IHVIDVSG   83 (84)
T ss_pred             EEEEeCCC
Confidence            99865443

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.

>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13

Probab=99.33  E-value=4.2e-12  Score=79.70  Aligned_cols=70  Identities=30%  Similarity=0.416  Sum_probs=55.3

Q ss_pred             EEEEEEcCCCCCceEEEe-cCCCcHHHHHHHHHhccCCC-CCCCceEEE--eCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173           10 VEITVKTIGPAPPSRLSV-SSPIKVRDLRKLIATSSANH-LPIENLRLV--FRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v-~~~~TV~~LK~~Ia~~~~~~-ip~~~qrLi--~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      ++|.++..+.+.+..+++ ++++||.+||+.|++  ..+ +|++||||.  +.|++|.|+.+     |++||+++|++||
T Consensus         1 ~~i~~~~~~~k~~~~~~~~~~~aTV~dlk~~i~~--~~~~~~~~Rqrl~~~~~g~~L~d~~t-----L~~~gv~~g~~ly   73 (77)
T cd01801           1 LEILDAKRSDKPIGKLKVSSGDATIADLKKLIAK--SSPQLTVNRQSLRLEPKGKSLKDDDT-----LVDLGVGAGATLY   73 (77)
T ss_pred             CeeeccccCcCceeecccCCCCccHHHHHHHHHH--HcCCCCcceeEEEeCCCCcccCCccc-----HhhcCCCCCCEEE
Confidence            356666666344423444 478999999999997  654 789999994  89999988887     9999999999998


Q ss_pred             E
Q 034173           86 I   86 (102)
Q Consensus        86 l   86 (102)
                      +
T Consensus        74 v   74 (77)
T cd01801          74 V   74 (77)
T ss_pred             E
Confidence            7

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

>PLN02560 enoyl-CoA reductase

Probab=99.32  E-value=4.5e-12  Score=98.02  Aligned_cols=71  Identities=27%  Similarity=0.344  Sum_probs=60.4

Q ss_pred             EEEEEEcCCCCCc--eEEEecCCCcHHHHHHHHHhccCCCC-CCCceEEEeC---C----eecCCCCCCCCCCccccCCC
Q 034173           10 VEITVKTIGPAPP--SRLSVSSPIKVRDLRKLIATSSANHL-PIENLRLVFR---G----KVLDDTQDDDDRDDVYLQLS   79 (102)
Q Consensus        10 i~I~vK~~~~~~~--~~l~v~~~~TV~~LK~~Ia~~~~~~i-p~~~qrLi~~---G----k~L~D~~t~~~~~L~~~~I~   79 (102)
                      |+|+||..+|+.+  .++++++++||++||++|++  +.+. +++||||++.   |    +.|+|+++     |+++|++
T Consensus         1 M~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk--~~~~~~~~RqRL~~~~~~gk~~g~~L~d~kt-----L~d~gv~   73 (308)
T PLN02560          1 MKVTVVSRSGREIIKGGLEVPDSATVADLKKAIHK--RKKKYYPSRQRLTLPLPPGKTRPTVLDDSKS-----LKDYGLG   73 (308)
T ss_pred             CEEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHH--HcCCCChhheEEEEecCCCCcCccccCCCCC-----HHhcCCC
Confidence            6789998888876  47999999999999999998  7764 8999999973   3    37776666     9999999


Q ss_pred             CCCEEEEE
Q 034173           80 NGGNINIS   87 (102)
Q Consensus        80 ~g~ti~l~   87 (102)
                      +|++|++-
T Consensus        74 ~gstLy~k   81 (308)
T PLN02560         74 DGGTVVFK   81 (308)
T ss_pred             CCceEEEE
Confidence            99998873

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

Probab=99.23  E-value=1.2e-11  Score=106.61  Aligned_cols=75  Identities=19%  Similarity=0.391  Sum_probs=69.7

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      ..|+||+++.... ++.+...+||.+||.+|.+  +.+|+.+.|||||+||+|.|+++     +.+|+| +|.+|||+-|
T Consensus         3 ~~v~vktld~r~~-t~~ig~q~ti~~~~d~~r~--~~ni~s~~qr~i~~grvl~~~k~-----vq~~~v-dgk~~hlver   73 (1143)
T KOG4248|consen    3 PNVLVKTLDSRTR-TFIIGAQMTIKEFKDHIRA--SVNIPSEKQRLIYQGRVLQDDKK-----VQEYNV-DGKVIHLVER   73 (1143)
T ss_pred             cceeeeeccccee-EEEechHHHHHHHHHHHHH--hcccccccceeeecceeeccchh-----hhhccC-CCeEEEeecc
Confidence            3489999999887 9999999999999999998  99999999999999999999999     999999 9999999988


Q ss_pred             cCCC
Q 034173           90 NLDD   93 (102)
Q Consensus        90 ~~~~   93 (102)
                      .+-.
T Consensus        74 ppp~   77 (1143)
T KOG4248|consen   74 PPPQ   77 (1143)
T ss_pred             CCCC
Confidence            7643

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

Probab=99.17  E-value=4.3e-10  Score=66.61  Aligned_cols=72  Identities=25%  Similarity=0.377  Sum_probs=66.2

Q ss_pred             EEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEecC
Q 034173           12 ITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLFNL   91 (102)
Q Consensus        12 I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~~~   91 (102)
                      +++++..|+.. .+++.+..+|..+|.+|+.  ..++|+..|++.+.|+.|.|..+     |.+|+|..+.++++..+.+
T Consensus         2 ~~~~~~~gk~~-~~~~~~~~~i~~~k~~i~~--~~~~~~~~q~~~~~~~~l~d~~~-----l~~~~i~~~~~~~l~~~~~   73 (75)
T KOG0001|consen    2 IFVKTLDGKTI-TLEVSPSDTIEVVKAKIRD--KEGIPVDQQRLIFGGKPLEDGRT-----LADYNIQEGSTLHLVLSLR   73 (75)
T ss_pred             EEEEecCCCEE-EEEecCCCHHHHHHHHHHh--hcCCCCeeEEEEECCEECcCCCc-----HHHhCCCCCCEEEEEEecC
Confidence            56778888888 8999999999999999998  99999999999999999998888     9999999999999987764

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

Probab=99.16  E-value=3.5e-10  Score=76.15  Aligned_cols=77  Identities=17%  Similarity=0.283  Sum_probs=58.1

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCC-------CCCCCceEEEeCCeecCCCCCCCCCCccccCCCC
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSAN-------HLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSN   80 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~-------~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~   80 (102)
                      +.|.|+++-.+|+-+..+.+++++||.+||+.|..  ..       -..+...||||.||.|+|+.+     |.++.+..
T Consensus         1 ~~i~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~--~WP~d~~~~p~s~~~lRLI~~GriL~d~~t-----L~~~~~~~   73 (111)
T PF13881_consen    1 DKIELKFRLADGKDIGPFRFDPSTTVADLKERIWA--EWPEDWEERPKSPSDLRLIYAGRILEDNKT-----LSDCRLPS   73 (111)
T ss_dssp             TSEEEEEEETTS-EEEEEEE-TTSBHHHHHHHHHH--SSSTTSSSTT-SGGGEEEEETTEEE-SSSB-----TGGGT--T
T ss_pred             CeEEEEEEEeCCCcccccccCccChHHHHHHHHHH--HCccccccCCCChhhEEEEeCCeecCCcCc-----HHHhCCCC
Confidence            35889999889984558999999999999999985  32       123566999999999998888     99999998


Q ss_pred             CC------EEEEEEecC
Q 034173           81 GG------NINISLFNL   91 (102)
Q Consensus        81 g~------ti~l~~~~~   91 (102)
                      |+      ++||+++..
T Consensus        74 ~~~~~~~~vmHlvvrp~   90 (111)
T PF13881_consen   74 GETPGGPTVMHLVVRPN   90 (111)
T ss_dssp             TSETT--EEEEEEE-SS
T ss_pred             CCCCCCCEEEEEEecCC
Confidence            87      578888665

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

Probab=99.09  E-value=3.1e-10  Score=72.53  Aligned_cols=79  Identities=18%  Similarity=0.306  Sum_probs=57.1

Q ss_pred             EEEEEEcCCCC-CceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeC----CeecCCCCCCCCCCccccCCCCCCEE
Q 034173           10 VEITVKTIGPA-PPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFR----GKVLDDTQDDDDRDDVYLQLSNGGNI   84 (102)
Q Consensus        10 i~I~vK~~~~~-~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~----Gk~L~D~~t~~~~~L~~~~I~~g~ti   84 (102)
                      ++|+|.....+ ...+..+++++||.+||++|+.  ..|+|++.|||.+.    +..... ..+|+.+|..||+++|.+|
T Consensus         2 v~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~--~~Gi~~~~m~L~l~~~~~~~~~~~-~~dd~~~L~~y~~~dg~~i   78 (87)
T PF14560_consen    2 VKLFITSSNSKQRSVEKRFPKSITVSELKQKLEK--LTGIPPSDMRLQLKSDKDDSKIEE-LDDDDATLGSYGIKDGMRI   78 (87)
T ss_dssp             EEEEEEESSSSSSEEEEEEETTSBHHHHHHHHHH--HHTS-TTTEEEEEE-TSSSSEEEE-SSGSSSBCCHHT-STTEEE
T ss_pred             EEEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHH--HhCCCcccEEEEEEecCCCccccc-cCCCccEeecCCCCCCCEE
Confidence            67777765553 2337899999999999999999  99999999999876    222211 1234566999999999999


Q ss_pred             EEEEecC
Q 034173           85 NISLFNL   91 (102)
Q Consensus        85 ~l~~~~~   91 (102)
                      ||.=.+|
T Consensus        79 ~V~D~~p   85 (87)
T PF14560_consen   79 HVVDTNP   85 (87)
T ss_dssp             EEEE-T-
T ss_pred             EEEeCCC
Confidence            9865554

>cd01788 ElonginB Ubiquitin-like domain of Elongin B

Probab=99.04  E-value=6.3e-10  Score=75.32  Aligned_cols=78  Identities=14%  Similarity=0.182  Sum_probs=64.1

Q ss_pred             EEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCC-------CCCCE
Q 034173           11 EITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQL-------SNGGN   83 (102)
Q Consensus        11 ~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I-------~~g~t   83 (102)
                      .+|+...-.++..-+.+.++.||.+||++|+.  -...||+.|||+..+.+|+|++|     |++||+       +.-.+
T Consensus         2 dvFlmIrR~KTTiF~dakes~tVlelK~~ieg--I~k~pp~dQrL~kd~qvLeD~kT-----L~d~g~t~~~akaq~pA~   74 (119)
T cd01788           2 DVFLMIRRHKTTIFTDAKESTTVYELKRIVEG--ILKRPPEDQRLYKDDQLLDDGKT-----LGDCGFTSQTARPQAPAT   74 (119)
T ss_pred             ceEEEEEecceEEEeecCCcccHHHHHHHHHH--HhcCChhHheeecCceeeccccc-----HHHcCccccccccCCCCe
Confidence            45555555555446788999999999999998  88899999999988889988888     999999       77899


Q ss_pred             EEEEEecCCCcee
Q 034173           84 INISLFNLDDLSF   96 (102)
Q Consensus        84 i~l~~~~~~~~~~   96 (102)
                      |-|.++. +++.|
T Consensus        75 vgLa~r~-~d~~f   86 (119)
T cd01788          75 VGLAFRS-SDDTF   86 (119)
T ss_pred             EEEEEec-CCCCc
Confidence            9999997 45544

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.

>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=98.92  E-value=2.3e-09  Score=68.30  Aligned_cols=75  Identities=19%  Similarity=0.253  Sum_probs=44.0

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCC-CCCCCCccccCCCCCCEEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQ-DDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~-t~~~~~L~~~~I~~g~ti~l   86 (102)
                      +.|-|.|++++|-.  .+++++++|+.+|+++|++  ..++|++.|.|.. .+...+.. ..++.+|+++||++||-|||
T Consensus         3 ~~milRvrS~dG~~--Rie~~~~~t~~~L~~kI~~--~l~~~~~~~~L~~-~~~~~~~l~s~~~~tl~~lglkHGdmlyL   77 (80)
T PF11543_consen    3 SSMILRVRSKDGMK--RIEVSPSSTLSDLKEKISE--QLSIPDSSQSLSK-DRNNKEELKSSDSKTLSSLGLKHGDMLYL   77 (80)
T ss_dssp             ---EEEEE-SSEEE--EEEE-TTSBHHHHHHHHHH--HS---TTT---BS-SGGGGGCSSS-TT-CCCCT---TT-EEE-
T ss_pred             ccEEEEEECCCCCE--EEEcCCcccHHHHHHHHHH--HcCCCCcceEEEe-cCCCCcccccCCcCCHHHcCCCCccEEEE
Confidence            46889999999954  6999999999999999999  9999999998843 23222111 23456799999999999997


Q ss_pred             E
Q 034173           87 S   87 (102)
Q Consensus        87 ~   87 (102)
                      .
T Consensus        78 ~   78 (80)
T PF11543_consen   78 K   78 (80)
T ss_dssp             -
T ss_pred             e
Confidence            3

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.

>cd00196 UBQ Ubiquitin-like proteins

Probab=98.82  E-value=2.4e-08  Score=55.80  Aligned_cols=65  Identities=28%  Similarity=0.310  Sum_probs=56.7

Q ss_pred             cCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173           16 TIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus        16 ~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      ..++... .+.++++.|+.+||++|.+  +.+.++++|+|.+.|..+.+...     +.++++.+|++|++..
T Consensus         4 ~~~~~~~-~~~~~~~~tv~~l~~~i~~--~~~~~~~~~~l~~~~~~~~~~~~-----~~~~~~~~~~~i~~~~   68 (69)
T cd00196           4 LNDGKTV-ELLVPSGTTVADLKEKLAK--KLGLPPEQQRLLVNGKILPDSLT-----LEDYGLQDGDELVLVP   68 (69)
T ss_pred             ecCCCEE-EEEcCCCCcHHHHHHHHHH--HHCcChHHeEEEECCeECCCCCc-----HHHcCCCCCCEEEEEe
Confidence            3355555 7888899999999999998  88899999999999999988777     7899999999999853

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.

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

Probab=98.30  E-value=2.5e-06  Score=69.24  Aligned_cols=70  Identities=17%  Similarity=0.148  Sum_probs=59.7

Q ss_pred             EEEEEEcCCCCCceEEE-ecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173           10 VEITVKTIGPAPPSRLS-VSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~-v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      .+|.||-.+ +.+ .++ ++.++|+..||+++..  .++++|+|||+.++|+.++|+-.     +...+|++|.+|+++=
T Consensus         4 ~~v~VKW~g-k~y-~v~~l~~d~t~~vlKaqlf~--LTgV~PeRQKv~vKGg~a~dd~~-----~~al~iKpn~~lmMmG   74 (473)
T KOG1872|consen    4 DTVIVKWGG-KKY-PVETLSTDETPSVLKAQLFA--LTGVPPERQKVMVKGGLAKDDVD-----WGALQIKPNETLMMMG   74 (473)
T ss_pred             ceEeeeecC-ccc-cceeccCCCchHHHHHHHHH--hcCCCccceeEEEeccccccccc-----ccccccCCCCEEEeec
Confidence            457777744 444 455 9999999999999999  99999999999999999977755     8999999999999764

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

Probab=98.20  E-value=2e-05  Score=52.12  Aligned_cols=76  Identities=18%  Similarity=0.340  Sum_probs=66.8

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      +-|+|+|+.-++... .+.|...+..+-|+...++  +.|++.+..|++|.|+.+.+.+|     -.+++..+|+.|-+.
T Consensus        19 ~hi~LKV~gqd~~~~-~Fkikr~t~LkKLM~aYc~--r~Gl~~~s~RFlFdG~rI~~~~T-----P~~L~mEd~D~Iev~   90 (99)
T KOG1769|consen   19 EHINLKVKGQDGSVV-VFKIKRHTPLKKLMKAYCE--RQGLSMNSLRFLFDGQRIRETHT-----PADLEMEDGDEIEVV   90 (99)
T ss_pred             ceEEEEEecCCCCEE-EEEeecCChHHHHHHHHHH--HcCCccceEEEEECCcCcCCCCC-----hhhhCCcCCcEEEEE
Confidence            457888887566555 7899999999999999999  99999999999999999999998     999999999999987


Q ss_pred             EecC
Q 034173           88 LFNL   91 (102)
Q Consensus        88 ~~~~   91 (102)
                      ....
T Consensus        91 ~~q~   94 (99)
T KOG1769|consen   91 QEQT   94 (99)
T ss_pred             eecc
Confidence            6543

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

Probab=98.17  E-value=6.4e-06  Score=54.26  Aligned_cols=56  Identities=25%  Similarity=0.435  Sum_probs=39.5

Q ss_pred             EEEEcCCCCCceEEEec--CCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCC
Q 034173           12 ITVKTIGPAPPSRLSVS--SPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQD   67 (102)
Q Consensus        12 I~vK~~~~~~~~~l~v~--~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t   67 (102)
                      |+|+..++-.-..++++  ...||..||++|.+.......-.++||||+||.|.|...
T Consensus         3 l~IRFs~sipDl~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t~   60 (97)
T PF10302_consen    3 LTIRFSDSIPDLPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHTD   60 (97)
T ss_pred             EEEEECCCCCCceeecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccch
Confidence            44555443222356776  779999999999872223455666999999999988765

They contain a characteristic GFDRL sequence motif.

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

Probab=97.92  E-value=2.4e-05  Score=61.62  Aligned_cols=59  Identities=25%  Similarity=0.409  Sum_probs=53.1

Q ss_pred             eEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173           23 SRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus        23 ~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      .+++|+.+.+|.+||+.++.  ..|+|+++.|+||.||.|.|+-+     ++.+.+.--+.+|+++
T Consensus        16 l~v~v~~~t~I~~lke~Vak--~~gvp~D~L~viFaGKeLs~~tt-----v~~cDL~qqs~~hi~~   74 (446)
T KOG0006|consen   16 LPVEVDSDTSIFQLKEVVAK--RQGVPADQLRVIFAGKELSNDTT-----VQNCDLSQQSATHIML   74 (446)
T ss_pred             eeEEEecCCCHHHHHHHHHH--hhCCChhheEEEEeccccccCce-----eecccccccchhhhhc
Confidence            37888999999999999998  99999999999999999988777     9988888778888884

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

Probab=97.91  E-value=3.4e-06  Score=52.16  Aligned_cols=69  Identities=19%  Similarity=0.226  Sum_probs=59.1

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      +++.+...-|+.. .+...++.||.++|..||.  ++|-.++...|---+.+++|.-+     |++|.|.+|-.+.+
T Consensus         2 iev~~nDrLGKKV-RvKCn~dDtiGD~KKliaa--QtGT~~~kivl~k~~~i~kd~I~-----L~dyeihdg~~lel   70 (73)
T KOG3493|consen    2 IEVVLNDRLGKKV-RVKCNTDDTIGDLKKLIAA--QTGTRPEKIVLKKWYTIFKDHIT-----LSDYEIHDGMNLEL   70 (73)
T ss_pred             ceehhhhhcCceE-EEEeCCcccccCHHHHHHH--hhCCChhHhHHHhhhhhhhcccc-----eeeEEeccCccEEE
Confidence            5677777788887 7888999999999999999  99999999888766777888878     99999999976654

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

Probab=97.84  E-value=4.9e-05  Score=47.67  Aligned_cols=69  Identities=19%  Similarity=0.201  Sum_probs=48.6

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCC---CC---ceEEE-eCCeecCCCCCCCCCCccccCCCCCC
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLP---IE---NLRLV-FRGKVLDDTQDDDDRDDVYLQLSNGG   82 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip---~~---~qrLi-~~Gk~L~D~~t~~~~~L~~~~I~~g~   82 (102)
                      +.|+|...++..+ .+.++.+.+|++|...|.+  ..+.+   +.   ..+|. -.|..|.++.+     |.++||.+|+
T Consensus         3 ~rVtv~~~~~~~~-Dl~lP~~vpv~~li~~l~~--~~~~~~~~~~~~~~~~L~~~~g~~L~~~~t-----L~~~gV~dGd   74 (79)
T PF08817_consen    3 CRVTVDAGNGRQV-DLALPADVPVAELIPELVE--LLGLPGDDPPGHGQWVLARAGGRPLDPDQT-----LADAGVRDGD   74 (79)
T ss_dssp             EEEEEE-TT--EE-EEEEETTSBTTHHHHHHHH--HS---S---TT-E-EEEG-GGTEEEETTSB-----CGGGT--TT-
T ss_pred             EEEEEEcCCCcEE-EEEcCCCCcHHHHHHHHHH--HhCCccCCCCCcceEEEEecCCcccCCcCc-----HhHcCCCCCC
Confidence            5677777655666 8999999999999999987  55442   22   35666 78999988888     9999999999


Q ss_pred             EEEE
Q 034173           83 NINI   86 (102)
Q Consensus        83 ti~l   86 (102)
                      .++|
T Consensus        75 ~L~L   78 (79)
T PF08817_consen   75 VLVL   78 (79)
T ss_dssp             EEEE
T ss_pred             EEEe
Confidence            9987

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.

>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=97.81  E-value=0.00016  Score=45.05  Aligned_cols=77  Identities=18%  Similarity=0.226  Sum_probs=61.6

Q ss_pred             CCCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCc-eEEE--eCCeecCCCCCCCCCCccccCCCCC
Q 034173            5 EISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIEN-LRLV--FRGKVLDDTQDDDDRDDVYLQLSNG   81 (102)
Q Consensus         5 ~~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~-qrLi--~~Gk~L~D~~t~~~~~L~~~~I~~g   81 (102)
                      +....+.|.||.++|+.+ .-...++.||.+|.+-|..  ....+... .+|+  |--+.+.+..   +.+|.+.|+.++
T Consensus         2 ~~~~~~~I~vRlpdG~~l-~~~F~~~~tl~~l~~~v~~--~~~~~~~~~f~L~~~~Pr~~l~~~~---~~tl~e~~l~p~   75 (82)
T PF00789_consen    2 EESDVVRIQVRLPDGSRL-QRRFPKSDTLQDLYDFVES--QLFSPEESDFELITAFPRRELTDED---SKTLEEAGLLPS   75 (82)
T ss_dssp             STSSEEEEEEEETTSTEE-EEEEETTSBHHHHHHHHHH--HHHCTTTSSEEEEESSSTEECCSTT---TSBTCCCTTSSC
T ss_pred             CCCCEEEEEEECCCCCEE-EEEECCcchHHHHHHHHHH--hcCCCCCccEEEEeCCCCcCCCccc---cccHHHhcCCCC
Confidence            456779999999999988 7899999999999999987  55555554 6775  6778885443   456999999999


Q ss_pred             CEEEEE
Q 034173           82 GNINIS   87 (102)
Q Consensus        82 ~ti~l~   87 (102)
                      .+|+|.
T Consensus        76 ~~l~v~   81 (82)
T PF00789_consen   76 ATLIVE   81 (82)
T ss_dssp             EEEEEE
T ss_pred             eEEEEE
Confidence            999873

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 ....

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

Probab=97.80  E-value=0.0002  Score=45.40  Aligned_cols=69  Identities=19%  Similarity=0.222  Sum_probs=54.5

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCC-----eecCCCCCCCCCCccccCCCCCCEE
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRG-----KVLDDTQDDDDRDDVYLQLSNGGNI   84 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~G-----k~L~D~~t~~~~~L~~~~I~~g~ti   84 (102)
                      |+|+||-.+.... .+.|.|-.+|..+|++|..  ..+++- .|||-|+-     +.|.+..+     |++|||=..-.|
T Consensus         1 iqVtV~q~g~~dl-~l~vnPy~pI~k~K~kI~~--~~~~~g-~qrLsfQepgg~rqlL~s~~s-----LA~yGiFs~~~i   71 (80)
T cd01811           1 IQVTVEQTGYSDW-ILRVNPYSPIRKIKEKIRR--SRNCSG-LQRLSFQEPGGERQLLSSRKS-----LADYGIFSKTNI   71 (80)
T ss_pred             CEEEeeecCCCce-EEEeCCcchHHHHHHHHHH--hhCccc-ceEEEeecCCccccccccccc-----HhhhcceeccEE
Confidence            5789998888777 8999999999999999987  777766 99999842     34455555     999999876555


Q ss_pred             EEE
Q 034173           85 NIS   87 (102)
Q Consensus        85 ~l~   87 (102)
                      .|+
T Consensus        72 ~ll   74 (80)
T cd01811          72 CLL   74 (80)
T ss_pred             EEE
Confidence            544

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.

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

Probab=97.66  E-value=3.9e-05  Score=50.86  Aligned_cols=60  Identities=13%  Similarity=0.118  Sum_probs=45.5

Q ss_pred             EEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEe-CC-eecCCCCCCCCCCccccCC
Q 034173           12 ITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVF-RG-KVLDDTQDDDDRDDVYLQL   78 (102)
Q Consensus        12 I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~-~G-k~L~D~~t~~~~~L~~~~I   78 (102)
                      ++++..-.++..-+...++.||.+||.+++.  -..-|++.|||.. .- +.|.|.++     |.++|.
T Consensus         3 ~f~~VrR~kttif~da~es~tV~elK~~l~g--i~~~Pvn~qrL~kmd~eqlL~D~kt-----L~d~gf   64 (110)
T KOG4495|consen    3 VFLRVRRHKTTIFTDAKESSTVFELKRKLEG--ILKRPVNEQRLYKMDTEQLLDDGKT-----LGDCGF   64 (110)
T ss_pred             eeeeeeecceeEEeecCccccHHHHHHHHHH--HHhCCCcchheeecCHHHHhhccch-----hhhccc
Confidence            4455444444435788899999999999998  7778999999976 33 67777777     999954

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

Probab=97.60  E-value=0.0001  Score=56.29  Aligned_cols=71  Identities=23%  Similarity=0.229  Sum_probs=52.5

Q ss_pred             EEEEEEcCCCCCceE-EEecCCCcHHHHHHHHHhccCCCCCCCceEE----EeCCeecCCCCCCCCCCccccCCCCCCEE
Q 034173           10 VEITVKTIGPAPPSR-LSVSSPIKVRDLRKLIATSSANHLPIENLRL----VFRGKVLDDTQDDDDRDDVYLQLSNGGNI   84 (102)
Q Consensus        10 i~I~vK~~~~~~~~~-l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrL----i~~Gk~L~D~~t~~~~~L~~~~I~~g~ti   84 (102)
                      |+|++++.++..... ...+...||.|+++.|.. ...++.+.++|+    ..+|+.|.|+.+     |++|+..+|.||
T Consensus         1 m~It~~srs~~~~~~~~~~s~~~ti~d~~~~~~~-~~~k~~~~~~r~tlr~e~kgkpl~~~s~-----l~e~~~~s~~~i   74 (297)
T KOG1639|consen    1 MEITIASRSKGLRIKEKDLSGSETIDDLLKAISA-KNLKITPYRIRLTLRVEPKGKPLIDNSK-----LQEYGDGSGATI   74 (297)
T ss_pred             CceeeeccCCCceeeeecCCCCCcHHHHHHHHHH-hhhccCccchhheeeccCCCccccchhH-----HHHhccCCCCEE
Confidence            567777777644433 455667899999988874 455676644443    358999988888     999999999988


Q ss_pred             EE
Q 034173           85 NI   86 (102)
Q Consensus        85 ~l   86 (102)
                      ++
T Consensus        75 ~v   76 (297)
T KOG1639|consen   75 YV   76 (297)
T ss_pred             EE
Confidence            87

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

Probab=97.58  E-value=4.5e-05  Score=60.17  Aligned_cols=65  Identities=20%  Similarity=0.172  Sum_probs=49.6

Q ss_pred             CCcEEEEEEcCCCCCc-eEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCcccc
Q 034173            7 SESVEITVKTIGPAPP-SRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYL   76 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~-~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~   76 (102)
                      +..+++.+|+++.+.- ..+..+.+.||.+||..++.....+.-...|||||+||.|.|...     |.+.
T Consensus         7 e~~v~lliks~Nq~y~dl~i~~dl~wtv~~Lk~hls~VyPskpl~~dqrliYsgkllld~qc-----l~d~   72 (391)
T KOG4583|consen    7 EFPVTLLIKSPNQSYKDLSISLDLKWTVGDLKVHLSQVYPSKPLELDQRLIYSGKLLLDHQC-----LTDW   72 (391)
T ss_pred             CcceEEEecCCCccccceeeehhhhhhHHHHhhhHhhcCCCCCchhhHHHHhhccccccchh-----HHHH
Confidence            4568999999988765 245555679999999999874444444556999999999988777     6654

>smart00166 UBX Domain present in ubiquitin-regulatory proteins

Probab=97.42  E-value=0.002  Score=40.27  Aligned_cols=74  Identities=9%  Similarity=0.120  Sum_probs=57.2

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEE--eCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLV--FRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi--~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      ...+|.||.++|+.+ .-..+++.||.+|.+-|..  ..+......+|+  |--+.+.+...  +.+|.+.|+....+|.
T Consensus         3 ~~~~I~iRlPdG~ri-~~~F~~~~tl~~v~~~v~~--~~~~~~~~f~L~t~~Prk~l~~~d~--~~tL~e~gL~p~~~l~   77 (80)
T smart00166        3 DQCRLQIRLPDGSRL-VRRFPSSDTLRTVYEFVSA--ALTDGNDPFTLNSPFPRRTFTKDDY--SKTLLELALLPSSTLV   77 (80)
T ss_pred             CeEEEEEEcCCCCEE-EEEeCCCCcHHHHHHHHHH--cccCCCCCEEEEeCCCCcCCccccc--cCCHHHCCCCCceEEE
Confidence            357899999999988 7899999999999999965  555555667775  66667754311  3559999999988887


Q ss_pred             E
Q 034173           86 I   86 (102)
Q Consensus        86 l   86 (102)
                      |
T Consensus        78 v   78 (80)
T smart00166       78 L   78 (80)
T ss_pred             E
Confidence            6

Present in FAF1 and Shp1p.

>PF13019 Telomere_Sde2: Telomere stability and silencing

Probab=97.16  E-value=0.0042  Score=44.48  Aligned_cols=74  Identities=19%  Similarity=0.168  Sum_probs=50.6

Q ss_pred             EEEEEEcCCCC----CceEEEecCCCcHHHHHHHHHhccCCCCCCCce-EEEe-CCeec--CCCCCCCCCCccccCCCCC
Q 034173           10 VEITVKTIGPA----PPSRLSVSSPIKVRDLRKLIATSSANHLPIENL-RLVF-RGKVL--DDTQDDDDRDDVYLQLSNG   81 (102)
Q Consensus        10 i~I~vK~~~~~----~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~q-rLi~-~Gk~L--~D~~t~~~~~L~~~~I~~g   81 (102)
                      |+|+|++.+|.    .+ .+++++++||.+|+..|.+  ..++++..| .|.+ .++.|  .++..     ++.+.-.+.
T Consensus         1 i~Vlvss~~g~~lp~tl-~~~lp~~ttv~dL~~~l~~--~~~~~~~~~~~L~~~~n~~l~~~~~~~-----~s~l~~~~~   72 (162)
T PF13019_consen    1 INVLVSSFDGLTLPPTL-SLSLPSTTTVSDLKDRLSE--RLPIPSSSQLYLTTNSNGQLSPSSDIP-----LSSLLSSSQ   72 (162)
T ss_pred             CeEEEecCCCCCCCCeE-EeeCCCCCcHHHHHHHHHh--hcCCCccceeEEEEeCCCeeCCCcccc-----HHhhccCcC
Confidence            68999999994    44 7899999999999999998  888888874 4544 34455  23333     555554444


Q ss_pred             C----EEEEEEecC
Q 034173           82 G----NINISLFNL   91 (102)
Q Consensus        82 ~----ti~l~~~~~   91 (102)
                      +    +++|.++=+
T Consensus        73 ~~~~~~l~l~~rl~   86 (162)
T PF13019_consen   73 DSDFITLRLSLRLR   86 (162)
T ss_pred             CCCceEEEEEEecc
Confidence            3    455554433

>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain

Probab=97.10  E-value=0.0085  Score=38.33  Aligned_cols=77  Identities=16%  Similarity=0.091  Sum_probs=59.5

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCC--eecCCC---CCCCCCCccccCCCCC
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRG--KVLDDT---QDDDDRDDVYLQLSNG   81 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~G--k~L~D~---~t~~~~~L~~~~I~~g   81 (102)
                      +..++|-||.++|+.+ .-....+.||.+|..-|..   .+..++..+|+.+=  |.+.+-   ..+.+.+|++.||.+.
T Consensus         2 ~~~~~I~iRlp~G~Rl-~rrF~~~~tl~~l~~fv~~---~~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s   77 (85)
T cd01774           2 PDTVKIVFKLPNGTRV-ERRFLFTQSLRVIHDFLFS---LKETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNS   77 (85)
T ss_pred             CceEEEEEECCCCCEE-EEEeCCCCcHHHHHHHHHh---CCCCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCc
Confidence            3568999999999988 7788899999999999964   45567889998655  777521   1233456999999998


Q ss_pred             CEEEEE
Q 034173           82 GNINIS   87 (102)
Q Consensus        82 ~ti~l~   87 (102)
                      .+|.|.
T Consensus        78 ~~L~V~   83 (85)
T cd01774          78 EVLFVQ   83 (85)
T ss_pred             cEEEEe
Confidence            888764

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.

>COG5417 Uncharacterized small protein [Function unknown]

Probab=97.07  E-value=0.0048  Score=39.17  Aligned_cols=71  Identities=11%  Similarity=0.221  Sum_probs=56.1

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCC---ceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIE---NLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~---~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      ++|-++--+|+.+ .+.++.-.+|+.|-..+.++.+..+++-   ..|..-+++.|.++..     |.+|+|.+|+.+.+
T Consensus         7 VTvD~t~y~g~~y-DLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~k-----L~d~~IadGD~Lei   80 (81)
T COG5417           7 VTVDFTNYNGGTY-DLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDK-----LIDYQIADGDILEI   80 (81)
T ss_pred             EEEEeEecCCceE-EEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCce-----EEeccccCCCEEEe
Confidence            3444556678777 8899999999999888887555555543   4788899999988887     99999999998865

>cd01772 SAKS1_UBX SAKS1-like UBX domain

Probab=97.04  E-value=0.01  Score=37.17  Aligned_cols=73  Identities=11%  Similarity=0.175  Sum_probs=55.6

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEE--eCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLV--FRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi--~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      ..+|.||.++|+.+ .-..+.+.|+.+|.+-|..  ..+ ......|+  |--|.+.++.  -+.+|.+.|+.+..+|+|
T Consensus         4 ~~~i~iRlp~G~~~-~~~F~~~~tl~~v~~fV~~--~~~-~~~~f~L~t~fPrk~~~~~d--~~~TL~elgL~Psa~L~v   77 (79)
T cd01772           4 ETRIQIRLLDGTTL-KQTFKAREQLAAVRLFVEL--NTG-NGGPFTLMTPFPRKVFTEDD--MEKPLQELGLVPSAVLIV   77 (79)
T ss_pred             EEEEEEECCCCCEE-EEEeCCCChHHHHHHHHHH--cCC-CCCCEEEEeCCCCeECCccc--ccCCHHHCCCCCceEEEE
Confidence            46889999999987 7788999999999999986  432 22446665  6777785432  135699999999988886


Q ss_pred             E
Q 034173           87 S   87 (102)
Q Consensus        87 ~   87 (102)
                      .
T Consensus        78 ~   78 (79)
T cd01772          78 T   78 (79)
T ss_pred             e
Confidence            3

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.

>cd01767 UBX UBX (ubiquitin regulatory X) domain

Probab=96.83  E-value=0.018  Score=35.52  Aligned_cols=71  Identities=21%  Similarity=0.253  Sum_probs=52.7

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEE--eCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLV--FRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi--~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      ..+|.||.++|+.+ .-..+.++||.+|.+-|..  .. ......+|+  |--+.+.+.  +.+.+|.+.|+.+ +++.+
T Consensus         2 ~t~i~iRlpdG~~~-~~~F~~~~tl~~l~~fv~~--~~-~~~~~f~L~t~~Pr~~~~~~--~~~~TL~e~gL~~-s~~~~   74 (77)
T cd01767           2 TTKIQIRLPDGKRL-EQRFNSTHKLSDVRDFVES--NG-PPAEPFTLMTSFPRRVLTDL--DYELTLQEAGLVN-EVVFQ   74 (77)
T ss_pred             cEEEEEEcCCCCEE-EEEeCCCCCHHHHHHHHHH--cC-CCCCCEEEEeCCCCccCCCC--CccCcHHHcCCcc-ceEEE
Confidence            46789999999987 7889999999999999975  33 235556665  566777553  2356699999994 55544

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

>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=96.79  E-value=0.0033  Score=38.58  Aligned_cols=62  Identities=13%  Similarity=0.073  Sum_probs=43.8

Q ss_pred             CCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173           17 IGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus        17 ~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      .++... .+.+.|+.++.++=+...+  +.++++++-.|.|+++.|+-+.+     +.-.|+-+|.++.+
T Consensus         4 ~~~rr~-~vkvtp~~~l~~VL~eac~--k~~l~~~~~~L~h~~k~ldlslp-----~R~snL~n~akLeL   65 (65)
T PF11470_consen    4 YNFRRF-KVKVTPNTTLNQVLEEACK--KFGLDPSSYDLKHNNKPLDLSLP-----FRLSNLPNNAKLEL   65 (65)
T ss_dssp             TTS-EE-EE---TTSBHHHHHHHHHH--HTT--GGG-EEEETTEEESSS-B-----HHHH---SS-EEEE
T ss_pred             cCCcEE-EEEECCCCCHHHHHHHHHH--HcCCCccceEEEECCEEeccccc-----eeecCCCCCCEEeC
Confidence            355555 8899999999999999988  99999999999999999987777     89999999988764

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.

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

Probab=96.72  E-value=0.006  Score=45.53  Aligned_cols=80  Identities=13%  Similarity=0.195  Sum_probs=57.0

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEE-eCC-eecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLV-FRG-KVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi-~~G-k~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      ++|.|-+........-.++++.||.+||.+++.  ..|.+++..+|. |.| -...-..+.++..|..|+..+|-.||+.
T Consensus         2 v~v~Iss~~~~~~~Ekr~~~~ltl~q~K~KLe~--~~G~~~~~M~l~l~~~~d~~~~~lsn~d~~lg~~~~~Dg~rihvi   79 (234)
T KOG3206|consen    2 VRVVISSSLNDFRTEKRLSNSLTLAQFKDKLEL--LTGTEAESMELELYDGDDKKVSALSNEDADLGFYKVEDGLRIHVI   79 (234)
T ss_pred             eEEEEecccccchhhhhcCCcCcHHHHHhhhhh--hhCCCccceEEEEEcCCCceeeeccCCcccccccCCCCceEEEEE
Confidence            456666444332225678899999999999998  999999999984 655 1111122344566999999999999986


Q ss_pred             EecC
Q 034173           88 LFNL   91 (102)
Q Consensus        88 ~~~~   91 (102)
                      =.++
T Consensus        80 D~~~   83 (234)
T KOG3206|consen   80 DSNA   83 (234)
T ss_pred             ecCc
Confidence            5544

>cd01771 Faf1_UBX Faf1 UBX domain

Probab=96.58  E-value=0.039  Score=34.86  Aligned_cols=74  Identities=15%  Similarity=0.183  Sum_probs=59.2

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEE--eCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLV--FRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi--~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      ..++|-||.++|+.. .-....++++.+|-.-|..   .+++++..+|+  |-=|.+.+.  +.+.+|.+.|+....+|.
T Consensus         3 ~~~~i~iRlP~G~r~-~rrF~~t~~L~~l~~fv~~---~~~~~~~f~L~t~fPRk~~~~~--d~~~TL~e~gL~p~~~L~   76 (80)
T cd01771           3 PISKLRVRTPSGDFL-ERRFLGDTPLQVLLNFVAS---KGYPIDEYKLLSSWPRRDLTQL--DPNFTLLELKLYPQETLI   76 (80)
T ss_pred             CeEEEEEECCCCCEE-EEEeCCCCcHHHHHHHHHh---cCCCCCCEEEecCCCCCCCcCC--CCCCcHHHcCCCCCcEEE
Confidence            357899999999987 7789999999999999975   47788888886  666777422  123569999999999998


Q ss_pred             EE
Q 034173           86 IS   87 (102)
Q Consensus        86 l~   87 (102)
                      |.
T Consensus        77 Ve   78 (80)
T cd01771          77 LE   78 (80)
T ss_pred             EE
Confidence            74

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.

>cd01773 Faf1_like1_UBX Faf1 ike-1 UBX domain

Probab=96.56  E-value=0.036  Score=35.49  Aligned_cols=75  Identities=12%  Similarity=0.141  Sum_probs=60.0

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEE--eCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLV--FRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi--~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      .-+|-||.++|+.. .-....+.++.+|-.-+..   .+.+++...|+  |-=|.+....  -+.+|.+.|+.+..+|+|
T Consensus         5 ~t~i~vRlP~G~r~-~rrF~~~~~L~~v~~fv~~---~g~~~~~f~L~t~FPRr~~~~~d--~~~TL~e~GL~P~~~LfV   78 (82)
T cd01773           5 KARLMLRYPDGKRE-QIALPEQAKLLALVRHVQS---KGYPNERFELLTNFPRRKLSHLD--YDITLQEAGLCPQETVFV   78 (82)
T ss_pred             eeEEEEECCCCCEE-EEEeCCCCcHHHHHHHHHh---cCCCCCCEEEecCCCCcccCCcc--cCCCHHHcCCCCCcEEEE
Confidence            46889999999988 7888889999999998874   46788888887  6666774332  235699999999999998


Q ss_pred             EEe
Q 034173           87 SLF   89 (102)
Q Consensus        87 ~~~   89 (102)
                      .-|
T Consensus        79 q~r   81 (82)
T cd01773          79 QER   81 (82)
T ss_pred             ecC
Confidence            654

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.

>cd01770 p47_UBX p47-like ubiquitin domain

Probab=96.33  E-value=0.038  Score=34.74  Aligned_cols=66  Identities=21%  Similarity=0.230  Sum_probs=50.6

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCC-CCCCceEEE--eCCeecCCCCCCCCCCccccCCCCC
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANH-LPIENLRLV--FRGKVLDDTQDDDDRDDVYLQLSNG   81 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~-ip~~~qrLi--~~Gk~L~D~~t~~~~~L~~~~I~~g   81 (102)
                      ..+|.||.++|+.+ ......+.||.+|.+-|..  ..+ .......|.  |-.|.|.|.    +.+|.+.|+.+.
T Consensus         4 ~t~iqiRlpdG~r~-~~rF~~~~tv~~l~~~v~~--~~~~~~~~~f~L~t~fP~k~l~~~----~~Tl~eagL~~s   72 (79)
T cd01770           4 TTSIQIRLADGKRL-VQKFNSSHRVSDVRDFIVN--ARPEFAARPFTLMTAFPVKELSDE----SLTLKEANLLNA   72 (79)
T ss_pred             eeEEEEECCCCCEE-EEEeCCCCcHHHHHHHHHH--hCCCCCCCCEEEecCCCCcccCCC----CCcHHHCCCcCc
Confidence            46889999999998 7899999999999999986  432 223446664  677878543    556999999964

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.

>KOG0013 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.22  E-value=0.01  Score=44.35  Aligned_cols=63  Identities=17%  Similarity=0.211  Sum_probs=52.0

Q ss_pred             CCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173           18 GPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus        18 ~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      .++.+ .+.++.-.|+.++|.++.+  +.+..+-.||+.|+|+.|-|...     |.+++|..|..-.|-+
T Consensus       155 T~~d~-~lta~~~Dtv~eik~~L~A--aeg~D~~sQrif~Sg~~l~dkt~-----LeEc~iekg~rYvlqv  217 (231)
T KOG0013|consen  155 TREDF-WLTAPHYDTVGEIKRALRA--AEGVDPLSQRIFFSGGVLVDKTD-----LEECKIEKGQRYVLQV  217 (231)
T ss_pred             hhhhe-eecccCcCcHHHHHHHHHH--hhccchhhheeeccCCceecccc-----ceeeeecCCCEEEEEE
Confidence            34444 5677778999999999988  99999999999999999977766     9999999996544433

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

Probab=95.91  E-value=0.033  Score=36.63  Aligned_cols=71  Identities=15%  Similarity=0.244  Sum_probs=59.3

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      -|.++|-..++..+ -+.+....+.+.|-...+.  +.|-..+..|+.|.|+.+.-++|     -.+++..+++.|..+
T Consensus        24 hinLkvv~qd~tel-fFkiKktT~f~klm~af~~--rqGK~m~slRfL~dG~rI~~dqT-----P~dldmEdnd~iEav   94 (103)
T COG5227          24 HINLKVVDQDGTEL-FFKIKKTTTFKKLMDAFSR--RQGKNMSSLRFLFDGKRIDLDQT-----PGDLDMEDNDEIEAV   94 (103)
T ss_pred             ccceEEecCCCCEE-EEEEeccchHHHHHHHHHH--HhCcCcceeEEEEcceecCCCCC-----hhhcCCccchHHHHH
Confidence            35555556666666 7899999999999999988  89999999999999999987777     999999999877543

>PRK06437 hypothetical protein; Provisional

Probab=95.38  E-value=0.12  Score=31.38  Aligned_cols=53  Identities=15%  Similarity=0.194  Sum_probs=40.4

Q ss_pred             CCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173           18 GPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus        18 ~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      +++.. .++++.+.||.+|=+      ..+++++..-+..+|+++.          .++-|++||.|.+.
T Consensus         9 g~~~~-~~~i~~~~tv~dLL~------~Lgi~~~~vaV~vNg~iv~----------~~~~L~dgD~Veiv   61 (67)
T PRK06437          9 GHINK-TIEIDHELTVNDIIK------DLGLDEEEYVVIVNGSPVL----------EDHNVKKEDDVLIL   61 (67)
T ss_pred             CCcce-EEEcCCCCcHHHHHH------HcCCCCccEEEEECCEECC----------CceEcCCCCEEEEE
Confidence            44444 688888999998732      4568888888899999995          34468999999764

>PLN02799 Molybdopterin synthase sulfur carrier subunit

Probab=95.28  E-value=0.096  Score=32.49  Aligned_cols=65  Identities=17%  Similarity=0.162  Sum_probs=41.4

Q ss_pred             EEEEEEcC------CCCCceEEEecCCCcHHHHHHHHHhccCC-CCCC--CceEEEeCCeecCCCCCCCCCCccccCCCC
Q 034173           10 VEITVKTI------GPAPPSRLSVSSPIKVRDLRKLIATSSAN-HLPI--ENLRLVFRGKVLDDTQDDDDRDDVYLQLSN   80 (102)
Q Consensus        10 i~I~vK~~------~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~-~ip~--~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~   80 (102)
                      |+|+|+..      .|.....++++.++||.+|.+.+.+  .. ++..  ..-.+..+|+...++          .-|++
T Consensus         2 m~i~V~~fa~~re~~g~~~~~~~~~~~~tv~~L~~~l~~--~~p~l~~~~~~~~vavN~~~v~~~----------~~l~d   69 (82)
T PLN02799          2 VEIKVLFFARARELTGVSDMTLELPAGSTTADCLAELVA--KFPSLEEVRSCCVLALNEEYTTES----------AALKD   69 (82)
T ss_pred             eEEEEEehHHHHHHhCCCeEEEECCCCCcHHHHHHHHHH--HChhHHHHhhCcEEEECCEEcCCC----------cCcCC
Confidence            67777753      2333236788889999999999976  43 1111  112355677776432          35899


Q ss_pred             CCEEEE
Q 034173           81 GGNINI   86 (102)
Q Consensus        81 g~ti~l   86 (102)
                      ||+|.+
T Consensus        70 gDeVai   75 (82)
T PLN02799         70 GDELAI   75 (82)
T ss_pred             CCEEEE
Confidence            999876

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

Probab=95.27  E-value=0.052  Score=34.69  Aligned_cols=46  Identities=20%  Similarity=0.348  Sum_probs=38.8

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCee
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKV   61 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~   61 (102)
                      .++|+++.    .+ .+.|+++.+..+|.++|++  +.++|++..+|-|+...
T Consensus         4 vvKV~f~~----tI-aIrvp~~~~y~~L~~ki~~--kLkl~~e~i~LsYkde~   49 (80)
T cd06406           4 VVKVHFKY----TV-AIQVARGLSYATLLQKISS--KLELPAEHITLSYKSEA   49 (80)
T ss_pred             EEEEEEEE----EE-EEEcCCCCCHHHHHHHHHH--HhCCCchhcEEEeccCC
Confidence            45666653    45 8999999999999999999  99999999999997654

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

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

Probab=95.21  E-value=0.056  Score=33.85  Aligned_cols=58  Identities=24%  Similarity=0.312  Sum_probs=44.7

Q ss_pred             ecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCcccc-CCCCCCEEEEEEec
Q 034173           27 VSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYL-QLSNGGNINISLFN   90 (102)
Q Consensus        27 v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~-~I~~g~ti~l~~~~   90 (102)
                      |++..+|.++++.++.. ..-.+-....|.++|+.|+|...     |.+. |+++|.++.+..++
T Consensus         1 v~~~d~v~dvrq~L~~~-~~t~~~Tn~~L~~~g~~L~~~~e-----l~~i~~~~~~~~L~lve~p   59 (76)
T PF15044_consen    1 VSPTDTVQDVRQVLAES-PETCYLTNFSLEHNGQRLDDFVE-----LSEIEGIKDGCVLELVEEP   59 (76)
T ss_pred             CChhhHHHHHHHHHHhC-ccccceeEEEEEECCCccCCchh-----hhhhhCCCCCcEEEEEecC
Confidence            56788999999999972 22255566888999999977666     7776 48999999987554

>PRK08364 sulfur carrier protein ThiS; Provisional

Probab=95.06  E-value=0.39  Score=29.23  Aligned_cols=61  Identities=16%  Similarity=0.217  Sum_probs=43.5

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      +|+|++..... .. .++++.+.||.+|-+++      +++++.-.+..+|+.+..          +.-+++||.|-+.
T Consensus         4 mm~v~vng~~~-~~-~~~~~~~~tv~~ll~~l------~~~~~~v~v~vNg~iv~~----------~~~l~~gD~Veii   64 (70)
T PRK08364          4 MIRVKVIGRGI-EK-EIEWRKGMKVADILRAV------GFNTESAIAKVNGKVALE----------DDPVKDGDYVEVI   64 (70)
T ss_pred             EEEEEEecccc-ce-EEEcCCCCcHHHHHHHc------CCCCccEEEEECCEECCC----------CcCcCCCCEEEEE
Confidence            37777755432 23 67888999999986554      456677777899999843          3358999988763

>cd00754 MoaD Ubiquitin domain of MoaD-like proteins

Probab=94.48  E-value=0.29  Score=29.68  Aligned_cols=52  Identities=15%  Similarity=0.234  Sum_probs=37.6

Q ss_pred             EEEecCCCcHHHHHHHHHhccCCCC----CCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173           24 RLSVSSPIKVRDLRKLIATSSANHL----PIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus        24 ~l~v~~~~TV~~LK~~Ia~~~~~~i----p~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      .++++.+.||.+|.+.+.+  ...-    .....++..+|+....          +.-|++||.|.+.
T Consensus        19 ~~~~~~~~tv~~ll~~l~~--~~~~~~~~~~~~~~v~vNg~~v~~----------~~~l~~gD~v~i~   74 (80)
T cd00754          19 ELELPEGATVGELLDALEA--RYPGLLEELLARVRIAVNGEYVRL----------DTPLKDGDEVAII   74 (80)
T ss_pred             EEECCCCCcHHHHHHHHHH--HCchHHHhhhhcEEEEECCeEcCC----------CcccCCCCEEEEe
Confidence            6777778999999999987  4321    2334566778888852          2359999999874

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.

>PF14453 ThiS-like: ThiS-like ubiquitin

Probab=94.38  E-value=0.35  Score=28.97  Aligned_cols=48  Identities=13%  Similarity=0.164  Sum_probs=37.0

Q ss_pred             EEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           24 RLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        24 ~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      .+++..+.|+.+||.++..  ..      =-+||+|=+.+++..          |++||.|++.-|
T Consensus         9 ~~~~~~~~tl~~lr~~~k~--~~------DI~I~NGF~~~~d~~----------L~e~D~v~~Ikk   56 (57)
T PF14453_consen    9 EIETEENTTLFELRKESKP--DA------DIVILNGFPTKEDIE----------LKEGDEVFLIKK   56 (57)
T ss_pred             EEEcCCCcCHHHHHHhhCC--CC------CEEEEcCcccCCccc----------cCCCCEEEEEeC
Confidence            4688899999999988754  22      267999998865544          899999987543

>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B

Probab=94.06  E-value=0.61  Score=29.79  Aligned_cols=64  Identities=17%  Similarity=0.281  Sum_probs=33.4

Q ss_pred             EEecC-CCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCC---C--CCCCccccCCCCCCEEEEEEecC
Q 034173           25 LSVSS-PIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQD---D--DDRDDVYLQLSNGGNINISLFNL   91 (102)
Q Consensus        25 l~v~~-~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t---~--~~~~L~~~~I~~g~ti~l~~~~~   91 (102)
                      +.++. .+|+.+|-++|-. .+.|+....  +.+.|+.+-+...   +  -++.|+++||.+|+.+.+.=..+
T Consensus         2 v~~d~~~~TL~~lv~~Vlk-~~Lg~~~P~--v~~~~~ilyd~de~~~~~~l~k~L~elgi~~gs~L~v~D~~q   71 (87)
T PF14732_consen    2 VKVDTKKMTLGDLVEKVLK-KKLGMNEPD--VSVGGTILYDSDEEEYDDNLPKKLSELGIVNGSILTVDDFDQ   71 (87)
T ss_dssp             EEE-TTT-BHHHHHHHCCC-CCS--SSEE--EEES-EEEE-SSSSSSTTCTTSBGGGGT--TT-EEEEEETTT
T ss_pred             EEEechhCcHHHHHHHHHH-hccCCCCCE--EEeCCCEEEcCCcchhhhcccCChhHcCCCCCCEEEEEEcCC
Confidence            44543 4899999988753 244444322  2225555533322   2  23789999999999888755544

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

Probab=93.80  E-value=0.15  Score=32.88  Aligned_cols=44  Identities=16%  Similarity=0.092  Sum_probs=36.9

Q ss_pred             EEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCC---ceEEEe
Q 034173           11 EITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIE---NLRLVF   57 (102)
Q Consensus        11 ~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~---~qrLi~   57 (102)
                      ..++|+++|... .+.+.++..+.+|++.|++  +.|+..+   ...|-|
T Consensus         2 ~FK~~~~~Grvh-Rf~~~~s~~~~~L~~~I~~--Rl~~d~~~~~~~~L~Y   48 (86)
T cd06409           2 AFKFKDPKGRVH-RFRLRPSESLEELRTLISQ--RLGDDDFETHLYALSY   48 (86)
T ss_pred             cEEeeCCCCCEE-EEEecCCCCHHHHHHHHHH--HhCCccccCCcccEEE
Confidence            357889999887 8999999999999999998  9988874   566655

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

>smart00666 PB1 PB1 domain

Probab=93.53  E-value=0.21  Score=30.61  Aligned_cols=46  Identities=28%  Similarity=0.438  Sum_probs=35.8

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCC
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRG   59 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~G   59 (102)
                      ++|+++. ++... .+.++++.|..+|+.+|+.  +.+.+....+|-|..
T Consensus         2 ~~vK~~~-~~~~~-~~~~~~~~s~~dL~~~i~~--~~~~~~~~~~l~Y~D   47 (81)
T smart00666        2 VDVKLRY-GGETR-RLSVPRDISFEDLRSKVAK--RFGLDNQSFTLKYQD   47 (81)
T ss_pred             ccEEEEE-CCEEE-EEEECCCCCHHHHHHHHHH--HhCCCCCCeEEEEEC
Confidence            4555655 44444 8999999999999999998  888877778887763

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.

>PF10790 DUF2604: Protein of Unknown function (DUF2604); InterPro: IPR019726 This entry represents bacterial proteins with undetermined function

Probab=93.35  E-value=0.45  Score=29.55  Aligned_cols=68  Identities=22%  Similarity=0.236  Sum_probs=47.4

Q ss_pred             CCCCceEEEecCCCcHHHHHH-HHHhccCCCCCCCceEEE-eCCeecCCCCCCCCCCccccCCCCCCEEEEEEecC
Q 034173           18 GPAPPSRLSVSSPIKVRDLRK-LIATSSANHLPIENLRLV-FRGKVLDDTQDDDDRDDVYLQLSNGGNINISLFNL   91 (102)
Q Consensus        18 ~~~~~~~l~v~~~~TV~~LK~-~Ia~~~~~~ip~~~qrLi-~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~~~   91 (102)
                      +|+.. .++..+++..--+.+ .+.++...+-|++...|- -+|.+|+-++.     +++||+.+|-+++++++..
T Consensus         4 NGqPv-~VEANvnaPLh~v~akALe~sgNvgQP~ENWElkDe~G~vlD~~kK-----veD~GftngvkLFLsLKAG   73 (76)
T PF10790_consen    4 NGQPV-QVEANVNAPLHPVRAKALEQSGNVGQPPENWELKDESGQVLDVNKK-----VEDFGFTNGVKLFLSLKAG   73 (76)
T ss_pred             CCCce-eeecCCCCcchHHHHHHHhhccccCCCcccceeeccCCcEeeccch-----hhhccccccceEEEEeecc
Confidence            55555 566666655444433 344333456888888875 57888865555     9999999999999999863

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

Probab=92.56  E-value=0.14  Score=40.95  Aligned_cols=66  Identities=12%  Similarity=0.193  Sum_probs=55.8

Q ss_pred             eEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEecCCC
Q 034173           23 SRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLFNLDD   93 (102)
Q Consensus        23 ~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~~~~~   93 (102)
                      .+++|..+.....|+..+..  ..+++.+..-|+|+++++.+..   ..+|..+|+++|+++.+--+..+.
T Consensus        15 ~~i~v~~dg~L~nl~aL~~~--d~g~~~~~~~li~n~~~l~s~~---s~~l~Q~g~~~~dsl~lr~ks~d~   80 (380)
T KOG0012|consen   15 FPIPVTTDGELNNLAALCWK--DTGIVYDPSDLIYNPRPLVSNE---SQGLTQIGLKDGDSLALRCKSSDP   80 (380)
T ss_pred             eccccccccchhhHHHHHHH--HhCcccchhhcccCCCccccch---hhhhhhcccccceeEeccCCCCCC
Confidence            37888999999999999988  9999999999999999996542   255999999999999876655544

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

Probab=92.53  E-value=1.3  Score=27.25  Aligned_cols=51  Identities=16%  Similarity=0.283  Sum_probs=35.7

Q ss_pred             EEEecCC-CcHHHHHHHHHhccCCC-CC--CCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173           24 RLSVSSP-IKVRDLRKLIATSSANH-LP--IENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus        24 ~l~v~~~-~TV~~LK~~Ia~~~~~~-ip--~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      .++++.+ .||.+|++.+.+  +.. +-  ....++..+|+...+          +.-|++|++|.+
T Consensus        19 ~~~~~~~~~tv~~L~~~L~~--~~p~l~~~~~~~~v~vn~~~v~~----------~~~l~dgDevai   73 (80)
T TIGR01682        19 TLELPDESTTVGELKEHLAK--EGPELAASRGQVMVAVNEEYVTD----------DALLNEGDEVAF   73 (80)
T ss_pred             EEECCCCCcCHHHHHHHHHH--hCchhhhhccceEEEECCEEcCC----------CcCcCCCCEEEE
Confidence            6788876 899999999987  542 11  122456678887753          335999999876

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

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

Probab=92.09  E-value=0.24  Score=31.42  Aligned_cols=38  Identities=18%  Similarity=0.240  Sum_probs=29.8

Q ss_pred             CCCCceEEEecCCCcHHHHHHHHHhccCCCCCC-CceEEEeC
Q 034173           18 GPAPPSRLSVSSPIKVRDLRKLIATSSANHLPI-ENLRLVFR   58 (102)
Q Consensus        18 ~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~-~~qrLi~~   58 (102)
                      ++... .+.++++.+..+|++.|++  +.++.. ....|-|.
T Consensus         8 ~~d~~-r~~l~~~~~~~~L~~~i~~--r~~~~~~~~f~LkY~   46 (82)
T cd06407           8 GEEKI-RFRLPPSWGFTELKQEIAK--RFKLDDMSAFDLKYL   46 (82)
T ss_pred             CCeEE-EEEcCCCCCHHHHHHHHHH--HhCCCCCCeeEEEEE
Confidence            44544 8999999999999999998  888765 55666553

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

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

Probab=91.63  E-value=1.2  Score=27.58  Aligned_cols=44  Identities=18%  Similarity=0.129  Sum_probs=36.9

Q ss_pred             EEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCC
Q 034173           13 TVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRG   59 (102)
Q Consensus        13 ~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~G   59 (102)
                      .|=.++|+.. .+.+.|+.||.|+=+++.+  +.|+.++.-.+...|
T Consensus         3 ~V~LPng~~t-~V~vrpg~ti~d~L~~~c~--kr~l~~~~~~v~~~~   46 (72)
T cd01760           3 RVYLPNGQRT-VVPVRPGMSVRDVLAKACK--KRGLNPECCDVFLLG   46 (72)
T ss_pred             EEECcCCCeE-EEEECCCCCHHHHHHHHHH--HcCCCHHHEEEEEec
Confidence            4456788877 8999999999999999998  999999997776543

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

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

Probab=91.46  E-value=0.73  Score=27.93  Aligned_cols=67  Identities=13%  Similarity=0.066  Sum_probs=45.1

Q ss_pred             EEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCC-CceEEEe----C--CeecCCCCCCCCCCccccCCC--CCCEE
Q 034173           14 VKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPI-ENLRLVF----R--GKVLDDTQDDDDRDDVYLQLS--NGGNI   84 (102)
Q Consensus        14 vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~-~~qrLi~----~--Gk~L~D~~t~~~~~L~~~~I~--~g~ti   84 (102)
                      |+.++|+.. .+++++++|+.+|=++|+.  ..++.. +-.-|.|    .  ...|+.+++     |..+...  .--++
T Consensus         1 V~llD~~~~-~~~v~~~~t~~~l~~~v~~--~l~l~e~~~FgL~~~~~~~~~~~wL~~~k~-----l~~q~~~~~~~~~l   72 (80)
T PF09379_consen    1 VRLLDGTTK-TFEVDPKTTGQDLLEQVCD--KLGLKEKEYFGLQYQVDKDGEHHWLDLDKK-----LKKQLKKNNPPFTL   72 (80)
T ss_dssp             EEESSEEEE-EEEEETTSBHHHHHHHHHH--HHTTSSGGGEEEEE-EBTTSSEEEE-SSSB-----GGGSTBTSSSSEEE
T ss_pred             CCCcCCCcE-EEEEcCCCcHHHHHHHHHH--HcCCCCccEEEEEEeecCCCcceeccCccc-----HHHHcCCCCCCEEE
Confidence            456788776 8999999999999999998  777653 3366666    1  233444444     8888777  33345


Q ss_pred             EEEE
Q 034173           85 NISL   88 (102)
Q Consensus        85 ~l~~   88 (102)
                      ++.+
T Consensus        73 ~frv   76 (80)
T PF09379_consen   73 YFRV   76 (80)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            5444

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 ....

>PRK07440 hypothetical protein; Provisional

Probab=91.25  E-value=1.3  Score=27.11  Aligned_cols=63  Identities=16%  Similarity=0.192  Sum_probs=45.0

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      .+|+|+|   +|+   .++++.+.||.+|-+      ..++++..--+.++|.++.-+.      -.+.-+++||.|-+.
T Consensus         3 ~~m~i~v---NG~---~~~~~~~~tl~~lL~------~l~~~~~~vav~~N~~iv~r~~------w~~~~L~~gD~IEIv   64 (70)
T PRK07440          3 NPITLQV---NGE---TRTCSSGTSLPDLLQ------QLGFNPRLVAVEYNGEILHRQF------WEQTQVQPGDRLEIV   64 (70)
T ss_pred             CceEEEE---CCE---EEEcCCCCCHHHHHH------HcCCCCCeEEEEECCEEeCHHH------cCceecCCCCEEEEE
Confidence            3577765   444   357788899988743      3457788888889999996332      355679999999765


Q ss_pred             E
Q 034173           88 L   88 (102)
Q Consensus        88 ~   88 (102)
                      -
T Consensus        65 ~   65 (70)
T PRK07440         65 T   65 (70)
T ss_pred             E
Confidence            3

>cd01775 CYR1_RA Ubiquitin domain of CYR1 adenylate cyclase

Probab=91.24  E-value=1.1  Score=29.56  Aligned_cols=77  Identities=23%  Similarity=0.222  Sum_probs=52.0

Q ss_pred             CCceEEEecCCCcHHHHHHHHHhccCCCCCC-CceEE-EeCC---eecCCCCCCC---CCCccccCCCCCCEEEEEEecC
Q 034173           20 APPSRLSVSSPIKVRDLRKLIATSSANHLPI-ENLRL-VFRG---KVLDDTQDDD---DRDDVYLQLSNGGNINISLFNL   91 (102)
Q Consensus        20 ~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~-~~qrL-i~~G---k~L~D~~t~~---~~~L~~~~I~~g~ti~l~~~~~   91 (102)
                      .++.++.++.++||.||-.+++.  +..++. ..-+| +..|   |+|...+.+-   .+-|...|.++.|-++.  ...
T Consensus        12 ~Tf~Tls~~l~tTv~eli~~L~r--K~~l~~~~ny~l~l~~~~l~RvL~p~ErPl~IqkrlL~q~GY~~~D~l~~--lGr   87 (97)
T cd01775          12 GTFTTLSCPLNTTVSELIPQLAK--KFYLPSGGNYQLSLKKHDLSRVLRPTEKPLLIQKRLLLQVGYEERDRIED--IGR   87 (97)
T ss_pred             CcEEEEEcCCcCcHHHHHHHHHH--hhcCCCCCCeEEEEEECCeeeecCCcCCcHHHHHHHHHHcCCCCCCcHHH--hCc
Confidence            34558999999999999999987  877776 33444 3333   5664332100   02377788888888876  445


Q ss_pred             CCceeeEec
Q 034173           92 DDLSFQFEF  100 (102)
Q Consensus        92 ~~~~~~~~~  100 (102)
                      +|+||=+-|
T Consensus        88 eD~Syl~rF   96 (97)
T cd01775          88 EDNSFLCRF   96 (97)
T ss_pred             ccceEEEEe
Confidence            689987766

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

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

Probab=90.94  E-value=0.84  Score=29.60  Aligned_cols=63  Identities=17%  Similarity=0.120  Sum_probs=39.9

Q ss_pred             EEEecCCCcHHHHHHHHHhccCCCCCCCceEEE--e--CCe-ecCCCCCCCCCCccccCCCCCCEEEEEEecCCC
Q 034173           24 RLSVSSPIKVRDLRKLIATSSANHLPIENLRLV--F--RGK-VLDDTQDDDDRDDVYLQLSNGGNINISLFNLDD   93 (102)
Q Consensus        24 ~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi--~--~Gk-~L~D~~t~~~~~L~~~~I~~g~ti~l~~~~~~~   93 (102)
                      +-..+..+||..+...+.+  ...+ .+.-||-  |  ++. .|.+.    +.+|++.+|.+|.+|.+-.+|.|+
T Consensus        17 t~~FSk~DTI~~v~~~~rk--lf~i-~~E~RLW~~~~~~~~e~L~~~----~~Tv~da~L~~gQ~vliE~rn~DG   84 (88)
T PF14836_consen   17 TKQFSKTDTIGFVEKEMRK--LFNI-QEETRLWNKYSENSYELLNNP----EITVEDAGLYDGQVVLIEERNEDG   84 (88)
T ss_dssp             EEEE-TTSBHHHHHHHHHH--HCT--TS-EEEEEECTTTCEEEE--T----TSBTTTTT--TTEEEEEEE--TTS
T ss_pred             HhhccccChHHHHHHHHHH--HhCC-CccceehhccCCcchhhhCCC----CccHHHccCcCCCEEEEEeeccCC
Confidence            5667888999999999988  8888 4556663  2  122 23222    234999999999999999999764

>smart00295 B41 Band 4

Probab=90.75  E-value=3.5  Score=28.67  Aligned_cols=40  Identities=10%  Similarity=0.099  Sum_probs=35.1

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCC
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPI   50 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~   50 (102)
                      ..+.|.|-.++|... .+.+++.+|+.++-+.++.  +.|++.
T Consensus         2 ~~~~~~V~l~dg~~~-~~~~~~~~t~~ev~~~v~~--~~~l~~   41 (207)
T smart00295        2 KPRVLKVYLLDGTTL-EFEVDSSTTAEELLETVCR--KLGIRE   41 (207)
T ss_pred             CcEEEEEEecCCCEE-EEEECCCCCHHHHHHHHHH--HhCCCc
Confidence            457888899999887 8999999999999999999  888854

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

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

Probab=90.65  E-value=0.54  Score=28.74  Aligned_cols=47  Identities=26%  Similarity=0.331  Sum_probs=36.2

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCC
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRG   59 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~G   59 (102)
                      ++|++...++... .+.++.+.|..+|+.+|++  ..+.+....+|-|..
T Consensus         2 ~~vK~~~~~~~~~-~~~~~~~~s~~~L~~~i~~--~~~~~~~~~~l~Y~D   48 (84)
T PF00564_consen    2 VRVKVRYGGDIRR-IISLPSDVSFDDLRSKIRE--KFGLLDEDFQLKYKD   48 (84)
T ss_dssp             EEEEEEETTEEEE-EEEECSTSHHHHHHHHHHH--HHTTSTSSEEEEEEE
T ss_pred             EEEEEEECCeeEE-EEEcCCCCCHHHHHHHHHH--HhCCCCccEEEEeeC
Confidence            5566666444332 4899999999999999998  888888888888854

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 ....

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.58  E-value=1.1  Score=35.99  Aligned_cols=62  Identities=15%  Similarity=0.250  Sum_probs=47.7

Q ss_pred             EEEecCCCcHHHHHHHHHhccCCCCCCCceEEEe---CCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173           24 RLSVSSPIKVRDLRKLIATSSANHLPIENLRLVF---RGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus        24 ~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~---~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      ...+.-.-||.|||.++..  +-|+-+.+.||.|   .||.-.-...+-+.-|-.|+|++||.+.+.
T Consensus       351 s~~I~~~~TV~D~~~~Ld~--~VGvk~trMkLf~L~eD~rt~~~ss~~~N~~L~~fkIedGDs~lvq  415 (418)
T KOG2982|consen  351 SGLICMTRTVLDFMKILDP--KVGVKFTRMKLFLLREDGRTDDFSSSDYNMPLHYFKIEDGDSFLVQ  415 (418)
T ss_pred             ceEEEeehHHHHHHHHhcc--ccccccceeEEEEEcccCccCCccccCCCCcceEEeccCCCEeeee
Confidence            4566667899999999988  9999999999987   444433333333466999999999998764

>PF11620 GABP-alpha: GA-binding protein alpha chain; InterPro: IPR024668 GA-binding protein alpha is a transcription factor capable of interacting with purine rich repeats (GA repeats)

Probab=89.96  E-value=0.76  Score=29.81  Aligned_cols=59  Identities=10%  Similarity=0.149  Sum_probs=41.5

Q ss_pred             EEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           24 RLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        24 ~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      ...++-...+..||..++.  +.++.-+.-.+..+...|.++++     |.+-+++-..+|.+++.
T Consensus         6 ~q~mDI~epl~~Lk~lLe~--Rl~~~L~~~~f~LQD~~L~~~k~-----L~dQcVqgeGlVQlnvQ   64 (88)
T PF11620_consen    6 MQHMDIREPLSTLKKLLER--RLGISLSDYEFWLQDIQLEPHKS-----LVDQCVQGEGLVQLNVQ   64 (88)
T ss_dssp             EEEEESSSBGGGHHHHSHH--HH-S--SS-EEEETTEE--TTSB-----TTTSS----SEEEEEEE
T ss_pred             EEEEecCCcHHHHHHHHHH--hhCCCcCCCeEEeccceecCCcc-----HHHhhccccCEEEEEEE
Confidence            4566778889999999998  88888888888888888987777     99999999999988773

This N-terminal domain found in the transcription factor GABP alpha consists of a five-stranded beta-sheet crossed by a distorted helix and has been termed OST domain. The surface of the GABP alpha OST domain contains two clusters of negatively-charged residues suggesting there are positively-charged partner proteins. The OST domain binds to the CH1 and CH3 domains of the co-activator histone acetyltransferase CBP/p300 [].; PDB: 2JUO_A.

>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein

Probab=89.77  E-value=1.6  Score=25.92  Aligned_cols=52  Identities=15%  Similarity=0.250  Sum_probs=38.7

Q ss_pred             EEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173           24 RLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus        24 ~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      .++++..+||.+|.+++      +++++...+..+|+.+..+.      -.+.-|++||+|.+.
T Consensus         8 ~~~~~~~~tv~~ll~~l------~~~~~~i~V~vNg~~v~~~~------~~~~~L~~gD~V~ii   59 (65)
T cd00565           8 PREVEEGATLAELLEEL------GLDPRGVAVALNGEIVPRSE------WASTPLQDGDRIEIV   59 (65)
T ss_pred             EEEcCCCCCHHHHHHHc------CCCCCcEEEEECCEEcCHHH------cCceecCCCCEEEEE
Confidence            46788889999987665      35677788889999985432      233569999999764

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

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

Probab=89.35  E-value=1  Score=26.91  Aligned_cols=55  Identities=22%  Similarity=0.358  Sum_probs=40.9

Q ss_pred             EEEecCCCcHHHHHHHHHhccCCC--CCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173           24 RLSVSSPIKVRDLRKLIATSSANH--LPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus        24 ~l~v~~~~TV~~LK~~Ia~~~~~~--ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      .+.++...||.+|.+.+..  +..  .....-++..+|+...+  .     -.+.-+++||+|.+.
T Consensus        15 ~~~~~~~~tv~~ll~~l~~--~~p~~~~~~~~~v~vN~~~v~~--~-----~~~~~l~~gD~V~i~   71 (77)
T PF02597_consen   15 EIEVPEGSTVRDLLEALAE--RYPELALRDRVAVAVNGEIVPD--D-----GLDTPLKDGDEVAIL   71 (77)
T ss_dssp             EEEESSTSBHHHHHHHHCH--HTGGGHTTTTEEEEETTEEEGG--G-----TTTSBEETTEEEEEE
T ss_pred             EEecCCCCcHHHHHHHHHh--hccccccCccEEEEECCEEcCC--c-----cCCcCcCCCCEEEEE
Confidence            5778889999999999976  331  12367888899999966  1     335568999999873

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=89.30  E-value=1.3  Score=27.76  Aligned_cols=40  Identities=15%  Similarity=0.128  Sum_probs=26.5

Q ss_pred             EEEEcCCCCCceEEEecC-CCcHHHHHHHHHhccCCCCCCC
Q 034173           12 ITVKTIGPAPPSRLSVSS-PIKVRDLRKLIATSSANHLPIE   51 (102)
Q Consensus        12 I~vK~~~~~~~~~l~v~~-~~TV~~LK~~Ia~~~~~~ip~~   51 (102)
                      |+.|..+.+....++++. ..+|.+||..|.++.+.|-..+
T Consensus         1 V~YKFkS~k~~~~i~fdG~~Isv~dLKr~I~~~~~lg~~~d   41 (74)
T PF08783_consen    1 VHYKFKSQKDYDTITFDGTSISVFDLKREIIEKKKLGKGTD   41 (74)
T ss_dssp             EEEEETT-SSEEEEEESSSEEEHHHHHHHHHHHHT---TTT
T ss_pred             CeEEecccCCccEEEECCCeeEHHHHHHHHHHHhCCCcCCc
Confidence            466777777776788875 5899999999988334443333

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.

>COG5100 NPL4 Nuclear pore protein [Nuclear structure]

Probab=88.54  E-value=2.4  Score=34.97  Aligned_cols=74  Identities=12%  Similarity=0.113  Sum_probs=54.8

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEe----CCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVF----RGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~----~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      |-+.+|++.|..  .+++.++.+.+.|-.+|-.-...++.|++..+--    +|-+.   ..++++++.++|+++|+.++
T Consensus         1 Mi~rfRsk~G~~--Rve~qe~d~lg~l~~kll~~~~~n~~~e~~svc~~p~~qG~~~---s~l~dqt~~dlGL~hGqmLy   75 (571)
T COG5100           1 MIFRFRSKEGQR--RVEVQESDVLGMLSPKLLAFFEVNYSPEQISVCSAPDGQGEIF---SLLKDQTPDDLGLRHGQMLY   75 (571)
T ss_pred             CeEEEecCCCce--eeeccccchhhhhhHHHHhhhccCCCccceEEEeCCCCCceee---ecccccChhhhccccCcEEE
Confidence            346788989876  5899999999988877765345567888766642    34432   22455669999999999999


Q ss_pred             EEE
Q 034173           86 ISL   88 (102)
Q Consensus        86 l~~   88 (102)
                      |..
T Consensus        76 l~y   78 (571)
T COG5100          76 LEY   78 (571)
T ss_pred             EEe
Confidence            987

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

Probab=88.48  E-value=0.14  Score=40.18  Aligned_cols=64  Identities=19%  Similarity=0.464  Sum_probs=0.0

Q ss_pred             CCcEEEEEEcCCCCCceEEEec---C--CCcHHHHHHHHHhcc---------CCCCCCCceE-----EEeCCeecCCCCC
Q 034173            7 SESVEITVKTIGPAPPSRLSVS---S--PIKVRDLRKLIATSS---------ANHLPIENLR-----LVFRGKVLDDTQD   67 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~---~--~~TV~~LK~~Ia~~~---------~~~ip~~~qr-----Li~~Gk~L~D~~t   67 (102)
                      +..|+|.+|++-+-.+ .+.++   +  +.+|.++|..+++ +         +.++|.+..+     |.|+-|.+.|.++
T Consensus        76 ~~sItV~Lks~rnp~l-~i~L~~~~plattSv~dlk~~v~~-rv~~~~~~~~~~~vp~dKik~~~~~lL~~kkPv~~~kt  153 (309)
T PF12754_consen   76 SKSITVHLKSLRNPPL-DISLPNVPPLATTSVQDLKDAVQQ-RVHPSQATYDETRVPLDKIKNFRCRLLYKKKPVGDSKT  153 (309)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CceEEEEeecCCCCCc-eeEeCCCCcCCcCcHHHHHHHHHh-hhcccccccccccCCHHHhhhhhhhheecCccCCCcCc
Confidence            3569999998876555 44433   2  4789999999974 2         5678888877     9999999977777


Q ss_pred             CCCCCccccC
Q 034173           68 DDDRDDVYLQ   77 (102)
Q Consensus        68 ~~~~~L~~~~   77 (102)
                           |.+..
T Consensus       154 -----l~e~l  158 (309)
T PF12754_consen  154 -----LAEVL  158 (309)
T ss_dssp             ----------
T ss_pred             -----HHHHH
Confidence                 66554

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

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

Probab=87.78  E-value=3.8  Score=25.12  Aligned_cols=61  Identities=20%  Similarity=0.275  Sum_probs=44.2

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      .|+|.+.   |+   +++++...|+.+|=   +   ..+++++.--..++|.++..+.      -.+.-+++||.|.+.
T Consensus         2 ~m~i~~n---g~---~~e~~~~~tv~dLL---~---~l~~~~~~vav~vNg~iVpr~~------~~~~~l~~gD~ievv   62 (68)
T COG2104           2 PMTIQLN---GK---EVEIAEGTTVADLL---A---QLGLNPEGVAVAVNGEIVPRSQ------WADTILKEGDRIEVV   62 (68)
T ss_pred             cEEEEEC---CE---EEEcCCCCcHHHHH---H---HhCCCCceEEEEECCEEccchh------hhhccccCCCEEEEE
Confidence            3556554   44   46888889999983   3   4668888888899999995433      256679999988764

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

Probab=87.77  E-value=1.4  Score=26.60  Aligned_cols=45  Identities=29%  Similarity=0.338  Sum_probs=33.1

Q ss_pred             EEEEEcCCCCCceEEEec-CCCcHHHHHHHHHhccCCCCCCCceEEEeCC
Q 034173           11 EITVKTIGPAPPSRLSVS-SPIKVRDLRKLIATSSANHLPIENLRLVFRG   59 (102)
Q Consensus        11 ~I~vK~~~~~~~~~l~v~-~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~G   59 (102)
                      +|+++..+ ... .+.++ .+.|..+|+++|.+  +.+.+....+|-|..
T Consensus         2 ~vK~~~~~-~~~-~~~~~~~~~s~~~L~~~i~~--~~~~~~~~~~l~y~D   47 (81)
T cd05992           2 RVKVKYGG-EIR-RFVVVSRSISFEDLRSKIAE--KFGLDAVSFKLKYPD   47 (81)
T ss_pred             cEEEEecC-CCE-EEEEecCCCCHHHHHHHHHH--HhCCCCCcEEEEeeC
Confidence            34555543 333 78888 89999999999998  888776667776654

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

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

Probab=87.61  E-value=3.9  Score=28.07  Aligned_cols=76  Identities=25%  Similarity=0.348  Sum_probs=44.7

Q ss_pred             EEEEEEcCCCCCce--EE-EecC-CCcHHHHHHHHHhcc--CCCCCCC------ceEEEeC---Ce------ecCCCC--
Q 034173           10 VEITVKTIGPAPPS--RL-SVSS-PIKVRDLRKLIATSS--ANHLPIE------NLRLVFR---GK------VLDDTQ--   66 (102)
Q Consensus        10 i~I~vK~~~~~~~~--~l-~v~~-~~TV~~LK~~Ia~~~--~~~ip~~------~qrLi~~---Gk------~L~D~~--   66 (102)
                      |.| ||+-.-..+.  .+ .|+. +.||.+|++++.+..  ..+++|-      ..+++++   .|      .|+|++  
T Consensus         3 VRl-IkSFeyRn~K~~Vl~~vdL~~~Tv~~l~~~v~~~I~t~~~~~Pfrn~~yDtlKIy~~AHg~Kt~nLvInle~De~~   81 (122)
T PF10209_consen    3 VRL-IKSFEYRNVKNLVLHNVDLKDTTVKDLKEQVKQDIKTRPGLPPFRNVKYDTLKIYTKAHGSKTNNLVINLEDDEDW   81 (122)
T ss_pred             EEE-EecccCCceeeeeeecCCcccCcHHHHHHHHHHHHhcCCCCCCceeeecceEEEEecCCCCCcCCceeeccCCcce
Confidence            444 5554444332  22 3666 789999998876522  3455554      4677642   22      122222  


Q ss_pred             ----CCCCCCccccCCCCCCEEEE
Q 034173           67 ----DDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus        67 ----t~~~~~L~~~~I~~g~ti~l   86 (102)
                          .+++++|.++||.++..|-+
T Consensus        82 iL~~~~~~~tL~~~gv~nETEiSf  105 (122)
T PF10209_consen   82 ILDVSDDDKTLKELGVENETEISF  105 (122)
T ss_pred             eeecCCCCCcHHHcCCCccceeee
Confidence                14667799999999877654

>TIGR01687 moaD_arch MoaD family protein, archaeal

Probab=87.36  E-value=4.2  Score=25.17  Aligned_cols=53  Identities=19%  Similarity=0.258  Sum_probs=34.7

Q ss_pred             EEEecCCCcHHHHHHHHHhccCCC-----C-C-----CCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173           24 RLSVSSPIKVRDLRKLIATSSANH-----L-P-----IENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus        24 ~l~v~~~~TV~~LK~~Ia~~~~~~-----i-p-----~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      .++++ +.||.+|.+.+.+  +..     + +     -...++..+|+....+.        ..-|++|+.|.+.
T Consensus        19 ~v~~~-~~tv~~l~~~l~~--~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~~~--------~~~l~dgdev~i~   82 (88)
T TIGR01687        19 EIEIE-GKTVGDLLNELMA--RYPKEFSELFKEGLGLVPNVIILVNGRNVDWGL--------GTELKDGDVVAIF   82 (88)
T ss_pred             EEEeC-CCCHHHHHHHHHH--HCcHHHHHhCccCCcccccEEEEECCEecCccC--------CCCCCCCCEEEEe
Confidence            56666 8999999999987  432     1 0     12245567787774321        1468999998863

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.

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

Probab=87.26  E-value=2.4  Score=35.68  Aligned_cols=84  Identities=11%  Similarity=0.225  Sum_probs=50.1

Q ss_pred             CcEEEEEEcCCC-CCceEEEecCCCcHHHHHHHHHhccCCCCC------CCceEEEe----CCe-ecCCCCCC----CC-
Q 034173            8 ESVEITVKTIGP-APPSRLSVSSPIKVRDLRKLIATSSANHLP------IENLRLVF----RGK-VLDDTQDD----DD-   70 (102)
Q Consensus         8 ~~i~I~vK~~~~-~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip------~~~qrLi~----~Gk-~L~D~~t~----~~-   70 (102)
                      .+++|.|-..++ .....+.|=..+||.++|++|-++.-.+.|      ++..-|.+    .|+ +|.|....    +. 
T Consensus       188 ~~ltl~v~~~~~~~~~i~VkVLdCDTItQVKeKiLDavyk~~p~S~rp~~~d~dLEwr~~~~~~~iL~D~D~ts~~~~~w  267 (539)
T PF08337_consen  188 KTLTLNVVPQEEGSEEIPVKVLDCDTITQVKEKILDAVYKNTPYSQRPRADDVDLEWRQGRGGRLILQDEDSTSKVEGGW  267 (539)
T ss_dssp             -EEEEEEECTTTSSTCEEEEEETTSBHHHHHHHHHHHHTTTS-GGGS--GGGEEEEEEETTSEEEEESSSSTTSEEETTE
T ss_pred             EEEEEEEEecCCCCceEEEEEEecCcccHHHHHHHHHHHcCCCCCCCCCccccceeeecCCCCcccccCCCCCcccCCCc
Confidence            567777554332 222367777889999999999876555544      34444533    234 56654310    01 


Q ss_pred             ---CCccccCCCCCCEEEEEEecC
Q 034173           71 ---RDDVYLQLSNGGNINISLFNL   91 (102)
Q Consensus        71 ---~~L~~~~I~~g~ti~l~~~~~   91 (102)
                         -||.+|+|.+|.+|-+.-+.-
T Consensus       268 krLNTL~HY~V~dga~vaLv~k~~  291 (539)
T PF08337_consen  268 KRLNTLAHYKVPDGATVALVPKQH  291 (539)
T ss_dssp             EE--BHHHHT--TTEEEEEEES--
T ss_pred             eEeccHhhcCCCCCceEEEeeccc
Confidence               469999999999999877653

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 ....

>TIGR01683 thiS thiamine biosynthesis protein ThiS

Probab=87.13  E-value=2.8  Score=24.74  Aligned_cols=52  Identities=15%  Similarity=0.228  Sum_probs=38.1

Q ss_pred             EEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173           24 RLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus        24 ~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      .++++.+.||.+|.+.+      +++++...+..+|+.+..+.      -.++-|++||.|-+.
T Consensus         7 ~~~~~~~~tv~~ll~~l------~~~~~~v~v~vN~~iv~~~~------~~~~~L~~gD~veii   58 (64)
T TIGR01683         7 PVEVEDGLTLAALLESL------GLDPRRVAVAVNGEIVPRSE------WDDTILKEGDRIEIV   58 (64)
T ss_pred             EEEcCCCCcHHHHHHHc------CCCCCeEEEEECCEEcCHHH------cCceecCCCCEEEEE
Confidence            45778888999987655      35667778889999985332      234579999999764

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

>smart00455 RBD Raf-like Ras-binding domain

Probab=86.61  E-value=5.4  Score=24.36  Aligned_cols=44  Identities=20%  Similarity=0.106  Sum_probs=37.8

Q ss_pred             EEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCC
Q 034173           13 TVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRG   59 (102)
Q Consensus        13 ~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~G   59 (102)
                      .|=.++|+.. .+.+.|+.||.|+=+.+-+  +.|+.++.-.+...|
T Consensus         3 ~v~LP~~~~~-~V~vrpg~tl~e~L~~~~~--kr~l~~~~~~v~~~g   46 (70)
T smart00455        3 KVHLPDNQRT-VVKVRPGKTVRDALAKALK--KRGLNPECCVVRLRG   46 (70)
T ss_pred             EEECCCCCEE-EEEECCCCCHHHHHHHHHH--HcCCCHHHEEEEEcC
Confidence            3446788877 8999999999999999998  999999998888755

>PRK05863 sulfur carrier protein ThiS; Provisional

Probab=86.15  E-value=2.4  Score=25.27  Aligned_cols=54  Identities=15%  Similarity=0.238  Sum_probs=40.0

Q ss_pred             CCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173           18 GPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus        18 ~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      +|+.   .+++++.|+.+|   +.   ..++++...-+.+++.++.-...      +.+ +++||.|-+.
T Consensus         6 NG~~---~~~~~~~tl~~l---l~---~l~~~~~~vav~~N~~iv~r~~~------~~~-L~~gD~ieIv   59 (65)
T PRK05863          6 NEEQ---VEVDEQTTVAAL---LD---SLGFPEKGIAVAVDWSVLPRSDW------ATK-LRDGARLEVV   59 (65)
T ss_pred             CCEE---EEcCCCCcHHHH---HH---HcCCCCCcEEEEECCcCcChhHh------hhh-cCCCCEEEEE
Confidence            5543   567788898887   33   45688899999999998865544      345 9999999764

>PRK05659 sulfur carrier protein ThiS; Validated

Probab=85.45  E-value=4.9  Score=23.57  Aligned_cols=52  Identities=15%  Similarity=0.192  Sum_probs=37.8

Q ss_pred             EEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173           24 RLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus        24 ~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      .++++.+.||.+|=+      ..++++..--+.++|.++.-..      -.+.-+++||.|-+.
T Consensus         9 ~~~~~~~~tl~~lL~------~l~~~~~~vav~vNg~iv~r~~------~~~~~l~~gD~vei~   60 (66)
T PRK05659          9 PRELPDGESVAALLA------REGLAGRRVAVEVNGEIVPRSQ------HASTALREGDVVEIV   60 (66)
T ss_pred             EEEcCCCCCHHHHHH------hcCCCCCeEEEEECCeEeCHHH------cCcccCCCCCEEEEE
Confidence            357788889888742      4567888888889998885322      244569999999764

>PRK06488 sulfur carrier protein ThiS; Validated

Probab=84.26  E-value=6.2  Score=23.26  Aligned_cols=54  Identities=13%  Similarity=0.124  Sum_probs=36.2

Q ss_pred             CCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173           18 GPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus        18 ~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      +|+..   +++ ..|+.+|.+.+      +++++...+..+++.+.-+.      ..+.-+++||.|-+.
T Consensus         6 Ng~~~---~~~-~~tl~~Ll~~l------~~~~~~vavavN~~iv~~~~------~~~~~L~dgD~Ieiv   59 (65)
T PRK06488          6 NGETL---QTE-ATTLALLLAEL------DYEGNWLATAVNGELVHKEA------RAQFVLHEGDRIEIL   59 (65)
T ss_pred             CCeEE---EcC-cCcHHHHHHHc------CCCCCeEEEEECCEEcCHHH------cCccccCCCCEEEEE
Confidence            55543   443 46888887654      35556667789999985322      345679999999764

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

Probab=83.86  E-value=3.7  Score=25.35  Aligned_cols=44  Identities=16%  Similarity=0.233  Sum_probs=31.7

Q ss_pred             CcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173           31 IKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus        31 ~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      .|+.+|.+..++  +.+++ ..--+.-.|-.++|=..          |.||+.++++
T Consensus        26 ~SleeLl~ia~~--kfg~~-~~~v~~~dgaeIdDI~~----------IRDgD~L~~~   69 (69)
T PF11834_consen   26 DSLEELLKIASE--KFGFS-ATKVLNEDGAEIDDIDV----------IRDGDHLYLV   69 (69)
T ss_pred             ccHHHHHHHHHH--HhCCC-ceEEEcCCCCEEeEEEE----------EEcCCEEEEC
Confidence            599999999988  99987 44445555655544333          8899998873

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

>PRK11130 moaD molybdopterin synthase small subunit; Provisional

Probab=82.04  E-value=9.5  Score=23.48  Aligned_cols=51  Identities=18%  Similarity=0.214  Sum_probs=30.2

Q ss_pred             EEEecC-CCcHHHHHHHHHhccCCC-----CCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173           24 RLSVSS-PIKVRDLRKLIATSSANH-----LPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus        24 ~l~v~~-~~TV~~LK~~Ia~~~~~~-----ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      .+++++ .+||.+|++.+.+  +..     ......+...+++...+          +.-|++||.|-+
T Consensus        18 ~~~v~~~~~tv~~l~~~L~~--~~~~~~~~~~~~~~~~aVN~~~~~~----------~~~l~dgDeVai   74 (81)
T PRK11130         18 ALELAADFPTVEALRQHLAQ--KGDRWALALEDGKLLAAVNQTLVSF----------DHPLTDGDEVAF   74 (81)
T ss_pred             eEEecCCCCCHHHHHHHHHH--hCccHHhhhcCCCEEEEECCEEcCC----------CCCCCCCCEEEE
Confidence            355654 5899999999987  431     11222344445544321          225899998865

>PRK06083 sulfur carrier protein ThiS; Provisional

Probab=81.07  E-value=7.8  Score=24.62  Aligned_cols=62  Identities=15%  Similarity=0.169  Sum_probs=43.8

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      +|+|+|   +|+   ..+++.+.||.+|=+.      .++++..--+.++|.++.-+.      -++.-+++||.|.+.-
T Consensus        18 ~m~I~V---NG~---~~~~~~~~tl~~LL~~------l~~~~~~vAVevNg~iVpr~~------w~~t~L~egD~IEIv~   79 (84)
T PRK06083         18 LITISI---NDQ---SIQVDISSSLAQIIAQ------LSLPELGCVFAINNQVVPRSE------WQSTVLSSGDAISLFQ   79 (84)
T ss_pred             eEEEEE---CCe---EEEcCCCCcHHHHHHH------cCCCCceEEEEECCEEeCHHH------cCcccCCCCCEEEEEE
Confidence            356654   555   3577888898877433      457777778889999995332      4667799999998754

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	102
2kdb_A	99	Homocysteine-responsive endoplasmic reticulum- res	3e-07
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	3e-07
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	3e-06
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	4e-06
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	1e-05
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	2e-05
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	2e-05
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	2e-05
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	6e-05
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	9e-05
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	2e-04
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	2e-04
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	4e-04
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	4e-04
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	6e-04
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	6e-04

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

 Score = 43.8 bits (103), Expect = 3e-07
 Identities = 12/65 (18%), Positives = 24/65 (36%), Gaps = 1/65 (1%)

Query: 7  SESVEITVKTIGPAPPS-RLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDT 65
             V + +K          +S      V  L+  ++    +    ++ RLV+ G++L D 
Sbjct: 21 GHPVTLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYPSKPLTKDQRLVYSGRLLPDH 80

Query: 66 QDDDD 70
              D
Sbjct: 81 LQLKD 85

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

 Score = 43.8 bits (103), Expect = 3e-07
 Identities = 17/65 (26%), Positives = 26/65 (40%), Gaps = 1/65 (1%)

Query: 7  SESVEITVKTIGPAPPS-RLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDT 65
          S  V + VK+         LS      V  L+  ++         E+ RL++ GK+L D 
Sbjct: 5  SSGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDH 64

Query: 66 QDDDD 70
          Q   D
Sbjct: 65 QCLRD 69

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

 Score = 41.8 bits (98), Expect = 3e-06
 Identities = 14/60 (23%), Positives = 26/60 (43%), Gaps = 4/60 (6%)

Query: 7  SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQ 66
           + +++TVKT         +V     V+  ++ I+         + L L+F GK+L D  
Sbjct: 30 PKIIKVTVKTPKE--KEEFAVPENSSVQQFKEAISKRF--KSQTDQLVLIFAGKILKDQD 85

>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 = 40.8 bits (96), Expect = 4e-06
 Identities = 16/60 (26%), Positives = 26/60 (43%), Gaps = 4/60 (6%)

Query: 7  SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQ 66
          S  + ++VKT          ++    VR  +K I+     H   + L L+F GK+L D  
Sbjct: 15 SRIIRVSVKTPQD--CHEFFLAENSNVRRFKKQISKYL--HCNADRLVLIFTGKILRDQD 70

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

 Score = 39.7 bits (93), Expect = 1e-05
 Identities = 15/63 (23%), Positives = 27/63 (42%), Gaps = 10/63 (15%)

Query: 7  SESVEITVKTIGPAPPSR---LSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLD 63
           + +++TVKT     P      +V     V+  ++ I+         + L L+F GK+L 
Sbjct: 23 PKIMKVTVKT-----PKEKEEFAVPENSSVQQFKEEISKRF--KSHTDQLVLIFAGKILK 75

Query: 64 DTQ 66
          D  
Sbjct: 76 DQD 78

>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 = 39.3 bits (92), Expect = 2e-05
 Identities = 15/60 (25%), Positives = 27/60 (45%), Gaps = 4/60 (6%)

Query: 7  SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQ 66
             +++TVKT         SV+    ++ L++ I+         + L L+F GK+L D  
Sbjct: 15 PHLIKVTVKTPKDKED--FSVTDTCTIQQLKEEISQRF--KAHPDQLVLIFAGKILKDPD 70

>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 = 38.9 bits (91), Expect = 2e-05
 Identities = 15/60 (25%), Positives = 27/60 (45%), Gaps = 4/60 (6%)

Query: 7  SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQ 66
             +++TVKT         SV+    ++ L++ I+         + L L+F GK+L D  
Sbjct: 20 PHLIKVTVKTPKDKED--FSVTDTCTIQQLKEEISQRF--KAHPDQLVLIFAGKILKDPD 75

>2xzm_9 RPS31E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_9 Length = 189

 Score = 40.1 bits (93), Expect = 2e-05
 Identities = 16/71 (22%), Positives = 25/71 (35%), Gaps = 8/71 (11%)

Query: 13 TVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRD 72
            +T         ++     V DL+  I  S      I+ + LV  G +  +T+   D  
Sbjct: 9  EGETK------IYTLEQGTSVLDLKSQI--SQDMGFEIDMMTLVNNGFIAPNTELVTDDV 60

Query: 73 DVYLQLSNGGN 83
            YL L   G 
Sbjct: 61 TYYLSLKLLGG 71

>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 = 37.2 bits (87), Expect = 6e-05
 Identities = 12/58 (20%), Positives = 27/58 (46%), Gaps = 2/58 (3%)

Query: 9  SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQ 66
           + + +          ++V+    V   ++ I  ++   +P+ N RL++ GK+L D Q
Sbjct: 2  DMSLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANG--IPVANQRLIYSGKILKDDQ 57

>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 = 36.9 bits (86), Expect = 9e-05
 Identities = 19/63 (30%), Positives = 36/63 (57%), Gaps = 9/63 (14%)

Query: 7  SESVEITVKTIGPAPPSR---LSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLD 63
           +S+E+ VKT+     S+     V + + V++ ++ IA S    +P E  RL+++G+VL 
Sbjct: 3  PDSLEVLVKTLD----SQTRTFIVGAQMNVKEFKEHIAASV--SIPSEKQRLIYQGRVLQ 56

Query: 64 DTQ 66
          D +
Sbjct: 57 DDK 59

>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 = 37.7 bits (86), Expect = 2e-04
 Identities = 15/59 (25%), Positives = 29/59 (49%), Gaps = 2/59 (3%)

Query: 7  SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSS-ANHLPIENLRLVFRGKVLDD 64
          S +V IT+KT+       + +     V+ L++ I      +  P+   +L++ GK+L D
Sbjct: 5  SSAVTITLKTLQQQTFK-IRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSD 62

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

 Score = 36.2 bits (84), Expect = 2e-04
 Identities = 12/62 (19%), Positives = 28/62 (45%), Gaps = 2/62 (3%)

Query: 5  EISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDD 64
              ++ + +          ++V+    V   ++ I  ++   +P+ N RL++ GK+L D
Sbjct: 22 YFQGAMSLNIHIKSGQDKWEVNVAPESTVLQFKEAINKAN--GIPVANQRLIYSGKILKD 79

Query: 65 TQ 66
           Q
Sbjct: 80 DQ 81

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

 Score = 35.3 bits (82), Expect = 4e-04
 Identities = 19/63 (30%), Positives = 36/63 (57%), Gaps = 9/63 (14%)

Query: 7  SESVEITVKTIGPAPPSR---LSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLD 63
           +S+E+ VKT+     S+     V + + V++ ++ IA S    +P E  RL+++G+VL 
Sbjct: 15 PDSLEVLVKTLD----SQTRTFIVGAQMNVKEFKEHIAASV--SIPSEKQRLIYQGRVLQ 68

Query: 64 DTQ 66
          D +
Sbjct: 69 DDK 71

>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 = 35.4 bits (82), Expect = 4e-04
 Identities = 12/57 (21%), Positives = 25/57 (43%), Gaps = 3/57 (5%)

Query: 10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQ 66
          V +T K         L +     + + +  +A S +       ++L++ GKVL D++
Sbjct: 2  VSLTFKNFKKEKVP-LDLEPSNTILETKTKLAQSIS--CEESQIKLIYSGKVLQDSK 55

>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 = 34.9 bits (81), Expect = 6e-04
 Identities = 14/57 (24%), Positives = 28/57 (49%), Gaps = 2/57 (3%)

Query: 9  SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSS-ANHLPIENLRLVFRGKVLDD 64
          +V IT+KT+       + +     V+ L++ I      +  P+   +L++ GK+L D
Sbjct: 5  AVTITLKTLQQQTFK-IRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSD 60

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

 Score = 35.1 bits (81), Expect = 6e-04
 Identities = 13/58 (22%), Positives = 22/58 (37%), Gaps = 4/58 (6%)

Query: 7  SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDD 64
             + +TVK         + V     V  L+  I      + PI+ ++L + G  L D
Sbjct: 13 VRKIHVTVKFPSKQFT--VEVDRTETVSSLKDKIHIVE--NTPIKRMQLYYSGIELAD 66

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	102
3plu_A	93	Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-	99.9
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	99.89
4a20_A	98	Ubiquitin-like protein MDY2; protein binding, GET-	99.88
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	99.88
3v6c_B	91	Ubiquitin; structural genomics, structural genomic	99.87
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	99.87
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	99.87
1uh6_A	100	Ubiquitin-like 5; beta-grAsp fold, structural geno	99.86
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	99.86
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	99.86
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	99.86
2lxa_A	87	Ubiquitin-like protein MDY2; ubiquitin-like domain	99.86
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	99.86
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	99.86
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	99.86
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	99.86
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	99.86
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	99.86
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	99.86
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	99.85
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	99.85
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	99.85
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	99.85
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	99.85
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	99.85
4hcn_B	98	Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidas	99.85
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	99.85
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	99.85
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	99.84
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	99.84
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	99.84
3vdz_A	111	Ubiquitin-40S ribosomal protein S27A; gadolinium,	99.84
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	99.84
2daf_A	118	FLJ35834 protein; hypothetical protein FLJ35834, u	99.84
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	99.84
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	99.83
1wju_A	100	NEDD8 ultimate buster-1; ubiquitin-like domain, st	99.83
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	99.83
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	99.82
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	99.82
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	99.82
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	99.82
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	99.71
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	99.81
2kdb_A	99	Homocysteine-responsive endoplasmic reticulum- res	99.81
1we6_A	111	Splicing factor, putative; structural genomics, ub	99.81
1se9_A	126	Ubiquitin family; ubiquitin-like, cell-free, wheat	99.81
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	99.81
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	99.81
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	99.81
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	99.81
1wia_A	95	Hypothetical ubiquitin-like protein (riken cDNA 20	99.8
1v2y_A	105	3300001G02RIK protein; hypothetical protein, ubiqu	99.8
1wxv_A	92	BAG-family molecular chaperone regulator-1; struct	99.8
1wgh_A	116	Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fo	99.8
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	99.8
1x1m_A	107	Ubiquitin-like protein SB132; structural genomics,	99.79
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	99.79
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	99.79
2gow_A	125	HCG-1 protein, ubiquitin-like protein 3; BC059385,	99.79
2fnj_B	118	Transcription elongation factor B polypeptide 2; b	99.79
2dzj_A	88	Synaptic glycoprotein SC2; ubiquitin-like fold, st	99.78
1v5t_A	90	8430435I17RIK protein; hypothetical protein, ubiqu	99.78
1wgg_A	96	Ubiquitin carboxyl-terminal hydrolase 14; ubiquiti	99.78
4dbg_A	105	Ranbp-type and C3HC4-type zinc finger-containing;	99.78
4ajy_B	118	Transcription elongation factor B polypeptide 2; E	99.78
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	99.77
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	99.77
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	99.77
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	99.77
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	99.76
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	99.76
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	99.75
3u5c_f	152	40S ribosomal protein S31; translation, ribosome,	99.74
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	99.74
2dzm_A	100	FAS-associated factor 1; ubiquitin-like domain, HF	99.73
4b6w_A	86	Tubulin-specific chaperone; CAP-Gly, ubiquitin-lik	99.73
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	99.71
2kjr_A	95	CG11242; UBL, ubiquitin, ubiquitin-like, structura	99.71
1v6e_A	95	Cytoskeleton-associated protein 1; tubulin-specifi	99.69
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	99.68
2kj6_A	97	Tubulin folding cofactor B; methods development, N	99.68
1wf9_A	107	NPL4 family protein; beta-grAsp fold like domain,	99.67
1t0y_A	122	Tubulin folding cofactor B; ubiquitin-like, cytosk	99.66
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	99.65
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	99.63
3shq_A	320	UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila	99.59
2kzr_A	86	Ubiquitin thioesterase OTU1; structural genomics,	99.59
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	99.58
3a4r_A	79	Nfatc2-interacting protein; ubiquitin fold, coiled	99.57
1wm3_A	72	Ubiquitin-like protein SMT3B; ubiquitin fold, half	99.56
2d07_B	93	Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Ho	99.55
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	99.53
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	99.49
1wjn_A	97	Tubulin-folding protein TBCE; ubiquitin-like domai	99.48
2eke_C	106	Ubiquitin-like protein SMT3; UBC9, SUMO binding mo	99.45
3kyd_D	115	Small ubiquitin-related modifier 1; SUMO, thioeste	99.25
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	99.13
3tix_A	207	Ubiquitin-like protein SMT3, RNA-induced transcri	98.96
2pjh_A	80	Protein NPL4, nuclear protein localization protein	98.94
3goe_A	82	DNA repair protein RAD60; SUMO-like domain, sumoyl	98.82
3v7o_A	227	Minor nucleoprotein VP30; ssgcid, seattle structur	98.78
2jxx_A	97	Nfatc2-interacting protein; nuclear factor of acti	98.76
3uf8_A	209	Ubiquitin-like protein SMT3, peptidyl-prolyl CIS-	98.66
4da1_A	389	Protein phosphatase 1K, mitochondrial; metal-ION-a	98.61
3ix6_A	360	TS, tsase, thymidylate synthase; niaid, ssgcid, se	98.54
2l76_A	95	Nfatc2-interacting protein; ubiquitin-like domain,	98.47
4efo_A	94	Serine/threonine-protein kinase TBK1; ubiquitin li	98.38
2bps_A	81	YUKD protein; ubiquitin-like protein, ubiquitin; 2	98.13
2kc2_A	128	Talin-1, F1; FERM, adhesion, cell membrane, cell p	97.89
3qx1_A	84	FAS-associated factor 1; UBX, protein binding, P97	97.7
2al3_A	90	TUG long isoform; TUG UBL1 insulin, endocytosis/ex	97.47
2dzk_A	109	UBX domain-containing protein 2; ubiquitin-like fo	97.39
1wj4_A	124	KIAA0794 protein; UBX domain, beta-grAsp fold, str	97.01
4e71_A	111	Plexin-B2, MM1; transmembrane, signaling, RBD, str	96.95
2cr5_A	109	Reproduction 8; UBX domain, D0H8S2298E protein, st	96.91
2r2o_A	138	Plexin-B1; effector domain, structural genomics, s	96.67
3jyu_A	231	Ubiquitin carboxyl-terminal hydrolase; domain in u	96.58
3h6n_A	127	Plexin-D1; structural genomics consortium, SGC, me	96.45
4a3p_A	217	Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {H	96.42
2l32_A	74	Small archaeal modifier protein 2; protein BIN; NM	96.34
3rpf_C	74	Molybdopterin converting factor, subunit 1 (MOAD);	96.32
4e74_A	117	Plexin-A4; RBD, structural genomics, structural ge	96.11
3ivf_A	371	Talin-1; FERM domain, cell membrane, cell projecti	96.03
1ryj_A	70	Unknown; beta/alpha protein, structural genomics,	96.03
1oey_A	83	P67-PHOX, neutrophil cytosol factor 2; immune syst	95.89
1s3s_G	127	P47 protein; AAA ATPase, protein-protein complex,	95.59
2daj_A	91	KIAA0977 protein, COBL-like 1; ubiquitin-like doma	95.54
3kuz_A	126	Plexin-C1; structural genomics, structural genomic	94.96
1vjk_A	98	Molybdopterin converting factor, subunit 1; struct	94.38
2kvr_A	130	Ubiquitin carboxyl-terminal hydrolase 7; USP7, ubi	94.06
1wgk_A	114	Riken cDNA 2900073H19 protein; THis domain, ubiqut	93.72
3hm6_X	644	Plexin-B1; structural genomics consortium, SGC, me	93.0
3onh_A	127	Ubiquitin-activating enzyme E1-like; ligase, SUMO	92.33
2juo_A	89	GA-binding protein alpha chain; OST, ubiquitin, tr	92.13
4eut_A	396	Serine/threonine-protein kinase TBK1; ATP binding,	91.73
3ig3_A	627	Plxna3 protein; plexin intracellular GAP RBD inact	91.18
2kmm_A	73	Guanosine-3',5'-BIS(diphosphate) 3'- pyrophosphohy	91.01
1fm0_D	81	Molybdopterin convertin factor, subunit 1; molybde	90.68
1y8x_B	98	Ubiquitin-activating enzyme E1C; ubiquitin-conjuga	90.68
1vd2_A	89	Protein kinase C, IOTA type; PB1 domain, OPCA moti	90.01
3po0_A	89	Small archaeal modifier protein 1; ubiquitin-like	89.9
2k9x_A	110	Tburm1, uncharacterized protein; unknown function;	88.97
2ylm_A	530	Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70	88.85
2qjl_A	99	URM1, ubiquitin-related modifier 1; ubiquitin-like	88.34
2q5w_D	77	Molybdopterin converting factor, subunit 1; MOCO,	87.84
2c7h_A	86	RBBP6, retinoblastoma-binding protein 6, isoform 3	86.62
3dwg_C	93	9.5 kDa culture filtrate antigen CFP10A; sulfur ca	86.23
1tyg_B	87	YJBS; alpha beta barrel, protein-protein complex,	85.79
1ip9_A	85	BEM1 protein; ubiquitin alpha/beta roll, signaling	85.79
3ivf_A	371	Talin-1; FERM domain, cell membrane, cell projecti	84.26
1wgr_A	100	Growth factor receptor-bound protein 7; RA domain,	83.93
1h4r_A	314	Merlin; FERM, neurofibromatosis, NF2, structural p	80.59
2hj1_A	97	Hypothetical protein; structural genomics, PSI, pr	80.33
1f0z_A	66	THis protein; ubiquitin fold, transport protein; N	80.3
3hvz_A	78	Uncharacterized protein; alpha-beta protein, struc	80.14

>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=99.90  E-value=1.2e-23  Score=136.79  Aligned_cols=76  Identities=17%  Similarity=0.139  Sum_probs=69.5

Q ss_pred             CCCCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCE
Q 034173            4 GEISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGN   83 (102)
Q Consensus         4 ~~~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~t   83 (102)
                      +..+++|+|+||++.|+.+ .+++.|++||.+||++|++  +.|+||++|||+|+|++|+|+.+     |++|+|++|+|
T Consensus        16 ~~~~~mIqI~Vk~~~Gkk~-~v~v~p~DTI~~LK~~I~~--k~Gip~~qQrLif~Gk~LkD~~T-----L~dY~I~dgst   87 (93)
T 3plu_A           16 PRGSHMIEVVVNDRLGKKV-RVKCLGEDSVGDFKKVLSL--QIGTQPNKIVLQKGGSVLKDHIS-----LEDYEVHDQTN   87 (93)
T ss_dssp             ----CEEEEEEECTTSCEE-EEEEETTSBHHHHHHHHHH--HHTCCGGGEEEEETTEECCTTSB-----TGGGTCCTTCE
T ss_pred             CCCCceEEEEEECCCCCEE-EEEECCcCHHHHHHHHHHH--HhCCCHHHEEEEeCCEEccCcCC-----HHHcCCCCCCE
Confidence            4457889999999999999 9999999999999999999  99999999999999999999888     99999999999


Q ss_pred             EEEE
Q 034173           84 INIS   87 (102)
Q Consensus        84 i~l~   87 (102)
                      |+|-
T Consensus        88 LhL~   91 (93)
T 3plu_A           88 LELY   91 (93)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            9974

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

Probab=99.89  E-value=8.4e-23  Score=126.50  Aligned_cols=76  Identities=18%  Similarity=0.154  Sum_probs=71.5

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      .+|+|+||+++|+.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++||++
T Consensus         3 ~~m~i~Vk~~~g~~~-~~~v~~~~tV~~lK~~i~~--~~gip~~~qrL~~~G~~L~d~~t-----L~~~~i~~~~~l~l~   74 (79)
T 3phx_B            3 EPLSILVRNNKGRSS-TYEVRLTQTVAHLKQQVSG--LEGVQDDLFWLTFEGKPLEDQLP-----LGEYGLKPLSTVFMN   74 (79)
T ss_dssp             CCEEEEEECTTSCEE-EEEECTTSBHHHHHHHHHH--HHTCCGGGEEEEETTEECCTTSB-----GGGGTCCTTCEEEEE
T ss_pred             CCEEEEEEeCCCCEE-EEEECCcChHHHHHHHHHh--hcCCCHHHEEEEECCEECCCCCc-----HHHCCCCCCCEEEEE
Confidence            569999999999988 8999999999999999999  99999999999999999988888     999999999999999


Q ss_pred             EecC
Q 034173           88 LFNL   91 (102)
Q Consensus        88 ~~~~   91 (102)
                      ++-+
T Consensus        75 ~rl~   78 (79)
T 3phx_B           75 LRLR   78 (79)
T ss_dssp             ECCB
T ss_pred             EecC
Confidence            8743

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

Probab=99.88  E-value=3e-22  Score=130.90  Aligned_cols=77  Identities=18%  Similarity=0.287  Sum_probs=69.9

Q ss_pred             CCcEEEEEEcCCCCCceEE--EecCCCcHHHHHHHH-HhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCC-CCCC
Q 034173            7 SESVEITVKTIGPAPPSRL--SVSSPIKVRDLRKLI-ATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQL-SNGG   82 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l--~v~~~~TV~~LK~~I-a~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I-~~g~   82 (102)
                      +++|+|+||+++|+.+ .+  +|++++||.+||++| ++  ..++|+++|||+|+|+.|+|+.+     |++|+| ++|+
T Consensus        17 ~~~m~I~VKtl~g~~~-~i~v~v~~~~TV~~lK~~I~~~--~~gip~~~QrLi~~Gk~L~D~~t-----L~dy~I~~~g~   88 (98)
T 4a20_A           17 NAAVHLTLKKIQAPKF-SIEHDFSPSDTILQIKQHLISE--EKASHISEIKLLLKGKVLHDNLF-----LSDLKVTPANS   88 (98)
T ss_dssp             -CCEEEEEEECSSSCE-EEEEEECTTCBHHHHHHHHHHT--TSCSCGGGEEEEETTEEECTTCB-----GGGSCCBTTBC
T ss_pred             CCCEEEEEEcCCCCEE-EEEEecCCCChHHHHHHHHHHH--hcCCChhhEEEEECCEECcCcCC-----HHHcCcCCCCC
Confidence            4679999999999976 55  566999999999999 77  78999999999999999988888     999999 9999


Q ss_pred             EEEEEEecC
Q 034173           83 NINISLFNL   91 (102)
Q Consensus        83 ti~l~~~~~   91 (102)
                      +|++++..|
T Consensus        89 ti~lmvskp   97 (98)
T 4a20_A           89 TITVMIKPN   97 (98)
T ss_dssp             EEEEEECCC
T ss_pred             EEEEEEeCC
Confidence            999999875

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

Probab=99.88  E-value=1.5e-22  Score=127.83  Aligned_cols=77  Identities=26%  Similarity=0.439  Sum_probs=70.0

Q ss_pred             CCCCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCE
Q 034173            4 GEISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGN   83 (102)
Q Consensus         4 ~~~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~t   83 (102)
                      .+.+..|+|+||+.+|+.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++||| +|++
T Consensus        12 ~~~~~~m~i~Vk~~~g~~~-~~~v~~~~tV~~lK~~i~~--~~gip~~~qrLi~~Gk~L~D~~t-----L~~~~i-~g~~   82 (88)
T 4eew_A           12 VEEPDSLEVLVKTLDSQTR-TFIVGAQMNVKEFKEHIAA--SVSIPSEKQRLIYQGRVLQDDKK-----LQEYNV-GGKV   82 (88)
T ss_dssp             ---CCEEEEEEEETTSCEE-EEEEETTCBHHHHHHHHHH--HHTCCGGGEEEEETTEECCTTSB-----GGGGTC-TTEE
T ss_pred             ecCCCeEEEEEEcCCCCEE-EEEECCCCCHHHHHHHHHH--HhCCCHHHEEEEECCEECCCCCc-----HHHcCC-CCcE
Confidence            3456789999999999988 8999999999999999999  89999999999999999988888     999999 8999


Q ss_pred             EEEEEe
Q 034173           84 INISLF   89 (102)
Q Consensus        84 i~l~~~   89 (102)
                      ||+++|
T Consensus        83 i~lv~R   88 (88)
T 4eew_A           83 IHLVER   88 (88)
T ss_dssp             EEEEEC
T ss_pred             EEEEEC
Confidence            999875

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

Probab=99.87  E-value=3.8e-22  Score=127.10  Aligned_cols=77  Identities=21%  Similarity=0.309  Sum_probs=71.9

Q ss_pred             CCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173            6 ISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         6 ~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      .+..|+|+||+.+|+.+ .++|++++||.+||++|++  ..|+|+++|||+|+|+.|+|+.+     |++|||++|++||
T Consensus        14 ~~~~m~i~Vk~~~g~~~-~l~v~~~~TV~~LK~~I~~--~~gip~~~qrL~~~Gk~L~D~~t-----L~~~gi~~g~~i~   85 (91)
T 3v6c_B           14 PRGSMQIFVNTLTGTHI-TLEVEPSDTIENVKAKIQD--KEGIPPDQQRLIFAGKQLEDGRT-----LSDYNIQKESTLH   85 (91)
T ss_dssp             CCCSEEEEEECTTSCEE-EEEECTTCBHHHHHHHHHH--HHCCCGGGCEEEETTEECCTTCB-----TGGGTCCTTCEEE
T ss_pred             CCCeEEEEEEeCCCCEE-EEEECCCCCHHHHHHHHHh--hhCCChhhEEEEECCeECCCcCc-----HHHCCCCCCCEEE
Confidence            35679999999999988 8999999999999999999  99999999999999999988888     9999999999999


Q ss_pred             EEEec
Q 034173           86 ISLFN   90 (102)
Q Consensus        86 l~~~~   90 (102)
                      ++++-
T Consensus        86 l~~rl   90 (91)
T 3v6c_B           86 LVLRL   90 (91)
T ss_dssp             EECCC
T ss_pred             EEEec
Confidence            98863

>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=99.87  E-value=3.8e-22  Score=126.39  Aligned_cols=79  Identities=24%  Similarity=0.416  Sum_probs=72.9

Q ss_pred             CCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173            6 ISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         6 ~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      ++.+|+|+||+++|+.+ .++|++++||.+||++|++  +.++|+++|||+|+|+.|+|+.+     |++|+| +|++||
T Consensus         2 ~~~~m~i~Vk~~~g~~~-~~~v~~~~tV~~lK~~i~~--~~gip~~~qrLi~~Gk~L~d~~t-----L~~~~i-~g~~i~   72 (90)
T 4dwf_A            2 EPDSLEVLVKTLDSQTR-TFIVGAQMNVKEFKEHIAA--SVSIPSEKQRLIYQGRVLQDDKK-----LQEYNV-GGKVIH   72 (90)
T ss_dssp             CCCEEEEEEEETTCCEE-EEEEETTCBHHHHHHHHHH--HHTCCGGGEEEEETTEECCTTSB-----GGGGTC-TTEEEE
T ss_pred             CCcEEEEEEEcCCCCEE-EEEECCCCCHHHHHHHHHH--HhCCCHHHEEEEECCeECCCCCC-----HHHcCC-CCcEEE
Confidence            45789999999999988 8999999999999999999  89999999999999999988888     999999 899999


Q ss_pred             EEEecCCC
Q 034173           86 ISLFNLDD   93 (102)
Q Consensus        86 l~~~~~~~   93 (102)
                      |+++.+..
T Consensus        73 l~~~~~~~   80 (90)
T 4dwf_A           73 LVERAPPQ   80 (90)
T ss_dssp             EEECCCC-
T ss_pred             EEecCCCC
Confidence            99987643

>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=99.87  E-value=9.9e-22  Score=122.79  Aligned_cols=77  Identities=18%  Similarity=0.324  Sum_probs=70.1

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccC---CCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSA---NHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGN   83 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~---~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~t   83 (102)
                      +.+|+|+||+.+|+.+ .++|++++||.+||++|++  .   .++|+++|||+|+|+.|+|+.+     |++|+|++|++
T Consensus         3 ~~~m~i~vk~~~g~~~-~~~v~~~~TV~~lK~~i~~--~~~~~gip~~~qrLi~~Gk~L~D~~t-----L~~~~i~~g~~   74 (85)
T 2wyq_A            3 PMAVTITLKTLQQQTF-KIRMEPDETVKVLKEKIEA--EKGRDAFPVAGQKLIYAGKILSDDVP-----IRDYRIDEKNF   74 (85)
T ss_dssp             -CCEEEEEEETTSCEE-EEEECTTSBHHHHHHHHHH--HHCTTTCCGGGEEEEETTEECCTTSB-----GGGGCCCTTSE
T ss_pred             CceEEEEEEECCCCEE-EEEECCCCCHHHHHHHHHh--hccccCCCHHHeEEEECCEECcCCCC-----HHHcCCCCCCE
Confidence            4579999999999888 8999999999999999998  6   8999999999999999988888     99999999999


Q ss_pred             EEEEEecC
Q 034173           84 INISLFNL   91 (102)
Q Consensus        84 i~l~~~~~   91 (102)
                      |||+++++
T Consensus        75 i~l~~~~~   82 (85)
T 2wyq_A           75 VVVMVTKT   82 (85)
T ss_dssp             EEEEEC--
T ss_pred             EEEEEcCC
Confidence            99999876

>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=99.86  E-value=4e-22  Score=131.13  Aligned_cols=72  Identities=17%  Similarity=0.178  Sum_probs=68.4

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      ++|+|+||++.|+.+ .++|++++||.+||++|++  +.|+|+++|||+|.|++|+|+.+     |++|+|++|+||+|.
T Consensus        27 ~mm~I~VKtl~Gk~i-~lev~p~dTV~~lK~~Ia~--k~Gip~~qQrLi~~Gk~L~D~~T-----L~dygI~~gstlhL~   98 (100)
T 1uh6_A           27 TMIEVVCNDRLGKKV-RVKCNTDDTIGDLKKLIAA--QTGTRWNKIVLKKWYTIFKDHVS-----LGDYEIHDGMNLELY   98 (100)
T ss_dssp             CEEEEEEECSSSSCE-EEEEETTSBHHHHHHHHHH--HHCCCGGGCEEEETTEECCSSCB-----HHHHTCCTTEEEEEE
T ss_pred             CeEEEEEECCCCCEE-EEEeCCCCcHHHHHHHHHH--HhCCCHHHEEEEECCEECCCCCC-----HHHcCCCCCCEEEEE
Confidence            459999999999888 8999999999999999999  99999999999999999988888     999999999999985

>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=99.86  E-value=6.2e-22  Score=124.25  Aligned_cols=77  Identities=19%  Similarity=0.339  Sum_probs=72.3

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      ..+|+|+||+.+|+.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++||+
T Consensus        10 ~~~m~i~vk~~~g~~~-~~~v~~~~tV~~lK~~i~~--~~gip~~~qrL~~~G~~L~d~~t-----L~~~~i~~~~~i~l   81 (88)
T 3dbh_I           10 GGSMLIKVKTLTGKEI-EIDIEPTDKVERIKERVEE--KEGIPPQQQRLIYSGKQMNDEKT-----AADYKILGGSVLHL   81 (88)
T ss_dssp             CCCEEEEEECTTSCEE-EEEECTTCBHHHHHHHHHH--HHCCCGGGCCEEETTEECCTTSB-----GGGGTCCTTCEEEE
T ss_pred             CCcEEEEEEcCCCCEE-EEEECCCCCHHHHHHHHHH--HHCcCHHHEEEEECCeECCCCCc-----HHHcCCCCCCEEEE
Confidence            4579999999999988 8999999999999999999  89999999999999999988888     99999999999999


Q ss_pred             EEecC
Q 034173           87 SLFNL   91 (102)
Q Consensus        87 ~~~~~   91 (102)
                      +++-.
T Consensus        82 ~~rl~   86 (88)
T 3dbh_I           82 VLRLR   86 (88)
T ss_dssp             CCCCC
T ss_pred             EEeCC
Confidence            98765

>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=99.86  E-value=1.2e-21  Score=120.79  Aligned_cols=76  Identities=24%  Similarity=0.297  Sum_probs=70.4

Q ss_pred             cEEEEEEcCCCCCceEEE-ecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            9 SVEITVKTIGPAPPSRLS-VSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~-v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      .|+|+||+++|+.+..++ |++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++||++
T Consensus         2 ~m~i~Vk~~~g~~~~~l~~v~~~~tv~~lK~~i~~--~~gip~~~qrL~~~g~~L~d~~t-----L~~~~i~~g~~i~l~   74 (78)
T 2faz_A            2 SMWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQE--LFHVEPGLQRLFYRGKQMEDGHT-----LFDYEVRLNDTIQLL   74 (78)
T ss_dssp             CEEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHH--HHCCCGGGEEEEETTEECCTTCB-----TTTTTCCTTCEEEEE
T ss_pred             cEEEEEEECCCCEEEEEeccCCCCCHHHHHHHHHH--HHCcChhhEEEEECCEECCCCCC-----HHHcCCCCCCEEEEE
Confidence            599999999998844788 9999999999999999  99999999999999999988888     999999999999999


Q ss_pred             EecC
Q 034173           88 LFNL   91 (102)
Q Consensus        88 ~~~~   91 (102)
                      ++.+
T Consensus        75 ~r~~   78 (78)
T 2faz_A           75 VRQS   78 (78)
T ss_dssp             ECCC
T ss_pred             EeCC
Confidence            8753

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

Probab=99.86  E-value=4.7e-22  Score=125.99  Aligned_cols=74  Identities=16%  Similarity=0.262  Sum_probs=70.0

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCee-cCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKV-LDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~-L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      -|+|+||+.+|+.+ .++|++++||.+||++|++  ..|+|+++|||+|+|+. |+|+.+     |++|+|++|++|+|+
T Consensus        10 ~~~i~vk~l~g~~~-~l~v~~~~TV~~LK~~I~~--~~gip~~~QrLi~~Gk~lL~D~~t-----L~~y~I~~gs~i~lv   81 (84)
T 2kk8_A           10 HMKFLVENLNGSSF-ELEVDYRDTLLVVKQKIER--SQHIPVSKQTLIVDGIVILREDLT-----VEQCQIVPTSDIQLE   81 (84)
T ss_dssp             CEEEEEEETTSCEE-EEEECTTSBHHHHHHHHHH--HHTCCGGGEEEEETTEECCCSSSB-----HHHHTCCTTSCEEEE
T ss_pred             ceEEEEEecCCcEE-EEEECCCChHHHHHHHHHH--HHCcChHHEEEEECCEEecCCcCC-----HHHcCCCCCCEEEEE
Confidence            49999999999988 8999999999999999999  99999999999999999 988878     999999999999998


Q ss_pred             Eec
Q 034173           88 LFN   90 (102)
Q Consensus        88 ~~~   90 (102)
                      +++
T Consensus        82 ~~p   84 (84)
T 2kk8_A           82 VSS   84 (84)
T ss_dssp             ECC
T ss_pred             EcC
Confidence            863

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

Probab=99.86  E-value=5.2e-22  Score=127.25  Aligned_cols=75  Identities=17%  Similarity=0.261  Sum_probs=68.5

Q ss_pred             cEEEEEEcCCCCCceEEEec--CCCcHHHHHHHH-HhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCC-CCCCEE
Q 034173            9 SVEITVKTIGPAPPSRLSVS--SPIKVRDLRKLI-ATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQL-SNGGNI   84 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~--~~~TV~~LK~~I-a~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I-~~g~ti   84 (102)
                      +|+|+||+++|+.+ +++|+  +++||.+||++| ++  ..|+|+++|||||+||+|+|+.+     |++|+| .+|.+|
T Consensus         1 mmqI~VKtl~g~~~-~i~v~v~~~~TV~~lK~~I~~~--~~gip~~~QrLi~~Gk~L~D~~t-----L~~y~I~~~~stl   72 (87)
T 2lxa_A            1 MVHLTLKKIQAPKF-SIEHDFSPSDTILQIKQHLISE--EKASHISEIKLLLKGKVLHDNLF-----LSDLKVTPANSTI   72 (87)
T ss_dssp             CCEEEEEECSSSCE-ECCEECCTTCBHHHHHHHHHHT--TSCSSSTTEEEEETTEECCTTCB-----HHHHCCCGGGCEE
T ss_pred             CEEEEEEcCCCCEE-EEEEcCCCCCcHHHHHHHHHHH--hcCCChHHEEEEECCEECcCcCC-----HHHcCCCCCCCEE
Confidence            38999999999987 77655  999999999999 88  88999999999999999998888     999999 699999


Q ss_pred             EEEEecC
Q 034173           85 NISLFNL   91 (102)
Q Consensus        85 ~l~~~~~   91 (102)
                      +|++.+.
T Consensus        73 ~v~~~~~   79 (87)
T 2lxa_A           73 TVMIKPN   79 (87)
T ss_dssp             EEEECCC
T ss_pred             EEEcCCC
Confidence            9998763

>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=99.86  E-value=7.4e-22  Score=125.45  Aligned_cols=76  Identities=18%  Similarity=0.340  Sum_probs=70.6

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+|+||+.+|+.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++|+++++
T Consensus         1 M~I~Vk~~~g~~~-~l~v~~~~TV~~LK~~I~~--~~gip~~~qrLi~~Gk~L~D~~t-----L~~~~i~~g~~l~l~~r   72 (88)
T 4fbj_B            1 MLIKVKTLTGKEI-EIDIEPTDKVERIKERVEE--KEGIPPQQQRLIYSGKQMNDEKT-----AADYKILGGSVLHLVLA   72 (88)
T ss_dssp             CEEEEEETTCCEE-EEECCTTCBHHHHHHHHHH--HHCCCGGGCEEEETTEECCTTSB-----TTTTTCCTTCEEEEECB
T ss_pred             CEEEEEcCCCCEE-EEEECCCCCHHHHHHHHHH--HHCcChhHEEEEECCeECCCCCc-----HHHcCCCCCCEEEEEEE
Confidence            7899999999988 8999999999999999999  99999999999999999988888     99999999999999998


Q ss_pred             cCCC
Q 034173           90 NLDD   93 (102)
Q Consensus        90 ~~~~   93 (102)
                      -...
T Consensus        73 l~Gg   76 (88)
T 4fbj_B           73 LRGG   76 (88)
T ss_dssp             CC--
T ss_pred             CCCC
Confidence            7643

>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=99.86  E-value=1.1e-21  Score=125.51  Aligned_cols=81  Identities=21%  Similarity=0.143  Sum_probs=71.1

Q ss_pred             CCCCcEEEEEEcCCCCCc-eEEEecCCCcHHHHHHHHHhccCC--CCCCCceEEEeCCeecCCCCCCCCCCcccc--CCC
Q 034173            5 EISESVEITVKTIGPAPP-SRLSVSSPIKVRDLRKLIATSSAN--HLPIENLRLVFRGKVLDDTQDDDDRDDVYL--QLS   79 (102)
Q Consensus         5 ~~~~~i~I~vK~~~~~~~-~~l~v~~~~TV~~LK~~Ia~~~~~--~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~--~I~   79 (102)
                      +++..|+|+||+++++.. ..+++++++||.+||++|++  ..  ++|+++|||+|+|+.|+|+.+     |++|  +|+
T Consensus         3 ~~~~~m~i~Vk~~~~~~~~~~v~v~~~~TV~~lK~~I~~--~~~~~i~~~~QrLi~~Gk~L~D~~t-----L~~~~~~i~   75 (93)
T 1wgd_A            3 SGSSGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSR--VYPERPRPEDQRLIYSGKLLLDHQC-----LRDLLPKQE   75 (93)
T ss_dssp             CCSCCCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHH--HSTTCCCTTTCEEEETTEECCSSSC-----HHHHSCSSS
T ss_pred             CCCcEEEEEEEeCCCCeEEEEEecCCCCcHHHHHHHHHH--HhcCCCChHHeEEEECCEECcCcCC-----HHHHhcCCC
Confidence            445679999999998842 26667799999999999998  76  999999999999999988888     9999  999


Q ss_pred             CCCEEEEEEecCC
Q 034173           80 NGGNINISLFNLD   92 (102)
Q Consensus        80 ~g~ti~l~~~~~~   92 (102)
                      +|++|||+++...
T Consensus        76 ~~~~i~lv~~~~g   88 (93)
T 1wgd_A           76 KRHVLHLVCNVKS   88 (93)
T ss_dssp             CSEEEEEECCCCC
T ss_pred             CCCEEEEEeCCCC
Confidence            9999999987664

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

Probab=99.86  E-value=1.5e-21  Score=120.61  Aligned_cols=77  Identities=23%  Similarity=0.360  Sum_probs=71.4

Q ss_pred             CCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173            6 ISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         6 ~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      .++.|+|+||+.+|+.+ .+++++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|||++|++||
T Consensus         4 ~~~~m~i~vk~~~g~~~-~~~v~~~~tV~~LK~~i~~--~~~i~~~~qrL~~~gk~L~d~~t-----L~~~~i~~g~~i~   75 (81)
T 2dzi_A            4 GSSGMQLTVKALQGREC-SLQVPEDELVSTLKQLVSE--KLNVPVRQQRLLFKGKALADGKR-----LSDYSIGPNSKLN   75 (81)
T ss_dssp             SSSSEEEEEEETTSCEE-EEEECSSCBHHHHHHHHHH--HTCCCTTTCEEEETTEECCTTSB-----GGGGTCCSSBCCE
T ss_pred             CCCcEEEEEEeCCCCEE-EEEECCCCcHHHHHHHHHH--HHCcCHHHEEEEECCeECCCCCc-----HHHcCCCCCCEEE
Confidence            35679999999999877 8999999999999999999  99999999999999999988877     9999999999999


Q ss_pred             EEEec
Q 034173           86 ISLFN   90 (102)
Q Consensus        86 l~~~~   90 (102)
                      ++++.
T Consensus        76 l~~~~   80 (81)
T 2dzi_A           76 LVVKP   80 (81)
T ss_dssp             EECCC
T ss_pred             EEEeC
Confidence            98875

>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=99.86  E-value=2e-21  Score=118.27  Aligned_cols=75  Identities=19%  Similarity=0.344  Sum_probs=70.0

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+|+||+++|+.+ .+++++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++||++++
T Consensus         1 M~i~vk~~~g~~~-~~~v~~~~tv~~lK~~i~~--~~~i~~~~q~L~~~g~~L~d~~t-----L~~~~i~~g~~i~l~~~   72 (76)
T 1ndd_A            1 MLIKVKTLTGKEI-EIDIEPTDKVERIKERVEE--KEGIPPQQQRLIYSGKQMNDEKT-----AADYKILGGSVLHLVLA   72 (76)
T ss_dssp             CEEEEECTTSCEE-EEECCTTCBHHHHHHHHHH--HHCCCGGGEEEEETTEECCTTSB-----GGGGTCCTTCEEEEEEC
T ss_pred             CEEEEECCCCCEE-EEEECCCChHHHHHHHHHH--HHCcChHHEEEEECCEECCCCCc-----HHHcCCCCCCEEEEEEe
Confidence            7899999999887 8999999999999999999  99999999999999999988888     99999999999999988


Q ss_pred             cCC
Q 034173           90 NLD   92 (102)
Q Consensus        90 ~~~   92 (102)
                      -+.
T Consensus        73 ~~G   75 (76)
T 1ndd_A           73 LRG   75 (76)
T ss_dssp             CC-
T ss_pred             CCC
Confidence            653

>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=99.86  E-value=2e-21  Score=120.85  Aligned_cols=77  Identities=21%  Similarity=0.280  Sum_probs=71.9

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      .+|+|+||+.+|+.+ .+++++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++|+++
T Consensus         2 s~m~i~vk~~~g~~~-~~~v~~~~tV~~lK~~i~~--~~~i~~~~qrL~~~g~~L~d~~t-----L~~~~i~~~~~l~l~   73 (85)
T 3mtn_B            2 SHMQIFVKTLTGKTI-TLEVEPSDTIENVKAKIQD--KEGIPPDQQRLIFAGKQLEDGRT-----LSDYNIQKWSTLFLL   73 (85)
T ss_dssp             -CEEEEEECTTSCEE-EEEECTTCBHHHHHHHHHH--HHCCCGGGCEEEETTEECCTTSB-----TGGGTCCTTCEEEEE
T ss_pred             CeEEEEEEcCCCCEE-EEEECCCCCHHHHHHHHHH--HHCcChHHEEEEECCEECCCCCC-----HHHcCCCCCCEEEEE
Confidence            469999999999888 8999999999999999999  99999999999999999988888     999999999999999


Q ss_pred             EecCC
Q 034173           88 LFNLD   92 (102)
Q Consensus        88 ~~~~~   92 (102)
                      ++.+.
T Consensus        74 ~r~~G   78 (85)
T 3mtn_B           74 LRLRG   78 (85)
T ss_dssp             CCCCC
T ss_pred             EECcC
Confidence            98764

>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=99.86  E-value=2.7e-21  Score=124.38  Aligned_cols=76  Identities=16%  Similarity=0.366  Sum_probs=70.9

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccC---CCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSA---NHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~---~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      |+|+||+++|+.+ .++|++++||.+||++|++  .   .++|+++|||+|+|+.|+|+.+     |++|||++|++|+|
T Consensus         1 M~I~Vk~~~g~~~-~~~v~~~~TV~~LK~~I~~--~~~~~gip~~~qrLi~~Gk~L~D~~t-----L~~ygI~~g~~i~l   72 (95)
T 1uel_A            1 MQVTLKTLQQQTF-KIDIDPEETVKALKEKIES--EKGKDAFPVAGQKLIYAGKILNDDTA-----LKEYKIDEKNFVVV   72 (95)
T ss_dssp             CEEEEEETTCCEE-EEECCTTSBHHHHHHHHHH--HHCTTTCCTTTEEEEETTEECCTTSB-----GGGGTCCSSSEEEE
T ss_pred             CEEEEEeCCCCEE-EEEECCCCHHHHHHHHHHh--hcccCCCChhhEEEEECCEECCCcCc-----HHHCCCCCCCEEEE
Confidence            7899999999888 8999999999999999998  7   8999999999999999988888     99999999999999


Q ss_pred             EEecCCC
Q 034173           87 SLFNLDD   93 (102)
Q Consensus        87 ~~~~~~~   93 (102)
                      +++.+..
T Consensus        73 ~~~~~~~   79 (95)
T 1uel_A           73 MVTKPKA   79 (95)
T ss_dssp             EESSCCC
T ss_pred             EEeCCCC
Confidence            9987643

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

Probab=99.86  E-value=1.2e-21  Score=124.40  Aligned_cols=77  Identities=18%  Similarity=0.153  Sum_probs=70.2

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      .+|+|+||+++|+.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++|+|+
T Consensus         3 ~~m~I~Vk~~~g~~~-~~~v~~~~TV~~LK~~I~~--~~gip~~~qrL~~~Gk~L~D~~t-----L~~~~I~~g~~i~l~   74 (88)
T 2hj8_A            3 EPLSILVRNNKGRSS-TYEVRLTQTVAHLKQQVSG--LEGVQDDLFWLTFEGKPLEDQLP-----LGEYGLKPLSTVFMN   74 (88)
T ss_dssp             CEEEEEEEETTSCEE-EEEEESSSBHHHHHHHHHH--HTCSCTTTEEEESSSSCCCTTSB-----HHHHHCSTTCEEEEE
T ss_pred             ccEEEEEECCCCCEE-EEEECCCCcHHHHHHHHHH--HhCCChhHEEEEECCEECCCCCc-----HHHcCCCCCCEEEEE
Confidence            369999999999887 8999999999999999999  99999999999999999988888     999999999999999


Q ss_pred             EecCC
Q 034173           88 LFNLD   92 (102)
Q Consensus        88 ~~~~~   92 (102)
                      ++.+.
T Consensus        75 ~~~~g   79 (88)
T 2hj8_A           75 LRLRG   79 (88)
T ss_dssp             EC---
T ss_pred             EEcCC
Confidence            98764

>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=99.85  E-value=1.2e-21  Score=122.05  Aligned_cols=77  Identities=22%  Similarity=0.289  Sum_probs=70.7

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      .+|+|+||+.+|+.+ .+++++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++|+++
T Consensus         2 s~m~i~vk~~~g~~~-~~~v~~~~tV~~lK~~i~~--~~~ip~~~qrL~~~g~~L~d~~t-----L~~~~i~~~~~i~l~   73 (85)
T 3n3k_B            2 SHMRIVVKTLMGRTI-ILEVEPSDTIENVKAKIQD--KEGIPPDQQRLIFAGKQLEDGRT-----LSDYNIHNHSALYLL   73 (85)
T ss_dssp             --CEEEEECGGGCEE-EEECCTTCBHHHHHHHHHH--HHCCCGGGEEEEETBEECCTTCB-----TTTTTCCTTCEEEEE
T ss_pred             CeEEEEEEeCCCCEE-EEEECCCCcHHHHHHHHHH--HHCCCHHHEEEEECCeECCCCCC-----HHHCCCCCCCEEEEE
Confidence            469999999999888 8999999999999999999  99999999999999999988888     999999999999999


Q ss_pred             EecCC
Q 034173           88 LFNLD   92 (102)
Q Consensus        88 ~~~~~   92 (102)
                      ++-+.
T Consensus        74 ~rl~G   78 (85)
T 3n3k_B           74 LKLRG   78 (85)
T ss_dssp             ECCC-
T ss_pred             EeccC
Confidence            98763

>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=99.85  E-value=4.2e-21  Score=121.18  Aligned_cols=80  Identities=21%  Similarity=0.197  Sum_probs=72.8

Q ss_pred             CCCcEEEEEEcCCC-CCceEE-EecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCE
Q 034173            6 ISESVEITVKTIGP-APPSRL-SVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGN   83 (102)
Q Consensus         6 ~~~~i~I~vK~~~~-~~~~~l-~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~t   83 (102)
                      .+.+|+|+||+++| +.+ .+ +|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++
T Consensus         4 ~~~~m~i~Vk~~~g~~~~-~l~~v~~~~tV~~lK~~i~~--~~gip~~~qrL~~~gk~L~d~~t-----L~~~~i~~g~~   75 (89)
T 1wy8_A            4 GSSGMWIQVRTIDGSKTC-TIEDVSRKATIEELRERVWA--LFDVRPECQRLFYRGKQLENGYT-----LFDYDVGLNDI   75 (89)
T ss_dssp             CSSCEEEEEEETTCSCEE-EEEEECTTCBHHHHHHHHHH--HSCCCTTTEEEEETTEECCSSSB-----HHHHTCCTTCE
T ss_pred             CCCcEEEEEEECCCCceE-EEEecCCCCCHHHHHHHHHH--HHCcChhhEEEEECCeECCCCCC-----HHHCCCCCCCE
Confidence            35679999999999 566 89 59999999999999999  99999999999999999988888     99999999999


Q ss_pred             EEEEEecCCC
Q 034173           84 INISLFNLDD   93 (102)
Q Consensus        84 i~l~~~~~~~   93 (102)
                      |||+++.+..
T Consensus        76 i~l~~~~~gG   85 (89)
T 1wy8_A           76 IQLLVRPDSG   85 (89)
T ss_dssp             EEEEECCCCS
T ss_pred             EEEEEeCCCC
Confidence            9999987654

>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=99.85  E-value=2.5e-21  Score=121.56  Aligned_cols=80  Identities=18%  Similarity=0.194  Sum_probs=73.7

Q ss_pred             CCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173            6 ISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         6 ~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      .+..|+|+||+.+++.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++||
T Consensus         4 ~~~~m~i~Vk~~~g~~~-~~~v~~~~tV~~lK~~i~~--~~gi~~~~qrL~~~Gk~L~d~~t-----L~~~~i~~g~~i~   75 (87)
T 1wh3_A            4 GSSGIQVFVKNPDGGSY-AYAINPNSFILGLKQQIED--QQGLPKKQQQLEFQGQVLQDWLG-----LGIYGIQDSDTLI   75 (87)
T ss_dssp             CSSSEEEEEEETTTEEE-EEEECSSSBHHHHHHHHHH--HTCCCTTTEEEEETTEECCSSSB-----HHHHTCCTTEEEE
T ss_pred             CCCCEEEEEEcCCCCEE-EEEeCCCChHHHHHHHHHH--HhCCChHHEEEEECCEEccCCCC-----HHHCCCCCCCEEE
Confidence            34679999999999887 8999999999999999999  99999999999999999988888     9999999999999


Q ss_pred             EEEecCCC
Q 034173           86 ISLFNLDD   93 (102)
Q Consensus        86 l~~~~~~~   93 (102)
                      ++++.+..
T Consensus        76 l~~~~~GG   83 (87)
T 1wh3_A           76 LSKKKGSG   83 (87)
T ss_dssp             EEECSCCC
T ss_pred             EEEeccCC
Confidence            99987643

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

Probab=99.85  E-value=1.5e-21  Score=128.32  Aligned_cols=75  Identities=17%  Similarity=0.270  Sum_probs=69.2

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      .|+|+||+++|+.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|||++|++|+|++
T Consensus         1 mm~I~Vk~~~g~~~-~l~v~~~~TV~~LK~~I~~--~~gip~~~QrLi~~Gk~L~D~~t-----L~~~~i~~g~~i~lv~   72 (106)
T 3m62_B            1 MVSLTFKNFKKEKV-PLDLEPSNTILETKTKLAQ--SISCEESQIKLIYSGKVLQDSKT-----VSECGLKDGDQVVFMV   72 (106)
T ss_dssp             --CEEEECTTCCEE-EECCCTTSBHHHHHHHHHH--TTTSCGGGCEEEETTEECCTTSB-----TTTTTCCTTCEEEEEC
T ss_pred             CEEEEEEeCCCCEE-EEEECCCCcHHHHHHHHHH--HHCCChhhEEEEECCEECCCcCC-----HHHcCCCCCCEEEEEE
Confidence            38999999999988 8999999999999999999  99999999999999999988888     9999999999999999


Q ss_pred             ecC
Q 034173           89 FNL   91 (102)
Q Consensus        89 ~~~   91 (102)
                      +.+
T Consensus        73 ~~~   75 (106)
T 3m62_B           73 SQK   75 (106)
T ss_dssp             CC-
T ss_pred             cCC
Confidence            876

>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=99.85  E-value=1.4e-21  Score=120.95  Aligned_cols=77  Identities=16%  Similarity=0.294  Sum_probs=72.2

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      +.|+|+||+.+|+.+ .++|++++||.+||++|++  +.++|+++|||+|+|+.|+|+.+     |++|+|++|++|+++
T Consensus         2 ~~m~i~vk~~~g~~~-~~~v~~~~tv~~lk~~i~~--~~gi~~~~qrL~~~G~~L~d~~t-----l~~~~i~~~~~i~l~   73 (79)
T 2uyz_B            2 EYIKLKVIGQDSSEI-HFKVKMTTHLKKLKESYCQ--RQGVPMNSLRFLFEGQRIADNHT-----PKELGMEEEDVIEVY   73 (79)
T ss_dssp             CEEEEEEECTTCCEE-EEEEETTSCTHHHHHHHHH--HHTCCGGGEEEEETTEECCTTCC-----HHHHTCCTTEEEEEE
T ss_pred             CeEEEEEECCCCCEE-EEEECCCChHHHHHHHHHH--HHCCCcccEEEEECCEEeCCCCC-----HHHcCCCCCCEEEEE
Confidence            359999999999988 8999999999999999999  99999999999999999998888     999999999999999


Q ss_pred             EecCC
Q 034173           88 LFNLD   92 (102)
Q Consensus        88 ~~~~~   92 (102)
                      ++.+.
T Consensus        74 ~~~~G   78 (79)
T 2uyz_B           74 QEQTG   78 (79)
T ss_dssp             ECCCC
T ss_pred             EeccC
Confidence            98653

>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=99.85  E-value=4.1e-21  Score=116.84  Aligned_cols=75  Identities=21%  Similarity=0.323  Sum_probs=70.3

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+|+||+.+|+.+ .+++++++||.+||++|++  ..++|+++|||+|+|+.|.|+.+     |++|+|++|++||++++
T Consensus         1 M~i~vk~~~g~~~-~i~v~~~~tv~~lK~~i~~--~~~i~~~~q~L~~~g~~L~d~~t-----L~~~~i~~g~~i~l~~~   72 (76)
T 3a9j_A            1 MQIFVKTLTGKTI-TLEVEPSDTIENVKAKIQD--KEGIPPDQQRLIFAGKQLEDGRT-----LSDYNIQRESTLHLVLR   72 (76)
T ss_dssp             CEEEEEETTSCEE-EEECCTTCBHHHHHHHHHH--HHCCCGGGEEEEETTEECCTTCB-----TGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEcCCCCEE-EEEECCCCcHHHHHHHHHH--HHCcCHHHeEEEECCeECCCCCc-----HHHcCCCCCCEEEEEEe
Confidence            7899999999887 8999999999999999999  99999999999999999988777     99999999999999998


Q ss_pred             cCC
Q 034173           90 NLD   92 (102)
Q Consensus        90 ~~~   92 (102)
                      .+.
T Consensus        73 ~~G   75 (76)
T 3a9j_A           73 LRG   75 (76)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            753

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

Probab=99.85  E-value=1.9e-21  Score=125.69  Aligned_cols=77  Identities=22%  Similarity=0.329  Sum_probs=71.3

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      +..|+|+||+.+|+.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++|+|
T Consensus        20 ~~~m~I~Vk~~~g~~~-~l~v~~~~TV~~LK~~I~~--~~gip~~~qrLi~~Gk~L~D~~t-----L~~~~i~~g~~i~l   91 (98)
T 4hcn_B           20 GRPMQIFVKTLTGKTI-TLEVESSDTIDNVKSKIQD--KEGIPPDQQRLIFAGKQLEDGRT-----LSDYNIQKESTLHL   91 (98)
T ss_dssp             --CCEEEEEETTCCEE-EEECCTTCBHHHHHHHHHH--HHCCCGGGCEEEETTEECCTTCB-----SGGGTCCTTEEEEE
T ss_pred             CCeEEEEEEeCCCCEE-EEEECCCCcHHHHHHHHHH--HhCCChhHEEEEECCEECCCCCc-----HHHCCCCCCCEEEE
Confidence            3579999999999988 8999999999999999999  99999999999999999988888     99999999999999


Q ss_pred             EEecC
Q 034173           87 SLFNL   91 (102)
Q Consensus        87 ~~~~~   91 (102)
                      +++-+
T Consensus        92 ~~rl~   96 (98)
T 4hcn_B           92 VLRLR   96 (98)
T ss_dssp             ECBCS
T ss_pred             EEecC
Confidence            98865

>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=99.85  E-value=4.1e-21  Score=125.16  Aligned_cols=83  Identities=19%  Similarity=0.261  Sum_probs=76.2

Q ss_pred             CCCCCCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCC
Q 034173            2 GMGEISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNG   81 (102)
Q Consensus         2 ~~~~~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g   81 (102)
                      -|+..+..|+|+||+.+++ + .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|
T Consensus        15 ~~~~~~~~m~I~Vk~~~g~-~-~l~v~~~~TV~~LK~~I~~--~~gip~~~QrLi~~Gk~L~D~~t-----L~~ygI~~g   85 (100)
T 1yqb_A           15 VPRGSPHLIKVTVKTPKDK-E-DFSVTDTCTIQQLKEEISQ--RFKAHPDQLVLIFAGKILKDPDS-----LAQCGVRDG   85 (100)
T ss_dssp             CCSCCTTEEEEEEECSSCE-E-EEEEETTCBHHHHHHHHHH--HHTCCGGGEEEEETTEECCTTSB-----HHHHTCCTT
T ss_pred             CCCCCCCeEEEEEEcCCCc-E-EEEECCCCcHHHHHHHHHH--HHCcChhhEEEEECCEECCCcCc-----HHHCCCCCC
Confidence            3677888999999999986 5 8999999999999999999  99999999999999999988888     999999999


Q ss_pred             CEEEEEEecCCC
Q 034173           82 GNINISLFNLDD   93 (102)
Q Consensus        82 ~ti~l~~~~~~~   93 (102)
                      ++|+|+++.+..
T Consensus        86 stI~l~~r~~~~   97 (100)
T 1yqb_A           86 LTVHLVIKRQHR   97 (100)
T ss_dssp             CEEEEEECCCCS
T ss_pred             CEEEEEEcCCCC
Confidence            999999987644

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

Probab=99.85  E-value=5e-21  Score=123.52  Aligned_cols=78  Identities=19%  Similarity=0.263  Sum_probs=71.7

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCC-CCCCCCCccccCCCCCCEEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDT-QDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~-~t~~~~~L~~~~I~~g~ti~   85 (102)
                      ...|+|+||++++ .+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+ .+     |++|+|++|++|+
T Consensus        13 ~~~~~I~Vk~~~~-~~-~l~v~~~~TV~~LK~~I~~--~~gip~~~QrLi~~Gk~L~D~~~t-----L~~ygI~~gstl~   83 (94)
T 2kan_A           13 VRKIHVTVKFPSK-QF-TVEVDRTETVSSLKDKIHI--VENTPIKRMQLYYSGIELADDYRN-----LNEYGITEFSEIV   83 (94)
T ss_dssp             SCCEEEEEECSSC-EE-EEEECTTCBHHHHHHHHHH--HSSSCTTTEEEEETTEEECCTTSB-----HHHHTCCTTEEEE
T ss_pred             CCCEEEEEEcCCc-EE-EEEECCCCcHHHHHHHHHH--HHCcCHHHEEEEECCEECCCCccc-----HHHCCCCCCCEEE
Confidence            4679999999988 55 8999999999999999999  999999999999999999887 77     9999999999999


Q ss_pred             EEEecCCC
Q 034173           86 ISLFNLDD   93 (102)
Q Consensus        86 l~~~~~~~   93 (102)
                      |+++.+..
T Consensus        84 lv~r~~gg   91 (94)
T 2kan_A           84 VFLKSINR   91 (94)
T ss_dssp             EEECCCSS
T ss_pred             EEEeCCCC
Confidence            99987643

>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=99.84  E-value=4.1e-21  Score=124.21  Aligned_cols=78  Identities=15%  Similarity=0.292  Sum_probs=73.0

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      +..|+|+||+++|+.+ .++|.+++||.+||++|++  +.++|+++|||+|.|+.|.|+.+     |++|+|++|++|||
T Consensus        19 ~~~m~I~Vk~~~g~~~-~l~v~~~~tv~~lK~~i~~--~~gip~~~qrLif~Gk~L~d~~t-----l~dy~i~~g~~I~l   90 (97)
T 1wyw_B           19 GEYIKLKVIGQDSSEI-HFKVKMTTHLKKLKESYCQ--RQGVPMNSLRFLFEGQRIADNHT-----PKELGMEEEDVIEV   90 (97)
T ss_dssp             CCEEEEEEECTTCCEE-EEEEETTSCTHHHHHHHHH--HHTCCGGGEEEEETTEECCTTCC-----HHHHTCCTTCEEEE
T ss_pred             CCcEEEEEEeCCCCEE-EEEECCCCcHHHHHHHHHH--HHCCChhhEEEEECCeEcCCCCC-----HHHCCCCCCCEEEE
Confidence            4569999999999988 8999999999999999999  99999999999999999998888     99999999999999


Q ss_pred             EEecCC
Q 034173           87 SLFNLD   92 (102)
Q Consensus        87 ~~~~~~   92 (102)
                      +++.+.
T Consensus        91 ~~~~~G   96 (97)
T 1wyw_B           91 YQEQTG   96 (97)
T ss_dssp             EESSSC
T ss_pred             EEecCC
Confidence            998653

>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=99.84  E-value=7.1e-21  Score=121.59  Aligned_cols=77  Identities=21%  Similarity=0.300  Sum_probs=71.1

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+|+||+.+|+.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++|||+++
T Consensus         2 m~i~vk~~~g~~~-~~~v~~~~TV~~LK~~i~~--~~gip~~~qrL~~~G~~L~d~~t-----L~~~~i~~~~~i~l~~r   73 (96)
T 3k9o_B            2 MQIFVKTLTGKTI-TLEVEPSDTIENVKAKIQD--KEGIPPDQQRLIFAGKQLEDGRT-----LSDYNIQKESTLHLVLR   73 (96)
T ss_dssp             CEEEEEETTCCEE-EEECCTTCBHHHHHHHHHH--HHCCCGGGEEEEETTEECCTTSB-----TGGGTCCTTCEEEEEEC
T ss_pred             cEEEEEeCCCCEE-EEEECCCCCHHHHHHHHHh--hhCCChhHEEEEECCEECCCCCc-----HHHcCCCCCCEEEEEEE
Confidence            8999999999888 8999999999999999999  99999999999999999988888     99999999999999998


Q ss_pred             cCCCc
Q 034173           90 NLDDL   94 (102)
Q Consensus        90 ~~~~~   94 (102)
                      .....
T Consensus        74 ~~gG~   78 (96)
T 3k9o_B           74 LRGYA   78 (96)
T ss_dssp             CCC--
T ss_pred             cCCCC
Confidence            76543

>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=99.84  E-value=6.6e-21  Score=124.96  Aligned_cols=78  Identities=14%  Similarity=0.149  Sum_probs=73.1

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      ..|+|+||+++|+.+ .++|++++||.+||++|++  ..|+|+++|||+|+|+.|.|+.+     |++|||++|++|||+
T Consensus        22 ~~m~I~Vk~~~g~~~-~l~v~~~~TV~~LK~~I~~--~~gip~~~qrLi~~Gk~L~D~~t-----L~~ygI~~g~ti~lv   93 (106)
T 1ttn_A           22 YECQLRLRLSTGKDL-KLVVRSTDTVFHMKRRLHA--AEGVEPGSQRWFFSGRPLTDKMK-----FEELKIPKDYVVQVI   93 (106)
T ss_dssp             CSEEEEEEETTTEEE-EEEECTTSHHHHHHHHHHH--TTCCCSTTCEEEETTEECCTTSH-----HHHCCCSSSCEEEEE
T ss_pred             CeEEEEEEcCCCCEE-EEEeCCCCcHHHHHHHHHH--HHCcCcccEEEEECCEECCCCCc-----HHHcCCCCCCEEEEE
Confidence            469999999999887 8999999999999999999  99999999999999999988888     999999999999999


Q ss_pred             EecCCC
Q 034173           88 LFNLDD   93 (102)
Q Consensus        88 ~~~~~~   93 (102)
                      ++.++.
T Consensus        94 ~~~~~~   99 (106)
T 1ttn_A           94 VSQPVQ   99 (106)
T ss_dssp             CCCSSC
T ss_pred             EeCCCC
Confidence            988755

>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=99.84  E-value=1.1e-20  Score=125.09  Aligned_cols=76  Identities=21%  Similarity=0.313  Sum_probs=71.9

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      ..|+|+||+.+|+.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++|||+
T Consensus        34 ~~m~I~Vk~~~G~~~-~l~v~~~~TV~~LK~~I~~--~~gip~~~QrLi~~Gk~L~D~~t-----L~~~gI~~gs~I~l~  105 (111)
T 3vdz_A           34 LAMQIFVKTLTGKTI-TLEVEPSDTIENVKAKIQD--KEGIPPDQQRLIFAGKQLEDGRT-----LSDYNIQKESTLHLV  105 (111)
T ss_dssp             GCEEEEEECSSSCEE-EEEECTTCBHHHHHHHHHH--HHCCCGGGEEEEETTEECCTTSB-----TTTTTCCTTCEEEEE
T ss_pred             ccEEEEEEeCCCCEE-EEEeCCCCCHHHHHHHHHH--HhCCChHHEEEEECCEECCCCCc-----HHHCCCCCCCEEEEE
Confidence            469999999999988 8999999999999999999  99999999999999999988888     999999999999999


Q ss_pred             EecC
Q 034173           88 LFNL   91 (102)
Q Consensus        88 ~~~~   91 (102)
                      ++-+
T Consensus       106 ~rl~  109 (111)
T 3vdz_A          106 LRLR  109 (111)
T ss_dssp             ECCC
T ss_pred             EecC
Confidence            9865

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

Probab=99.84  E-value=6.2e-21  Score=121.17  Aligned_cols=76  Identities=17%  Similarity=0.304  Sum_probs=68.5

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      -|+|+||+.+|+.+ .+++++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++|++++
T Consensus         9 ~~~i~v~~~~G~~~-~l~v~~~~TV~~LK~~I~~--~~gip~~~qrL~~~Gk~L~D~~t-----L~~~gi~~g~~i~l~~   80 (88)
T 1sif_A            9 GLQLFIKTLTGKTF-TVEMEPSDTIENLKAKIQD--KEGIPPDQQRLIFAGKQLEDGRT-----LSDYNIQKESTLHLVL   80 (88)
T ss_dssp             -CEEEEEETTSCEE-EEECCTTSBHHHHHHHHHH--HHCCCGGGCEEEETTEECCTTSB-----SGGGTCCTTCEEEEEC
T ss_pred             ceEEEEEeCCCCEE-EEEECCCChHHHHHHHHHH--HHCcChhhEEEEECCEECCCCCc-----HHHcCCCCCCEEEEEE
Confidence            38999999999988 8999999999999999999  99999999999999999988877     9999999999999998


Q ss_pred             ecCC
Q 034173           89 FNLD   92 (102)
Q Consensus        89 ~~~~   92 (102)
                      +.+.
T Consensus        81 r~~G   84 (88)
T 1sif_A           81 RLRG   84 (88)
T ss_dssp             ----
T ss_pred             eCCC
Confidence            8764

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

Probab=99.84  E-value=7.9e-21  Score=128.06  Aligned_cols=80  Identities=11%  Similarity=0.144  Sum_probs=72.5

Q ss_pred             CcEEEEEE-cCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            8 ESVEITVK-TIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         8 ~~i~I~vK-~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      ..|+|+|+ +++++.+ .+++++++||++||+++++  ..++|+++|||||+||+|+|+.|     |++|||++|+||||
T Consensus        14 ~~itvkv~l~~~~~k~-tv~v~~d~TV~dLKe~ls~--~~~iP~e~qrLIy~GKiLKD~eT-----L~~~gIk~g~TIhL   85 (118)
T 2daf_A           14 SLATVKVVLIPVGQEI-VIPFKVDTILKYLKDHFSH--LLGIPHSVLQIRYSGKILKNNET-----LVQHGVKPQEIVQV   85 (118)
T ss_dssp             SCEEEEEEETTTCCEE-EEEECSSSCSHHHHHHHHH--HHTCCTTTEEEEETTEEECSSCC-----HHHHSCCSSCEEEE
T ss_pred             ccEEEEEEEcCCCcEE-EEEeCCCCcHHHHHHHHHh--hhCCChHHEEEEECCeEcCCcch-----HHHcCCCCCCEEEE
Confidence            35888888 6677777 9999999999999999999  89999999999999999999888     99999999999999


Q ss_pred             EEecCCCce
Q 034173           87 SLFNLDDLS   95 (102)
Q Consensus        87 ~~~~~~~~~   95 (102)
                      +++..+-.-
T Consensus        86 vi~s~~p~~   94 (118)
T 2daf_A           86 EIFSTNPDL   94 (118)
T ss_dssp             EEEESCTTT
T ss_pred             EEecCCCcc
Confidence            999876544

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

Probab=99.84  E-value=1.2e-20  Score=127.61  Aligned_cols=82  Identities=18%  Similarity=0.285  Sum_probs=73.5

Q ss_pred             CCCCCCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCC
Q 034173            2 GMGEISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNG   81 (102)
Q Consensus         2 ~~~~~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g   81 (102)
                      +|++++..|+|+||+. ++.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|
T Consensus        25 ~~~~~~~~m~I~Vk~~-g~~~-~l~v~~~~TV~~LK~~I~~--~~gip~~~QrLi~~Gk~L~D~~t-----L~dygI~~g   95 (125)
T 1j8c_A           25 AAPAEPKIIKVTVKTP-KEKE-EFAVPENSSVQQFKEAISK--RFKSQTDQLVLIFAGKILKDQDT-----LIQHGIHDG   95 (125)
T ss_dssp             SCCCCCCCEEEEEECS-SCEE-EEEECTTCCHHHHHHHHHH--HHCSCSSSEEEEETTEEESTTSC-----GGGTTCSSS
T ss_pred             cccCCCCcEEEEEEeC-CeEE-EEEECCCCcHHHHHHHHHH--HHCcCcceEEEEECCEEcCCCCC-----HHHcCCCCC
Confidence            3677778899999998 7777 8999999999999999999  99999999999999999988888     999999999


Q ss_pred             CEEEEEEecCC
Q 034173           82 GNINISLFNLD   92 (102)
Q Consensus        82 ~ti~l~~~~~~   92 (102)
                      ++|+|+++...
T Consensus        96 stI~lv~~~~g  106 (125)
T 1j8c_A           96 LTVHLVIKRDP  106 (125)
T ss_dssp             EEEEEEEC---
T ss_pred             CEEEEEeccCC
Confidence            99999998764

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

Probab=99.83  E-value=1.7e-20  Score=114.91  Aligned_cols=73  Identities=26%  Similarity=0.471  Sum_probs=67.6

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      .|+|+||+ +|+.+ .+++++++||.+||++|++  ..++|+++|||+|+|+.|.|+.+     |++|||++|++||+..
T Consensus         4 ~m~i~vk~-~g~~~-~~~v~~~~tV~~LK~~i~~--~~~i~~~~qrL~~~gk~L~d~~t-----L~~~~i~~g~~i~l~~   74 (77)
T 2bwf_A            4 SLNIHIKS-GQDKW-EVNVAPESTVLQFKEAINK--ANGIPVANQRLIYSGKILKDDQT-----VESYHIQDGHSVHLVK   74 (77)
T ss_dssp             EEEEEEEE-TTEEE-EEEECTTCBHHHHHHHHHH--HHCCCGGGEEEEETTEECCTTSB-----TGGGTCCTTCEEEEEE
T ss_pred             EEEEEEEE-CCEEE-EEEECCCCcHHHHHHHHHH--HhCCCHHHEEEEECCeEcCCCCC-----HHHcCCCCCCEEEEEE
Confidence            39999999 88777 8999999999999999999  99999999999999999988877     9999999999999976


Q ss_pred             ec
Q 034173           89 FN   90 (102)
Q Consensus        89 ~~   90 (102)
                      +.
T Consensus        75 ~~   76 (77)
T 2bwf_A           75 SQ   76 (77)
T ss_dssp             CC
T ss_pred             cC
Confidence            54

>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=99.83  E-value=1.8e-20  Score=123.21  Aligned_cols=76  Identities=17%  Similarity=0.059  Sum_probs=66.5

Q ss_pred             cEEEEEEcCC----CCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEE
Q 034173            9 SVEITVKTIG----PAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNI   84 (102)
Q Consensus         9 ~i~I~vK~~~----~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti   84 (102)
                      ..+|.|+.++    ++.+ .++|++++||.+||++|++  +.++||++|||||+||+|+|+.+     |++|+|++|++|
T Consensus        15 ~ati~V~~~~~~~~~~~~-~lev~~~~TV~~lK~kI~~--k~gip~~qQrLI~~GKiL~D~~T-----L~~y~I~~gsti   86 (100)
T 1wju_A           15 IATIEVFLPPRLKKDRKN-LLETRLHITGRELRSKIAE--TFGLQENYIKIVINKKQLQLGKT-----LEEQGVAHNVKA   86 (100)
T ss_dssp             EEEEEEECCTTTCCSSSE-EEEEESSSBHHHHHHHHHH--HTTCCSTTCEEEETTEECCTTSB-----HHHHTCCSSEEE
T ss_pred             eEEEEEEecCCCCCCcEE-EEEeCCcCHHHHHHHHHHH--HHCcCHHHeEEEeCCeECCCCCc-----HHHcCCCCCCEE
Confidence            3567777776    6566 8999999999999999999  99999999999999999998888     999999999999


Q ss_pred             EEEEecCC
Q 034173           85 NISLFNLD   92 (102)
Q Consensus        85 ~l~~~~~~   92 (102)
                      ++++....
T Consensus        87 ~vl~lrg~   94 (100)
T 1wju_A           87 MVLELKQS   94 (100)
T ss_dssp             EEECCCCC
T ss_pred             EEEEECCC
Confidence            77664443

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

Probab=99.83  E-value=3.3e-20  Score=119.45  Aligned_cols=76  Identities=21%  Similarity=0.322  Sum_probs=71.3

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+|+||+++|+.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|||++|++|+++++
T Consensus         1 M~I~Vk~~~g~~~-~~~v~~~~TV~~LK~~I~~--~~gi~~~~qrL~~~Gk~L~D~~t-----L~~~gi~~g~~i~l~~~   72 (98)
T 1yx5_B            1 MQIFVKTLTGKTI-TLEVEPSDTIENVKAKIQD--KEGIPPDQQRLIFAGKQLEDGRT-----LSDYNIQKESTLHLVLR   72 (98)
T ss_dssp             CEEEEEETTSCEE-EEECCTTCBHHHHHHHHHH--HTCCCGGGEEEEETTEECCTTSB-----TGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEeCCCCEE-EEEECCCCcHHHHHHHHHH--HHCcChhhEEEEECCEECCCCCC-----HHHcCCCCCCEEEEEEe
Confidence            7899999999887 8999999999999999999  99999999999999999988877     99999999999999998


Q ss_pred             cCCC
Q 034173           90 NLDD   93 (102)
Q Consensus        90 ~~~~   93 (102)
                      .+..
T Consensus        73 ~~gG   76 (98)
T 1yx5_B           73 LRGG   76 (98)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            8754

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

Probab=99.82  E-value=3.6e-20  Score=120.73  Aligned_cols=78  Identities=19%  Similarity=0.298  Sum_probs=71.0

Q ss_pred             CCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173            6 ISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         6 ~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      .+..|+|+||+. |+.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|||++|++|+
T Consensus        22 ~~~~m~I~Vk~~-g~~~-~l~v~~~~TV~~LK~~I~~--~~gip~~~qrLi~~Gk~L~D~~t-----L~~~gI~~g~~I~   92 (101)
T 2klc_A           22 HPKIMKVTVKTP-KEKE-EFAVPENSSVQQFKEEISK--RFKSHTDQLVLIFAGKILKDQDT-----LSQHGIHDGLTVH   92 (101)
T ss_dssp             -CCCEEEEEECS-SCEE-EEEECSCCCHHHHHHHHHH--HHTCCGGGEEEEETTEEECTTCC-----TGGGTCCTTCEEE
T ss_pred             CCCeEEEEEEeC-CcEE-EEEECCCCCHHHHHHHHHH--HHCcChhhEEEEECCEECCCcCc-----HHHcCCCCCCEEE
Confidence            356799999998 6666 8999999999999999999  99999999999999999988888     9999999999999


Q ss_pred             EEEecCC
Q 034173           86 ISLFNLD   92 (102)
Q Consensus        86 l~~~~~~   92 (102)
                      |+++.+.
T Consensus        93 l~~~~~~   99 (101)
T 2klc_A           93 LVIKTQN   99 (101)
T ss_dssp             EEECCSS
T ss_pred             EEEcCCC
Confidence            9988753

>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=99.82  E-value=1.4e-20  Score=120.66  Aligned_cols=78  Identities=22%  Similarity=0.296  Sum_probs=71.5

Q ss_pred             CCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173            6 ISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         6 ~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      .++.|+|+||+. ++.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++||
T Consensus        14 ~~~~m~i~Vk~~-g~~~-~~~v~~~~TV~~LK~~I~~--~~gip~~~qrL~~~Gk~L~D~~t-----L~~~gi~~g~~i~   84 (96)
T 1wx8_A           14 SSRIIRVSVKTP-QDCH-EFFLAENSNVRRFKKQISK--YLHCNADRLVLIFTGKILRDQDI-----LSQRGILDGSTVH   84 (96)
T ss_dssp             CSCEEEEEEECS-SSEE-EEEEETTCCHHHHHHHHHH--HTCSCTTTBCCEETTEECCTTSC-----HHHHTCCTTEEEE
T ss_pred             CCCcEEEEEEEC-CeEE-EEEECCCCCHHHHHHHHHH--HhCCCHHHEEEEECCEECCCcCC-----HHHCCCCCCCEEE
Confidence            346799999998 7777 8999999999999999999  99999999999999999988888     9999999999999


Q ss_pred             EEEecCC
Q 034173           86 ISLFNLD   92 (102)
Q Consensus        86 l~~~~~~   92 (102)
                      |+++...
T Consensus        85 l~~~~~~   91 (96)
T 1wx8_A           85 VVVRSHS   91 (96)
T ss_dssp             CCBCCSS
T ss_pred             EEEeCCC
Confidence            9887654

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

Probab=99.82  E-value=1.7e-20  Score=120.49  Aligned_cols=76  Identities=13%  Similarity=0.158  Sum_probs=68.0

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      +..|+|+||+  |+.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++|+|
T Consensus        17 ~~~m~I~Vk~--g~~~-~l~v~~~~TV~~LK~~I~~--~~gip~~~qrLi~~Gk~L~D~~t-----L~~y~I~~gstI~l   86 (93)
T 2l7r_A           17 RGSMQLFVRA--QELH-TFEVTGQETVAQIKAHVAS--LEGIAPEDQVVLLAGAPLEDEAT-----LGQCGVEALTTLEV   86 (93)
T ss_dssp             ---CEEEEES--SSEE-EEECCSSCBHHHHHHHHHH--HHTCCGGGCEEEETTEECCTTSB-----HHHHTCCSSCEEEE
T ss_pred             CCcEEEEEEC--CCEE-EEEeCCCCcHHHHHHHHHH--HhCcChhHEEEEECCEECCCCCc-----HHHCCCCCCCEEEE
Confidence            4569999999  6666 8999999999999999999  99999999999999999988888     99999999999999


Q ss_pred             EEecCC
Q 034173           87 SLFNLD   92 (102)
Q Consensus        87 ~~~~~~   92 (102)
                      +++-+.
T Consensus        87 v~rl~G   92 (93)
T 2l7r_A           87 AGRMLG   92 (93)
T ss_dssp             ECCCCC
T ss_pred             EEecCC
Confidence            988653

>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=99.82  E-value=4.7e-20  Score=120.62  Aligned_cols=80  Identities=20%  Similarity=0.288  Sum_probs=72.6

Q ss_pred             CCCCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCE
Q 034173            4 GEISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGN   83 (102)
Q Consensus         4 ~~~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~t   83 (102)
                      .+.+..|+|+||+.+++ + .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++
T Consensus        12 ~~~~~~m~I~Vk~~~g~-~-~l~v~~~~TV~~LK~~I~~--~~gip~~~qrLi~~Gk~L~D~~t-----L~~~gi~~g~~   82 (106)
T 1wx7_A           12 VQDPHLIKVTVKTPKDK-E-DFSVTDTCTIQQLKEEISQ--RFKAHPDQLVLIFAGKILKDPDS-----LAQCGVRDGLT   82 (106)
T ss_dssp             CCCSSEEEEEEECSSCE-E-EEEEETTCCHHHHHHHHHH--HHTCCTTTEEEEETTEECCTTSC-----HHHHTCCTTEE
T ss_pred             CCCCceEEEEEEeCCCc-E-EEEECCCCcHHHHHHHHHH--HHCcChhhEEEEECCEECCCcCc-----HHHcCCCCCCE
Confidence            34467799999999886 5 8999999999999999999  99999999999999999988888     99999999999


Q ss_pred             EEEEEecCC
Q 034173           84 INISLFNLD   92 (102)
Q Consensus        84 i~l~~~~~~   92 (102)
                      |||+++...
T Consensus        83 i~l~~~~~~   91 (106)
T 1wx7_A           83 VHLVIKRQH   91 (106)
T ss_dssp             EEEEECCCC
T ss_pred             EEEEEcCCC
Confidence            999997653

>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=99.71  E-value=9.1e-22  Score=120.66  Aligned_cols=74  Identities=19%  Similarity=0.246  Sum_probs=69.8

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+|+||+.+|+.+ .+++++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|||++|++||++++
T Consensus         1 M~i~Vk~~~g~~~-~~~v~~~~tV~~lK~~i~~--~~gi~~~~qrL~~~gk~L~d~~t-----L~~~~i~~g~~i~l~~r   72 (76)
T 3b1l_X            1 MIVFVRFNSSYGF-PVEVDSDTSILQLKEVVAK--QQGVPADQLRVIFAGKELPNHLT-----VQNCDLEQQSIVHIVQR   72 (76)
Confidence            7899999999888 8999999999999999998  99999999999999999988888     99999999999999987


Q ss_pred             cC
Q 034173           90 NL   91 (102)
Q Consensus        90 ~~   91 (102)
                      .+
T Consensus        73 lr   74 (76)
T 3b1l_X           73 PR   74 (76)
Confidence            65

>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=99.81  E-value=7.8e-20  Score=126.03  Aligned_cols=79  Identities=18%  Similarity=0.151  Sum_probs=73.2

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      +..|+|+||+.+|+.+ .++|++++||.+||++|++  +.|+|+++|||+|+|+.|+|+.+     |++|+|++|++||+
T Consensus        79 ~~~m~i~vk~~~g~~~-~~~v~~~~tV~~lK~~i~~--~~gip~~~q~L~~~G~~L~d~~t-----L~~y~i~~g~~l~l  150 (159)
T 3rt3_B           79 DEPLSILVRNNKGRSS-TYEVRLTQTVAHLKQQVSG--LEGVQDDLFWLTFEGKPLEDQLP-----LGEYGLKPLSTVFM  150 (159)
T ss_dssp             CCCEEEEEECTTSCEE-EEEECTTSBHHHHHHHHHH--HHTCCGGGEEEEETTEECCTTSB-----GGGGTCCTTCEEEE
T ss_pred             CCcEEEEEECCCCCEE-EEEeCCCCCHHHHHHHHHH--HHCCCHHHEEEEECCeecCCCCC-----HHHcCCCCCCEEEE
Confidence            5679999999999988 8999999999999999999  99999999999999999988888     99999999999999


Q ss_pred             EEecCCC
Q 034173           87 SLFNLDD   93 (102)
Q Consensus        87 ~~~~~~~   93 (102)
                      +++-..+
T Consensus       151 ~~rl~GG  157 (159)
T 3rt3_B          151 NLRLRGG  157 (159)
T ss_dssp             EECCC--
T ss_pred             EEecCCC
Confidence            9987643

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

Probab=99.81  E-value=2.5e-20  Score=121.86  Aligned_cols=72  Identities=15%  Similarity=0.205  Sum_probs=63.2

Q ss_pred             CcEEEEEEcCCCC--CceEEEecCCCcHHHHHHHHHhccC-CC-CCCCceEEEeCCeecCCCCCCCCCCcccc--CCCCC
Q 034173            8 ESVEITVKTIGPA--PPSRLSVSSPIKVRDLRKLIATSSA-NH-LPIENLRLVFRGKVLDDTQDDDDRDDVYL--QLSNG   81 (102)
Q Consensus         8 ~~i~I~vK~~~~~--~~~~l~v~~~~TV~~LK~~Ia~~~~-~~-ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~--~I~~g   81 (102)
                      ..|+|+||+++++  .+ .+++++++||.+||++|++  + .+ +|+++|||||+||+|+|+.+     |++|  +|++|
T Consensus        22 ~~m~I~VK~~~g~~~~i-~l~v~~~~TV~~LK~~I~~--~~~g~pp~~~QrLIy~Gk~L~D~~t-----L~~y~~~I~~~   93 (99)
T 2kdb_A           22 HPVTLIIKAPNQKYSDQ-TISCFLNWTVGKLKTHLSN--VYPSKPLTKDQRLVYSGRLLPDHLQ-----LKDILRKQDEY   93 (99)
T ss_dssp             -CEEEEEECTTSSSCCE-EEEECTTSBHHHHHHHHHH--HSTTCCCTTTCCEEETTEEECTTSB-----THHHHTTTCSE
T ss_pred             CeEEEEEEcCCCCEEEE-EEEcCCCCHHHHHHHHHHH--HhcCCCChhhEEEEECCEECCCCCC-----HHHHhcCCCCC
Confidence            5699999999998  34 7888999999999999997  5 34 44699999999999998888     9999  99999


Q ss_pred             CEEEEE
Q 034173           82 GNINIS   87 (102)
Q Consensus        82 ~ti~l~   87 (102)
                      +||||+
T Consensus        94 ~tihLv   99 (99)
T 2kdb_A           94 HMVHLV   99 (99)
T ss_dssp             EEEEEC
T ss_pred             CEEEeC
Confidence            999974

>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=99.81  E-value=9.5e-20  Score=120.15  Aligned_cols=78  Identities=19%  Similarity=0.206  Sum_probs=72.3

Q ss_pred             CCcEEEEEEcC---CCCCceEEEecC-CCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCC
Q 034173            7 SESVEITVKTI---GPAPPSRLSVSS-PIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGG   82 (102)
Q Consensus         7 ~~~i~I~vK~~---~~~~~~~l~v~~-~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~   82 (102)
                      +..|+|+||++   +|+.+ .++|++ ++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|+
T Consensus        25 ~~~i~i~Vk~~~~~~g~~~-~l~v~~l~~TV~~LK~~I~~--~~gip~~~QrL~~~Gk~L~D~~t-----L~~y~I~~g~   96 (111)
T 1we6_A           25 PGPATIRVSKPNENDGQFM-EITVQSLSENVGSLKEKIAG--EIQIPANKQKLSGKAGFLKDNMS-----LAHYNVGAGE   96 (111)
T ss_dssp             CSCEEEEECCTTCSSSCCE-EEEESCSSSBHHHHHHHHHH--HTTCCTTTSEEECSSSBCCTTSB-----TTTTTCSSSC
T ss_pred             CCcEEEEEEecccCCCcEE-EEEecCCCCcHHHHHHHHHH--HHCCCHHHeEEEECCEECCCCCc-----HHHCCCCCCC
Confidence            46799999998   78777 899998 9999999999999  99999999999999999988888     9999999999


Q ss_pred             EEEEEEecCC
Q 034173           83 NINISLFNLD   92 (102)
Q Consensus        83 ti~l~~~~~~   92 (102)
                      +|||+++-+.
T Consensus        97 ~l~l~~r~~G  106 (111)
T 1we6_A           97 ILTLSLRERS  106 (111)
T ss_dssp             EEEEECSSCC
T ss_pred             EEEEEEEcCC
Confidence            9999998764

>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=99.81  E-value=1.7e-19  Score=122.90  Aligned_cols=84  Identities=13%  Similarity=0.223  Sum_probs=72.6

Q ss_pred             CCCCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhc---cCCCCCC--CceEEEeCCeecCCCCCCCCCCccccCC
Q 034173            4 GEISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATS---SANHLPI--ENLRLVFRGKVLDDTQDDDDRDDVYLQL   78 (102)
Q Consensus         4 ~~~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~---~~~~ip~--~~qrLi~~Gk~L~D~~t~~~~~L~~~~I   78 (102)
                      ++..+.|+|+||+++|+.+..+++++++||.+||++|++.   .+.++|+  ++|||||+||+|+|+.+     |++|+|
T Consensus        11 ~~~~~~~~i~~kt~~G~~i~~l~v~psdTV~~lK~kI~~~~p~dkegiP~~~~qQrLIy~GK~LeD~~T-----Lsdy~I   85 (126)
T 1se9_A           11 AEVHNQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKT-----VKDYRS   85 (126)
T ss_dssp             CSSCCCEEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSB-----GGGGSC
T ss_pred             hhhcccEEEEEEECCCCEEEeeecCccCHHHHHHHHHHhhcccccccCCCChhhEEEEECCeECcCCCc-----HHHcCC
Confidence            4566889999999999888669999999999999999431   1678886  89999999999998888     999999


Q ss_pred             CCC------CEEEEEEecCC
Q 034173           79 SNG------GNINISLFNLD   92 (102)
Q Consensus        79 ~~g------~ti~l~~~~~~   92 (102)
                      ++|      .|+||+++.+.
T Consensus        86 ~~~~~~~~v~tmhlVlrl~g  105 (126)
T 1se9_A           86 PVSNLAGAVTTMHVIIQAPV  105 (126)
T ss_dssp             CTTSCTTCCEEEEEEECCCS
T ss_pred             CcCCccCCcEEEEEEeccCC
Confidence            999      57899887663

>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=99.81  E-value=6.4e-20  Score=119.52  Aligned_cols=79  Identities=19%  Similarity=0.224  Sum_probs=70.3

Q ss_pred             CCcEEEEEEcCCC----CCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCC-CCCCCCCccccCCCCC
Q 034173            7 SESVEITVKTIGP----APPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDT-QDDDDRDDVYLQLSNG   81 (102)
Q Consensus         7 ~~~i~I~vK~~~~----~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~-~t~~~~~L~~~~I~~g   81 (102)
                      +..|+|+||++.+    +.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+ .+     |++|+|++|
T Consensus         5 ~~~m~I~Vk~~~~~~~~~~~-~i~v~~~~TV~~LK~~I~~--~~gip~~~qrL~~~gk~L~D~~~t-----L~~ygI~~g   76 (102)
T 1v5o_A            5 SSGMLITVYCVRRDLTEVTF-SLQVNPDFELSNFRVLCEL--ESGVPAEEAQIVYMEQLLTDDHCS-----LGSYGLKDG   76 (102)
T ss_dssp             SCCEEEEEEECCCCCCCCEE-EEEECTTCBHHHHHHHHHH--HTCCCGGGBCEEETTEEECCSSSB-----HHHHTCCTT
T ss_pred             CCeEEEEEEECCCCcCceEE-EEEcCCCCCHHHHHHHHHH--HHCcChHHeEEEECCEECCCCccc-----HHHCCCCCC
Confidence            3569999999865    455 8999999999999999999  999999999999999999866 56     999999999


Q ss_pred             CEEEEEEecCCC
Q 034173           82 GNINISLFNLDD   93 (102)
Q Consensus        82 ~ti~l~~~~~~~   93 (102)
                      ++|||+++....
T Consensus        77 ~~l~l~~~~~gg   88 (102)
T 1v5o_A           77 DMVVLLQKDNVG   88 (102)
T ss_dssp             EEEEECBCCCCC
T ss_pred             CEEEEEECCCCC
Confidence            999999887644

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

Probab=99.81  E-value=1e-19  Score=128.43  Aligned_cols=74  Identities=23%  Similarity=0.337  Sum_probs=70.6

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+|+||+++|+.+ .++|++++||.+||++|++  +.++|+++|||+|+|+.|+|+.+     |++|+|++|++||++++
T Consensus         1 MqI~Vk~~~Gk~~-~l~v~~~~TV~~LK~~I~~--~~gip~~~QrLi~~Gk~L~D~~t-----L~~y~I~~gstI~Lvlr   72 (169)
T 3l0w_B            1 MQIFVKTLTGKTI-TLEVESSDTIDNVKSKIQD--KEGIPPDQQRLIFAGKQLEDGRT-----LSDYNIQKESTLHLVLR   72 (169)
T ss_dssp             CEEEEEETTSCEE-EEECCTTCBHHHHHHHHHH--HHCCCTTTEEEEETTEECCTTSB-----GGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEeCCCCEE-EEEeCCCCCHHHHHHHHHH--HHCcCHHHEEEEECCccccCcCc-----HHHcCCCCCCEEEEEEE
Confidence            7999999999988 8999999999999999999  99999999999999999988888     99999999999999998


Q ss_pred             cC
Q 034173           90 NL   91 (102)
Q Consensus        90 ~~   91 (102)
                      -+
T Consensus        73 l~   74 (169)
T 3l0w_B           73 LR   74 (169)
T ss_dssp             CC
T ss_pred             ec
Confidence            65

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

Probab=99.81  E-value=1.7e-19  Score=119.07  Aligned_cols=76  Identities=21%  Similarity=0.313  Sum_probs=71.5

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      .+|+|+||+.+|+.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|.|+.+     |++|+|++|++|||+
T Consensus        34 ~~m~I~Vk~~~g~~~-~l~v~~~~TV~~LK~~I~~--~~gip~~~qrLi~~Gk~L~D~~t-----L~~~gI~~gs~I~l~  105 (111)
T 2ojr_A           34 LAMQIFVKTLTGKTI-TLEVEPSDTIENVKAKIQD--KEGIPPDQQRLIFAGKQLEDGRT-----LSDYNIQKESTLHLV  105 (111)
T ss_dssp             SCEEEEEECSSSCEE-EEEECTTCBHHHHHHHHHH--HHCCCTTTEEEEETTEECCSSCB-----TTTTTCCTTCEEEEE
T ss_pred             CeEEEEEEcCCCCEE-EEEeCCCCCHHHHHHHHHH--HHCcCcccEEEEECCEECCCCCc-----HHHcCCCCCCEEEEE
Confidence            479999999999887 8999999999999999999  99999999999999999988877     999999999999999


Q ss_pred             EecC
Q 034173           88 LFNL   91 (102)
Q Consensus        88 ~~~~   91 (102)
                      ++-+
T Consensus       106 ~rl~  109 (111)
T 2ojr_A          106 LRLR  109 (111)
T ss_dssp             ECCC
T ss_pred             EeCC
Confidence            8865

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

Probab=99.81  E-value=1.7e-20  Score=122.53  Aligned_cols=75  Identities=25%  Similarity=0.440  Sum_probs=67.4

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      .+|+|+||+ +|+.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|||++|++|+|+
T Consensus        27 m~i~I~Vk~-~g~~~-~l~v~~~~TV~~LK~~I~~--~~gip~~~QrLi~~Gk~L~D~~t-----L~~~gI~~g~tI~lv   97 (101)
T 3m63_B           27 MSLNIHIKS-GQDKW-EVNVAPESTVLQFKEAINK--ANGIPVANQRLIYSGKILKDDQT-----VESYHIQDGHSVHLV   97 (101)
T ss_dssp             --CCEEEEC-SSCCC-CBCCCTTSBHHHHHHHHHH--HHSCCSTTCCEEETTEECCTTSB-----TTTTTCCTTEEEEEC
T ss_pred             cEEEEEEEE-CCEEE-EEEeCCCCCHHHHHHHHHH--HHCcChHHEEEEECCEECCCcCc-----HHHCCCCCCCEEEEE
Confidence            458899998 77777 8999999999999999999  99999999999999999988888     999999999999998


Q ss_pred             EecC
Q 034173           88 LFNL   91 (102)
Q Consensus        88 ~~~~   91 (102)
                      ++.|
T Consensus        98 ~~~P  101 (101)
T 3m63_B           98 KSQP  101 (101)
T ss_dssp             CCC-
T ss_pred             eCCC
Confidence            7754

>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=99.80  E-value=1.4e-19  Score=115.86  Aligned_cols=77  Identities=14%  Similarity=0.209  Sum_probs=69.8

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCC-CCCCCCCccccCCCCCCEEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDT-QDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~-~t~~~~~L~~~~I~~g~ti~   85 (102)
                      .+.|+|+||+.+|+.+ .++|++++||.+||++|++  ..   +++|||+|+|+.|+|+ .+     |++|+|++|++||
T Consensus         5 ~~~m~i~Vk~~~g~~~-~~~v~~~~TV~~LK~~i~~--~~---~~~qrLi~~Gk~L~D~~~t-----L~~y~i~~g~~i~   73 (95)
T 1wia_A            5 SSGINVRLKFLNDTEE-LAVARPEDTVGTLKSKYFP--GQ---ESQMKLIYQGRLLQDPART-----LSSLNITNNCVIH   73 (95)
T ss_dssp             CCSEEEEEEETTTEEE-EEEECSSSBHHHHHHHHSS--ST---TTTCEEEETTEECCCSSCB-----TTTTTCCTTEEEE
T ss_pred             CCeEEEEEEeCCCCEE-EEEECCCCcHHHHHHHHHh--hC---cCcEEEEECCEEccCCcCC-----HHHcCCCCCCEEE
Confidence            4579999999999887 8999999999999999987  65   9999999999999887 77     9999999999999


Q ss_pred             EEEecCCCc
Q 034173           86 ISLFNLDDL   94 (102)
Q Consensus        86 l~~~~~~~~   94 (102)
                      |+++.+...
T Consensus        74 l~~~~~~~~   82 (95)
T 1wia_A           74 CHRSPPGAA   82 (95)
T ss_dssp             EECCCCCCC
T ss_pred             EEECCCCCC
Confidence            999877543

>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=99.80  E-value=2.9e-20  Score=123.07  Aligned_cols=78  Identities=17%  Similarity=0.118  Sum_probs=69.3

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCC---------------CceEEEeCCeecC-CCCCCCCC
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPI---------------ENLRLVFRGKVLD-DTQDDDDR   71 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~---------------~~qrLi~~Gk~L~-D~~t~~~~   71 (102)
                      ..|+|+||+++|+.+ +++|++++||.+||++|++  +.++|+               ++|||||+|+.|. |+.+    
T Consensus         6 ~~M~I~Vk~l~g~~~-~v~V~~~~TV~dLK~~I~~--~~~i~~~~q~g~~~isw~~~w~q~~Li~~Gk~L~dD~~t----   78 (105)
T 1v2y_A            6 SGMTVRVCKMDGEVM-PVVVVQNATVLDLKKAIQR--YVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKK----   78 (105)
T ss_dssp             CSEEEEEECSSSCEE-EEEECTTCBHHHHHHHHHH--HHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSB----
T ss_pred             CcEEEEEEecCCCEE-EEEECCCChHHHHHHHHHH--HhCCCcccccCcceeeeeecceeEEEEeCCcCccCCcCC----
Confidence            459999999999999 9999999999999999998  888877               4579999999996 4466    


Q ss_pred             CccccCCCCCCEEEEEEecCCC
Q 034173           72 DDVYLQLSNGGNINISLFNLDD   93 (102)
Q Consensus        72 ~L~~~~I~~g~ti~l~~~~~~~   93 (102)
                       |++|||++|++|||+++-...
T Consensus        79 -L~dygI~~g~~l~lv~~lr~~   99 (105)
T 1v2y_A           79 -LRDYGIRNRDEVSFIKKLGQK   99 (105)
T ss_dssp             -HHHHTCCSSEEEEEEECSCSC
T ss_pred             -HHHcCCCCCCEEEEEehhccC
Confidence             999999999999999876543

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

Probab=99.80  E-value=1.3e-19  Score=115.46  Aligned_cols=79  Identities=22%  Similarity=0.272  Sum_probs=69.4

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCC-----CcHHHHHHHHHhccCCCCCCCceEEEeCCeecCC-CCCCCCCCccccCCCC
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSP-----IKVRDLRKLIATSSANHLPIENLRLVFRGKVLDD-TQDDDDRDDVYLQLSN   80 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~-----~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D-~~t~~~~~L~~~~I~~   80 (102)
                      +.+|+|+||+. ++.+ .++++++     +||.+||++|++  ..++|+++|||+|+|+.|+| +.+     |++|+|++
T Consensus         5 ~~~~~v~Vk~~-~~~~-~i~v~~~~~~~~~TV~~LK~~i~~--~~gip~~~qrL~~~Gk~L~D~~~~-----L~~~~i~~   75 (92)
T 1wxv_A            5 SSGLTVTVTHS-NEKH-DLHVTSQQGSSEPVVQDLAQVVEE--VIGVPQSFQKLIFKGKSLKEMETP-----LSALGIQD   75 (92)
T ss_dssp             CSSEEEEEECS-SSEE-EEEECCCSSSSSCBHHHHHHHHHH--HTCCCTTTCEEEETTEEECCSSSB-----HHHHTCCS
T ss_pred             CCeEEEEEEEC-CEEE-EEEECCCcCcccCcHHHHHHHHHH--HHCcCHHHEEEEECCeecCCCccc-----HHHCCCCC
Confidence            45799999994 6666 8999995     999999999999  99999999999999999987 446     99999999


Q ss_pred             CCEEEEEEecCCCc
Q 034173           81 GGNINISLFNLDDL   94 (102)
Q Consensus        81 g~ti~l~~~~~~~~   94 (102)
                      |++|||+.......
T Consensus        76 g~~i~l~~~~~~~~   89 (92)
T 1wxv_A           76 GCRVMLIGKKNSGP   89 (92)
T ss_dssp             SEEEEEESCCSCSC
T ss_pred             CCEEEEEecCCCCC
Confidence            99999998776543

>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=99.80  E-value=3.6e-19  Score=119.63  Aligned_cols=79  Identities=14%  Similarity=0.192  Sum_probs=67.6

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhcc----CCC--CCCCceEEEeCCeecCCCCCCCCCCccccCCCC
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSS----ANH--LPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSN   80 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~----~~~--ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~   80 (102)
                      .+.|+|+||++.|+.+ +++|++++||.+||++|++..    +.+  +|+++|||||.||+|+|+.+     |++|+|+.
T Consensus        14 ~~~m~I~vKtl~G~t~-~lev~~s~TV~~lK~kI~~~~p~dwke~~p~p~~qqrLIy~GK~LeD~~T-----L~~y~I~~   87 (116)
T 1wgh_A           14 ADMINLRLILVSGKTK-EFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVT-----LGALKLPF   87 (116)
T ss_dssp             SSSEEEEEECSSSCEE-EEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCB-----TTTTTCCS
T ss_pred             CCeEEEEEEeCCCCEE-EEEECCcCHHHHHHHHHHHhcccccccCCCCChHHEEEEECCcCCCCCCc-----HHHcCCCC
Confidence            4579999999999887 999999999999999998721    234  47999999999999998888     99999987


Q ss_pred             CC--EEEEEEecC
Q 034173           81 GG--NINISLFNL   91 (102)
Q Consensus        81 g~--ti~l~~~~~   91 (102)
                      ++  +|||+++.+
T Consensus        88 ~~~~tlhLvlr~~  100 (116)
T 1wgh_A           88 GKTTVMHLVARET  100 (116)
T ss_dssp             SCEEEEEEEECSS
T ss_pred             CCceEEEEEccCC
Confidence            75  678887655

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

Probab=99.80  E-value=2.1e-19  Score=119.50  Aligned_cols=78  Identities=19%  Similarity=0.281  Sum_probs=72.8

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      ...+|+||+++|+.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++|+|+
T Consensus         8 ~~~~i~vk~l~G~~~-~l~v~~~~TV~~LK~~I~~--~~gip~~~qrLi~~Gk~L~D~~t-----L~~ygI~~gstI~l~   79 (114)
T 2kdi_A            8 GEFQIFAKTLTGKTI-TLEVESSDTIDNVKSKIQD--KEGIPPDQQRLIWAGKQLEDGRT-----LSDYNIQRESTLHLV   79 (114)
T ss_dssp             CCCEEEEEETTCCEE-EEECCTTCBHHHHHHHHHH--HHCCCGGGEEEEETTEECCTTCB-----TTTTTCCSSCEEEEE
T ss_pred             CcEEEEEEeCCCcEE-EEEECCCCcHHHHHHHHHH--HHCcChHHEEEEECCEECCCCCc-----HHHCCCCCCCEEEEE
Confidence            468999999999888 8999999999999999999  99999999999999999988888     999999999999999


Q ss_pred             EecCCC
Q 034173           88 LFNLDD   93 (102)
Q Consensus        88 ~~~~~~   93 (102)
                      ++.+..
T Consensus        80 ~~~~GG   85 (114)
T 2kdi_A           80 LRLRGG   85 (114)
T ss_dssp             ECCCSS
T ss_pred             EEcCCC
Confidence            987644

>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=99.79  E-value=2.9e-19  Score=117.34  Aligned_cols=77  Identities=18%  Similarity=0.287  Sum_probs=68.8

Q ss_pred             CcEEEEEEcCCC---CCceEEEecC---------CCcHHHHHHHHHhccCC--CCCCCc-eEEEeCCeecCCCCCCCCCC
Q 034173            8 ESVEITVKTIGP---APPSRLSVSS---------PIKVRDLRKLIATSSAN--HLPIEN-LRLVFRGKVLDDTQDDDDRD   72 (102)
Q Consensus         8 ~~i~I~vK~~~~---~~~~~l~v~~---------~~TV~~LK~~Ia~~~~~--~ip~~~-qrLi~~Gk~L~D~~t~~~~~   72 (102)
                      ..|+|+||+.++   +.+ .+++++         ++||.+||++|++  ..  ++|+++ |||+|+|+.|+|+.+     
T Consensus        11 ~~~~i~Vk~~~~~~~~~~-~l~v~~~~~~~v~~~~~TV~~LK~~i~~--~~~~gip~~~~qrLi~~Gk~L~D~~t-----   82 (107)
T 1x1m_A           11 SDWHLAVKLADQPLAPKS-ILQLPETELGEYSLGGYSISFLKQLIAG--KLQESVPDPELIDLIYCGRKLKDDQT-----   82 (107)
T ss_dssp             CSCCEEEEETTCTTSCCE-EECCCCCSSCSSCCCCCBHHHHHHHHHH--HCTTTCCCSSSEEEEETTEECCTTCB-----
T ss_pred             CceEEEEEeCCCCCccEE-EEEecCccccccCcccCCHHHHHHHHHH--HhccCCChhhcEEEEECCeECCCCCc-----
Confidence            459999999988   666 788554         5999999999998  88  999999 999999999988888     


Q ss_pred             ccccCCCCCCEEEEEEecCC
Q 034173           73 DVYLQLSNGGNINISLFNLD   92 (102)
Q Consensus        73 L~~~~I~~g~ti~l~~~~~~   92 (102)
                      |++|+|++|++|||+++.+.
T Consensus        83 L~~y~i~~g~~i~lv~~~~~  102 (107)
T 1x1m_A           83 LDFYGIQPGSTVHVLRKSWS  102 (107)
T ss_dssp             HHHHTCCTTCEEEEEESSCC
T ss_pred             HHHcCCCCCCEEEEEeCCCC
Confidence            99999999999999987753

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

Probab=99.79  E-value=3.1e-19  Score=124.84  Aligned_cols=79  Identities=20%  Similarity=0.311  Sum_probs=72.5

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      +..|+|+||+.+|+.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++|++
T Consensus        18 ~~~m~i~Vk~~~g~~~-~l~v~~~~tV~~lK~~I~~--~~gip~~~QrL~~~g~~L~d~~t-----L~~~~i~~~~~l~l   89 (172)
T 3u30_A           18 GSHMQIFVKTLTGKTI-TLEVEPSDTIENVKAKIQD--KEGIPPDQQRLIFAGKQLEDGRT-----LSDYNIQKESTLHL   89 (172)
T ss_dssp             -CCEEEEEEETTTEEE-EEEECTTCBHHHHHHHHHH--HHCCCGGGEEEEETTEECCTTCB-----TGGGTCCTTCEEEE
T ss_pred             CCcEEEEEEeCCCCEE-EEEECCCCcHHHHHHHHHH--HHCcChHHEEEEECCccccccCC-----HhHcCCcccceeee
Confidence            3579999999999988 8999999999999999999  99999999999999999988888     99999999999999


Q ss_pred             EEecCCC
Q 034173           87 SLFNLDD   93 (102)
Q Consensus        87 ~~~~~~~   93 (102)
                      +++-++.
T Consensus        90 ~~~~~gg   96 (172)
T 3u30_A           90 VLRLRGG   96 (172)
T ss_dssp             EECCCCC
T ss_pred             eeccccc
Confidence            9865533

>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=99.79  E-value=3.6e-19  Score=122.69  Aligned_cols=73  Identities=22%  Similarity=0.240  Sum_probs=69.5

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEE-e-CCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLV-F-RGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi-~-~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      |+|+||+++|+.+ .++|++++||.+||++|++  ..|+|+++|||+ | +|+.|+|+.+     |++|+|++|++||++
T Consensus         3 m~i~vk~~~g~~~-~l~v~~~~tV~~lK~~I~~--~~gip~~~QrL~~~~~g~~L~d~~t-----L~~y~i~~~~~l~l~   74 (159)
T 3rt3_B            3 WDLTVKMLAGNEF-QVSLSSSMSVSELKAQITQ--KIGVHAFQQRLAVHPSGVALQDRVP-----LASQGLGPGSTVLLV   74 (159)
T ss_dssp             CEEEEEETTSCEE-EEECCTTCCHHHHHHHHHH--HHCCCGGGEEEEEETTCCBCCTTSC-----GGGGTCCTTCEEEEE
T ss_pred             eEEEEEECCCCEE-EEEeCCCCcHHHHHHHHHH--HhCCCHHHEEEEEcCCCCCCCCCCC-----HHHcCCCCCCEEEEE
Confidence            8999999999988 8999999999999999999  999999999999 9 7999988888     999999999999999


Q ss_pred             Eec
Q 034173           88 LFN   90 (102)
Q Consensus        88 ~~~   90 (102)
                      ++.
T Consensus        75 ~~~   77 (159)
T 3rt3_B           75 VDK   77 (159)
T ss_dssp             ECC
T ss_pred             ccC
Confidence            884

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

Probab=99.79  E-value=7.1e-19  Score=119.47  Aligned_cols=79  Identities=14%  Similarity=0.194  Sum_probs=68.2

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhcc----CCCC--CCCceEEEeCCeecCCCCCCCCCCccccCCCC
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSS----ANHL--PIENLRLVFRGKVLDDTQDDDDRDDVYLQLSN   80 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~----~~~i--p~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~   80 (102)
                      ...|+|+||+++|+.+ +++|++++||.+||++|++..    +.++  |+++|||||+||+|+|+.+     |++|+|+.
T Consensus        15 ~~~m~I~vktl~G~~~-~lev~~s~TV~~lK~~I~~~~p~dwke~ip~~~~~qrLIy~GK~LeD~~T-----L~~y~I~~   88 (125)
T 2gow_A           15 ADMINLRLILVSGKTK-EFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVT-----LGALKLPF   88 (125)
T ss_dssp             TTCEEEEEECTTSCEE-EEEECTTSBHHHHHHHHHSSCCCSCCCCTTCCGGGEEEESSSSEEESSCB-----TGGGCCCT
T ss_pred             CCeEEEEEEeCCCCEE-EEEeCCccHHHHHHHHHHHHCCcccccCCCCChHHEEEEECCcCCCCCCc-----HHHcCCCC
Confidence            3569999999999877 999999999999999998621    3466  5999999999999998888     99999998


Q ss_pred             CC--EEEEEEecC
Q 034173           81 GG--NINISLFNL   91 (102)
Q Consensus        81 g~--ti~l~~~~~   91 (102)
                      |+  +|||+++.+
T Consensus        89 ~~~~tlhlv~r~~  101 (125)
T 2gow_A           89 GKTTVMHLVARET  101 (125)
T ss_dssp             TSEEEEEEEECSC
T ss_pred             CCceEEEEEecCC
Confidence            87  678888765

>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=99.79  E-value=1.3e-19  Score=122.20  Aligned_cols=76  Identities=14%  Similarity=0.173  Sum_probs=66.2

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCC-------CCC
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLS-------NGG   82 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~-------~g~   82 (102)
                      |.++|+...++....++|.+++||.+||++|++  +.|+|+++|||+|+||.|+|+.+     |++|||+       +++
T Consensus         1 M~mfl~ir~~ktti~lev~~sdTV~~lK~kI~~--~egIP~~qQrLi~~Gk~LeD~~T-----Lsdy~I~~~~a~~q~~s   73 (118)
T 2fnj_B            1 MDVFLMIRRHKTTIFTDAKESSTVFELKRIVEG--ILKRPPEEQRLYKDDQLLDDGKT-----LGECGFTSQTARPQAPA   73 (118)
T ss_dssp             CEEEEEEEEBTEEEEEEEETTSBHHHHHHHHHH--HHCCCGGGEEEEETTEECCTTSB-----HHHHTCCTTTSBTTBCE
T ss_pred             CcEEEEEecCCEEEEEEeCCcChHHHHHHHHHH--HhCCCHHHeEEEECCeECCCCCC-----HHHcCcccccccCCCCC
Confidence            456666666664338999999999999999999  99999999999999999988888     9999999       799


Q ss_pred             EEEEEEecCCC
Q 034173           83 NINISLFNLDD   93 (102)
Q Consensus        83 ti~l~~~~~~~   93 (102)
                      ||||+++ .++
T Consensus        74 tL~L~lr-~~g   83 (118)
T 2fnj_B           74 TVGLAFR-ADD   83 (118)
T ss_dssp             EEEEEEB-SSS
T ss_pred             EEEEEec-CCC
Confidence            9999999 443

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

Probab=99.78  E-value=5.1e-19  Score=113.19  Aligned_cols=72  Identities=14%  Similarity=0.164  Sum_probs=63.8

Q ss_pred             cEEEEEEcCCCCCce-EE-EecCCCcHHHHHHHHHhccCCCCCCCceEEEeC--CeecCCCCCCCCCCccccCCCCCCEE
Q 034173            9 SVEITVKTIGPAPPS-RL-SVSSPIKVRDLRKLIATSSANHLPIENLRLVFR--GKVLDDTQDDDDRDDVYLQLSNGGNI   84 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~-~l-~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~--Gk~L~D~~t~~~~~L~~~~I~~g~ti   84 (102)
                      .|+|+||++.|+.+. .+ +|++++||.+||++|++ .+.++||++|||+|.  |++|+|+.+     |++|+|++|++|
T Consensus        10 ~M~I~Vk~~~g~~~~~~l~~v~~~~TV~~lK~~I~~-~~~~i~~~~QrL~~~~~Gk~L~D~~t-----L~~y~i~~~stl   83 (88)
T 2dzj_A           10 HYEVEILDAKTREKLCFLDKVEPHATIAEIKNLFTK-THPQWYPARQSLRLDPKGKSLKDEDV-----LQKLPVGTTATL   83 (88)
T ss_dssp             CEEEEEEESSSCCCCEEEEEECSSCBHHHHHHHHHH-HCSSSCTTTCCEESSTTSCCCCTTCB-----TTTSSCCSEEEE
T ss_pred             EEEEEEECCCCCEEeeEEeEcCCCCcHHHHHHHHHH-HhcCCChHHeEEEecCCCcCcCCCCC-----HHHcCCCCCCEE
Confidence            499999999987762 47 99999999999999987 237899999999976  999988888     999999999998


Q ss_pred             EE
Q 034173           85 NI   86 (102)
Q Consensus        85 ~l   86 (102)
                      |+
T Consensus        84 ~~   85 (88)
T 2dzj_A           84 YF   85 (88)
T ss_dssp             EE
T ss_pred             EE
Confidence            86

>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=99.78  E-value=1.8e-19  Score=115.04  Aligned_cols=75  Identities=23%  Similarity=0.227  Sum_probs=67.9

Q ss_pred             CCcEEEEEEcCCCCCceEE-EecCCCcHHHHHHHHHhccCCCCCCCceEEE---eCCeecCCCCCCCCCCccccCCCCCC
Q 034173            7 SESVEITVKTIGPAPPSRL-SVSSPIKVRDLRKLIATSSANHLPIENLRLV---FRGKVLDDTQDDDDRDDVYLQLSNGG   82 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l-~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi---~~Gk~L~D~~t~~~~~L~~~~I~~g~   82 (102)
                      +++|+|+||. +++.+ .+ +|++++||.+||++|++  ..++|+++|||+   |+|+.|+|+.+     |++|+|++|+
T Consensus         5 ~~~m~i~Vk~-~g~~~-~i~~v~~~~TV~~lK~~I~~--~~gip~~~QkLi~~k~~Gk~L~D~~~-----L~~~~i~~g~   75 (90)
T 1v5t_A            5 SSGLPIIVKW-GGQEY-SVTTLSEDDTVLDLKQFLKT--LTGVLPERQKLLGLKVKGKPAENDVK-----LGALKLKPNT   75 (90)
T ss_dssp             CCSCCEEEEE-TTEEE-EECSCCSSSBHHHHHHHHHH--HTCCCTTTCEEESCEETTEECCTTSB-----HHHHTCCTTE
T ss_pred             CceEEEEEEE-CCEEE-EEEEeCCCCCHHHHHHHHHH--HHCcCHHHeEEEeeccCCcCcCCCCC-----HHHcCCCCCC
Confidence            3569999997 66666 88 99999999999999999  999999999999   99999988878     9999999999


Q ss_pred             EEEEEEec
Q 034173           83 NINISLFN   90 (102)
Q Consensus        83 ti~l~~~~   90 (102)
                      +|+|+...
T Consensus        76 ~l~l~~~~   83 (90)
T 1v5t_A           76 KIMMMGTR   83 (90)
T ss_dssp             EEEEECCC
T ss_pred             EEEEEecC
Confidence            99987654

>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=99.78  E-value=2.5e-19  Score=115.96  Aligned_cols=76  Identities=14%  Similarity=0.131  Sum_probs=67.0

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      +++|+|+||. .++.+..++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+ +     |++|+|++|++|+|
T Consensus         5 ~~~m~i~Vk~-~g~~~~~l~v~~~~TV~~lK~~I~~--~tgip~~~QkLi~~Gk~L~D~-t-----L~~~~I~~g~~i~l   75 (96)
T 1wgg_A            5 SSGYSVTVKW-GKEKFEGVELNTDEPPMVFKAQLFA--LTGVQPARQKVMVKGGTLKDD-D-----WGNIKMKNGMTVLM   75 (96)
T ss_dssp             CCEEEEEEEE-TTEEEEEEEEESSSCHHHHHHHHHH--HTCCCTTTSCCEETTEECCSS-C-----CCSCCCCSSCEEEC
T ss_pred             CcEEEEEEEE-CCEEEEEEEECCCCcHHHHHHHHHH--HHCcCHHHeEEEECCcCCCCC-C-----HHHCCCCCCCEEEE
Confidence            4679999996 5555513899999999999999999  999999999999999999887 7     99999999999998


Q ss_pred             EEecC
Q 034173           87 SLFNL   91 (102)
Q Consensus        87 ~~~~~   91 (102)
                      +....
T Consensus        76 ~~~~~   80 (96)
T 1wgg_A           76 MGSAD   80 (96)
T ss_dssp             CCCCC
T ss_pred             Eecch
Confidence            77553

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

Probab=99.78  E-value=5.9e-19  Score=116.88  Aligned_cols=75  Identities=15%  Similarity=0.176  Sum_probs=68.0

Q ss_pred             cEEEEEEcCCC--CCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCC-CCCCEEE
Q 034173            9 SVEITVKTIGP--APPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQL-SNGGNIN   85 (102)
Q Consensus         9 ~i~I~vK~~~~--~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I-~~g~ti~   85 (102)
                      +|+|+|++..+  ..+ +++|.+++||.+||++|++  +.|+||++|||+|+|+.++|+.+     |++||| ++|+++|
T Consensus        24 ~l~v~v~d~~s~~~~i-~l~V~ps~TV~~LK~~I~~--k~Gipp~~QRli~ggkll~D~~T-----L~~ygI~~~G~t~h   95 (105)
T 4dbg_A           24 RLWVSVEDAQMHTVTI-WLTVRPDMTVASLKDMVFL--DYGFPPVLQQWVIGQRLARDQET-----LHSHGVRQNGDSAY   95 (105)
T ss_dssp             EEEEEEEESSSCCEEE-EEEECTTCBHHHHHHHHHH--HHCCCGGGEEEEETTEEECTTCB-----TGGGTCCSTTCEEE
T ss_pred             EEEEEEEccCCCCceE-EEEECCcChHHHHHHHHHH--HhCCCHHHEEEeccCeEccCcCc-----HHHcCCCCCCCEEE
Confidence            59999999875  344 8899999999999999999  99999999999999999988878     999999 5999999


Q ss_pred             EEEecC
Q 034173           86 ISLFNL   91 (102)
Q Consensus        86 l~~~~~   91 (102)
                      |.+..+
T Consensus        96 L~l~~~  101 (105)
T 4dbg_A           96 LYLLSA  101 (105)
T ss_dssp             EEECCC
T ss_pred             EEEEec
Confidence            999775

>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=99.78  E-value=3.2e-19  Score=120.31  Aligned_cols=74  Identities=11%  Similarity=0.140  Sum_probs=68.0

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCC-------CC
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSN-------GG   82 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~-------g~   82 (102)
                      |.+|++...++....+++.++.||.+||++|++  +.|+||++|||||+|+.|+|++|     |++|||++       ++
T Consensus         1 m~vFl~Ikr~ktTI~ldve~sdTV~~lK~kI~~--~~giPp~qQrLI~~Gk~LeD~kT-----L~dy~I~~~ta~~q~~a   73 (118)
T 4ajy_B            1 MDVFLMIRRHKTTIFTDAKESSTVFELKRIVEG--ILKRPPDEQRLYKDDQLLDDGKT-----LGECGFTSQTARPQAPA   73 (118)
T ss_dssp             CEEEEEEEEBTEEEEEEEETTSBHHHHHHHHHH--HHCCCGGGEEEEETTEECCTTSB-----TTTTTCCGGGSBTTBCE
T ss_pred             CceEEEEecCCEEEEEEcCCCChHHHHHHHHHH--HHCCCHHHeEEEeCCeECCCcCC-----HHHcCCCcCcccCCCCC
Confidence            568888877775447899999999999999999  99999999999999999988888     99999999       99


Q ss_pred             EEEEEEec
Q 034173           83 NINISLFN   90 (102)
Q Consensus        83 ti~l~~~~   90 (102)
                      ||||+++.
T Consensus        74 tl~Lvlr~   81 (118)
T 4ajy_B           74 TVGLAFRA   81 (118)
T ss_dssp             EEEEEECC
T ss_pred             EEEEEEec
Confidence            99999996

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

Probab=99.77  E-value=5.8e-19  Score=127.14  Aligned_cols=77  Identities=21%  Similarity=0.298  Sum_probs=72.3

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      .|+|+||+++|+.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++|||++
T Consensus       105 eMqI~VKtl~Gkt~-~l~V~~s~TV~~LK~kI~~--~~gIp~~~QrLi~~Gk~L~D~~t-----L~dygI~~gstI~Lvl  176 (189)
T 3q3f_A          105 GGQIFVKTLTGKTI-TLEVEPSDTIENVKAKIQD--KEGIPPDQQRLIFAGKQLEDGRT-----LSDYNIQKESTLHLVL  176 (189)
T ss_dssp             CEEEEEECTTSCEE-EEEECTTCBHHHHHHHHHH--HHCCCGGGCCEEETTEECCTTCB-----GGGGTCCTTCEEEECC
T ss_pred             ceeeeeecCCCCEE-EEEeCCCCcHHHHHHHHHh--ccCCCHHHEEEEECCEECCCCCC-----HHHCCCCCCCEEEEEE
Confidence            59999999999988 8999999999999999999  89999999999999999988888     9999999999999999


Q ss_pred             ecCCC
Q 034173           89 FNLDD   93 (102)
Q Consensus        89 ~~~~~   93 (102)
                      +-...
T Consensus       177 rlrGG  181 (189)
T 3q3f_A          177 RLRGG  181 (189)
T ss_dssp             CCCCC
T ss_pred             EcCCC
Confidence            86643

>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=99.77  E-value=2.2e-20  Score=126.14  Aligned_cols=75  Identities=23%  Similarity=0.333  Sum_probs=0.0

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+|+||+.+|+.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++|+|+++
T Consensus         1 M~I~Vk~~~G~~~-~l~v~~~~TV~~LK~~I~~--~~gip~~~QrLi~~Gk~L~D~~t-----L~~~~I~~gsti~l~~r   72 (128)
T 3u5e_m            1 MQIFVKTLTGKTI-TLEVESSDTIDNVKSKIQD--KEGIPPDQQRLIFAGKQLEDGRT-----LSDYNIQKESTLHLVLR   72 (128)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CEEEEEeCCCCEE-EEEeCCCCCHHHHHHHHHH--HhCcChHHEEEEECCEECCCCCc-----hhhhccCCCCEEEEEEE
Confidence            7899999999988 8999999999999999998  99999999999999999988888     99999999999999998


Q ss_pred             cCC
Q 034173           90 NLD   92 (102)
Q Consensus        90 ~~~   92 (102)
                      .++
T Consensus        73 l~G   75 (128)
T 3u5e_m           73 LRG   75 (128)
T ss_dssp             ---
T ss_pred             cCC
Confidence            764

>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=99.77  E-value=2.1e-18  Score=116.88  Aligned_cols=75  Identities=21%  Similarity=0.325  Sum_probs=70.1

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+|+||+.+|+.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++||++.+
T Consensus         1 M~i~vk~~~g~~~-~~~v~~~~tv~~lK~~i~~--~~gip~~~q~L~~~g~~L~d~~t-----L~~~~i~~~~~l~l~~~   72 (152)
T 3b08_A            1 MQIFVKTLTGKTI-TLEVEPSDTIENVKAKIQD--KEGIPPDQQRLIFAGKQLEDGRT-----LSDYNIQKESTLHLVLR   72 (152)
T ss_dssp             CEEEEEETTSCEE-EEECCTTCBHHHHHHHHHH--HHCCCGGGEEEEETTEECCTTSB-----TGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEeCCCCEE-EEEECCCCCHHHHHHHHHH--HHCcChHHeEEEECCeECcCccc-----HHHhccCCCCeeEEEee
Confidence            7899999999887 8999999999999999999  99999999999999999988877     99999999999999887


Q ss_pred             cCC
Q 034173           90 NLD   92 (102)
Q Consensus        90 ~~~   92 (102)
                      .++
T Consensus        73 ~~~   75 (152)
T 3b08_A           73 LRG   75 (152)
T ss_dssp             CTT
T ss_pred             ccc
Confidence            654

>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=99.77  E-value=1.3e-18  Score=115.42  Aligned_cols=78  Identities=18%  Similarity=0.291  Sum_probs=70.3

Q ss_pred             CCcEEEEEEcCC----------CCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCcccc
Q 034173            7 SESVEITVKTIG----------PAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYL   76 (102)
Q Consensus         7 ~~~i~I~vK~~~----------~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~   76 (102)
                      +..|+|.|+.++          |+.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|
T Consensus        23 ~~~i~l~V~~p~~~~~~~~~L~G~~~-~l~v~~~~TV~~LK~~I~~--~~gip~~~QrL~~~Gk~L~D~~t-----L~~y   94 (115)
T 1we7_A           23 KGPVSIKVQVPNMQDKTEWKLNGQGL-VFTLPLTDQVSVIKVKIHE--ATGMPAGKQKLQYEGIFIKDSNS-----LAYY   94 (115)
T ss_dssp             CSCEEEEEEECCCSSSCSSCCSSEEE-EEEECSCSBTHHHHHHHHH--HSSCCTTTEEEEETTEEECTTSB-----HHHH
T ss_pred             CCCEEEEEEcCCCccccccccCCeEE-EEEECCCCCHHHHHHHHHH--HHCCChHHEEEEECCEECCCCCC-----HHHC
Confidence            457999999875          4455 8999999999999999999  99999999999999999988888     9999


Q ss_pred             CCCCCCEEEEEEecCC
Q 034173           77 QLSNGGNINISLFNLD   92 (102)
Q Consensus        77 ~I~~g~ti~l~~~~~~   92 (102)
                      +|++|++|||+++-+.
T Consensus        95 ~i~~g~~i~lv~rl~G  110 (115)
T 1we7_A           95 NMASGAVIHLALKERS  110 (115)
T ss_dssp             TCCSSCEEEEEECCCS
T ss_pred             CCCCCCEEEEEEEcCC
Confidence            9999999999998764

>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=99.76  E-value=2.5e-18  Score=116.47  Aligned_cols=77  Identities=21%  Similarity=0.315  Sum_probs=71.9

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      ..|+|+||+.+|+.+ .+++++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++||++
T Consensus        75 ~~~~i~Vk~~~g~~~-~~~v~~~~tv~~lK~~i~~--~~gi~~~~qrL~~~g~~L~d~~t-----L~~~~i~~~~~i~l~  146 (152)
T 3b08_A           75 GGMQIFVKTLTGKTI-TLEVEPSDTIENVKAKIQD--KEGIPPDQQRLIFAGKQLEDGRT-----LSDYNIQKESTLHLV  146 (152)
T ss_dssp             TCEEEEEEESSSCEE-EEEECTTCBHHHHHHHHHH--HHCCCGGGEEEEETTEECCTTSB-----TGGGTCCTTCEEEEE
T ss_pred             cccceeeeecCCCEE-EEEeCCCCcHHHHHHHHHH--HhCcChhhEEEEECCEECCCCCC-----HHHcCCCCCCEEEEE
Confidence            458999999999888 8999999999999999999  99999999999999999988888     999999999999999


Q ss_pred             EecCC
Q 034173           88 LFNLD   92 (102)
Q Consensus        88 ~~~~~   92 (102)
                      ++.+.
T Consensus       147 ~r~~G  151 (152)
T 3b08_A          147 LRLRG  151 (152)
T ss_dssp             ECCCC
T ss_pred             EecCC
Confidence            98764

>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=99.76  E-value=4.6e-19  Score=114.35  Aligned_cols=76  Identities=14%  Similarity=0.235  Sum_probs=66.9

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      .+|+|+||. +++.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+ +.+     |++|+|++|++|||+
T Consensus        16 ~~~~i~Vk~-~g~~~-~i~v~~~~TV~~LK~~I~~--~tgip~~~QrL~~~Gk~Ld-d~t-----L~~~~i~~g~~i~lv   85 (95)
T 1v86_A           16 ELVDLKIIW-NKTKH-DVKVPLDSTGSELKQKIHS--ITGLPPAMQKVMYKGLVPE-DKT-----LREIKVTSGAKIMVV   85 (95)
T ss_dssp             CCEEEEEEE-TTEEE-EEEECTTSBHHHHHHHHHH--HHCSCSTTCCCBSSSBCCS-SSB-----HHHHCCCTTEEEEEC
T ss_pred             ceEEEEEEE-CCEEE-EEEECCCCcHHHHHHHHHH--HHCcCHHHeEEEECCeeCC-cCc-----HHHCCCCCCCEEEEE
Confidence            569999995 56666 8999999999999999999  9999999999999999994 447     999999999999998


Q ss_pred             EecCCC
Q 034173           88 LFNLDD   93 (102)
Q Consensus        88 ~~~~~~   93 (102)
                      ....++
T Consensus        86 ~~~~~~   91 (95)
T 1v86_A           86 GSTISG   91 (95)
T ss_dssp             CSSCCC
T ss_pred             eccccC
Confidence            766543

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

Probab=99.75  E-value=1.9e-18  Score=109.28  Aligned_cols=72  Identities=22%  Similarity=0.350  Sum_probs=64.7

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      ++.+ +++.+|+.+ .+++++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++|+|+.
T Consensus        12 ~~~~-~~~~~g~~~-~l~v~~~~TV~~LK~~I~~--~~gip~~~qrL~~~Gk~L~D~~t-----L~~~gi~~g~~l~l~~   82 (85)
T 2kd0_A           12 TIKL-TVKFGGKSI-PLSVSPDCTVKDLKSQLQP--ITNVLPRGQKLIFKGKVLVETST-----LKQSDVGSGAKLMLMA   82 (85)
T ss_dssp             CEEE-EEEETTEEE-EEEECTTSBHHHHHHHHHH--HHCCCTTTCEEEETTEECCTTCB-----TTTTTCCTTEEEEEEC
T ss_pred             cEEE-EEEECCEEE-EEEECCCCcHHHHHHHHHH--HHCcChHHEEEEECCeECCCcCC-----HHHCCCCCCCEEEEEE
Confidence            4554 667788887 8999999999999999999  99999999999999999988888     9999999999999876


Q ss_pred             e
Q 034173           89 F   89 (102)
Q Consensus        89 ~   89 (102)
                      .
T Consensus        83 s   83 (85)
T 2kd0_A           83 S   83 (85)
T ss_dssp             C
T ss_pred             e
Confidence            4

>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=99.74  E-value=9.7e-20  Score=127.17  Aligned_cols=75  Identities=23%  Similarity=0.333  Sum_probs=0.0

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+|+||+++|+.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++|+|+++
T Consensus         1 MqI~VK~l~G~~~-~l~V~~~~TV~~LK~~I~~--~~gip~~~QrLi~~Gk~L~D~~t-----L~dygI~~gstL~Lvlr   72 (152)
T 3u5c_f            1 MQIFVKTLTGKTI-TLEVESSDTIDNVKSKIQD--KEGIPPDQQRLIFAGKQLEDGRT-----LSDYNIQKESTLHLVLR   72 (152)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CEEEEEeCCCCEE-EEEECCCCCHHHHHHHHHH--HhCCCHHHEEEEECCEEccccCc-----HHHcCCCCCCEEEEEee
Confidence            7899999999988 8999999999999999998  99999999999999999988888     99999999999999997


Q ss_pred             cCC
Q 034173           90 NLD   92 (102)
Q Consensus        90 ~~~   92 (102)
                      -+.
T Consensus        73 l~G   75 (152)
T 3u5c_f           73 LRG   75 (152)
T ss_dssp             ---
T ss_pred             ccC
Confidence            653

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

Probab=99.74  E-value=3.9e-18  Score=119.25  Aligned_cols=77  Identities=21%  Similarity=0.314  Sum_probs=70.0

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      ...|.|+||+.+|+.+ .++|++++||.+||++|++  +.|+|+++|||+|+|+.|+|+.+     |.+|+|++|++|||
T Consensus        94 ~gg~~i~Vk~~~g~~~-~l~v~~~~tV~~lK~~I~~--~~gip~~~q~L~~~g~~L~D~~t-----L~~y~i~~g~tl~l  165 (172)
T 3u30_A           94 RGGMQIFVKTLTGKTI-TLEVEPSDTIENVKAKIQD--KEGIPPDQQRLIFAGKQLEDGRT-----LSDYNIQKESTLHL  165 (172)
T ss_dssp             CCCEEEEEEESSCCEE-EEEECTTCBHHHHHHHHHH--HHCCCGGGCCEEETTEECCTTSB-----SGGGTCCTTCEEEE
T ss_pred             cccccceeecccCcce-eEEecCCCCHHHHHHHHHH--HhCCCceeEEEEECCccCCCCCc-----HHHhCCCCCCEEEE
Confidence            3568999999999988 8999999999999999999  99999999999999999988888     99999999999999


Q ss_pred             EEecC
Q 034173           87 SLFNL   91 (102)
Q Consensus        87 ~~~~~   91 (102)
                      +++-+
T Consensus       166 ~~rlr  170 (172)
T 3u30_A          166 VLRLR  170 (172)
T ss_dssp             CC---
T ss_pred             EEecC
Confidence            88754

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

Probab=99.73  E-value=3.3e-18  Score=112.17  Aligned_cols=81  Identities=12%  Similarity=0.140  Sum_probs=71.0

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEe--CCeecCCCCCCCCCCccccCCCCCCEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVF--RGKVLDDTQDDDDRDDVYLQLSNGGNI   84 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~--~Gk~L~D~~t~~~~~L~~~~I~~g~ti   84 (102)
                      +..|.++++..+|+.+ +++|++++||.+||++|++  ++|+||++|||++  .|+ |+|+.+     |++|+|+.|++|
T Consensus         6 ~~~m~~~~vk~~Gk~~-~v~v~~~~TV~~LK~~I~~--~tgIpp~~QkLi~~~~gk-L~D~~t-----Ls~~~I~~gstL   76 (100)
T 2dzm_A            6 SGRMLDFRVEYRDRNV-DVVLEDTCTVGEIKQILEN--ELQIPVSKMLLKGWKTGD-VEDSTV-----LKSLHLPKNNSL   76 (100)
T ss_dssp             CCCEEEEEEECSSCEE-EEEEETTSBHHHHHHHHHH--HHCCCTTTCCEECCSSSC-CCTTSB-----HHHHCCCSEEEE
T ss_pred             CcceEEEEEEeCCeEE-EEEECCCCcHHHHHHHHHH--HHCCChhHeEEEccCCCC-CCCcCC-----HHHcCCCCCCEE
Confidence            3457888888899888 8999999999999999999  9999999999996  565 877777     999999999999


Q ss_pred             EEEEecCCCcee
Q 034173           85 NISLFNLDDLSF   96 (102)
Q Consensus        85 ~l~~~~~~~~~~   96 (102)
                      |+++...+..+|
T Consensus        77 ~lvl~~~~~~~~   88 (100)
T 2dzm_A           77 YVLTPDLPPPSS   88 (100)
T ss_dssp             EECCSSSCCCCS
T ss_pred             EEEecCCCCCcc
Confidence            999988765555

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

Probab=99.73  E-value=1.4e-17  Score=106.21  Aligned_cols=75  Identities=12%  Similarity=0.123  Sum_probs=63.1

Q ss_pred             EEEEEE-cCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEe-------CCeecCCCCCCCCCCccccCCCCC
Q 034173           10 VEITVK-TIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVF-------RGKVLDDTQDDDDRDDVYLQLSNG   81 (102)
Q Consensus        10 i~I~vK-~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~-------~Gk~L~D~~t~~~~~L~~~~I~~g   81 (102)
                      ++|.|. +..+....+..+++.+||.+||++|+.  ..|+||++|||+|       .|+.|+|+.+     |++|||++|
T Consensus         3 V~v~iths~~~~~~~E~r~~~s~TI~~lK~ki~~--~~Gip~~~QrLi~~~~~~~~~g~~l~d~~t-----L~~Y~i~~g   75 (86)
T 4b6w_A            3 VKVSLTHSASRMRVPEKRYGLAQTIESIKENVFT--HFATPPEYMQLQLIDDRGITIEKNMANDKQ-----LGYYQCRDE   75 (86)
T ss_dssp             EEEEEEETTCSCCEEEEEEETTSBHHHHHHHHHT--TSCCCGGGEEEEEECTTSCEEESSCCTTSB-----GGGGTCCTT
T ss_pred             EEEEEEEcCCCCeEEEEEcCccCcHHHHHHHHHH--HHCCCHHHEEEEEecCCCCceeeEcCCCCC-----HHHCCCCCC
Confidence            455554 223334348899999999999999999  9999999999997       4888988888     999999999


Q ss_pred             CEEEEEEecC
Q 034173           82 GNINISLFNL   91 (102)
Q Consensus        82 ~ti~l~~~~~   91 (102)
                      ++|||+-.+|
T Consensus        76 ~~ihlvd~~P   85 (86)
T 4b6w_A           76 FVIHVVDLQP   85 (86)
T ss_dssp             CEEEEEECCC
T ss_pred             CEEEEEeCCC
Confidence            9999988776

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

Probab=99.71  E-value=2.3e-17  Score=126.30  Aligned_cols=76  Identities=22%  Similarity=0.343  Sum_probs=70.2

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      +..|+|+||+++|+.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|+|++|++|||
T Consensus       231 ~~~MqI~VKtl~Gk~~-~leV~~s~TV~dLK~kI~~--~~GIp~~~QRLi~~Gk~L~D~~T-----LsdygI~~gstL~L  302 (307)
T 3ai5_A          231 TGSMQIFVKTLTGKTI-TLEVEPSDTIENVKAKIQD--KEGIPPDQQRLIFAGKQLEDGRT-----LSDYNIQKESTLHL  302 (307)
T ss_dssp             CCCEEEEEECTTSCEE-EEEECTTCBHHHHHHHHHH--HHCCCGGGCEEEETTEECCTTSB-----TGGGTCCTTCEEEE
T ss_pred             CCeEEEEEEeCCCCEE-EEEECCCCcHHHHHHHHHH--HHCcChHHEEEEeCCeecCCCCC-----HHHcCCCCCCEEEE
Confidence            4679999999999887 8999999999999999999  99999999999999999988888     99999999999999


Q ss_pred             EEec
Q 034173           87 SLFN   90 (102)
Q Consensus        87 ~~~~   90 (102)
                      +++-
T Consensus       303 vlRL  306 (307)
T 3ai5_A          303 VLRL  306 (307)
T ss_dssp             EC--
T ss_pred             EEeC
Confidence            8864

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

Probab=99.71  E-value=2.8e-17  Score=106.60  Aligned_cols=73  Identities=10%  Similarity=0.160  Sum_probs=63.5

Q ss_pred             CCcEEEEEEcCCCC--CceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeC--Ce---ec-CCCCCCCCCCccccCC
Q 034173            7 SESVEITVKTIGPA--PPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFR--GK---VL-DDTQDDDDRDDVYLQL   78 (102)
Q Consensus         7 ~~~i~I~vK~~~~~--~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~--Gk---~L-~D~~t~~~~~L~~~~I   78 (102)
                      +..|+|+|++.+++  .+ ++++++++||.+||++|++  ..|+||++|||+|.  |+   .| +|+.+     |++|+|
T Consensus        13 ~~~v~l~It~s~~~~~~~-~~~v~~~~TV~~LK~kI~~--~~GiP~~~QrL~~~~~g~~~~~L~~D~~t-----L~~Y~i   84 (95)
T 2kjr_A           13 SDFIKVNVSNSHNDAVAF-EVKLAKDLTVAQLKTKLEI--LTGGCAGTMKVQVFKGDTCVSTMDNNDAQ-----LGYYAN   84 (95)
T ss_dssp             CCEEEEEEEESSCSCEEE-EEEEETTCBHHHHHHHHHH--HHCSCTTTEEEEEEETTEEEEECCCTTSB-----HHHHCC
T ss_pred             CCeEEEEEEECCCCceEE-EEEeCccCHHHHHHHHHHH--HHCcCHHHeEEEEecCCcccceeCCCCCC-----HhHCCc
Confidence            46799999987765  44 8999999999999999999  99999999999998  45   34 66667     999999


Q ss_pred             CCCCEEEEE
Q 034173           79 SNGGNINIS   87 (102)
Q Consensus        79 ~~g~ti~l~   87 (102)
                      ++|++|||+
T Consensus        85 ~~gstihlv   93 (95)
T 2kjr_A           85 SDGLRLHVV   93 (95)
T ss_dssp             SSSCEEEEE
T ss_pred             CCCCEEEEE
Confidence            999999974

>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=99.69  E-value=1e-16  Score=103.10  Aligned_cols=77  Identities=12%  Similarity=0.078  Sum_probs=64.8

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCC---ee----cCCCCCCCCCCccccCCCCC
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRG---KV----LDDTQDDDDRDDVYLQLSNG   81 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~G---k~----L~D~~t~~~~~L~~~~I~~g   81 (102)
                      .|+|+|+..+.....++++++++||.+||++|++  ..|+|+++|||+|.|   +.    ++|+.+     |.+|||++|
T Consensus         7 ~v~l~I~~~~~~~~~~~~v~~~~TV~~lK~ki~~--~~gip~~~qrL~~~~~~g~~~~~l~~D~~t-----L~~y~i~~g   79 (95)
T 1v6e_A            7 GVMVFISSSLNSFRSEKRYSRSLTIAEFKCKLEL--VVGSPASCMELELYGADDKFYSKLDQEDAL-----LGSYPVDDG   79 (95)
T ss_dssp             CEEEEEEETTSSSCEEEEECTTSBHHHHHHHHHH--HTCSCTTTCBCEEECSSSCEEEECCCSSSB-----TTSSSCCTT
T ss_pred             EEEEEEEECCCCeeEEEEcCccCHHHHHHHHHHH--HHCCCHHHeEEEEeCCCCccccccCCCcCC-----HhHCCCCCC
Confidence            3899999866542238999999999999999999  999999999999987   43    466666     999999999


Q ss_pred             CEEEEEEecCC
Q 034173           82 GNINISLFNLD   92 (102)
Q Consensus        82 ~ti~l~~~~~~   92 (102)
                      ++|||.-..|.
T Consensus        80 ~~l~v~d~~P~   90 (95)
T 1v6e_A           80 CRIHVIDHSGS   90 (95)
T ss_dssp             CEEEEBCCSCC
T ss_pred             CEEEEEECCcc
Confidence            99998765553

>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=99.68  E-value=9.2e-17  Score=103.95  Aligned_cols=88  Identities=13%  Similarity=0.248  Sum_probs=76.2

Q ss_pred             CCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173            6 ISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         6 ~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      .++.|+|+||+.+|+.+ .+.|.++.++..|++.+++  +.++|+++|||+|.|+.|.++.|     +++|++++|++|+
T Consensus         4 ~~~~i~ikVk~~~g~~i-~~~v~~~t~l~kl~~~y~~--~~gi~~~~~rf~FdG~~l~~~~T-----p~dl~medgD~Id   75 (94)
T 2io1_B            4 MNDHINLKVAGQDGSVV-QFKIKRHTPLSKLMKAYCE--RQGLSMRQIRFRFDGQPINETDT-----PAQLEMEDEDTID   75 (94)
T ss_dssp             --CEEEEEEECTTSCEE-EEEEETTSCTHHHHHHHHH--HHTCCGGGEEEEETTEECCTTCC-----TTTTTCCTTCEEE
T ss_pred             CCCeEEEEEECCCCCEE-EEEECCCCHHHHHHHHHHH--HhCCCcccEEEEECCEEcCCCCC-----HHHcCCCCCCEEE
Confidence            35679999999999887 8999999999999999999  99999999999999999998888     9999999999999


Q ss_pred             EEEecCCCceeeEecC
Q 034173           86 ISLFNLDDLSFQFEFG  101 (102)
Q Consensus        86 l~~~~~~~~~~~~~~~  101 (102)
                      ++++...+....|=+|
T Consensus        76 v~~~~~GG~~~~~~~~   91 (94)
T 2io1_B           76 VFQQQTGGVPESSLAG   91 (94)
T ss_dssp             EEECCEESCCC-----
T ss_pred             EEEeccCCCccceeee
Confidence            9998877766666655

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

Probab=99.68  E-value=8.7e-17  Score=104.71  Aligned_cols=76  Identities=12%  Similarity=0.180  Sum_probs=64.1

Q ss_pred             CCcEEEEEEcCCCC--CceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCe---e----cCCCCCCCCCCccccC
Q 034173            7 SESVEITVKTIGPA--PPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGK---V----LDDTQDDDDRDDVYLQ   77 (102)
Q Consensus         7 ~~~i~I~vK~~~~~--~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk---~----L~D~~t~~~~~L~~~~   77 (102)
                      +..++|.|++...+  .+ ++++++++||.+||++|++  ..|+||++|||+|.|+   .    ++|+.+     |++|+
T Consensus        12 ~~~v~l~It~s~~~~~~~-e~~v~~~~TV~~LK~kIe~--~~Gip~~~QrLi~~g~~g~~~~~L~~D~~t-----L~~Y~   83 (97)
T 2kj6_A           12 DDSVHLHITHANLKSFSA-DARFSPQMSVEAVKEKLWK--KCGTSVNSMALELYDDSGSKVAVLSDDSRP-----LGFFS   83 (97)
T ss_dssp             CCCEEEEEEETTSSCCCE-EEEECTTCCHHHHHHHHHH--HHCCCTTSEEEEEECSSSCBCCCSSGGGSC-----HHHHC
T ss_pred             CceEEEEEEECCCCceEE-EEEeCCCChHHHHHHHHHH--HHCcCHHHeEEEEecCCCcccceecCCcCC-----HHHCC
Confidence            45689999976554  44 8999999999999999999  9999999999999884   3    355556     99999


Q ss_pred             CCCCCEEEEEEec
Q 034173           78 LSNGGNINISLFN   90 (102)
Q Consensus        78 I~~g~ti~l~~~~   90 (102)
                      |++|++|||+=.+
T Consensus        84 I~~g~~Ihlvd~~   96 (97)
T 2kj6_A           84 PFDGFRLHIIDLD   96 (97)
T ss_dssp             CCSCCEEEEEECC
T ss_pred             CCCCCEEEEEeCC
Confidence            9999999986543

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

Probab=99.67  E-value=9.2e-17  Score=105.55  Aligned_cols=75  Identities=23%  Similarity=0.284  Sum_probs=65.2

Q ss_pred             CcEEEEEEcCCCCCceEEEec-CCCcHHHHHHHHHhccCCCCCCCceEEEeCCe-----------e----cCCCCCCCCC
Q 034173            8 ESVEITVKTIGPAPPSRLSVS-SPIKVRDLRKLIATSSANHLPIENLRLVFRGK-----------V----LDDTQDDDDR   71 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~-~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk-----------~----L~D~~t~~~~   71 (102)
                      +.|.|+||+++|..  .++|+ +++||.+||++|++  +.++|+++|||+|.|+           .    ++|+.+    
T Consensus         6 ~~M~irvrs~~G~~--~v~v~~~~~Tv~~LK~kI~~--~~gip~~~QrL~~~~~~~~~k~~~~~~~l~~~l~d~~t----   77 (107)
T 1wf9_A            6 SGTMLRVRSRDGLE--RVSVDGPHITVSQLKTLIQD--QLQIPIHNQTLSTNRNLLLAKSPSDFLAFTDMADPNLR----   77 (107)
T ss_dssp             CCEEEEEECSSCEE--EEEECCTTSBHHHHHHHHHH--HSCCCTTTCCCBSSGGGGTCCSHHHHTTCCSSCCTTCB----
T ss_pred             CeEEEEEECCCCCE--EEEECCCCCcHHHHHHHHHH--HhCcCcccCEEEECCccccccCccccccccccCCCCCC----
Confidence            44999999999965  68999 99999999999999  9999999999999998           3    345555    


Q ss_pred             CccccCCCCCCEEEEEEecC
Q 034173           72 DDVYLQLSNGGNINISLFNL   91 (102)
Q Consensus        72 ~L~~~~I~~g~ti~l~~~~~   91 (102)
                       |++|||++|++|||.....
T Consensus        78 -L~~~gi~~G~~L~l~~~~~   96 (107)
T 1wf9_A           78 -ISSLNLAHGSMVYLAYEGE   96 (107)
T ss_dssp             -GGGTCCCTTCEEECCCSSC
T ss_pred             -HHHCCCCCCCEEEEEeCCC
Confidence             9999999999999877543

>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=99.66  E-value=4.3e-16  Score=104.55  Aligned_cols=78  Identities=14%  Similarity=0.192  Sum_probs=66.0

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCC---ee----cCCCCCCCCCCccccCCCC
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRG---KV----LDDTQDDDDRDDVYLQLSN   80 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~G---k~----L~D~~t~~~~~L~~~~I~~   80 (102)
                      ..|+|+|++.+.....++++++++||.+||++|+.  ..|+||++|||+|.|   +.    ++|+.+     |.+|||++
T Consensus         5 ~~v~l~V~~~~~~~~~e~~v~~~~TV~~lK~ki~~--~~Gip~~~qrL~~~g~~~~~~~~l~~D~~t-----L~~y~i~~   77 (122)
T 1t0y_A            5 EVYDLEITTNATDFPMEKKYPAGMSLNDLKKKLEL--VVGTTVDSMRIQLFDGDDQLKGELTDGAKS-----LKDLGVRD   77 (122)
T ss_dssp             CEEEEEEEESSCCSCEEEEEETTSBHHHHHHHHHH--HHCCCTTTEEEEEECSSSSEEEECCCCSSB-----TTTTTCCS
T ss_pred             CEEEEEEEECCCCccEEEEeCCCCcHHHHHHHHHH--HhCCCHHHeEEEEecCCCccccccCCCcCC-----HHHCCCCC
Confidence            46999999876642238999999999999999999  999999999999987   43    356666     99999999


Q ss_pred             CCEEEEEEecCC
Q 034173           81 GGNINISLFNLD   92 (102)
Q Consensus        81 g~ti~l~~~~~~   92 (102)
                      |++|||....|.
T Consensus        78 g~~ihvvd~~p~   89 (122)
T 1t0y_A           78 GYRIHAVDVTGG   89 (122)
T ss_dssp             SEEEEEEECTTC
T ss_pred             CCEEEEEeCCCC
Confidence            999999986664

>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=99.65  E-value=1.3e-16  Score=124.61  Aligned_cols=79  Identities=19%  Similarity=0.331  Sum_probs=68.2

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhcc-CCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSS-ANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~-~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      ...|+|+||+++|+.+ .++|++++||.+||++|++.. +.++|+++|||||+||.|+|+.+     |++|+|++|++|+
T Consensus         5 ~~~M~I~VKtl~Gk~~-~leV~~~~TV~~LK~~I~~~~~~~gip~~~QrLiy~GK~L~D~~t-----L~dygI~~gstIv   78 (368)
T 1oqy_A            5 SSAVTITLKTLQQQTF-KIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVP-----IRDYRIDEKNFVV   78 (368)
T ss_dssp             -CCCCEEEEETTTEEE-EECCCTTCBHHHHHHHHHHHTCSSSCCSTEEEEESSSSEECSSSB-----TTTTCCCTTSCEE
T ss_pred             CceEEEEEEeCCCCEE-EEEeCCCChHHHHHHHHHHHhCcCCCChhheEEEECCeecCCcCC-----HHHcCCCCCCEEE
Confidence            3569999999999888 899999999999999998622 35799999999999999988888     9999999999995


Q ss_pred             EEEecC
Q 034173           86 ISLFNL   91 (102)
Q Consensus        86 l~~~~~   91 (102)
                      +++..+
T Consensus        79 ~lv~k~   84 (368)
T 1oqy_A           79 VMVTKT   84 (368)
T ss_dssp             EEEECC
T ss_pred             EEEecC
Confidence            555443

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

Probab=99.63  E-value=2e-17  Score=119.20  Aligned_cols=69  Identities=22%  Similarity=0.235  Sum_probs=0.0

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+|+||+++|+.+ .++|++++||.+||++|++  ..++|+++|||||+|+.|+|+.+     |+     +++||||+++
T Consensus         1 MqI~VKtL~Gkti-tLeV~~sdTV~~LK~kI~~--keGIP~~qQRLIf~GK~LeD~~T-----Ls-----~~STLhLvlR   67 (189)
T 2xzm_9            1 MQVQVKTLEGETK-IYTLEQGTSVLDLKSQISQ--DMGFEIDMMTLVNNGFIAPNTEL-----VT-----DDVTYYLSLK   67 (189)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CEEEEEcCCCCEE-EEEECCcChHHHHHHHHHH--HhCcChhHEEEEecCeECCCCCc-----cc-----CCCEEEEEEe
Confidence            7899999999988 8999999999999999998  99999999999999999998888     87     9999999987


Q ss_pred             cC
Q 034173           90 NL   91 (102)
Q Consensus        90 ~~   91 (102)
                      -+
T Consensus        68 Lr   69 (189)
T 2xzm_9           68 LL   69 (189)
T ss_dssp             --
T ss_pred             cC
Confidence            65

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

Probab=99.59  E-value=9.5e-16  Score=117.56  Aligned_cols=75  Identities=19%  Similarity=0.164  Sum_probs=65.6

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEE---eCCeecCCCCCCCCCCccccCCCCCCE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLV---FRGKVLDDTQDDDDRDDVYLQLSNGGN   83 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi---~~Gk~L~D~~t~~~~~L~~~~I~~g~t   83 (102)
                      .++|+|+||. +|+.+ .++|++++||.+||++|++  .+|+||++|||+   |+|+.|+|+.+     |++|+|++|++
T Consensus         3 ~~~i~i~Vk~-~g~~~-~v~v~~~~Tv~~lK~~I~~--~tgVpp~~QkLi~~k~~Gk~l~D~~~-----L~~~~ik~g~~   73 (320)
T 3shq_A            3 VKEVVVIVKW-SGKEY-PVDLTDQDTVEVLRHEIFR--KTQVRPERQKLLNLKYKGKTAADNVK-----ISALELKPNFK   73 (320)
T ss_dssp             -CEEEEEEEE-TTEEE-EEEEETTSBHHHHHHHHHH--HHCCCGGGCEETTCBSSSSBCCTTSB-----TTSSCCC--CE
T ss_pred             CceEEEEEEE-CCEEE-EEEECCCCcHHHHHHHHHH--HHCcCHHHeEEeecccCCcccCcccc-----HHHcCCCCCCE
Confidence            4569999996 67777 8999999999999999999  999999999999   89999988888     99999999999


Q ss_pred             EEEEEec
Q 034173           84 INISLFN   90 (102)
Q Consensus        84 i~l~~~~   90 (102)
                      |+|+-..
T Consensus        74 l~L~gs~   80 (320)
T 3shq_A           74 LMMVGST   80 (320)
T ss_dssp             EEEECCC
T ss_pred             EEEEccc
Confidence            9987544

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

Probab=99.59  E-value=5.8e-16  Score=97.78  Aligned_cols=75  Identities=21%  Similarity=0.234  Sum_probs=62.2

Q ss_pred             EEEEEEcCCCCCceEEE-ecCCCcHHHHHHHHHhccCCCCCCCceEEEeC--CeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173           10 VEITVKTIGPAPPSRLS-VSSPIKVRDLRKLIATSSANHLPIENLRLVFR--GKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~-v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~--Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      |+|+||+++|+.  .+. +++++||.+||++|++  +.++|+++|||+|.  +|.|.-.  +++.+|++|||++|++|||
T Consensus         1 m~i~vr~~~G~~--~v~~l~~~~Tv~~Lk~~I~~--~~gi~~~~qrL~~~~p~k~l~l~--~~~~tL~~~gl~~g~~l~v   74 (86)
T 2kzr_A            1 WRVRCKAKGGTH--LLQGLSSRTRLRELQGQIAA--ITGIAPGSQRILVGYPPECLDLS--DRDITLGDLPIQSGDMLIV   74 (86)
T ss_dssp             CCEEEEETTEEE--EECSCCTTCBHHHHHHHHHH--HTCCCTTTCCCEESSCCCCCCCC--CSSCBTTTSSCCTTCEEEC
T ss_pred             CEEEEEcCCCCE--EeeecCCCCCHHHHHHHHHH--HhCCCccceEEEeCCCCcccccC--CCCCCHHHcCCCCCCEEEE
Confidence            689999999965  477 9999999999999999  99999999999986  4777410  1344599999999999998


Q ss_pred             EEec
Q 034173           87 SLFN   90 (102)
Q Consensus        87 ~~~~   90 (102)
                      .-..
T Consensus        75 ~~~~   78 (86)
T 2kzr_A           75 EEDQ   78 (86)
T ss_dssp             CCCS
T ss_pred             EeCC
Confidence            6554

>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=99.58  E-value=1.2e-14  Score=93.48  Aligned_cols=79  Identities=13%  Similarity=0.277  Sum_probs=72.8

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      ++.|+|+||+.+|+.+ .+.|.++.++..|++.+++  +.++|++++||+|.|+.|.++.|     .++|++.+|++|++
T Consensus         3 ~~~i~ikVk~~~g~~v-~~~vk~~t~l~kl~~~y~~--~~gi~~~~~rf~FdG~~l~~~~T-----p~dl~medgD~Idv   74 (91)
T 2io0_B            3 NDHINLKVAGQDGSVV-QFKIKRHTPLSKLMKAYCE--RQGLSMRQIRFRFDGQPINETDT-----PAQLEMEDEDTIDV   74 (91)
T ss_dssp             -CEEEEEEECTTSCEE-EEEEETTSCTHHHHHHHHH--HTTCCSTTEEEEETTEECCTTCC-----TTTTTCCTTEEEEE
T ss_pred             CCeEEEEEECCCCCEE-EEEECCCChHHHHHHHHHH--HhCCCcccEEEEECCEEcCCCCC-----HHHcCCCCCCEEEE
Confidence            4679999999999887 8999999999999999999  99999999999999999998888     99999999999999


Q ss_pred             EEecCCC
Q 034173           87 SLFNLDD   93 (102)
Q Consensus        87 ~~~~~~~   93 (102)
                      .+....+
T Consensus        75 ~~~q~gg   81 (91)
T 2io0_B           75 FQQQTGG   81 (91)
T ss_dssp             EECCCCC
T ss_pred             EEeccCC
Confidence            9876643

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

Probab=99.57  E-value=1.3e-14  Score=90.86  Aligned_cols=76  Identities=20%  Similarity=0.159  Sum_probs=70.1

Q ss_pred             CCCCCcEEEEEEcCCCC-CceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCC
Q 034173            4 GEISESVEITVKTIGPA-PPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGG   82 (102)
Q Consensus         4 ~~~~~~i~I~vK~~~~~-~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~   82 (102)
                      +..++.|+|+|++.+|+ .+ .+.|.++.++..|++.+++  +.++++++|||+|.|+.|.++.|     .++|++.+|+
T Consensus         2 p~~~~~i~ikV~~~~g~~~i-~~~i~~~t~l~kl~~~y~~--~~gi~~~~~rf~fdG~~l~~~~T-----p~~l~medgD   73 (79)
T 3a4r_A            2 PLGSQELRLRVQGKEKHQML-EISLSPDSPLKVLMSHYEE--AMGLSGHKLSFFFDGTKLSGKEL-----PADLGLESGD   73 (79)
T ss_dssp             TTCCCCEEEEEECSSTTCEE-EEEECTTSCHHHHHHHHHH--HHTCTTCCCEEEETTEECCSCCC-----HHHHTCCTTC
T ss_pred             CCCCCEEEEEEEeCCCCEEE-EEEECCCChHHHHHHHHHH--HhCCCcccEEEEECCEEcCCCCC-----HHHcCCCCCC
Confidence            34567799999999996 66 8999999999999999999  99999999999999999998888     9999999999


Q ss_pred             EEEEE
Q 034173           83 NINIS   87 (102)
Q Consensus        83 ti~l~   87 (102)
                      +|++.
T Consensus        74 ~Idv~   78 (79)
T 3a4r_A           74 LIEVW   78 (79)
T ss_dssp             EEEEE
T ss_pred             EEEEe
Confidence            99974

>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=99.56  E-value=1.1e-14  Score=89.41  Aligned_cols=70  Identities=14%  Similarity=0.318  Sum_probs=66.8

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      |+|+||+.+|+.+ .+.|.++.++..|++.+++  +.|+|++++||+|.|+.|.++.|     .++|++++|++|++.
T Consensus         2 i~lkV~~~~g~~v-~~~v~~~t~l~kl~~~y~~--~~gi~~~~~rf~fdG~~l~~~~T-----p~~l~medgD~Idv~   71 (72)
T 1wm3_A            2 INLKVAGQDGSVV-QFKIKRHTPLSKLMKAYCE--RQGLSMRQIRFRFDGQPINETDT-----PAQLEMEDEDTIDVF   71 (72)
T ss_dssp             EEEEEECTTSCEE-EEEECTTSCTHHHHHHHHH--HHTCCTTTCEEEETTEECCTTCC-----TTTTTCCTTEEEEEE
T ss_pred             EEEEEECCCCCEE-EEEECCCChHHHHHHHHHH--HhCCCcceEEEEECCEEcCCCCC-----HHHcCCCCCCEEEEE
Confidence            8999999999877 8999999999999999999  99999999999999999988888     999999999999986

>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=99.55  E-value=2.1e-14  Score=92.51  Aligned_cols=77  Identities=13%  Similarity=0.283  Sum_probs=71.3

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      ++.|+|+|++.+|+.+ .+.|.++.++..|++.+++  +.+++++++||+|.|+.|.++.|     +++|++.+|++|++
T Consensus        15 ~~~i~ikV~~~~g~~i-~~~v~~~t~l~kl~~~y~~--~~gi~~~~~rf~fdG~~l~~~~T-----p~dl~medgD~Idv   86 (93)
T 2d07_B           15 NDHINLKVAGQDGSVV-QFKIKRHTPLSKLMKAYCE--RQGLSMRQIRFRFDGQPINETDT-----PAQLEMEDEDTIDV   86 (93)
T ss_dssp             CCEEEEEEECTTSCEE-EEEEETTSCHHHHHHHHHH--HHTCCGGGEEEEETTEECCTTCC-----TTTTTCCTTEEEEE
T ss_pred             CCeEEEEEECCCCCEE-EEEEccCCHHHHHHHHHHH--HhCCCccceEEEECCEEcCCCCC-----HHHcCCCCCCEEEE
Confidence            4679999999999877 8999999999999999999  99999999999999999998888     99999999999999


Q ss_pred             EEecC
Q 034173           87 SLFNL   91 (102)
Q Consensus        87 ~~~~~   91 (102)
                      ++...
T Consensus        87 ~~~q~   91 (93)
T 2d07_B           87 FQQQT   91 (93)
T ss_dssp             EECC-
T ss_pred             Eeecc
Confidence            88654

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

Probab=99.53  E-value=2.2e-14  Score=94.42  Aligned_cols=79  Identities=13%  Similarity=0.279  Sum_probs=72.8

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      ++.|+|+||+.+|+.+ .+.|.++.++..|++.+++  +.+++++++||+|.|+.|.++.|     +++|++.+|++|++
T Consensus        22 ~~~I~IkVk~~~g~~i-~~kVk~~t~l~kL~~~y~e--k~gi~~~~~rf~FdG~~l~~~~T-----p~dl~medgD~Idv   93 (104)
T 1wz0_A           22 NDHINLKVAGQDGSVV-QFKIKRHTPLSKLMKAYCE--RQGLSMRQIRFRFDGQPINETDT-----PAQLEMEDEDTIDV   93 (104)
T ss_dssp             SCCEEEEEECSSSCEE-EEEECTTSCHHHHHHHHHH--HHTCCTTTSCEESSSSBCCTTSC-----TTTTTCCTTEEEEE
T ss_pred             CCeEEEEEECCCCCEE-EEEEcCCChHHHHHHHHHH--HhCCCcceEEEEECCEEcCCCCC-----HHHcCCCCCCEEEE
Confidence            4579999999999877 8999999999999999999  99999999999999999998888     99999999999999


Q ss_pred             EEecCCC
Q 034173           87 SLFNLDD   93 (102)
Q Consensus        87 ~~~~~~~   93 (102)
                      ++.....
T Consensus        94 ~~~q~GG  100 (104)
T 1wz0_A           94 FQQQTSG  100 (104)
T ss_dssp             CCCCCCC
T ss_pred             EEeccCC
Confidence            8876543

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

Probab=99.49  E-value=4.1e-14  Score=94.06  Aligned_cols=80  Identities=16%  Similarity=0.240  Sum_probs=73.4

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      ++.|+|+|++.+|+.+ .+.|.++.++..|++.+++  +.++++++|||+|.|+.|.++.|     +++|++.+|++|++
T Consensus        24 ~~~I~IkVk~~~g~~i-~fkVk~~t~l~kL~~ay~e--k~gi~~~~~rfiFdG~~L~~~~T-----p~dl~mEDgD~Idv   95 (110)
T 2k8h_A           24 TALVAVKVVNADGAEM-FFRIKSRTALKKLIDTYCK--KQGISRNSVRFLFDGTPIDETKT-----PEELGMEDDDVIDA   95 (110)
T ss_dssp             CCCEEEEEEETTSCCE-EEEECTTSSHHHHHHHHHH--HHTCCSSSCEEESSSCBCCSSSH-----HHHHHCSSEEEEEE
T ss_pred             CCeEEEEEECCCCCEE-EEEECCCChHHHHHHHHHH--HhCCCcccEEEEECCEEcCCCCC-----HHHcCCCCCCEEEE
Confidence            4569999999999888 8999999999999999999  99999999999999999988888     99999999999999


Q ss_pred             EEecCCCc
Q 034173           87 SLFNLDDL   94 (102)
Q Consensus        87 ~~~~~~~~   94 (102)
                      ++.....+
T Consensus        96 ~~~q~Gg~  103 (110)
T 2k8h_A           96 MVEQTGGL  103 (110)
T ss_dssp             ECCCCCC-
T ss_pred             EEcccCcc
Confidence            98776544

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

Probab=99.48  E-value=2.9e-13  Score=86.99  Aligned_cols=78  Identities=13%  Similarity=0.282  Sum_probs=63.2

Q ss_pred             CCcEEEEEEcC---CCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCC------ee-cCCCCCCCCCCcccc
Q 034173            7 SESVEITVKTI---GPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRG------KV-LDDTQDDDDRDDVYL   76 (102)
Q Consensus         7 ~~~i~I~vK~~---~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~G------k~-L~D~~t~~~~~L~~~   76 (102)
                      +..++|+|++.   ++..+ +..+++++||.+||.+|+.  ..|+|+..|||.|.+      .. |.    +|+.+|..|
T Consensus         7 ~~~v~l~I~~~~~~~~~~~-e~~l~~~~TV~~LK~~i~~--~~gip~~~q~L~~~~~~~~~~~~~L~----~d~~~L~~y   79 (97)
T 1wjn_A            7 GQLLTLKIKCSNQPERQIL-EKQLPDSMTVQKVKGLLSR--LLKVPVSELLLSYESSKMPGREIELE----NDLQPLQFY   79 (97)
T ss_dssp             SCEEEEEEEESSCSSSCCE-EEEEETTSBHHHHHHHHHT--TTTCCTTTCEEEEECTTSCSCEEECC----CSSSBSGGG
T ss_pred             CccEEEEEEecCCCCCcEE-EEECCCCCCHHHHHHHHHH--HHCCChhHeEEEEEcCCCCceeeccC----CCcccHhhc
Confidence            34688888863   55555 8999999999999999998  999999999999874      12 32    334459999


Q ss_pred             CCCCCCEEEEEEecC
Q 034173           77 QLSNGGNINISLFNL   91 (102)
Q Consensus        77 ~I~~g~ti~l~~~~~   91 (102)
                      +|.+|++|||...+|
T Consensus        80 ~i~~G~~I~V~d~~p   94 (97)
T 1wjn_A           80 SVENGDCLLVRWSGP   94 (97)
T ss_dssp             TCCTTCEEEEECCSS
T ss_pred             CCCCCCEEEEEecCC
Confidence            999999999987665

>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=99.45  E-value=2.9e-13  Score=89.49  Aligned_cols=76  Identities=14%  Similarity=0.266  Sum_probs=69.9

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      ++.|+|+|++ +|+.+ .+.|.++.++..|++.+++  +.+++++++||+|.|+.|.++.|     .++|++.+|++|++
T Consensus        29 ~~~I~IkV~~-~g~~i-~fkIk~tt~l~kL~~ay~e--k~gi~~~~~rF~FdG~rl~~~~T-----p~dl~medgD~Idv   99 (106)
T 2eke_C           29 ETHINLKVSD-GSSEI-FFKIKKTTPLRRLMEAFAK--RQGKEMDSLRFLYDGIRIQADQT-----PEDLDMEDNDIIEA   99 (106)
T ss_dssp             CSEEEEEEEC-SSCEE-EEEEETTSCTHHHHHHHHH--HHTCCGGGEEEEETTEECCTTCC-----TTTTTCCTTEEEEE
T ss_pred             CCeEEEEEec-CCcEE-EEEeCCCCHHHHHHHHHHH--HhCCCcccEEEEECCeEcCCCCC-----HHHcCCCCCCEEEE
Confidence            3569999999 98887 8999999999999999999  99999999999999999998888     99999999999999


Q ss_pred             EEecC
Q 034173           87 SLFNL   91 (102)
Q Consensus        87 ~~~~~   91 (102)
                      .+...
T Consensus       100 ~~~q~  104 (106)
T 2eke_C          100 HREQI  104 (106)
T ss_dssp             EECC-
T ss_pred             Eeecc
Confidence            88653

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

Probab=99.25  E-value=3.8e-11  Score=80.39  Aligned_cols=76  Identities=16%  Similarity=0.305  Sum_probs=70.4

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      ++.|+|+|++.+|..+ .+.|.++.++..|++.+++  +.|+++.++|++|.|+.|.++.|     .+++++.+|++|.+
T Consensus        38 ~~~I~LKV~~qdg~ev-~fkIk~tt~L~KLm~aY~e--r~Gl~~~~irFlFDG~rI~~~~T-----P~dL~MEDgD~IdV  109 (115)
T 3kyd_D           38 GEYIKLKVIGQDSSEI-HFKVKMTTHLKKLKESYCQ--RQGVPMNSLRFLFEGQRIADNHT-----PKELGMEEEDVIEV  109 (115)
T ss_dssp             -CEEEEEEECTTSCEE-EEEEETTSCTHHHHHHHHH--HHTCCTTSEEEEETTEECCTTCC-----TTTTTCCTTCEEEE
T ss_pred             CCeEEEEEEcCCCCEE-EEEEccCChHHHHHHHHHH--HhCCChhhEEEEECCeECCCCCC-----HHHcCCCCCCEEEE
Confidence            4679999999999887 8999999999999999999  99999999999999999998888     99999999999999


Q ss_pred             EEec
Q 034173           87 SLFN   90 (102)
Q Consensus        87 ~~~~   90 (102)
                      .+..
T Consensus       110 ~~~Q  113 (115)
T 3kyd_D          110 YQEQ  113 (115)
T ss_dssp             EECC
T ss_pred             Eeec
Confidence            8764

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

Probab=99.13  E-value=2.7e-10  Score=82.55  Aligned_cols=85  Identities=14%  Similarity=0.254  Sum_probs=73.8

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      ++-|+|+|+. +|+.. .+.|.+++++..|++.+++  +.|+++.++|++|.|+.|.++.|     .+++++.+|++|++
T Consensus        27 ~~~I~LkV~~-~g~~v-~fkIk~~t~l~kL~~ay~e--r~Gi~~~~~RF~FdG~rI~~~~T-----P~dL~MEdgD~Idv   97 (200)
T 3pge_A           27 ETHINLKVSD-GSSEI-FFKIKKTTPLRRLMEAFAK--RQGKEMDSLRFLYDGIRIQADQT-----PEDLDMEDNDIIEA   97 (200)
T ss_dssp             CCCEEEEEEC-SSCEE-EEEECTTSCTHHHHHHHHH--HHSSCGGGEEEEETTEECCTTCC-----TTTTTCCTTEEEEE
T ss_pred             CCeEEEEEec-CCCEE-EEEEecCCHHHHHHHHHHH--HhCCChhhEEEEECCEEcCCCCC-----HHHcCCCCCCEEEE
Confidence            3459999985 77776 8999999999999999999  99999999999999999999888     99999999999999


Q ss_pred             EEecC--CCceeeEec
Q 034173           87 SLFNL--DDLSFQFEF  100 (102)
Q Consensus        87 ~~~~~--~~~~~~~~~  100 (102)
                      .+...  ....++|..
T Consensus        98 ~~~q~gg~kd~v~Fs~  113 (200)
T 3pge_A           98 HREQIGGGGETIKFVA  113 (200)
T ss_dssp             EECCSCCC-CCEEEEE
T ss_pred             EeccCcCcCceEEEEe
Confidence            88665  445566653

>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=98.96  E-value=1.3e-09  Score=79.03  Aligned_cols=78  Identities=13%  Similarity=0.239  Sum_probs=70.7

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      ++.|+|+|+. +|+.+ .+.|.+++++..|++.+++  +.++++.++|++|.|+.|.++.|     ..++++.|||+|++
T Consensus        55 ~e~InLKVk~-dG~eV-~FKIKrtTpL~KLmeAYcE--RqGL~~~sIRFLFDGqRI~~ddT-----PeDLdMEDGDtIDV  125 (207)
T 3tix_A           55 ETHINLKVSD-GSSEI-FFKIKKTTPLRRLMEAFAK--RQGKEMDSLTFLYDGIEIQADQT-----PEDLDMEDNDIIEA  125 (207)
T ss_dssp             CCEEEEEEEC-SSCEE-EEEEETTSCTHHHHHHHHH--HTTCCGGGSCEEETTEECCSSCC-----TTTTTCCTTEEEEE
T ss_pred             CCcEEEEEec-CCCEE-EEEEccCChHHHHHHHHHH--HhCCCcccEEEEECCeecCCCCC-----HHHcCCCCCCEEEE
Confidence            4569999985 77777 8999999999999999999  99999999999999999998888     99999999999999


Q ss_pred             EEecCCC
Q 034173           87 SLFNLDD   93 (102)
Q Consensus        87 ~~~~~~~   93 (102)
                      ++.....
T Consensus       126 ~leQ~GG  132 (207)
T 3tix_A          126 HREQIGG  132 (207)
T ss_dssp             CCCCCTT
T ss_pred             EEeccCC
Confidence            8877644

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

Probab=98.94  E-value=2.9e-10  Score=71.21  Aligned_cols=73  Identities=12%  Similarity=0.170  Sum_probs=57.9

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCee---cCCCCCCCCCCccccCCCCCCEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKV---LDDTQDDDDRDDVYLQLSNGGNI   84 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~---L~D~~t~~~~~L~~~~I~~g~ti   84 (102)
                      ++|.|.||+++|..  .+++++++|+.+|+++|++  ..+++++.|.+.++-..   |.   ...+.+|+++||++||+|
T Consensus         3 ~~m~lRvrs~~G~~--Ri~v~~~~t~~~L~~~I~~--~~~i~~~~~~l~~~~~p~~~l~---~~~~~~l~~lgl~hGd~l   75 (80)
T 2pjh_A            3 ESIIIRVQSPDGVK--RITATKRETAATFLKKVAK--EFGFQNNGFSVYINRNKTGEIT---ASSSKSLHLLKIKHGDLL   75 (80)
T ss_dssp             CCCCCEEECSSEEE--ECCCCSSCCHHHHHHHHHH--HTCCCTTTCCCCCSCCGGGGSS---SCCCCTTTTTCCCTTCCE
T ss_pred             CcEEEEEECCCCCE--EEEcCCcChHHHHHHHHHH--HcCCCCCcceEEecCCCCCccc---CCCCCCHHHcCCCCCCEE
Confidence            45889999999954  5889999999999999999  89999998888654443   21   113455999999999999


Q ss_pred             EEE
Q 034173           85 NIS   87 (102)
Q Consensus        85 ~l~   87 (102)
                      +|.
T Consensus        76 ~l~   78 (80)
T 2pjh_A           76 FLF   78 (80)
T ss_dssp             EC-
T ss_pred             EEe
Confidence            974

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

Probab=98.82  E-value=2.9e-08  Score=62.44  Aligned_cols=73  Identities=22%  Similarity=0.367  Sum_probs=66.5

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCC-ceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIE-NLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~-~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      .-|++.+++....-+ .+.|+++++|++|-.....  +.++|++ ..||.|.|..|....+     +.+|++.|||.|.+
T Consensus         8 ~~~~~~~~~~~~~dl-~f~I~~~t~v~kLi~ayc~--~~~I~~~~~IrllFDGdRLdp~~t-----p~DlemeD~D~IDv   79 (82)
T 3goe_A            8 KLITLLLRSSKSEDL-RLSIPVDFTVKDLIKRYCT--EVKISFHERIRLEFEGEWLDPNDQ-----VQSTELEDEDQVSV   79 (82)
T ss_dssp             CEEEEEEEESSSCCE-EEEEETTSBHHHHHHHHHH--HHTCCCCTTCEEEETTEECCTTSB-----GGGSSCCTTCEEEE
T ss_pred             HHHHHhhhccCCCCe-EEEecCCCCHHHHHHHHHH--HcCCCcCceEEEEEcCcccCccCC-----hhhhCCcCCceeee
Confidence            458888998777666 8999999999999999998  9999999 8999999999988888     99999999999998


Q ss_pred             EE
Q 034173           87 SL   88 (102)
Q Consensus        87 ~~   88 (102)
                      ++
T Consensus        80 mL   81 (82)
T 3goe_A           80 VL   81 (82)
T ss_dssp             EC
T ss_pred             ee
Confidence            75

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

Probab=98.78  E-value=6.9e-10  Score=81.37  Aligned_cols=79  Identities=14%  Similarity=0.236  Sum_probs=0.4

Q ss_pred             CCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173            6 ISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         6 ~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      .++.|+|+| ..+|+.+ .+.|.+++.+..|++.+++  +.|++++++|++|.|+.+.++.|     .++++++|||+|+
T Consensus        18 p~e~InLKV-~qdGseV-~FKIKrtTpL~KLM~AYcE--RqGLs~~siRFLFDGqRI~dddT-----PadL~MEDGDtID   88 (227)
T 3v7o_A           18 PETHINLKV-SDGSSEI-FFKIKKTTPLRRLMEAFAK--RQGKEMDSLRFLYDGIRIQADQT-----PEDLDMEDNDIIE   88 (227)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCCeEEEEE-eCCCCEE-EEEEccCChHHHHHHHHHH--HhCCCccceEEEECCEecCCCCC-----HHHcCCCCCCEEE
Confidence            356699999 7788877 8999999999999999999  99999999999999999998888     9999999999999


Q ss_pred             EEEecCCC
Q 034173           86 ISLFNLDD   93 (102)
Q Consensus        86 l~~~~~~~   93 (102)
                      +++....+
T Consensus        89 V~leQ~GG   96 (227)
T 3v7o_A           89 AHREQIGG   96 (227)
T ss_dssp             -------C
T ss_pred             EEecccCC
Confidence            98876544

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

Probab=98.76  E-value=5.3e-08  Score=63.22  Aligned_cols=74  Identities=19%  Similarity=0.217  Sum_probs=67.0

Q ss_pred             CCCcEEEEEEcCCCC-CceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEE
Q 034173            6 ISESVEITVKTIGPA-PPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNI   84 (102)
Q Consensus         6 ~~~~i~I~vK~~~~~-~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti   84 (102)
                      .++.|+|+|+..++. .+ .+.|..+.++..|....++  +.++++...|+.|.|..|..+.|     .+++++.+|++|
T Consensus        22 ~~~~I~LkV~~~dg~~~v-~fkIk~~t~l~kLm~aY~~--~~g~~~~~vrF~FDG~rI~~~~T-----P~dLdMEDgD~I   93 (97)
T 2jxx_A           22 TSQQLQLRVQGKEKHQTL-EVSLSRDSPLKTLMSHYEE--AMGLSGRKLSFFFDGTKLSGREL-----PADLGMESGDLI   93 (97)
T ss_dssp             SCSEEEEEEEESSSSCEE-EEEEETTSCHHHHHHHHHH--HTTCSSSCCEEEETTEECCSCSC-----HHHHTCCTTEEE
T ss_pred             CCCeEEEEEEcCCCCEEE-EEEECCCChHHHHHHHHHH--HHCCCcccEEEEECCEEcCCCCC-----HHHcCCCCCCEE
Confidence            356799999998885 45 7999999999999999998  99999999999999999988888     999999999999


Q ss_pred             EEE
Q 034173           85 NIS   87 (102)
Q Consensus        85 ~l~   87 (102)
                      .+.
T Consensus        94 Dv~   96 (97)
T 2jxx_A           94 EVW   96 (97)
T ss_dssp             EEE
T ss_pred             EEe
Confidence            864

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

Probab=98.66  E-value=8e-08  Score=69.37  Aligned_cols=78  Identities=14%  Similarity=0.248  Sum_probs=70.2

Q ss_pred             CCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173            6 ISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         6 ~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      .++.|.|+|+. .++.. .+.+..++.+..|++..++  +.|++++++|++|.|+.+.++.+     ..++.+.++++|.
T Consensus        18 ~~~~i~ikv~~-~~~~v-~~~i~~~~~l~kl~~~y~~--~~g~~~~~~~f~fdG~~i~~~~T-----pk~L~~ed~d~I~   88 (209)
T 3uf8_A           18 PETHINLKVSD-GSSEI-FFKIKKTTPLRRLMEAFAK--RQGKEMDSLRFLYDGIRIQADQT-----PEDLDMEDNDIIE   88 (209)
T ss_dssp             CCSEEEEEEEC-SSCEE-EEEEETTSCTHHHHHHHHH--HHTCCGGGCEEEETTEECCTTCC-----TTTTTCCTTEEEE
T ss_pred             CCCcEEEEEEc-CCCEE-EEEEeeCCHHHHHHHHHHH--hhCCChheEEEEECCEeccCCCC-----hHHhhhcccccch
Confidence            35679999998 66665 7999999999999999999  99999999999999999998888     9999999999999


Q ss_pred             EEEecCC
Q 034173           86 ISLFNLD   92 (102)
Q Consensus        86 l~~~~~~   92 (102)
                      +......
T Consensus        89 ~~~eq~G   95 (209)
T 3uf8_A           89 AHREQIG   95 (209)
T ss_dssp             EECSCTT
T ss_pred             hhccccc
Confidence            8876654

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

Probab=98.61  E-value=4.4e-09  Score=81.44  Aligned_cols=86  Identities=15%  Similarity=0.279  Sum_probs=0.0

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      ++.|.|+|+. .+... .+.|..+++...|++..++  +.|+++.++|+.|.|+.|.++.|     .+++++.+|++|.+
T Consensus        28 ~~~i~lkv~~-~~~~~-~~~i~~~~~~~~l~~~y~~--~~g~~~~~~~f~f~G~~i~~~~T-----p~~l~med~d~i~~   98 (389)
T 4da1_A           28 ETHINLKVSD-GSSEI-FFKIKKTTPLRRLMEAFAK--RQGKEMDSLRFLYDGIRIQADQA-----PEDLDMEDNDIIEA   98 (389)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCcEEEEEec-CCcEE-EEEECCCChHHHHHHHHHH--HhCCCcceEEEEECCEEcCCCCC-----HHHcCCCCCCEeee
Confidence            3558888887 66666 7999999999999999999  99999999999999999998888     99999999999999


Q ss_pred             EEecCCCceeeEecC
Q 034173           87 SLFNLDDLSFQFEFG  101 (102)
Q Consensus        87 ~~~~~~~~~~~~~~~  101 (102)
                      .+....+..+.|.+|
T Consensus        99 ~~~q~gg~n~~~~~g  113 (389)
T 4da1_A           99 HREQIGGENLYFQAG  113 (389)
T ss_dssp             ---------------
T ss_pred             eeccccccccceeEc
Confidence            999888888877766

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

Probab=98.54  E-value=9.2e-09  Score=80.15  Aligned_cols=80  Identities=14%  Similarity=0.225  Sum_probs=0.0

Q ss_pred             CCCCCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCC
Q 034173            3 MGEISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGG   82 (102)
Q Consensus         3 ~~~~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~   82 (102)
                      |.+.++.|+|+|+. .|+.. .+.|..++++..|++.+++  +.|++++++|++|.|+.+.++.|     .+++++++||
T Consensus        15 ~~~~~~~I~LKV~~-~g~~v-~FkIk~~t~l~kLm~aY~~--r~G~~~~~~rFlFdG~rI~~~~T-----P~~L~MEDgD   85 (360)
T 3ix6_A           15 EVKPETHINLKVSD-GSSEI-FFKIKKTTPLRRLMEAFAK--RQGKEMDSLRFLYDGIRIQADQT-----PEDLDMEDND   85 (360)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCCCCCeEEEEEec-CCcEE-EEEEecCChHHHHHHHHHH--HhCCCcceEEEEECCeECCCCCC-----hHHcCCCccc
Confidence            34456679999998 56666 7999999999999999998  99999999999999999998888     9999999999


Q ss_pred             EEEEEEecC
Q 034173           83 NINISLFNL   91 (102)
Q Consensus        83 ti~l~~~~~   91 (102)
                      +|.+++...
T Consensus        86 ~Idv~~~Q~   94 (360)
T 3ix6_A           86 IIEAHREQI   94 (360)
T ss_dssp             ---------
T ss_pred             hhhhhhccC
Confidence            999988654

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

Probab=98.47  E-value=8.1e-07  Score=57.54  Aligned_cols=76  Identities=14%  Similarity=0.164  Sum_probs=67.5

Q ss_pred             CCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173            6 ISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         6 ~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      .++.|.|+|+. .|... .+.+..+....-|.+..++  +.|+++++.|+.|.|..+.++.|     -.++++.+||+|.
T Consensus        18 ~~~~IniKV~~-~g~ev-~FkIK~tt~l~KL~~aYc~--r~gv~~~sirFlfDG~rI~~~~T-----P~~L~meD~DiID   88 (95)
T 2l76_A           18 TPRLFPLKIRC-RADLV-RLPLRMSEPLQSVVDHMAT--HLGVSPSRILLLFGETELSPTAT-----PRTLKLGVADIID   88 (95)
T ss_dssp             CCCCEEEEEEC-SSSEE-EEEECSSSCTHHHHHHHHH--HHTSCGGGEEEEETTEECCTTSC-----HHHHTCCSSCEEE
T ss_pred             CCCeEEEEEEc-CCcEE-EEEEecCChHHHHHHHHHh--hcCCChhhEEEEECCcCCCCCCC-----HhHcCCCCCCEEE
Confidence            34569999996 55555 7899999999999999998  99999999999999999999999     9999999999999


Q ss_pred             EEEec
Q 034173           86 ISLFN   90 (102)
Q Consensus        86 l~~~~   90 (102)
                      +++-.
T Consensus        89 ~~~~~   93 (95)
T 2l76_A           89 CVVLT   93 (95)
T ss_dssp             EEECC
T ss_pred             EEEec
Confidence            87753

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

Probab=98.38  E-value=4.6e-07  Score=58.56  Aligned_cols=49  Identities=14%  Similarity=0.228  Sum_probs=40.9

Q ss_pred             EEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecC
Q 034173           13 TVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLD   63 (102)
Q Consensus        13 ~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~   63 (102)
                      .|=.........+.+.+..||..||++|++  ++|+|+++|+|+|.|+.+.
T Consensus        16 HVf~~~~a~~h~v~I~~~etv~~~ke~V~e--qTgIp~~~Q~LL~eg~~l~   64 (94)
T 4efo_A           16 HVFSLQQMTAHKIYIHSYNTATIFHELVYK--QTKIISSNQELIYEGRRLV   64 (94)
T ss_dssp             EEEETTTTEEEEEEEETTCBHHHHHHHHHH--HHCCCGGGEEEEETTEEEC
T ss_pred             EEEEcccceEEEEEeccchHHHHHHHHHHH--HhCCCHHHHHHHhCCCccc
Confidence            333444444458999999999999999999  9999999999999998874

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

Probab=98.13  E-value=1.1e-05  Score=50.67  Aligned_cols=71  Identities=18%  Similarity=0.245  Sum_probs=57.3

Q ss_pred             EEEEEEc--CCCCCceEEEecCCCcHHHHHHHHHhccCCCCCC---CceEEEeCCeecCCCCCCCCCCccccCCCCCCEE
Q 034173           10 VEITVKT--IGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPI---ENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNI   84 (102)
Q Consensus        10 i~I~vK~--~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~---~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti   84 (102)
                      |.|++..  -.++.+ .+++|...||.+|++.+.++.....++   ...|..-++..|.++..     |++|+|++||.|
T Consensus         5 I~ITidl~~y~~~~~-DLRIP~~~tvK~Li~~l~ea~~l~~~~~~~~~irv~NK~~~L~~~~~-----L~d~~ItnGD~L   78 (81)
T 2bps_A            5 IDITIDLKHYNGSVF-DLRLSDYHPVKKVIDIAWQAQSVSMPPREGHWIRVVNKDKVFSGECK-----LSDCGITNGDRL   78 (81)
T ss_dssp             EEEEEECTTTTCCEE-EEEEETTSBTTHHHHHHHHHSCCCSCCCTTCEEEEGGGTEEEETTSB-----TGGGTCCTTCEE
T ss_pred             EEEEEEeeccCCceE-EEECCCchhHHHHHHHHHHHhCCCcCCCCCCEEEEecCCEEEcCCCE-----EeeCCcCCCCEE
Confidence            6666664  466666 899999999999999999844444432   24788899999988888     999999999998


Q ss_pred             EE
Q 034173           85 NI   86 (102)
Q Consensus        85 ~l   86 (102)
                      .+
T Consensus        79 ei   80 (81)
T 2bps_A           79 EI   80 (81)
T ss_dssp             EE
T ss_pred             EE
Confidence            75

>2kc2_A Talin-1, F1; FERM, adhesion, cell membrane, cell projection, cytoplasm, cytoskeleton, membrane, phosphoprotein, structural protein; NMR {Mus musculus}

Probab=97.89  E-value=1.2e-05  Score=54.50  Aligned_cols=70  Identities=10%  Similarity=0.065  Sum_probs=54.9

Q ss_pred             EEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCC-------------------------------------ce
Q 034173           11 EITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIE-------------------------------------NL   53 (102)
Q Consensus        11 ~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~-------------------------------------~q   53 (102)
                      .|+|+.++|... ++.|+.+.||.+++..|+.  +.|++..                                     +|
T Consensus        13 ~LkV~llDg~~k-tl~VD~S~~V~~lv~~Ic~--kigI~n~~ey~L~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~k~   89 (128)
T 2kc2_A           13 PLKIRMLDGTVK-TIMVDDSKTVTDMLMTICA--RIGITNHDEYSLVRELMEEKKDEGTGTLRKDKTLLRDEKKMEKLKQ   89 (128)
T ss_dssp             EEEEECTTSCEE-EEEEEECSSHHHHHHHHHH--HHTCCCCSSEEEEEECCCCCCCCCSSCCSSSSSCSCCSCCSCSSCC
T ss_pred             cEEEEcCCCCEE-EEEeCCCcCHHHHHHHHHH--HhCCCCcccccccccccccccccCchhhccccccccchhHHHHHHH
Confidence            588999999887 9999999999999999998  8887743                                     34


Q ss_pred             EEEe--CCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173           54 RLVF--RGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus        54 rLi~--~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      ||..  .+..|+++.+     |.++||.++++|.|-.
T Consensus        90 kL~~dd~~~WLD~srt-----L~EQGI~e~~tllLRr  121 (128)
T 2kc2_A           90 KLHTDDELNWLDHGRT-----LREQGVEEHETLLLRR  121 (128)
T ss_dssp             SCCCSSSEEEECSSSC-----HHHHTCCTTSEEEEEE
T ss_pred             HhcccCCCCcccCCCc-----HHHcCCCCCCEEEEEE
Confidence            4421  2355555555     9999999999987743

>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=97.70  E-value=0.00041  Score=42.88  Aligned_cols=77  Identities=10%  Similarity=0.183  Sum_probs=60.6

Q ss_pred             CCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEE--eCCeecCCCCCCCCCCccccCCCCCCE
Q 034173            6 ISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLV--FRGKVLDDTQDDDDRDDVYLQLSNGGN   83 (102)
Q Consensus         6 ~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi--~~Gk~L~D~~t~~~~~L~~~~I~~g~t   83 (102)
                      .....+|.||.++|+.+ .-....+.||.+|..-|..   .+.++...+|+  |-.|.+...  +.+.+|.++|+.+..+
T Consensus         4 ~~~~~~i~iRlpdG~r~-~~~F~~~~tl~~v~~fv~~---~~~~~~~f~L~t~fPrk~l~~~--d~~~TL~e~gL~p~a~   77 (84)
T 3qx1_A            4 MEPVSKLRIRTPSGEFL-ERRFLASNKLQIVFDFVAS---KGFPWDEYKLLSTFPRRDVTQL--DPNKSLLEVKLFPQET   77 (84)
T ss_dssp             CCCEEEEEEECTTSCEE-EEEEETTSBHHHHHHHHHH---TTCCTTTEEEECSSSCCBGGGS--CTTSBTTTTTCCSEEE
T ss_pred             CCCeEEEEEECCCCCEE-EEEeCCCCCHHHHHHHHHH---cCCCCCCeEEEeCCCCCCCcCC--CCCCCHHHCCCCCCCE
Confidence            34568899999999987 6788899999999999986   34677888887  556778421  2245699999999999


Q ss_pred             EEEEE
Q 034173           84 INISL   88 (102)
Q Consensus        84 i~l~~   88 (102)
                      |+|.-
T Consensus        78 L~ve~   82 (84)
T 3qx1_A           78 LFLEA   82 (84)
T ss_dssp             EEEEE
T ss_pred             EEEEe
Confidence            98854

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

Probab=97.47  E-value=0.00036  Score=44.62  Aligned_cols=74  Identities=12%  Similarity=0.144  Sum_probs=65.8

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      -|.|.|-.+++... .+.|.|+.++.++=+...+  +.|+.+++-.|-|+++.|+=+..     +.-.||-+|.++.++.
T Consensus         9 ~m~v~Vl~~n~rr~-~VKvtp~t~L~~VL~eaC~--K~gl~~~~~~Lkh~~k~lDLSlp-----fRlsgLpnnAkLELv~   80 (90)
T 2al3_A            9 GSAVSVLAPNGRRH-TVKVTPSTVLLQVLEDTCR--RQDFNPSEYDLKFQRTVLDLSLQ-----WRFANLPNNAKLEMVP   80 (90)
T ss_dssp             -CCEEEECTTSCEE-EECCCTTSBHHHHHHHHHH--HTTCCGGGCEEEETTEEESSSCB-----HHHHCCCSSCEEEEEC
T ss_pred             ccEEEEEcCCCcEE-EEEECCCCCHHHHHHHHHH--HhCCChhhCeEEeCCEeccccce-----eEecCCCCCCEEEEEE
Confidence            36888999999888 8999999999998888877  99999999999999999977777     8999999999999876


Q ss_pred             ec
Q 034173           89 FN   90 (102)
Q Consensus        89 ~~   90 (102)
                      ..
T Consensus        81 ~s   82 (90)
T 2al3_A           81 VS   82 (90)
T ss_dssp             SS
T ss_pred             cc
Confidence            54

>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=97.39  E-value=0.0013  Score=42.73  Aligned_cols=79  Identities=14%  Similarity=0.117  Sum_probs=61.6

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEE--eCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLV--FRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi--~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      ...+|.||.++|+.+ .-....+.||.+|.+-|..  ..+.+.....|+  |--|.+.++  +.+++|.+.|+.+..+|+
T Consensus        12 ~~t~IqIRlpdG~rl-~~rF~~~~tl~~v~~fV~~--~~~~~~~~f~L~t~fPrk~l~~~--d~~~TL~elgL~psa~L~   86 (109)
T 2dzk_A           12 TIARIQFRLPDGSSF-TNQFPSDAPLEEARQFAAQ--TVGNTYGNFSLATMFPRREFTRE--DYKRRLLDLELAPSASVV   86 (109)
T ss_dssp             CCEEEEEECSSSCEE-EEEECTTSBHHHHHHHHHH--HHTTSSCSCEEECSSSCCBCCTT--TTTSBTGGGTCSSEEEEE
T ss_pred             CcEEEEEECCCCCEE-EEEeCCCCCHHHHHHHHHh--ccCCCCCceEEEcCCCCcCCccc--ccCCCHHHCCCCCceEEE
Confidence            458999999999977 7789999999999999987  555666667776  566777532  234669999999998888


Q ss_pred             EEEecC
Q 034173           86 ISLFNL   91 (102)
Q Consensus        86 l~~~~~   91 (102)
                      +.-...
T Consensus        87 v~~~~~   92 (109)
T 2dzk_A           87 LLPAGR   92 (109)
T ss_dssp             EECCSS
T ss_pred             EEECcC
Confidence            766543

>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=97.01  E-value=0.0033  Score=41.79  Aligned_cols=76  Identities=14%  Similarity=0.159  Sum_probs=60.7

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEE--eCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLV--FRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi--~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      ...+|.||.++|+.+ .-....+.||.+|..-|..  . ++++....|+  |-.|.|...  +.+.+|.+.||.+..+|+
T Consensus        42 ~~t~IqIRlPdG~rl-~~rF~~~~tl~~V~~fV~~--~-~~~~~~F~L~t~fPrk~l~~~--d~~~TL~e~gL~psa~Li  115 (124)
T 1wj4_A           42 PKAQLMLRYPDGKRE-QITLPEQAKLLALVKHVQS--K-GYPNERFELLTNFPRRKLSHL--DYDITLQEAGLCPQETVF  115 (124)
T ss_dssp             CEEEEEEECTTSCEE-EEEEETTSCHHHHHHHHHH--H-HCCTTTEEEECSSSCCEETSS--CSSSCTTTTTCCSSBCCE
T ss_pred             CcEEEEEECCCCCEE-EEEeCCCCCHHHHHHHHHh--c-CCCCCCeEEecCCCCcCCccC--CCCCCHHHCCCCCceEEE
Confidence            469999999999887 7789999999999999986  4 6777788887  567888321  224569999999988888


Q ss_pred             EEEe
Q 034173           86 ISLF   89 (102)
Q Consensus        86 l~~~   89 (102)
                      |.-.
T Consensus       116 v~~~  119 (124)
T 1wj4_A          116 VQES  119 (124)
T ss_dssp             EEEC
T ss_pred             EEEc
Confidence            7543

>4e71_A Plexin-B2, MM1; transmembrane, signaling, RBD, structural genomics consortium, SGC, signaling protein; 2.26A {Homo sapiens}

Probab=96.95  E-value=0.01  Score=39.09  Aligned_cols=79  Identities=11%  Similarity=0.158  Sum_probs=52.6

Q ss_pred             CcEEEEEEcCC--CCCceEEEecCCCcHHHHHHHHHhccCCCCC------CCceEEEe----CCeecCCCCC--------
Q 034173            8 ESVEITVKTIG--PAPPSRLSVSSPIKVRDLRKLIATSSANHLP------IENLRLVF----RGKVLDDTQD--------   67 (102)
Q Consensus         8 ~~i~I~vK~~~--~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip------~~~qrLi~----~Gk~L~D~~t--------   67 (102)
                      .++++.+-...  +..+ .+.|-..+||.++|++|-.+.-.+.|      ++...|.+    .|++|.|...        
T Consensus        10 ~~ltl~v~~~~~~~~~i-~vkVLdCDTItQvKeKiLd~vyk~~pyS~rP~~~~~dLEwr~g~~~~iL~D~D~ts~~~~~w   88 (111)
T 4e71_A           10 APLTVSVIVQDEGVDAI-PVKVLNCDTISQVKEKIIDQVYRGQPCSCWPRPDSVVLEWRPGSTAQILSDLDLTSQREGRW   88 (111)
T ss_dssp             CEEEEEEEETTSCCCCE-EEEEETTCBHHHHHHHHHHHHTC---------CCSEEEEEC--CCCEECCSSCTTSCC---C
T ss_pred             EEEEEEEEecCCCCCce-eeeeeccCcHHHHHHHHHHHHHcCCccccCCCCCceeeEEecCCCCccccccCccceecCcc
Confidence            56777776443  2333 56677889999999999876555544      45566766    3567766431        


Q ss_pred             CCCCCccccCCCCCCEEEEE
Q 034173           68 DDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus        68 ~~~~~L~~~~I~~g~ti~l~   87 (102)
                      ..=-||.+|+|.||.+|-++
T Consensus        89 krLNTL~HY~V~dgatl~l~  108 (111)
T 4e71_A           89 KRVNTLMHYNVRDGATLILS  108 (111)
T ss_dssp             CCCCBHHHHTCCTTCEEEEE
T ss_pred             eEecchhhcCCCCCCEEEEE
Confidence            11157999999999999764

>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=96.91  E-value=0.0072  Score=39.09  Aligned_cols=77  Identities=12%  Similarity=0.070  Sum_probs=60.3

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEE--eCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLV--FRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi--~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      ...+|-||.++|+.+ .-....+.||.+|..-|..  . +..+...+|+  |-.|.|..   +.+.+|.+.||.+..+|+
T Consensus        22 ~~~~IqiRlpdG~r~-~rrF~~~~tl~~v~~fv~~--~-~~~~~~f~L~t~fPrk~l~~---d~~~TL~e~gL~p~a~L~   94 (109)
T 2cr5_A           22 EVVTVALRCPNGRVL-RRRFFKSWNSQVLLDWMMK--V-GYHKSLYRLSTSFPRRALEV---EGGSSLEDIGITVDTVLN   94 (109)
T ss_dssp             SEEEEEEECTTSCEE-EEEEESSSBTHHHHHHHHH--H-TCCTTTEEEECSSSCCBCCC---CSSCBHHHHTCSSCEEEE
T ss_pred             CcEEEEEECCCCCEE-EEEeCCCCCHHHHHHHHHh--c-CCCCCCeEEEeCCCCcCCCC---CCCCCHHHcCCCCCeEEE
Confidence            469999999999987 6788899999999999985  3 4566778886  55777842   234669999999998888


Q ss_pred             EEEecC
Q 034173           86 ISLFNL   91 (102)
Q Consensus        86 l~~~~~   91 (102)
                      |.-+..
T Consensus        95 Ve~~~~  100 (109)
T 2cr5_A           95 VEEKEQ  100 (109)
T ss_dssp             EEECCC
T ss_pred             EEeCCC
Confidence            766554

>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=96.67  E-value=0.013  Score=40.02  Aligned_cols=82  Identities=9%  Similarity=0.116  Sum_probs=53.7

Q ss_pred             CcEEEEEEcCCC------CCceEEEecCCCcHHHHHHHHHhccCCCCC------CCceEEEe----CCe-ecCCCCCCC-
Q 034173            8 ESVEITVKTIGP------APPSRLSVSSPIKVRDLRKLIATSSANHLP------IENLRLVF----RGK-VLDDTQDDD-   69 (102)
Q Consensus         8 ~~i~I~vK~~~~------~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip------~~~qrLi~----~Gk-~L~D~~t~~-   69 (102)
                      .+++|.|-...+      ..+ .+.|=..+||.++|++|-++.-.+.|      ++..-|.+    .|+ +|.|....- 
T Consensus        23 ~~ltl~v~~~~~~~~~~~~~i-~VkVLdCDTItQvKeKiLDavYk~~PySqRP~~~d~dLEwr~g~~g~liL~D~D~tS~  101 (138)
T 2r2o_A           23 RPLTLNALLAVGPGAGEAQGV-PVKVLDCDTISQAKEKMLDQLYKGVPLTQRPDPRTLDVEWRSGVAGHLILSDEDVTSE  101 (138)
T ss_dssp             CEEEEEEEEC-------CCCE-EEEEETTCBHHHHHHHHHHHHTTTSCGGGCCCGGGEEEEEECSSSCEEEECSSSTTCC
T ss_pred             EEEEEEEEccCCcccccCCce-eEEEeccccHHHHHHHHHHHHHcCCccccCCCccceeEEEecCCcCceEeeccCCccc
Confidence            567777755422      233 67777899999999999886656654      44455654    344 365543110 


Q ss_pred             -C------CCccccCCCCCCEEEEEEec
Q 034173           70 -D------RDDVYLQLSNGGNINISLFN   90 (102)
Q Consensus        70 -~------~~L~~~~I~~g~ti~l~~~~   90 (102)
                       +      -+|..|+|.+|.+|-+.-+.
T Consensus       102 ~~~~wkrLNTL~HY~V~Dga~l~l~~~~  129 (138)
T 2r2o_A          102 VQGLWRRLNTLQHYKVPDGATVALVPCL  129 (138)
T ss_dssp             EETTEEECCBHHHHTCCTTCEEEEEEC-
T ss_pred             ccCCceeecchhccCCCCCCEEEEEECC
Confidence             0      36999999999999876554

>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=96.58  E-value=0.0079  Score=43.59  Aligned_cols=64  Identities=20%  Similarity=0.103  Sum_probs=50.5

Q ss_pred             EEEecCCCcHHHHHHHHHhccCCCCCCC-ceEEEe-C----CeecCCCCCCCCCCccccCCCCCCEEEEEEecCCC
Q 034173           24 RLSVSSPIKVRDLRKLIATSSANHLPIE-NLRLVF-R----GKVLDDTQDDDDRDDVYLQLSNGGNINISLFNLDD   93 (102)
Q Consensus        24 ~l~v~~~~TV~~LK~~Ia~~~~~~ip~~-~qrLi~-~----Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~~~~~   93 (102)
                      ++.++...||.+|++.+..  ..+++++ .-||-. .    ...|.|    .+.+|.+++|.+|+.|.+-+++.|.
T Consensus       155 ~~~~Sk~~ti~~l~~~~~~--~~~i~~~~~~RLW~~~~~~~~~~L~~----~~~tl~d~~L~~~Q~illE~r~~dg  224 (231)
T 3jyu_A          155 SCHFSKADTIATIEKEMRK--LFNIPAERETRLWNKYMSNTYEQLSK----LDNTIQDAGLYQGQVLVIEPQNEDG  224 (231)
T ss_dssp             EEEECTTCBHHHHHHHHHH--HTTCCTTSCEEEEECSSSSSCEECCC----TTSBTTTTTCCTTEEEEEEECCTTS
T ss_pred             EEEecccCcHHHHHHHHHH--HhCCCCCCeEEEEEecCCCCHhhhcC----CCCCHHHhCCCCCCEEEEEEecCCC
Confidence            4667889999999999998  9999997 588842 2    233433    2345999999999999999999765

>3h6n_A Plexin-D1; structural genomics consortium, SGC, membrane, transmembrane, receptor, alternative splicing, cell membrane, glycoprotein, polymorphism; 2.00A {Homo sapiens}

Probab=96.45  E-value=0.066  Score=36.01  Aligned_cols=66  Identities=15%  Similarity=0.302  Sum_probs=47.1

Q ss_pred             EEEecCCCcHHHHHHHHHhccCCCCC------CCceEEEe----CCe-ecCCCCCC--------CCCCccccCCCCCCEE
Q 034173           24 RLSVSSPIKVRDLRKLIATSSANHLP------IENLRLVF----RGK-VLDDTQDD--------DDRDDVYLQLSNGGNI   84 (102)
Q Consensus        24 ~l~v~~~~TV~~LK~~Ia~~~~~~ip------~~~qrLi~----~Gk-~L~D~~t~--------~~~~L~~~~I~~g~ti   84 (102)
                      .+.|=..+||.++|++|-.+.-.+.|      ++...|.+    .|+ +|.|....        .=-||.+|+|.||.+|
T Consensus        20 ~VkVLdCDTItQvKeKiLd~vyk~~p~S~rP~~~~~dLEwr~g~~~~~iL~D~D~ts~~~~~~krLNTL~HY~V~dgatv   99 (127)
T 3h6n_A           20 SVRAMDTDTLTQVKEKILEAFCKNVPYSQWPRAEDVDLEWFASSTQSYILRDLDDTSVVEDGRKKLNTLAHYKIPEGASL   99 (127)
T ss_dssp             EEEEETTSBHHHHHHHHHHHHSTTSCGGGSCCGGGEEEEEECSSSCEEECCSSSTTSCEETTEECCCBTTTTTCCTTCEE
T ss_pred             eeeeeccCchhhhhHHHHHHHhccCCcccCCCCcccceEEecCCCCceEeecCCCcceecCceeEeccccccCCCCCCEE
Confidence            66777889999999999876655554      46678876    333 36653311        1157999999999999


Q ss_pred             EEEEe
Q 034173           85 NISLF   89 (102)
Q Consensus        85 ~l~~~   89 (102)
                      -++.+
T Consensus       100 ~l~~~  104 (127)
T 3h6n_A          100 AMSLI  104 (127)
T ss_dssp             EEEEC
T ss_pred             EEEEc
Confidence            88754

>4a3p_A Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {Homo sapiens} PDB: 4a3o_A 3pv1_A 3ppa_A* 3t9l_A 3lmn_A

Probab=96.42  E-value=0.014  Score=41.81  Aligned_cols=64  Identities=22%  Similarity=0.155  Sum_probs=50.0

Q ss_pred             EEEecCCCcHHHHHHHHHhccCCCCCCC-ceEEE--e-C--CeecCCCCCCCCCCccccCCCCCCEEEEEEecCCC
Q 034173           24 RLSVSSPIKVRDLRKLIATSSANHLPIE-NLRLV--F-R--GKVLDDTQDDDDRDDVYLQLSNGGNINISLFNLDD   93 (102)
Q Consensus        24 ~l~v~~~~TV~~LK~~Ia~~~~~~ip~~-~qrLi--~-~--Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~~~~~   93 (102)
                      ++.++...||.+|++.+.+  ..+++++ .-||-  + .  ...|.|    .+.+|.+++|.+|+.|.|-+++.|.
T Consensus       143 ~~~~Sk~~ti~~l~~~~~~--~~~i~~~~~~RlW~~~~~~~~~~L~~----~~~tl~~~~l~~~Q~illE~r~~dg  212 (217)
T 4a3p_A          143 TRRFSKADTIDTIEKEIRK--IFSIPDEKETRLWNKYMSNTFEPLNK----PDSTIQDAGLYQGQVLVIEQKNEDG  212 (217)
T ss_dssp             EEEECTTSBHHHHHHHHHH--HTTCCTTSCEEEEEEEETTEEEECCC----TTSBHHHHTCCTTCEEEEEECCCC-
T ss_pred             EEEEcccchHHHHHHHHHH--HhCCCCCCceEEEEecCCCCeeecCC----CCCCHHHhCCCCCCEEEEEEecCCC
Confidence            5777999999999999998  8999987 57773  3 2  233333    2345999999999999999999765

>2l32_A Small archaeal modifier protein 2; protein BIN; NMR {Haloferax volcanii}

Probab=96.34  E-value=0.014  Score=35.46  Aligned_cols=60  Identities=17%  Similarity=0.283  Sum_probs=43.7

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      |+|+||.. |.....+++++++||++|   ++   ..++|++.--...+|+.+..+.           +.+||+|.+.
T Consensus         1 M~v~Vkl~-g~~~~~~ev~~g~Tv~dL---L~---~Lgl~~~~VvV~vNG~~v~~d~-----------~l~GD~VeIv   60 (74)
T 2l32_A            1 MNVTVEVV-GEETSEVAVDDDGTYADL---VR---AVDLSPHEVTVLVDGRPVPEDQ-----------SVEVDRVKVL   60 (74)
T ss_dssp             CEEEEECS-SSSEEEEECSTTCSHHHH---HH---TTCCCSSCCCEECCCCCCCTTS-----------SSCCCCEEEC
T ss_pred             CEEEEEEe-CccceeEEcCCCCcHHHH---HH---HcCCCcceEEEEECCEECCHHH-----------CCCCCEEEEE
Confidence            67888876 444446899999999997   32   6788998887788999885333           2348888764

>3rpf_C Molybdopterin converting factor, subunit 1 (MOAD); MCSG, PSI-biology, structural genomics, midwest center for S genomics, transferase; 1.90A {Helicobacter pylori}

Probab=96.32  E-value=0.041  Score=32.76  Aligned_cols=65  Identities=15%  Similarity=0.350  Sum_probs=42.1

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCC--CceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPI--ENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~--~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      |.|+||....-.-..+++ ...||.+|.+.+..  ..++..  ..-++..+|+...+.         +.-+++||+|.+
T Consensus         1 M~v~V~~fa~l~~~~~e~-~~~tv~~ll~~L~~--~~~l~~~l~~~~vavN~~~v~~~---------~~~l~~gDeV~i   67 (74)
T 3rpf_C            1 MMVEVRFFGPIKEENFFI-KANDLKELRAILQE--KEGLKEWLGVCAIALNDHLIDNL---------NTPLKDGDVISL   67 (74)
T ss_dssp             CEEEEEECTTCCCCCEEE-ECSSHHHHHHHHHT--CTTTTTTTTTCEEEESSSEECCT---------TCCCCTTCEEEE
T ss_pred             CEEEEEEEeecceeEEee-CCCcHHHHHHHHHH--CcCHHHHhhccEEEECCEEcCCC---------CcCCCCCCEEEE
Confidence            567777544322125677 67899999999986  433322  445666788875432         236999999876

>4e74_A Plexin-A4; RBD, structural genomics, structural genomics consor SGC, signaling protein; 1.58A {Homo sapiens} PDB: 3q3j_A*

Probab=96.11  E-value=0.054  Score=35.91  Aligned_cols=83  Identities=12%  Similarity=0.238  Sum_probs=53.3

Q ss_pred             CcEEEEEEcCCCC--CceEEEecCCCcHHHHHHHHHhccCCCCC------CCceEEEe-CC---e-ecCCCCC-------
Q 034173            8 ESVEITVKTIGPA--PPSRLSVSSPIKVRDLRKLIATSSANHLP------IENLRLVF-RG---K-VLDDTQD-------   67 (102)
Q Consensus         8 ~~i~I~vK~~~~~--~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip------~~~qrLi~-~G---k-~L~D~~t-------   67 (102)
                      .+++|.+-...+.  ....+.|-..+||.++|++|-.+.-.+.|      ++...|.+ .|   + +|.|...       
T Consensus        12 ~~ltl~v~~~~~~~~~~i~VkVLdCDTItQvKeKiLd~vyk~~p~S~rP~~~~~dLEwr~g~~~~~iL~D~D~ts~~~~~   91 (117)
T 4e74_A           12 KTLVLSCVSPDNANSPEVPVKILNCDTITQVKEKILDAIFKNVPCSHRPKAADMDLEWRQGSGARMILQDEDITTKIEND   91 (117)
T ss_dssp             CEEEEEECCC----CCCEEEEEETTSBHHHHHHHHHHHHTTTSCGGGSCCGGGEEEEEECTTSCEEEECSSSTTCCC---
T ss_pred             EEEEEEEEccCCCCCCceEeeeecCCchHHHHHHHHHHHhcCCCcccCCCCCceeEEEecCCCCceEeecCCCccEecCc
Confidence            5677776554322  11256666889999999999876655555      45577765 23   3 3555321       


Q ss_pred             -CCCCCccccCCCCCCEEEEEEec
Q 034173           68 -DDDRDDVYLQLSNGGNINISLFN   90 (102)
Q Consensus        68 -~~~~~L~~~~I~~g~ti~l~~~~   90 (102)
                       ..=-||.+|+|.+|.+|-+.-+.
T Consensus        92 wkrLNTL~HY~V~dgatl~l~~~~  115 (117)
T 4e74_A           92 WKRLNTLAHYQVPDGSVVALVSKQ  115 (117)
T ss_dssp             CCCCCBHHHHTCCTTCEEEEEECC
T ss_pred             ceEeccccccCCCCCCEEEEEeCC
Confidence             11157999999999999876543

>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=96.03  E-value=0.091  Score=39.79  Aligned_cols=82  Identities=16%  Similarity=0.193  Sum_probs=59.2

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCC----CCCCceEEEe------CCeecCCCCCCCCCCccccCCC
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANH----LPIENLRLVF------RGKVLDDTQDDDDRDDVYLQLS   79 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~----ip~~~qrLi~------~Gk~L~D~~t~~~~~L~~~~I~   79 (102)
                      +.++|.-.  +...++.+++++||.+.-.+|.+  +..    -+++.--|..      +|+.|+++.+     |+.|++.
T Consensus         4 ~~~~~~~~--~~~~~~~f~~~~~v~~~~~~i~e--~~~~~~~~~~~~y~l~~~~~~~~~~~Wl~~~~~-----l~~y~~~   74 (371)
T 3ivf_A            4 LSLKISIG--NVVKTMQFEPSTMVYDACRMIRE--RIPEALAGPPNDFGLFLSDDDPKKGIWLEAGKA-----LDYYMLR   74 (371)
T ss_dssp             EEEEEEET--TEEEEEEECTTCBHHHHHHHHHT--TCGGGGSSCGGGEEEEECCSSGGGCEECCTTSB-----GGGGTCC
T ss_pred             EEEEEEec--ceeEEEEECCCCCHHHHHHHHHH--hcccccCCCHHHCeEeccCCCCCcCEeccCCCC-----HHHhCCC
Confidence            45555554  33348999999999999999977  543    3566666654      5778877777     9999999


Q ss_pred             CCCEEEEE-------EecCCCceeeEec
Q 034173           80 NGGNINIS-------LFNLDDLSFQFEF  100 (102)
Q Consensus        80 ~g~ti~l~-------~~~~~~~~~~~~~  100 (102)
                      +|+.|...       |.=+|+....+++
T Consensus        75 ~~~~l~~~~~~~~~~V~l~dg~~~~~~v  102 (371)
T 3ivf_A           75 NGDTMEYRKKQRPLKIRMLDGTVKTIMV  102 (371)
T ss_dssp             TTCEEEEEECEEEEEEECTTSCEEEEEE
T ss_pred             CCceeeccCceeEEEEECcCCCEEEEEE
Confidence            99998876       4445666655554

>1ryj_A Unknown; beta/alpha protein, structural genomics, protein structure initiative, OCSP, NESG, PSI; NMR {Methanothermococcusthermolithotrophicus} SCOP: d.15.3.2

Probab=96.03  E-value=0.061  Score=31.84  Aligned_cols=61  Identities=21%  Similarity=0.375  Sum_probs=45.1

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      .|+|+|.-..++.  .++++...||.+|.+.+.      +++..-....+|..+..+.          -+++||.|-+.
T Consensus         4 ~m~i~vNg~~~~~--~~~~~~~~tv~~Ll~~l~------~~~~~v~vavN~~~v~~~~----------~L~~gD~V~ii   64 (70)
T 1ryj_A            4 GMKFTVITDDGKK--ILESGAPRRIKDVLGELE------IPIETVVVKKNGQIVIDEE----------EIFDGDIIEVI   64 (70)
T ss_dssp             CEEEEEEETTEEE--EEEESSCCBHHHHHHHTT------CCTTTEEEEETTEECCTTS----------BCCTTCEEEEE
T ss_pred             eEEEEEeCccCce--eEECCCCCcHHHHHHHhC------CCCCCEEEEECCEECCCcc----------cCCCCCEEEEE
Confidence            4888887655433  578888899999987763      4566667889999995433          58999998764

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

Probab=95.89  E-value=0.017  Score=36.18  Aligned_cols=49  Identities=12%  Similarity=0.243  Sum_probs=41.7

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCe
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGK   60 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk   60 (102)
                      +..++|+|...  -++ .+.|+++.+..+|.++|++  +.+++++..+|-|+..
T Consensus         3 ~~~~~VKV~~~--~tv-airvp~~~~y~~L~~~l~~--kL~l~~~~~~LsYk~~   51 (83)
T 1oey_A            3 HMAYTLKVHYK--YTV-VMKTQPGLPYSQVRDMVSK--KLELRLEHTKLSYRPR   51 (83)
T ss_dssp             SSCEEEEEESS--SEE-EEEECTTCCHHHHHHHHHH--HTTCCGGGCCEEECCT
T ss_pred             CCcEEEEEEEE--EEE-EEECCCCCCHHHHHHHHHH--HhCCCcceeEEEeeCC
Confidence            34588888875  355 8999999999999999999  9999999999999764

>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=95.59  E-value=0.032  Score=37.04  Aligned_cols=68  Identities=16%  Similarity=0.247  Sum_probs=52.5

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEE--eCCeecCCCCCCCCCCccccCCCCC
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLV--FRGKVLDDTQDDDDRDDVYLQLSNG   81 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi--~~Gk~L~D~~t~~~~~L~~~~I~~g   81 (102)
                      ...+|.||.++|+.+ .-....+.||.+|.+-|.. ...++......|+  |--|.+.|    .+.+|.+.|+.+.
T Consensus        51 ~~t~IqIRlpdG~rl-~~rF~~~~tl~~v~~fV~~-~~~~~~~~~f~L~t~fPrk~l~d----~~~TL~eagL~ps  120 (127)
T 1s3s_G           51 PTTNIQIRLADGGRL-VQKFNHSHRISDIRLFIVD-ARPAMAATSFVLMTTFPNKELAD----ENQTLKEANLLNA  120 (127)
T ss_dssp             CCCCEEEEETTTTEE-EEECCSSCBHHHHHHHHHH-HCSGGGTSCEEEEETTTTEECCS----TTCBHHHHTCSSC
T ss_pred             CcEEEEEECCCCCEE-EEEeCCCCCHHHHHHHHHH-hCcCCCCCCeEEecCCCCCCCCC----CCCcHHHCCCcCc
Confidence            358899999999987 7789999999999999986 1223445667776  56788864    2456999999984

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

Probab=95.54  E-value=0.042  Score=34.86  Aligned_cols=76  Identities=14%  Similarity=0.133  Sum_probs=58.2

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEe---CCeecCCCCCCCCCCccccCCCCCCEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVF---RGKVLDDTQDDDDRDDVYLQLSNGGNI   84 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~---~Gk~L~D~~t~~~~~L~~~~I~~g~ti   84 (102)
                      .++.+-|..+..+.. .+.|+|..++.+|--.|.+  +..+.|+.--|.-   .+..|+     =+++|.+|||++   +
T Consensus         9 ~TvRLvVNy~~tQKt-VvRVSP~vpL~ellp~IC~--Kcefdp~~~~Ll~d~~~~e~Ld-----LskSLndlgirE---L   77 (91)
T 2daj_A            9 KTVRVVINFKKTQKT-IVRVSPHASLQELAPIICS--KCEFDPLHTLLLKDYQSQEPLD-----LTKSLNDLGLRE---L   77 (91)
T ss_dssp             SCEEEEEEETTTEEE-EEEECSSSCTTTHHHHHHH--HTTCCTTSEEEESCSSCCCBCC-----TTSCHHHHTCSE---E
T ss_pred             cEEEEEEeecCccee-EEEeCCCCcHHHHHHHHhh--cccCChhhEEEecCCCCCcccc-----hhcchhhhhhhh---h
Confidence            578888887777666 7999999999999999999  9999999988864   344443     345699999997   5


Q ss_pred             EEEEecCCCcee
Q 034173           85 NISLFNLDDLSF   96 (102)
Q Consensus        85 ~l~~~~~~~~~~   96 (102)
                      +.  +....+|+
T Consensus        78 ya--~d~~~e~~   87 (91)
T 2daj_A           78 YA--MDVNRESG   87 (91)
T ss_dssp             EE--EECCCCCC
T ss_pred             he--eccccccC
Confidence            54  33334444

>3kuz_A Plexin-C1; structural genomics, structural genomics consortium, SGC; 2.30A {Homo sapiens}

Probab=94.96  E-value=0.14  Score=34.29  Aligned_cols=80  Identities=20%  Similarity=0.182  Sum_probs=49.1

Q ss_pred             CcEEEEEEc---CCCC-----CceEEEecCCCcHHHHHHHHHhccC--CCCC----CCceEEEe----CCeecCCCC-CC
Q 034173            8 ESVEITVKT---IGPA-----PPSRLSVSSPIKVRDLRKLIATSSA--NHLP----IENLRLVF----RGKVLDDTQ-DD   68 (102)
Q Consensus         8 ~~i~I~vK~---~~~~-----~~~~l~v~~~~TV~~LK~~Ia~~~~--~~ip----~~~qrLi~----~Gk~L~D~~-t~   68 (102)
                      .++++.+-.   ..+.     ....+.|-..+||.++|++|-.+.-  .++|    ++...|.+    .|+.|.|.. +.
T Consensus        18 ~tLtL~vv~~~~~~~~~~~~~~~v~VkVLdCDTItQVKEKILdavYk~k~~pys~r~~d~dLEwr~g~~~~~L~D~D~tS   97 (126)
T 3kuz_A           18 GTVALNVVFEKIPENESADVCRNISVNVLDCDTIGQAKEKIFQAFLSKNGSPYGLQLNEIGLELQMGTRQKELLDIDSSS   97 (126)
T ss_dssp             CEEEEEEEECCCTTSSCSCSCCEEEEEEETTCBHHHHHHHHHHHHHHHHSSCCSSCGGGEEEEEEETTEEEEECSSCTTC
T ss_pred             EEEEEEEEeeccCCCcCcCcCCceEeeeecCCcHHHHHHHHHHHHhccCCCcCCCCccccceEEecCCCcceeeccCCcc
Confidence            456666665   3221     1125566688999999999976433  3444    45566665    234554432 11


Q ss_pred             -C--C-----CCccccCCCCCCEEEEE
Q 034173           69 -D--D-----RDDVYLQLSNGGNINIS   87 (102)
Q Consensus        69 -~--~-----~~L~~~~I~~g~ti~l~   87 (102)
                       .  +     -||+.|+|.||.+|-+.
T Consensus        98 ~~~e~~wkrLNTL~HY~V~Dgatlal~  124 (126)
T 3kuz_A           98 VILEDGITKLNTIGHYEISNGSTIKVF  124 (126)
T ss_dssp             CBCTTSCBCCCBTGGGTCCTTCEEEEE
T ss_pred             eEecCCeeEeccccccCCCCCCEEEEe
Confidence             1  1     47999999999999754

>1vjk_A Molybdopterin converting factor, subunit 1; structural genomics, PSI, protein structure INI southeast collaboratory for structural genomics; 1.51A {Pyrococcus furiosus} SCOP: d.15.3.1

Probab=94.38  E-value=0.44  Score=29.59  Aligned_cols=67  Identities=18%  Similarity=0.303  Sum_probs=43.9

Q ss_pred             CcEEEEEEcCC------CCCceEEEecCCCcHHHHHHHHHhccCCC-C----------CCCceEEEeCCeecCCCCCCCC
Q 034173            8 ESVEITVKTIG------PAPPSRLSVSSPIKVRDLRKLIATSSANH-L----------PIENLRLVFRGKVLDDTQDDDD   70 (102)
Q Consensus         8 ~~i~I~vK~~~------~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~-i----------p~~~qrLi~~Gk~L~D~~t~~~   70 (102)
                      .+|+|+||...      |..-..++++...||.+|.+.+..  +.. +          ......+..+|+....      
T Consensus         8 ~~~~v~V~~FA~lre~~g~~~~~~e~~~~~Tv~~Ll~~L~~--~~p~l~~~l~~~~g~~~~~v~v~VNg~~v~~------   79 (98)
T 1vjk_A            8 GSVKVKVKYFARFRQLAGVDEEEIELPEGARVRDLIEEIKK--RHEKFKEEVFGEGYDEDADVNIAVNGRYVSW------   79 (98)
T ss_dssp             -CEEEEEEECTHHHHHHSSSEEEEEECTTCBHHHHHHHHHH--HCGGGGGSCBCSSSCTTSSBEEEETTBCCCT------
T ss_pred             CcEEEEEEEhHHHHHHhCCCeEEEECCCCCCHHHHHHHHHh--HChhHHHHhhccccccCCcEEEEECCEECCC------
Confidence            46888888542      322226788888999999999976  321 1          1234556678877742      


Q ss_pred             CCccccCCCCCCEEEE
Q 034173           71 RDDVYLQLSNGGNINI   86 (102)
Q Consensus        71 ~~L~~~~I~~g~ti~l   86 (102)
                          +.-|++||.|.+
T Consensus        80 ----~~~L~dGDeV~i   91 (98)
T 1vjk_A           80 ----DEELKDGDVVGV   91 (98)
T ss_dssp             ----TCBCCTTCEEEE
T ss_pred             ----CCCCCCCCEEEE
Confidence                346999999876

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

Probab=94.06  E-value=0.031  Score=37.40  Aligned_cols=31  Identities=13%  Similarity=0.250  Sum_probs=28.8

Q ss_pred             EEEecCCCcHHHHHHHHHhccCCCCCCCceEEE
Q 034173           24 RLSVSSPIKVRDLRKLIATSSANHLPIENLRLV   56 (102)
Q Consensus        24 ~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi   56 (102)
                      .+.|..++|+.+||.+|++  ..|+|+++|||-
T Consensus        59 ~~rv~k~~~~~~~~~~va~--~lg~~~~~~RlW   89 (130)
T 2kvr_A           59 VFKVLKNSSLAEFVQSLSQ--TMGFPQDQIRLW   89 (130)
T ss_dssp             EEECCTTSBHHHHHHHHHH--HHCCCGGGCEEE
T ss_pred             eEEEeccCcHHHHHHHHHH--HhCCCcccEEEE
Confidence            6788889999999999998  999999999995

>1wgk_A Riken cDNA 2900073H19 protein; THis domain, ubiqutin-like fold, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.15.3.3 PDB: 1xo3_A

Probab=93.72  E-value=0.85  Score=29.55  Aligned_cols=35  Identities=17%  Similarity=0.283  Sum_probs=24.4

Q ss_pred             CcEEEEEEcCCC------CC-ceEEEecC---CCcHHHHHHHHHh
Q 034173            8 ESVEITVKTIGP------AP-PSRLSVSS---PIKVRDLRKLIAT   42 (102)
Q Consensus         8 ~~i~I~vK~~~~------~~-~~~l~v~~---~~TV~~LK~~Ia~   42 (102)
                      ++|+|+|+...+      .. ...++++.   ..||.+|-+.+.+
T Consensus        10 ~~M~v~V~~~~~Lr~~~g~~~~~~vel~~~~~~~TV~~Ll~~L~~   54 (114)
T 1wgk_A           10 APLCVKVEFGGGAELLFDGVKKHQVALPGQEEPWDIRNLLVWIKK   54 (114)
T ss_dssp             CCEEEEEEECTTTGGGTTTCSEEEEEECCCSSCCBHHHHHHHHTT
T ss_pred             CCcEEEEEEchHHHHHhCCceEEEEEeCCCCCCCCHHHHHHHHHH
Confidence            569999996644      21 11477773   3699999999876

>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=93.00  E-value=0.65  Score=38.51  Aligned_cols=82  Identities=9%  Similarity=0.096  Sum_probs=52.4

Q ss_pred             CcEEEEEEcCCC------CCceEEEecCCCcHHHHHHHHHhccCCCCC------CCceEEEe----CCe-ecCCCCCCC-
Q 034173            8 ESVEITVKTIGP------APPSRLSVSSPIKVRDLRKLIATSSANHLP------IENLRLVF----RGK-VLDDTQDDD-   69 (102)
Q Consensus         8 ~~i~I~vK~~~~------~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip------~~~qrLi~----~Gk-~L~D~~t~~-   69 (102)
                      .++++.|-...|      ..+ .+.|-..+||.++|++|-.+.-.|.|      ++...|.+    .|+ +|.|.+..- 
T Consensus       256 ~~ltL~v~~~~~~~~~~~~~i-~VkVLdCDTItQVKeKiLDavYk~~pyS~rP~~~~~dLEwr~g~~g~~iL~D~D~ts~  334 (644)
T 3hm6_X          256 RPLTLNALLAVGPGAGEAQGV-PVKVLDCDTISQAKEKMLDQLYKGVPLTQRPDPRTLDVEWRSGVAGHLILSDEDVTSE  334 (644)
T ss_dssp             CEEEEEEECC-------CCCE-EEEEETTSBHHHHHHHHHHHHTTTSCGGGSCCGGGEEEEEECSSSCEEEECSSSTTCC
T ss_pred             eeEEEEEeecCccccCCCCce-eeEeeccCcHHHHHHHHHHHHHcCCCcccCCCCCCcceEEeeCCCCceeecccCccce
Confidence            457777755432      223 66777899999999999865545544      45566665    233 355543110 


Q ss_pred             -------CCCccccCCCCCCEEEEEEec
Q 034173           70 -------DRDDVYLQLSNGGNINISLFN   90 (102)
Q Consensus        70 -------~~~L~~~~I~~g~ti~l~~~~   90 (102)
                             =-||.+|+|.||.+|-+.-+.
T Consensus       335 ~~~~wkrLNTL~HY~V~dga~v~L~p~~  362 (644)
T 3hm6_X          335 VQGLWRRLNTLQHYKVPDGATVALVPCL  362 (644)
T ss_dssp             EETTEEECCBTTTTTCCTTCEEEEEEC-
T ss_pred             ecCcceeecchhhcCCCCCcEEEEEecc
Confidence                   146999999999999875443

>3onh_A Ubiquitin-activating enzyme E1-like; ligase, SUMO conjugation, UBC9; 1.60A {Saccharomyces cerevisiae} PDB: 3ong_A

Probab=92.33  E-value=0.29  Score=32.82  Aligned_cols=63  Identities=27%  Similarity=0.261  Sum_probs=45.3

Q ss_pred             EEEecC----CCcHHHHHHHHHhccCCCCCCCceEEEe--CCeecCCCCCCCC--CCccccCCCCCCEEEEEEe
Q 034173           24 RLSVSS----PIKVRDLRKLIATSSANHLPIENLRLVF--RGKVLDDTQDDDD--RDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        24 ~l~v~~----~~TV~~LK~~Ia~~~~~~ip~~~qrLi~--~Gk~L~D~~t~~~--~~L~~~~I~~g~ti~l~~~   89 (102)
                      .+.|++    .+|..+|=+.+..  +.|+.. ...+.-  ..+.|-|-.-+|+  ++|++.|+++|+.|.++=.
T Consensus         9 vl~v~~~dl~~~TL~dLV~~l~~--~~gy~~-eiSV~~~~~~rLLyD~DfDDnl~k~L~dLgv~~gsfLtv~DE   79 (127)
T 3onh_A            9 VIKLSSDCLNKMKLSDFVVLIRE--KYSYPQ-DISLLDASNQRLLFDYDFEDLNDRTLSEINLGNGSIILFSDE   79 (127)
T ss_dssp             EEEECHHHHHHCBHHHHHHHHHH--HHTCCS-SEEEEETTTTEEEEETTBCTTTTSBTTTTTCCTTCEEEEEES
T ss_pred             EEEeCcccccccCHHHHHHHHHH--hcCCCC-cEEEEecCCCCeEeCCCccccccCcHHHcCcCCCcEEEEEcc
Confidence            466764    3799998888877  777764 555542  4566666665555  8899999999999988744

>2juo_A GA-binding protein alpha chain; OST, ubiquitin, transcription factor, ensemble, DNA-binding, nucleus, transcription regulation; NMR {Mus musculus}

Probab=92.13  E-value=0.28  Score=30.90  Aligned_cols=58  Identities=12%  Similarity=0.229  Sum_probs=50.3

Q ss_pred             EEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           25 LSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        25 l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      -.++-..++..||+.++.  +.+++-..-.+..++..|.++++     |.+-+++-...|.+++.
T Consensus         7 qhmDI~epL~~Lk~LLe~--Rl~i~L~~y~f~LQd~~L~~~k~-----LvdQcVqgeGlVQinvq   64 (89)
T 2juo_A            7 QAIDINEPIGNLKKLLEP--RLQCSLDAHEICLQDIQLDPDRS-----LFDQGVKTDGTVQLSVQ   64 (89)
T ss_dssp             EEEESSSBGGGHHHHSHH--HHCSCCSSCEEEETTEECCTTSB-----TTTSSCCCCSEEEEEEE
T ss_pred             hhccccCcHHHHHHHHHH--HhcCCcccCeEEeeccccCCCcc-----HHHhhcccccEEEEEEE
Confidence            356777889999999999  99999999888889999988777     99999999998887763

>4eut_A Serine/threonine-protein kinase TBK1; ATP binding, phosphorylation, transferase-transferas inhibitor complex; HET: BX7; 2.60A {Homo sapiens}

Probab=91.73  E-value=0.55  Score=35.00  Aligned_cols=47  Identities=15%  Similarity=0.260  Sum_probs=37.5

Q ss_pred             EEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeec
Q 034173           14 VKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVL   62 (102)
Q Consensus        14 vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L   62 (102)
                      +-.+.......+.+.+..|+.++++.+++  .++++++.|.|++.+..+
T Consensus       315 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~t~i~~~~q~~l~~~~~~  361 (396)
T 4eut_A          315 VFSLQQMTAHKIYIHSYNTATIFHELVYK--QTKIISSNQELIYEGRRL  361 (396)
T ss_dssp             EEETTTTEEEEEEECTTCBHHHHHHHHHH--HHCCCSTTEEEESSSSEE
T ss_pred             EEEeccceEEEEEcCchhHHHHHHHHHHH--hcCCChhhhHHHhcCCCC
Confidence            33344444446788899999999999999  999999999999998433

>3ig3_A Plxna3 protein; plexin intracellular GAP RBD inactive, membrane, transmembra membrane protein, signaling protein; 1.99A {Mus musculus} PDB: 3ryt_A*

Probab=91.18  E-value=1.3  Score=36.57  Aligned_cols=83  Identities=10%  Similarity=0.157  Sum_probs=53.6

Q ss_pred             CcEEEEEEcCCCC--CceEEEecCCCcHHHHHHHHHhccCCCCC------CCceEEEe----CCe-ecCCCCCCC-----
Q 034173            8 ESVEITVKTIGPA--PPSRLSVSSPIKVRDLRKLIATSSANHLP------IENLRLVF----RGK-VLDDTQDDD-----   69 (102)
Q Consensus         8 ~~i~I~vK~~~~~--~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip------~~~qrLi~----~Gk-~L~D~~t~~-----   69 (102)
                      .++++.+-...+.  ....+.|-..+||.++|++|-.+.-.+.|      ++...|.+    .|+ +|.|.....     
T Consensus       232 ~~ltL~v~~~~~~~~~~i~vkVLdCDTItQVKeKiLdavYk~~pyS~rP~~~~~dLEwr~g~~g~~iL~D~D~ts~~~~~  311 (627)
T 3ig3_A          232 KTLTLHCVCPESEGSAQVPVKVLNCDSITQAKDKLLDTVYKGIPYSQRPKAEDMDLEWRQGRMARIILQDEDITTKIECD  311 (627)
T ss_dssp             CEEEEEEECTTTC--CEEEEEEETTCBHHHHHHHHHHHHTTTSCGGGSCCGGGEEEEEESCSSCEEEECSSSTTCCEETT
T ss_pred             eeEEEEEeccCCCCCCceeeEeeccCcHHHHHHHHHHHHHcCCCcccCCCCCccceeEeeCCCCceeeccCCccccccCc
Confidence            4677777655432  22256667889999999999875544544      55677765    233 355433110     


Q ss_pred             ---CCCccccCCCCCCEEEEEEec
Q 034173           70 ---DRDDVYLQLSNGGNINISLFN   90 (102)
Q Consensus        70 ---~~~L~~~~I~~g~ti~l~~~~   90 (102)
                         =-||.+|+|.||.+|-+.-+.
T Consensus       312 wkrLNTL~HY~V~Dga~v~L~p~~  335 (627)
T 3ig3_A          312 WKRVNSLAHYQVTDGSLVALVPKQ  335 (627)
T ss_dssp             EEECCBTTTTTCCTTCEEEEEEC-
T ss_pred             eeEecchhhcCCCCCceEEEEecc
Confidence               146999999999999876544

>2kmm_A Guanosine-3',5'-BIS(diphosphate) 3'- pyrophosphohydrolase; methods development, TGS domain, predominantly beta-sheet structure; NMR {Porphyromonas gingivalis}

Probab=91.01  E-value=0.42  Score=27.63  Aligned_cols=62  Identities=13%  Similarity=0.073  Sum_probs=39.1

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      |.|+|..++|+.   .+++.+.|+.+|-+.+..  .  ++....-...+|+..+         | ++-|.+|+.|-+.-
T Consensus         1 m~i~i~~p~g~~---~~~~~g~T~~dla~~i~~--~--l~~~~vaa~vNg~lvd---------l-~~~L~~~~~Veivt   62 (73)
T 2kmm_A            1 MEVMVFTPKGEI---KRLPQGATALDFAYSLHS--D--LGDHCIGAKVNHKLVP---------L-SYVLNSGDQVEVLS   62 (73)
T ss_dssp             CCEEEECTTCCE---EEECTTCBHHHHHHHHCS--H--HHHTEEEEEETTEECC---------T-TCBCCSSSBEEEEE
T ss_pred             CeEEEEcCCCCE---EEcCCCCcHHHHHHHHhh--c--cccceEEEEECCEEeC---------C-CcCcCCCCEEEEEE
Confidence            567777777753   678889999999877732  1  1112222245777763         2 35677888876643

>1fm0_D Molybdopterin convertin factor, subunit 1; molybdenum cofactor biosynthesis, transferase; 1.45A {Escherichia coli} SCOP: d.15.3.1 PDB: 1fma_D 1jw9_D 1jwa_D* 1jwb_D* 3bii_D 1nvi_D

Probab=90.68  E-value=1.1  Score=26.27  Aligned_cols=47  Identities=17%  Similarity=0.196  Sum_probs=32.6

Q ss_pred             cCCCcHHHHHHHHHhccCCC-----CCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173           28 SSPIKVRDLRKLIATSSANH-----LPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus        28 ~~~~TV~~LK~~Ia~~~~~~-----ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      +...||.+|.+.+..  ...     ++.....+..+|+....          +.-+++||.|.+
T Consensus        23 ~~~~tv~~ll~~L~~--~~p~~~~~l~~~~~~v~vN~~~v~~----------~~~l~~gD~V~i   74 (81)
T 1fm0_D           23 ADFPTVEALRQHMAA--QSDRWALALEDGKLLAAVNQTLVSF----------DHPLTDGDEVAF   74 (81)
T ss_dssp             SCCSBHHHHHHHHHT--TCHHHHHHHCCTTCEEEETTEECCT----------TCBCCTTCEEEE
T ss_pred             CCCCCHHHHHHHHHH--HChhHHHHhcCCCEEEEECCEECCC----------CCCCCCCCEEEE
Confidence            467899999999975  421     22234467788888742          235899999876

>1y8x_B Ubiquitin-activating enzyme E1C; ubiquitin-conjugating enzyme E2 M, ligase; 2.40A {Homo sapiens} SCOP: c.111.1.2 PDB: 3fn1_A

Probab=90.68  E-value=0.82  Score=29.11  Aligned_cols=62  Identities=13%  Similarity=0.296  Sum_probs=40.5

Q ss_pred             EEEecCCCcHHHHHHHHHhccCCCCCCC-----------ceEEEeCC-eecCCCCCCC--CCCccccCCCCCCEEEEEE
Q 034173           24 RLSVSSPIKVRDLRKLIATSSANHLPIE-----------NLRLVFRG-KVLDDTQDDD--DRDDVYLQLSNGGNINISL   88 (102)
Q Consensus        24 ~l~v~~~~TV~~LK~~Ia~~~~~~ip~~-----------~qrLi~~G-k~L~D~~t~~--~~~L~~~~I~~g~ti~l~~   88 (102)
                      .+++++++|+.+|-+.+.+  ...+.-.           ...|+.++ ..|+. .|..  +++|.+.|+.+|+.|+|+=
T Consensus         8 ~l~v~~~~TL~~lid~L~~--~p~~qlk~PSltt~~~~~~k~LYmq~pp~Lee-~Tr~NL~k~l~eLgl~~g~ei~VtD   83 (98)
T 1y8x_B            8 NIQFSPSAKLQEVLDYLTN--SASLQMKSPAITATLEGKNRTLYMQSVTSIEE-RTRPNLSKTLKELGLVDGQELAVAD   83 (98)
T ss_dssp             CEECCTTCBHHHHHHHHHH--CTTCCCSSCEEEEEETTEEEEEECSSCHHHHH-HHHHHHHSBSGGGTCCTTCEEEEEC
T ss_pred             EEEECCchhHHHHHHHHHh--ChHhhccCCeeeeecCCCCCeEEEeCcHHHHH-HhHhhhhCCHHHhCCCCCCEEEEEC
Confidence            6899999999999999988  4332222           34444444 22221 0100  1459999999999999853

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

Probab=90.01  E-value=1.2  Score=27.98  Aligned_cols=79  Identities=10%  Similarity=0.090  Sum_probs=49.6

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCc-eEEEeCCeecCCCCC-CCC----CCccccCCCC
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIEN-LRLVFRGKVLDDTQD-DDD----RDDVYLQLSN   80 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~-qrLi~~Gk~L~D~~t-~~~----~~L~~~~I~~   80 (102)
                      +..|+|++-.. |... .+.++++.+..+|.+++.+  ..+++.++ ..+-|.... .|.-+ ..+    ..|.-|.+..
T Consensus         4 ~~~vkvK~~~~-gdi~-~~~v~~~i~~~~L~~kv~~--~~~~~~~~~f~lky~DEe-GD~itisSd~EL~eAl~l~~~n~   78 (89)
T 1vd2_A            4 GSQVRVKAYYR-GDIM-ITHFEPSISFEGLCNEVRD--MCSFDNEQLFTMKWIDEE-GDPCTVSSQLELEEAFRLYELNK   78 (89)
T ss_dssp             SSCEEEEEESS-SCEE-EEEECTTCCHHHHHHHHHH--HTTCCSSCCEEEEECCSS-SCCEECCSHHHHHHHHHHHHHTS
T ss_pred             CCeEEEEEEeC-CeEE-EEECCCCCCHHHHHHHHHH--HhCCCCCCeEEEEEECCC-CCcccccCHHHHHHHHHHHHccC
Confidence            45577777664 4544 8999999999999999998  88877555 777665432 11111 000    2234445555


Q ss_pred             CCEEEEEEec
Q 034173           81 GGNINISLFN   90 (102)
Q Consensus        81 g~ti~l~~~~   90 (102)
                      ...+.+.|.+
T Consensus        79 ~~~l~ihvf~   88 (89)
T 1vd2_A           79 DSELLIHVFP   88 (89)
T ss_dssp             CCCEEEEEEE
T ss_pred             CCCEEEEEcc
Confidence            6666666654

>3po0_A Small archaeal modifier protein 1; ubiquitin-like protein, protein binding; 1.55A {Haloferax volcanii} PDB: 2l83_A

Probab=89.90  E-value=1.9  Score=25.85  Aligned_cols=51  Identities=16%  Similarity=0.227  Sum_probs=35.3

Q ss_pred             EEEecCCCcHHHHHHHHHhccCCC-C-----C-----CCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173           24 RLSVSSPIKVRDLRKLIATSSANH-L-----P-----IENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus        24 ~l~v~~~~TV~~LK~~Ia~~~~~~-i-----p-----~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      .++++...||.+|.+.+..  +.. +     .     ....++..+|+....          +.-+++||.|.+
T Consensus        21 ~~~~~~~~Tv~~ll~~L~~--~~p~~~~~~l~~~g~l~~~~~v~VN~~~v~~----------~~~l~~gDeV~i   82 (89)
T 3po0_A           21 RVDVDGDATVGDALDALVG--AHPALESRVFGDDGELYDHINVLRNGEAAAL----------GEATAAGDELAL   82 (89)
T ss_dssp             EEECCTTCBHHHHHHHHHH--HCGGGHHHHBCTTSCBCTTSEEEETTEECCT----------TSBCCTTCEEEE
T ss_pred             EEECCCCCcHHHHHHHHHH--HCcHHHHHHhccCCcccccEEEEECCEECCC----------CcccCCCCEEEE
Confidence            6778788999999999986  431 1     0     012466678887743          335899999876

>2k9x_A Tburm1, uncharacterized protein; unknown function; NMR {Trypanosoma brucei}

Probab=88.97  E-value=0.24  Score=32.08  Aligned_cols=71  Identities=21%  Similarity=0.263  Sum_probs=39.0

Q ss_pred             cEEEEEEcCCC------CCceEEEecC----CCcHHHHHHHHHhccCCCCCCCceEEEe-CC--e------ecCCCCCCC
Q 034173            9 SVEITVKTIGP------APPSRLSVSS----PIKVRDLRKLIATSSANHLPIENLRLVF-RG--K------VLDDTQDDD   69 (102)
Q Consensus         9 ~i~I~vK~~~~------~~~~~l~v~~----~~TV~~LK~~Ia~~~~~~ip~~~qrLi~-~G--k------~L~D~~t~~   69 (102)
                      .|+|+||...+      +.. .++++.    .+||.+|=+.+++  .  ++..+-+|.. .|  .      +|-|+.-  
T Consensus         4 ~m~v~V~f~g~l~~l~g~~~-~v~l~~~~g~~~TV~dLl~~L~~--~--~~~~r~~lf~~~g~~~lrpgIlVLVNg~d--   76 (110)
T 2k9x_A            4 HNHITVQFAGGCELLFAKQT-SLQLDGVVPTGTNLNGLVQLLKT--N--YVKERPDLLVDQTGQTLRPGILVLVNSCD--   76 (110)
T ss_dssp             SSCCEEEEESSCGGGTTSCS-EECCCCSCGGGCCHHHHHHHHTT--T--TCCSCHHHHBCSSSSSBCTTEEEEESSSB--
T ss_pred             ccEEEEEEEecHHHHhCCeE-EEEeCCcCCCCccHHHHHHHHHH--H--ccccchhhEecCCCcccCCCeEEEECCee--
Confidence            47777776544      433 677773    2599998888865  3  3444444431 23  1      2322211  


Q ss_pred             CCCc--cccCCCCCCEEEE
Q 034173           70 DRDD--VYLQLSNGGNINI   86 (102)
Q Consensus        70 ~~~L--~~~~I~~g~ti~l   86 (102)
                      =+-|  .+|-+++||.|.+
T Consensus        77 ~e~l~gldt~L~dgD~V~f   95 (110)
T 2k9x_A           77 AEVVGGMDYVLNDGDTVEF   95 (110)
T ss_dssp             HHHHTSSCCCCCSSCEEEE
T ss_pred             eeccCCcccCCCCcCEEEE
Confidence            0001  2467999999765

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

Probab=88.85  E-value=0.25  Score=39.72  Aligned_cols=31  Identities=13%  Similarity=0.250  Sum_probs=29.0

Q ss_pred             EEEecCCCcHHHHHHHHHhccCCCCCCCceEEE
Q 034173           24 RLSVSSPIKVRDLRKLIATSSANHLPIENLRLV   56 (102)
Q Consensus        24 ~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi   56 (102)
                      .+.|...+|+.+||++||+  ..|+|+++|||-
T Consensus        39 ~~rv~k~~~~~~l~~~va~--~lg~~~~~~RlW   69 (530)
T 2ylm_A           39 VFKVLKNSSLAEFVQSLSQ--TMGFPQDQIRLW   69 (530)
T ss_dssp             EEEEETTSBHHHHHHHHHH--HHTSCGGGEEEE
T ss_pred             eEEEcCcCCHHHHHHHHHH--HhCcCcccEEEE
Confidence            6889999999999999998  999999999994

>2qjl_A URM1, ubiquitin-related modifier 1; ubiquitin-like protein, signaling protein; 1.44A {Saccharomyces cerevisiae} PDB: 2pko_A 2ax5_A

Probab=88.34  E-value=2.3  Score=26.27  Aligned_cols=33  Identities=21%  Similarity=0.362  Sum_probs=22.2

Q ss_pred             EEEEEEcC------C-CCCceEEEec--CCCcHHHHHHHHHh
Q 034173           10 VEITVKTI------G-PAPPSRLSVS--SPIKVRDLRKLIAT   42 (102)
Q Consensus        10 i~I~vK~~------~-~~~~~~l~v~--~~~TV~~LK~~Ia~   42 (102)
                      |+|+||..      - |..-..++++  ...||.+|.+.+.+
T Consensus         2 M~i~V~~fa~lre~~~g~~~~~~~l~~~~~~Tv~~L~~~L~~   43 (99)
T 2qjl_A            2 VNVKVEFLGGLDAIFGKQRVHKIKMDKEDPVTVGDLIDHIVS   43 (99)
T ss_dssp             EEEEEEEETTGGGGTTTCCEEEEEECSCSCCBHHHHHHHHHH
T ss_pred             cEEEEEEchHHHHHhCCCcEEEEecCCCCCCcHHHHHHHHHH
Confidence            66777633      1 3332245666  67899999999986

>2q5w_D Molybdopterin converting factor, subunit 1; MOCO, MPT synthase, MOAD, MOAE, transferase, molybdenum cofactor biosynthesis; 2.00A {Staphylococcus aureus} PDB: 2qie_B*

Probab=87.84  E-value=0.63  Score=27.21  Aligned_cols=50  Identities=8%  Similarity=0.231  Sum_probs=35.0

Q ss_pred             EEEecCCCcHHHHHHHHHhccCCCCCCCce--EEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173           24 RLSVSSPIKVRDLRKLIATSSANHLPIENL--RLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus        24 ~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~q--rLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      .++++...||.+|.+.+..  ... .....  .+..+|+....+          .-+++||.|.+
T Consensus        19 ~~~~~~~~tv~~ll~~l~~--~~p-~~~~v~~~v~vNg~~v~~~----------~~L~~gD~V~i   70 (77)
T 2q5w_D           19 DIVLEQALTVQQFEDLLFE--RYP-QINNKKFQVAVNEEFVQKS----------DFIQPNDTVAL   70 (77)
T ss_dssp             ECCCSSCEEHHHHHHHHHH--HCG-GGTTCCCEEEETTEEECTT----------SEECTTCEEEE
T ss_pred             EEECCCCCCHHHHHHHHHH--HCc-chhcceEEEEECCEECCCC----------CCcCCCCEEEE
Confidence            4566778899999999876  321 11334  677889888532          35899999876

>2c7h_A RBBP6, retinoblastoma-binding protein 6, isoform 3; P53-associated, mRNA processing, splicing-associated, oesophageal cancer; NMR {Homo sapiens}

Probab=86.62  E-value=2.8  Score=26.12  Aligned_cols=40  Identities=15%  Similarity=0.085  Sum_probs=31.1

Q ss_pred             CcEEEEEEcCCCCCceEEEecC-CCcHHHHHHHHHhccCCC
Q 034173            8 ESVEITVKTIGPAPPSRLSVSS-PIKVRDLRKLIATSSANH   47 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~-~~TV~~LK~~Ia~~~~~~   47 (102)
                      .+-.|+.|..+.+.+..+.++. ..+|.+||+.|.++.+.+
T Consensus         5 ~mS~V~YKFkS~k~~~~v~fdG~~Isv~dLKr~I~~~~kl~   45 (86)
T 2c7h_A            5 SMSCVHYKFSSKLNYDTVTFDGLHISLCDLKKQIMGREKLK   45 (86)
T ss_dssp             TBEEEEEEETTCSSEEEEEESSSEEEHHHHHHHHHHHHTCC
T ss_pred             ceeEEEEEEeecCCcceEEEcCCEEEHHHHHHHHHHHhCCC
Confidence            3456888888888887888875 599999999999833443

>3dwg_C 9.5 kDa culture filtrate antigen CFP10A; sulfur carrier protein complex, beta-grAsp fold, amino-acid biosynthesis; HET: PLP; 1.53A {Mycobacterium tuberculosis} PDB: 3dwm_A

Probab=86.23  E-value=3.9  Score=24.67  Aligned_cols=54  Identities=7%  Similarity=0.095  Sum_probs=34.3

Q ss_pred             EEEecCCCcHHHHHHHHHhccCCC-C-----C-------CCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173           24 RLSVSSPIKVRDLRKLIATSSANH-L-----P-------IENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus        24 ~l~v~~~~TV~~LK~~Ia~~~~~~-i-----p-------~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      .+++ ...||.+|.+.+..  +.. +     .       ....++..+|+...+...      .+.-|++||+|.+
T Consensus        20 ~~~~-~~~Tv~~ll~~L~~--~~p~l~~~l~~~~~~g~~~~~~~v~VN~~~v~~~~~------~~~~L~~gDeV~i   86 (93)
T 3dwg_C           20 SVSA-SGDTLGAVISDLEA--NYSGISERLMDPSSPGKLHRFVNIYVNDEDVRFSGG------LATAIADGDSVTI   86 (93)
T ss_dssp             EEEE-CCSBHHHHHHHHHH--HSTTHHHHHBCSSSTTSBCTTEEEEETTEEGGGTTG------GGCBCCTTCEEEE
T ss_pred             EEec-CCCCHHHHHHHHHH--HChhHHHHHhccccCCcccCCEEEEECCEEccCcCC------CCcCCCCCCEEEE
Confidence            4664 56899999999986  431 0     0       113556678887743111      2456999999876

>1tyg_B YJBS; alpha beta barrel, protein-protein complex, THis, BIOS protein; 3.15A {Bacillus subtilis} SCOP: d.15.3.2

Probab=85.79  E-value=2  Score=26.55  Aligned_cols=62  Identities=10%  Similarity=0.058  Sum_probs=41.6

Q ss_pred             CcEEEEEEcCCCCCceEEEecCC-CcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSP-IKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~-~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      .+|+|+|   +|+   .++++.. .||.+|.+.+.      +++....+..+|+.+..+.      ..+.-|++||.|-+
T Consensus        19 ~~M~I~v---NGe---~~el~~~~~Tv~dLL~~L~------~~~~~vaVavNg~iV~~~~------~~~~~L~dGD~Vei   80 (87)
T 1tyg_B           19 GRHMLQL---NGK---DVKWKKDTGTIQDLLASYQ------LENKIVIVERNKEIIGKER------YHEVELCDRDVIEI   80 (87)
T ss_dssp             ---CEEE---TTE---EECCSSSCCBHHHHHHHTT------CTTSCCEEEETTEEECGGG------TTTSBCCSSSEEEE
T ss_pred             cceEEEE---CCE---EEECCCCCCcHHHHHHHhC------CCCCCEEEEECCEECChhh------cCCcCCCCCCEEEE
Confidence            4566654   454   3577787 89999977663      5566677889999985322      33457999999976


Q ss_pred             E
Q 034173           87 S   87 (102)
Q Consensus        87 ~   87 (102)
                      .
T Consensus        81 ~   81 (87)
T 1tyg_B           81 V   81 (87)
T ss_dssp             E
T ss_pred             E
Confidence            4

>1ip9_A BEM1 protein; ubiquitin alpha/beta roll, signaling protein; NMR {Saccharomyces cerevisiae} SCOP: d.15.2.2 PDB: 1ipg_A 2kfk_A

Probab=85.79  E-value=3.2  Score=25.91  Aligned_cols=47  Identities=13%  Similarity=-0.058  Sum_probs=32.9

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCe
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGK   60 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk   60 (102)
                      .|+|+|=.-+ ..+ .+.|+++.+..+|+.+|.+  +..+. +.+-+.|++.
T Consensus        12 ~~KVK~yy~D-DIi-AIrvP~di~~~~L~dKi~~--RLk~~-~~~l~~ykde   58 (85)
T 1ip9_A           12 TTKIKFYYKD-DIF-ALMLKGDTTYKELRSKIAP--RIDTD-NFKLQTKLFD   58 (85)
T ss_dssp             CEEEEECBTT-CCE-EEEECSCCCHHHHHHHHHH--HHTSS-CEEEEECCSS
T ss_pred             ceEEEEEecC-cEE-EEECCCCCCHHHHHHHHHH--Hhccc-ceEEEEecCC
Confidence            4666665644 455 8999999999999999998  66652 3333345544

>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=84.26  E-value=8.3  Score=28.83  Aligned_cols=78  Identities=10%  Similarity=0.018  Sum_probs=52.7

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCC-CCceEEEeCCe-----ecCCCCCCCCCCccccCCCCC
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLP-IENLRLVFRGK-----VLDDTQDDDDRDDVYLQLSNG   81 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip-~~~qrLi~~Gk-----~L~D~~t~~~~~L~~~~I~~g   81 (102)
                      ..+.+.|..++|... .+.+++.+|+.+|=+.|+.  ..++. .+-.-|.+...     ...++. +-++.+.+.+....
T Consensus        84 ~~~~~~V~l~dg~~~-~~~vd~~tt~~el~~~v~~--~l~L~e~~~FgL~~~~~~~~~~~~~~wL-~~~k~l~~q~~~~~  159 (371)
T 3ivf_A           84 KQRPLKIRMLDGTVK-TIMVDDSKTVTDMLMTICA--RIGITNHDEYSLVRELMEEKKDDELNWL-DHGRTLREQGVEEH  159 (371)
T ss_dssp             CEEEEEEECTTSCEE-EEEEETTSBHHHHHHHHHH--HTTCSCGGGEEEECCC----------CC-CTTSBTGGGTCCTT
T ss_pred             ceeEEEEECcCCCEE-EEEECCCCCHHHHHHHHHH--HcCCCCccccEEEEEecccccchHHHHH-hcCchhHhhCCCCC
Confidence            458888999999887 8999999999999999998  77765 33466655321     111111 22344777666666


Q ss_pred             CEEEEEEe
Q 034173           82 GNINISLF   89 (102)
Q Consensus        82 ~ti~l~~~   89 (102)
                      .++++.++
T Consensus       160 ~~l~frvK  167 (371)
T 3ivf_A          160 ETLLLRRK  167 (371)
T ss_dssp             CEEEEEEC
T ss_pred             ceEEEEEE
Confidence            77777554

>1wgr_A Growth factor receptor-bound protein 7; RA domain, GRB7, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.15.1.5

Probab=83.93  E-value=3.4  Score=26.30  Aligned_cols=71  Identities=14%  Similarity=0.145  Sum_probs=48.7

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCc-eEEE------eCCeecCCCCCCCCCCccc----c
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIEN-LRLV------FRGKVLDDTQDDDDRDDVY----L   76 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~-qrLi------~~Gk~L~D~~t~~~~~L~~----~   76 (102)
                      ..+-|+|=..+|+.. .+.|++++|+.++=+++++  +.++..+. .-|+      +--|.++|.+.     |.+    +
T Consensus         8 ~k~vvkvf~~Dgssk-si~V~~~~Ta~dv~~~L~~--K~~~~~~~~WaLvE~~P~L~~ER~~EDHE~-----vvevl~~W   79 (100)
T 1wgr_A            8 RPHVVKVYSEDGACR-SVEVAAGATARHVCEMLVQ--RAHALSDETWGLVECHPHLALERGLEDHES-----VVEVQAAW   79 (100)
T ss_dssp             SCEEEEEEETTSCEE-EEEECTTCCHHHHHHHHHC--SSSCCCCCCCCEEEEETTTTEEEEECSSSC-----HHHHHTTS
T ss_pred             CCEEEEEEecCCCEE-EEEECCCCcHHHHHHHHHH--HcCCCCCCCeEEEEecCCCCcEEeccCchh-----HHHHHhhC
Confidence            445555666788776 8999999999999999998  88766443 3332      24477887775     443    4


Q ss_pred             CCCCCCEEEE
Q 034173           77 QLSNGGNINI   86 (102)
Q Consensus        77 ~I~~g~ti~l   86 (102)
                      .+.....+++
T Consensus        80 ~~~s~nr~~F   89 (100)
T 1wgr_A           80 PVGGDSRFVF   89 (100)
T ss_dssp             CSSSCCEEEE
T ss_pred             ccCCCcEEEE
Confidence            4555556554

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

Probab=80.59  E-value=9.8  Score=27.65  Aligned_cols=72  Identities=13%  Similarity=0.163  Sum_probs=49.5

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCC-ceEEEe--CCe--ecCCCCCCCCCCccccCCCCCC
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIE-NLRLVF--RGK--VLDDTQDDDDRDDVYLQLSNGG   82 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~-~qrLi~--~Gk--~L~D~~t~~~~~L~~~~I~~g~   82 (102)
                      ..+.+.|..++| .. .+.+++.+|+.+|=+.|+.  ..++... -.-|.|  .|.  .|+.++.     |.+..++.+.
T Consensus        21 ~~~~~~V~lldg-~~-~~~v~~~t~~~el~~~v~~--~l~L~e~~~FgL~~~~~~~~~wL~~~~~-----i~~q~~~~~~   91 (314)
T 1h4r_A           21 KTFTVRIVTMDA-EM-EFNCEMKWKGKDLFDLVCR--TLGLRETWFFGLQYTIKDTVAWLKMDKK-----VLDHDVSKEE   91 (314)
T ss_dssp             CEEEEEEECSSC-EE-EEEEETTCBHHHHHHHHHH--HHTCCCGGGEEEEEEETTEEEECCTTSB-----GGGSSCCCSS
T ss_pred             CeeEEEEEeCCc-eE-EEEeCCCCcHHHHHHHHHH--HhCCCCCccceEEEEeCCcCeeCCCccC-----HHHcCCCCCC
Confidence            568899999998 56 7999999999999999998  7776643 244444  332  3544444     7776655555


Q ss_pred             EEEEEE
Q 034173           83 NINISL   88 (102)
Q Consensus        83 ti~l~~   88 (102)
                      ...+.+
T Consensus        92 ~~~l~f   97 (314)
T 1h4r_A           92 PVTFHF   97 (314)
T ss_dssp             SEEEEE
T ss_pred             CEEEEE
Confidence            444433

>2hj1_A Hypothetical protein; structural genomics, PSI, protein structure initiative, NEW research center for structural genomics, nysgxrc; 2.10A {Haemophilus influenzae} SCOP: d.15.3.4

Probab=80.33  E-value=8.3  Score=24.19  Aligned_cols=69  Identities=12%  Similarity=0.082  Sum_probs=44.3

Q ss_pred             CcEEEEEEc--CCCCCceEEEecCCCcHHHHHHHHHhc-cCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEE
Q 034173            8 ESVEITVKT--IGPAPPSRLSVSSPIKVRDLRKLIATS-SANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNI   84 (102)
Q Consensus         8 ~~i~I~vK~--~~~~~~~~l~v~~~~TV~~LK~~Ia~~-~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti   84 (102)
                      +.|+|.|-.  +..+....++++.++||.++=++..-. ....+......+-..|+....          +.-+++||.|
T Consensus        11 ~~~~v~v~ya~p~rq~~~~~~v~~g~TV~daI~~~gi~~~~peIdl~~~~V~Vng~~v~~----------d~~L~dGDRV   80 (97)
T 2hj1_A           11 NQINIEIAYAFPERYYLKSFQVDEGITVQTAITQSGILSQFPEIDLSTNKIGIFSRPIKL----------TDVLKEGDRI   80 (97)
T ss_dssp             CEEEEEEEEEETTEEEEEEEEEETTCBHHHHHHHHTHHHHCTTCCTTTSEEEEEECSCCT----------TCBCCTTCEE
T ss_pred             ceEEEEEEEeCCCCCEEEEEEcCCCCcHHHHHHHcCCCccCCcccccccEEEEcCEECCC----------CccCCCCCEE
Confidence            356666653  333334467889999999986665310 022345556778888888853          3358999998


Q ss_pred             EE
Q 034173           85 NI   86 (102)
Q Consensus        85 ~l   86 (102)
                      -+
T Consensus        81 EI   82 (97)
T 2hj1_A           81 EI   82 (97)
T ss_dssp             EE
T ss_pred             EE
Confidence            75

>1f0z_A THis protein; ubiquitin fold, transport protein; NMR {Escherichia coli} SCOP: d.15.3.2 PDB: 1zud_2

Probab=80.30  E-value=4.5  Score=22.99  Aligned_cols=52  Identities=12%  Similarity=0.133  Sum_probs=36.9

Q ss_pred             EEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173           24 RLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus        24 ~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      .++++...||.+|.+.+.      +++..-.+..+|+.+....      ..+.-+++||.|.+.
T Consensus         9 ~~~~~~~~tv~~ll~~l~------~~~~~v~vavN~~~v~~~~------~~~~~L~~gD~v~i~   60 (66)
T 1f0z_A            9 AMQCAAGQTVHELLEQLD------QRQAGAALAINQQIVPREQ------WAQHIVQDGDQILLF   60 (66)
T ss_dssp             EECCCTTCCHHHHHHHHT------CCCSSEEEEETTEEECHHH------HTTCCCCTTEEECEE
T ss_pred             EEEcCCCCcHHHHHHHcC------CCCCCEEEEECCEECCchh------cCCcCCCCCCEEEEE
Confidence            357788899999988774      3466667788999885211      223469999998763

>3hvz_A Uncharacterized protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium; 2.20A {Clostridium leptum}

Probab=80.14  E-value=2.8  Score=25.31  Aligned_cols=61  Identities=18%  Similarity=0.126  Sum_probs=39.8

Q ss_pred             EEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173           11 EITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus        11 ~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      +|+|.+++|+   .++++.++|+.|+=..|..  ..+  -.-.--..+|+...         | ++-+++|++|-+.-
T Consensus         7 ~i~v~tP~G~---~~~lp~GaT~~D~A~~Ih~--~lg--~~~v~AkVNG~~v~---------L-~~~L~~gd~VeIit   67 (78)
T 3hvz_A            7 EVFVFTPKGD---VISLPIGSTVIDFAYAIHS--AVG--NRMIGAKVDGRIVP---------I-DYKVKTGEIIDVLT   67 (78)
T ss_dssp             EEEEECTTSC---EEEEETTCBHHHHHHHHCH--HHH--HTEEEEEETTEEEC---------T-TCBCCTTCBEEEEE
T ss_pred             eEEEECCCCC---EEEecCCCCHHHHHHHhhh--hhh--cceEEEEECCEEcC---------C-CcccCCCCEEEEEc
Confidence            5778888885   4689999999998766642  111  11111234777763         3 35699999987654

---

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	102
d1wgda_	93	d.15.1.1 (A:) Homocysteine-responsive endoplasmic	1e-07
d1se9a_	101	d.15.1.1 (A:) Hypothetical protein At3g01050 {Thal	9e-04
d2bwfa1	73	d.15.1.1 (A:2-74) DSK2 {Baker's yeast (Saccharomyc	0.003

>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 = 43.3 bits (102), Expect = 1e-07
 Identities = 16/61 (26%), Positives = 25/61 (40%), Gaps = 1/61 (1%)

Query: 7  SESVEITVKTIGPAPPSR-LSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDT 65
          S  V + VK+         LS      V  L+  ++         E+ RL++ GK+L D 
Sbjct: 5  SSGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDH 64

Query: 66 Q 66
          Q
Sbjct: 65 Q 65

>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 = 33.7 bits (77), Expect = 9e-04
 Identities = 10/65 (15%), Positives = 26/65 (40%), Gaps = 5/65 (7%)

Query: 5  EISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANH-----LPIENLRLVFRG 59
          E+   +EI  +    +     +      V  L++ + +            ++ ++L+  G
Sbjct: 3  EVHNQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAG 62

Query: 60 KVLDD 64
          KVL++
Sbjct: 63 KVLEN 67

>d2bwfa1 d.15.1.1 (A:2-74) DSK2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 73

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: DSK2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 31.7 bits (72), Expect = 0.003
 Identities = 15/58 (25%), Positives = 30/58 (51%), Gaps = 4/58 (6%)

Query: 9  SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQ 66
          S+ I +K+        ++V+    V   ++ I  ++   +P+ N RL++ GK+L D Q
Sbjct: 1  SLNIHIKS--GQDKWEVNVAPESTVLQFKEAINKAN--GIPVANQRLIYSGKILKDDQ 54

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	102
d1wh3a_	87	2'-5'-oligoadenylate synthetase-like protein, OASL	99.9
d1z2ma2	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.9
d1bt0a_	73	Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxI	99.9
d2zeqa1	78	Ubiquitin-like domain of parkin {Mouse (Mus muscul	99.89
d1ttna1	80	Dendritic cell-derived ubiquitin-like protein {Hum	99.89
d1ogwa_	76	Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}	99.89
d2faza1	76	Ubiquitin-like PHD and RING finger domain-containi	99.89
d1wx9a1	73	Large proline-rich protein BAT3 {Human (Homo sapie	99.88
d1wy8a1	76	Ubiquitin-like PHD and RING finger domain-containi	99.88
d1wx8a1	83	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	99.87
d1uela_	95	Ubiquitin-like domain of Rad23 homolog B (Hhr23B)	99.87
d1oqya4	77	Ubiquitin-like domain of Rad23 homolog A (Hhr23a)	99.87
d1z2ma1	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.87
d1yqba1	84	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	99.87
d2bwfa1	73	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.86
d1m94a_	73	Ubiquitin-like modifier protein hub1 {Baker's yeas	99.86
d1se9a_	101	Hypothetical protein At3g01050 {Thale cress (Arabi	99.86
d1j8ca_	103	Ubiquitin-like N-terminal domain of PLIC-2 {Human	99.85
d1uh6a_	100	Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculu	99.84
d1wgha_	116	Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculu	99.83
d1zkha1	86	Splicing factor 3 subunit 1, C-terminal domain {Hu	99.82
d1wiaa_	95	Ubiquitin-like protein bab25500 (2010008E23Rik) {M	99.82
d1wgga_	96	Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (M	99.81
d1v2ya_	105	Ubiquitin-like protein 3300001g02rik {Mouse (Mus m	99.8
d1v5oa_	102	1700011n24rik protein {Mouse (Mus musculus) [TaxId	99.8
d1we6a_	111	Splicing factor 3 subunit 1, C-terminal domain {Th	99.79
d1wjua_	100	NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens	99.78
d1wgda_	93	Homocysteine-responsive endoplasmic reticulum-resi	99.77
d1v5ta_	90	8430435i17rik protein {Mouse (Mus musculus) [TaxId	99.76
d1wxva1	81	Bag-family molecular chaperone regulator-1 {Human	99.73
d1v86a_	95	hypothetical D7wsu128e protein {Mouse (Mus musculu	99.73
d1v6ea_	95	Ubiquitin-like domain of tubulin folding cofactor	99.7
d2c9wb1	103	Elongin B {Human (Homo sapiens) [TaxId: 9606]}	99.68
d1x1ma1	94	Ubiquitin-like protein 7 {Mouse (Mus musculus) [Ta	99.66
d1euvb_	79	SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomy	99.65
d1wjna_	97	Tubulin-folding protein TbcE {Mouse (Mus musculus)	99.64
d2uyzb1	77	SUMO-1 (smt3 homologue) {Human (Homo sapiens) [Tax	99.58
d1t0ya_	90	Ubiquitin-like domain of tubulin folding cofactor	99.53
d1wm3a_	72	SUMO-2 {Human (Homo sapiens) [TaxId: 9606]}	99.0
d1wf9a1	94	NPL4-like protein 1 {Thale cress (Arabidopsis thal	98.79
d1h8ca_	82	Fas-associated factor 1, Faf1 {Human (Homo sapiens	97.36
d2al3a1	76	Tether containing UBX domain for GLUT4 (Tug) {Mous	97.3
d2cr5a1	96	UBX domain-containing protein 6 (Reproduction 8) {	97.21
d1i42a_	89	p47 {Rat (Rattus norvegicus) [TaxId: 10116]}	96.84
d1vjka_	88	Molybdopterin synthase subunit MoaD {Pyrococcus fu	96.64
d1wj4a_	124	Hypothetical protein KIAA0794 {Human (Homo sapiens	96.48
d1y8xb1	92	UBA3 {Human (Homo sapiens) [TaxId: 9606]}	88.71
d1ip9a_	85	Bud emergence mediator Bemp1 {Baker's yeast (Sacch	87.45
d1ef1a3	84	Moesin {Human (Homo sapiens) [TaxId: 9606]}	86.75
d1wxma1	73	A-Raf proto-oncogene serine/threonine-protein kina	86.5
d1xo3a_	101	C9orf74 homolog {Mouse (Mus musculus) [TaxId: 1009	86.23
d1c1yb_	77	c-Raf1 RBD {Human (Homo sapiens) [TaxId: 9606]}	82.35
d1oeya_	82	Neutrophil cytosol factor 2 (p67phox component of	82.15
d1wgya_	104	Rap guanine nucleotide exchange factor 5, RapGEF5	81.08

>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=99.90  E-value=2.7e-24  Score=135.80  Aligned_cols=80  Identities=18%  Similarity=0.194  Sum_probs=75.0

Q ss_pred             CCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173            6 ISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         6 ~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      -+..|+|+||+++|+.+ .++|.+++||.+||++|++  +.++|+++|||+|+||.|+|+.+     |++|+|++|+|||
T Consensus         4 ~s~~mqI~Vk~~~g~~~-~l~v~~~~tV~~lK~~I~~--~~gip~~~qrLi~~Gk~L~d~~t-----L~~y~I~~~stl~   75 (87)
T d1wh3a_           4 GSSGIQVFVKNPDGGSY-AYAINPNSFILGLKQQIED--QQGLPKKQQQLEFQGQVLQDWLG-----LGIYGIQDSDTLI   75 (87)
T ss_dssp             CSSSEEEEEEETTTEEE-EEEECSSSBHHHHHHHHHH--HTCCCTTTEEEEETTEECCSSSB-----HHHHTCCTTEEEE
T ss_pred             CCCcEEEEEECCCCCEE-EEEECCcCcHHHHHHHHHH--HHCcChHHeEEEeeceEcCCCCc-----HHHcCCCCCCEEE
Confidence            45679999999999988 9999999999999999999  99999999999999999998888     9999999999999


Q ss_pred             EEEecCCC
Q 034173           86 ISLFNLDD   93 (102)
Q Consensus        86 l~~~~~~~   93 (102)
                      |+++.+..
T Consensus        76 l~~r~~~g   83 (87)
T d1wh3a_          76 LSKKKGSG   83 (87)
T ss_dssp             EEECSCCC
T ss_pred             EEecCCCC
Confidence            99988754

>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=99.90  E-value=4.3e-24  Score=131.47  Aligned_cols=74  Identities=19%  Similarity=0.182  Sum_probs=70.9

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      +.|+|+||+.+|+.+ +++|+++.||.+||++|++  +.|+|+++|||+|+|+.|+|+.+     |++|||++|+|||++
T Consensus         2 ~~~qi~Vk~~~G~~~-~l~v~~~~tV~~lK~~I~~--~~gi~~~~qrL~~~gk~L~d~~t-----L~~y~I~~~sti~l~   73 (76)
T d1z2ma2           2 EPLSILVRNNKGRSS-TYEVRLTQTVAHLKQQVSG--LEGVQDDLFWLTFEGKPLEDQLP-----LGEYGLKPLSTVFMN   73 (76)
T ss_dssp             CCEEEEEECTTSCEE-EEEECTTSBHHHHHHHHHH--HHTCCGGGEEEEETTEECCTTSB-----GGGGTCCTTCEEEEE
T ss_pred             CCEEEEEEcCCCCEE-EEEECCCCcHHHHHHHHHH--HhcCChhHeEEEECCeECCCCCc-----HHHcCCCCCCEEEEE
Confidence            579999999999988 9999999999999999999  99999999999999999988888     999999999999998


Q ss_pred             Ee
Q 034173           88 LF   89 (102)
Q Consensus        88 ~~   89 (102)
                      +|
T Consensus        74 lR   75 (76)
T d1z2ma2          74 LR   75 (76)
T ss_dssp             EC
T ss_pred             Ee
Confidence            86

>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=99.90  E-value=3.1e-24  Score=131.35  Aligned_cols=72  Identities=18%  Similarity=0.338  Sum_probs=69.4

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+|+||+++|+.+ +++|++++||++||++|++  +.|+|+++|||+|+|+.|.|+.+     |++|||++|+|||+++|
T Consensus         1 M~I~Vk~~~G~~~-~l~V~~~~tV~~lK~~i~~--~~gi~~~~qrLi~~Gk~L~d~~t-----L~~y~I~~~sti~lvlr   72 (73)
T d1bt0a_           1 MLIKVKTLTGKEI-EIDIEPTDTIDRIKERVEE--KEGIPPVQQRLIYAGKQLADDKT-----AKDYNIEGGSVLHLVLA   72 (73)
T ss_dssp             CEEEEECTTSCEE-EEECCTTCBHHHHHHHHHH--HHCCCGGGEEEEETTEECCTTSB-----TGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEeCCCCEE-EEEECCCCcHHHHHHHHHH--HhCCChHHEEEEECCeEcCCCCc-----HHHcCCCCCCEEEEEee
Confidence            7899999999998 9999999999999999999  99999999999999999998888     99999999999999886

>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=99.89  E-value=1.7e-23  Score=129.97  Aligned_cols=74  Identities=19%  Similarity=0.244  Sum_probs=71.0

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+|+||+.+|+.+ +++|++++||.+||++|++  +.++||++|||+|+|+.|+|+.+     |++|+|++|+|||+.++
T Consensus         3 M~I~Vk~~~g~t~-~l~v~~~~tV~~lK~~i~~--~~gip~~~qrLi~~Gk~L~d~~t-----L~~y~I~~~sti~lv~R   74 (78)
T d2zeqa1           3 MIVFVRFNSSYGF-PVEVDSDTSILQLKEVVAK--RQGVPADQLRVIFAGKELPNHLT-----VQNCDLEQQSIVHIVQR   74 (78)
T ss_dssp             EEEEEESSSSSCE-EEEECTTCBHHHHHHHHHH--HHTCCGGGEEEEETTEEECTTCB-----GGGSSCCTTCEEEEEES
T ss_pred             eEEEEEcCCCCEE-EEEEcccccHHHHHHHHHH--HHCcChhHeEEEEeeeEcCCCCC-----HHHcCCCCCCEEEEEec
Confidence            8999999999999 9999999999999999999  99999999999999999998888     99999999999999988


Q ss_pred             cC
Q 034173           90 NL   91 (102)
Q Consensus        90 ~~   91 (102)
                      ..
T Consensus        75 ~r   76 (78)
T d2zeqa1          75 PR   76 (78)
T ss_dssp             SC
T ss_pred             cC
Confidence            65

>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=99.89  E-value=1.1e-23  Score=131.07  Aligned_cols=78  Identities=14%  Similarity=0.149  Sum_probs=73.8

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      .+|+|+||+.+|+.+ .++|++++||.+||++|++  +.++|+++|||+|+|+.|+|+.+     |++|+|++|+|||++
T Consensus         2 ~e~qi~Vk~~~G~~~-~l~V~~~~tV~~lK~~I~~--~~~ip~~~qrLi~~Gk~L~d~~t-----L~~y~I~~~sti~lv   73 (80)
T d1ttna1           2 YECQLRLRLSTGKDL-KLVVRSTDTVFHMKRRLHA--AEGVEPGSQRWFFSGRPLTDKMK-----FEELKIPKDYVVQVI   73 (80)
T ss_dssp             CSEEEEEEETTTEEE-EEEECTTSHHHHHHHHHHH--TTCCCSTTCEEEETTEECCTTSH-----HHHCCCSSSCEEEEE
T ss_pred             CeEEEEEEcCCCCEE-EEEECCcCcHHHHHHHHHH--HhCCCcccEEEEECceEcCCCCc-----HHHcCCCCCCEEEEE
Confidence            479999999999998 9999999999999999999  99999999999999999988888     999999999999999


Q ss_pred             EecCCC
Q 034173           88 LFNLDD   93 (102)
Q Consensus        88 ~~~~~~   93 (102)
                      ++.|..
T Consensus        74 i~~p~~   79 (80)
T d1ttna1          74 VSQPVQ   79 (80)
T ss_dssp             CCCSSC
T ss_pred             ecCCCC
Confidence            988753

>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=99.89  E-value=1.6e-23  Score=129.01  Aligned_cols=75  Identities=21%  Similarity=0.325  Sum_probs=71.3

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+|+||+++|+.+ +++|++++||.+||++|++  +.++|+++|||+|+|+.|+|+.+     |++|||++|++||++++
T Consensus         1 MqI~Vk~l~G~~~-~l~v~~~~tV~~lK~~I~~--~~gi~~~~qrL~~~Gk~L~d~~t-----L~~y~i~~~s~I~L~~r   72 (76)
T d1ogwa_           1 MQIFVKTLTGKTI-TLEVEPSDTIENVKAKIQD--KEGIPPDQQRLIFAGKQLEDGRT-----LSDYNIQKESTLHLVLR   72 (76)
T ss_dssp             CEEEEEETTSCEE-EEECCTTSBHHHHHHHHHH--HHCCCGGGEEEEETTEECCTTSB-----GGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEcCCCCEE-EEEECCCCcHHHHHHhhhh--hcCCChHHEEeEECCeEcCCCCC-----HHHcCCCCCCEEEEEEe
Confidence            7999999999988 9999999999999999999  99999999999999999998888     99999999999999998


Q ss_pred             cCC
Q 034173           90 NLD   92 (102)
Q Consensus        90 ~~~   92 (102)
                      -..
T Consensus        73 lrg   75 (76)
T d1ogwa_          73 LRG   75 (76)
T ss_dssp             TTC
T ss_pred             cCC
Confidence            653

>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=99.89  E-value=3.5e-23  Score=128.10  Aligned_cols=74  Identities=23%  Similarity=0.304  Sum_probs=68.4

Q ss_pred             EEEEEEcCCCCCceEEE-ecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173           10 VEITVKTIGPAPPSRLS-VSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~-v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      |+|+||+++|+...+++ +++++||++||++|++  +.|+|+++|||+|+|+.|+|+.+     |++|||++|+|||+++
T Consensus         1 M~I~Vktl~Gk~t~~l~~v~~~~tV~~lK~~I~~--~~gip~~~qrLi~~Gk~L~D~~t-----L~~y~I~~~sti~lv~   73 (76)
T d2faza1           1 MWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQE--LFHVEPGLQRLFYRGKQMEDGHT-----LFDYEVRLNDTIQLLV   73 (76)
T ss_dssp             EEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHH--HHCCCGGGEEEEETTEECCTTCB-----TTTTTCCTTCEEEEEE
T ss_pred             CEEEEEeCCCCcEEEEecCCCCCCHHHHHHHHHH--HHCcChHHeEEEEeeEeccCCCc-----HHHcCCCCCCEEEEEE
Confidence            89999999997543674 8999999999999999  99999999999999999998888     9999999999999998


Q ss_pred             ec
Q 034173           89 FN   90 (102)
Q Consensus        89 ~~   90 (102)
                      |.
T Consensus        74 r~   75 (76)
T d2faza1          74 RQ   75 (76)
T ss_dssp             CC
T ss_pred             Ec
Confidence            74

>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=99.88  E-value=7.3e-24  Score=129.97  Aligned_cols=73  Identities=25%  Similarity=0.438  Sum_probs=69.0

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      |+|+||+++|+.+ .++|++++||++||++|++  +.|+|+++|||+|+|+.|+|+.+     |++|+| +|+|||++++
T Consensus         1 m~I~Vk~~~g~~~-~l~V~~~~tV~~lK~~I~~--~~gip~~~qrLi~~Gk~L~d~~t-----L~dy~i-~~~ti~lv~r   71 (73)
T d1wx9a1           1 LEVLVKTLDSQTR-TFIVGAQMNVKEFKEHIAA--SVSIPSEKQRLIYQGRVLQDDKK-----LQEYNV-GGKVIHLVER   71 (73)
T ss_dssp             EEEEEECTTSCEE-EEEECTTSBHHHHHHHHHH--HHCCCTTTCCCEETTEECCSSSB-----HHHHTC-TTEEEBCCCS
T ss_pred             CEEEEEcCCCCEE-EEEECCCChHHHHHHHHHH--HhCCChHHEEEEECCeEccCCCC-----HHHhCC-CCCEEEEEec
Confidence            7999999999998 9999999999999999999  99999999999999999998888     999999 5899999887


Q ss_pred             cC
Q 034173           90 NL   91 (102)
Q Consensus        90 ~~   91 (102)
                      .|
T Consensus        72 ~P   73 (73)
T d1wx9a1          72 AP   73 (73)
T ss_dssp             SC
T ss_pred             CC
Confidence            65

>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=99.88  E-value=9.8e-23  Score=126.07  Aligned_cols=74  Identities=22%  Similarity=0.254  Sum_probs=68.3

Q ss_pred             EEEEEEcCCCCCceEE-EecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173           10 VEITVKTIGPAPPSRL-SVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l-~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      |+|+||+++|+....+ .|++++||++||++|++  +.|+|+++|||+|+|+.|+|+.+     |++|||++|++||+++
T Consensus         1 M~I~Vk~l~G~~t~~~~~v~~~~TV~~lK~~I~~--~~gip~~~qrLi~~Gk~L~d~~t-----L~~y~I~~~s~i~lv~   73 (76)
T d1wy8a1           1 MWIQVRTIDGSKTCTIEDVSRKATIEELRERVWA--LFDVRPECQRLFYRGKQLENGYT-----LFDYDVGLNDIIQLLV   73 (76)
T ss_dssp             EEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHH--HSCCCTTTEEEEETTEECCSSSB-----HHHHTCCTTCEEEEEE
T ss_pred             CEEEEEeCCCCceEEEeccCCCChHHHHHHHHHH--HHCCCchhcEEEEEeeEecCCCC-----HHHcCCCCCCEEEEEE
Confidence            8999999999654366 69999999999999999  99999999999999999988888     9999999999999998


Q ss_pred             ec
Q 034173           89 FN   90 (102)
Q Consensus        89 ~~   90 (102)
                      ++
T Consensus        74 rp   75 (76)
T d1wy8a1          74 RP   75 (76)
T ss_dssp             CC
T ss_pred             cc
Confidence            84

>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=99.87  E-value=2.6e-23  Score=130.23  Aligned_cols=80  Identities=23%  Similarity=0.319  Sum_probs=73.2

Q ss_pred             CCCCCCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCC
Q 034173            2 GMGEISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNG   81 (102)
Q Consensus         2 ~~~~~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g   81 (102)
                      |....++.|+|+||+++++ . .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|||++|
T Consensus         3 g~~~~~~~i~v~Vk~~~~~-~-~i~v~~~~tV~~lK~~I~~--~~~v~~~~qrL~f~Gk~L~d~~t-----L~~~gI~~g   73 (83)
T d1wx8a1           3 GREPSSRIIRVSVKTPQDC-H-EFFLAENSNVRRFKKQISK--YLHCNADRLVLIFTGKILRDQDI-----LSQRGILDG   73 (83)
T ss_dssp             CSCCCSCEEEEEEECSSSE-E-EEEEETTCCHHHHHHHHHH--HTCSCTTTBCCEETTEECCTTSC-----HHHHTCCTT
T ss_pred             CCCCCCCeEEEEEEcCCCc-E-EEEECCCChHHHHHHHHHH--HhCCChhHEEEEEEhhccccCCc-----HHHcCCCCC
Confidence            5556678899999998765 4 7999999999999999999  99999999999999999998888     999999999


Q ss_pred             CEEEEEEec
Q 034173           82 GNINISLFN   90 (102)
Q Consensus        82 ~ti~l~~~~   90 (102)
                      ++|||++|+
T Consensus        74 s~I~lv~r~   82 (83)
T d1wx8a1          74 STVHVVVRS   82 (83)
T ss_dssp             EEEECCBCC
T ss_pred             CEEEEEEeC
Confidence            999999885

>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=99.87  E-value=1.5e-22  Score=129.29  Aligned_cols=77  Identities=16%  Similarity=0.363  Sum_probs=70.6

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCC---CCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSAN---HLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~---~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      |+|+||+++|+.+ .++|++++||.+||++|++  +.   ++|+++|||+|+|+.|+|+.+     |++|||++|++|++
T Consensus         1 M~I~vk~~~g~~~-~l~v~~~~TV~~lK~~i~~--~~~~~~i~~~~qrLi~~Gk~L~d~~t-----L~~y~I~~~s~i~l   72 (95)
T d1uela_           1 MQVTLKTLQQQTF-KIDIDPEETVKALKEKIES--EKGKDAFPVAGQKLIYAGKILNDDTA-----LKEYKIDEKNFVVV   72 (95)
T ss_dssp             CEEEEEETTCCEE-EEECCTTSBHHHHHHHHHH--HHCTTTCCTTTEEEEETTEECCTTSB-----GGGGTCCSSSEEEE
T ss_pred             CEEEEEeCCCCEE-EEEECCCccHHHHHHHHHh--hhcccCCCccceEEEECCeEccCCCc-----HHHcCCCCCCEEEE
Confidence            7999999999988 9999999999999999987  54   489999999999999998888     99999999999999


Q ss_pred             EEecCCCc
Q 034173           87 SLFNLDDL   94 (102)
Q Consensus        87 ~~~~~~~~   94 (102)
                      +++.+...
T Consensus        73 v~~~~~~~   80 (95)
T d1uela_          73 MVTKPKAV   80 (95)
T ss_dssp             EESSCCCC
T ss_pred             EECCCCCC
Confidence            99876443

>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=99.87  E-value=4.7e-23  Score=127.24  Aligned_cols=72  Identities=19%  Similarity=0.356  Sum_probs=68.0

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCC---CCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANH---LPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~---ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      +|+|+||+++|+.+ .++|++++||.+||++|++  +.|   +|+++|||+|+||.|+|+.+     |++|||++|++|+
T Consensus         2 ~~~i~vk~l~g~~~-~l~v~~~~TV~~lK~~i~~--~~g~~~i~~~~qrLi~~Gk~L~D~~t-----L~~y~I~~~s~i~   73 (77)
T d1oqya4           2 AVTITLKTLQQQTF-KIRMEPDETVKVLKEKIEA--EKGRDAFPVAGQKLIYAGKILSDDVP-----IRDYRIDEKNFVV   73 (77)
T ss_dssp             CCCEEEEETTTEEE-EECCCTTCBHHHHHHHHHH--HTCSSSCCSTEEEEESSSSEECSSSB-----TTTTCCCTTSCEE
T ss_pred             cEEEEEECCCCCEE-EEEECCCCcHHHHHHHHHH--hcCCCCCChHHEEeEECCcCccCCCc-----HHHcCCCCCCEEE
Confidence            69999999999998 9999999999999999988  665   99999999999999988888     9999999999999


Q ss_pred             EEE
Q 034173           86 ISL   88 (102)
Q Consensus        86 l~~   88 (102)
                      +++
T Consensus        74 ~~v   76 (77)
T d1oqya4          74 VMV   76 (77)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            987

>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=99.87  E-value=1.2e-22  Score=125.41  Aligned_cols=73  Identities=22%  Similarity=0.241  Sum_probs=69.2

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEe--CCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVF--RGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~--~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      .+|+||+++|+.+ .++|++++||.+||++|++  +.|+|+++|||+|  +|+.|+|+.+     |++|||++|++|||+
T Consensus         1 ~~l~Vk~l~G~~~-~v~V~~~~tV~~lK~~I~~--~~gip~~~QrLi~~~~Gk~L~D~~t-----L~~y~i~~g~~i~lv   72 (76)
T d1z2ma1           1 WDLTVKMLAGNEF-QVSLSSSMSVSELKAQITQ--KIGVHAFQQRLAVHPSGVALQDRVP-----LASQGLGPGSTVLLV   72 (76)
T ss_dssp             CEEEEEESSSCEE-EEECCSSCCHHHHHHHHHH--HHCCCGGGEEEEEETTCCBCCSSSC-----SGGGTCCTTCEEEEE
T ss_pred             CEEEEEeCCCCEE-EEEECCCCcHHHHHHHHHH--HhccCCccEEEEEcCCCeeccCCCc-----HHHcCCCCCCEEEEE
Confidence            3789999999998 9999999999999999999  9999999999999  7999998888     999999999999999


Q ss_pred             Eec
Q 034173           88 LFN   90 (102)
Q Consensus        88 ~~~   90 (102)
                      ++.
T Consensus        73 ~~~   75 (76)
T d1z2ma1          73 VDK   75 (76)
T ss_dssp             ECC
T ss_pred             EEC
Confidence            875

>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=99.87  E-value=2.1e-22  Score=126.28  Aligned_cols=78  Identities=21%  Similarity=0.310  Sum_probs=71.8

Q ss_pred             CCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173            6 ISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         6 ~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      .+.+|+|+||+.+++ + .++|++++||.+||++|++  +.|+|+++|||+|+|+.|+|+.+     |++|||++|+|||
T Consensus         4 ~~~~i~I~Vkt~~~~-~-~~~V~~~~tV~~lK~~i~~--~~gi~~~~qrL~~~Gk~L~D~~t-----L~~y~i~~gsti~   74 (84)
T d1yqba1           4 SPHLIKVTVKTPKDK-E-DFSVTDTCTIQQLKEEISQ--RFKAHPDQLVLIFAGKILKDPDS-----LAQCGVRDGLTVH   74 (84)
T ss_dssp             CTTEEEEEEECSSCE-E-EEEEETTCBHHHHHHHHHH--HHTCCGGGEEEEETTEECCTTSB-----HHHHTCCTTCEEE
T ss_pred             CCCEEEEEEEcCCCc-E-EEEECCCCcHHHHHHHHHH--HHCcCchhEEEEEeeeeccccCc-----HHHcCCCCCCEEE
Confidence            356799999998764 5 8999999999999999999  99999999999999999988888     9999999999999


Q ss_pred             EEEecCC
Q 034173           86 ISLFNLD   92 (102)
Q Consensus        86 l~~~~~~   92 (102)
                      |+++.+.
T Consensus        75 lv~r~~~   81 (84)
T d1yqba1          75 LVIKRQH   81 (84)
T ss_dssp             EEECCCC
T ss_pred             EEECCCC
Confidence            9998864

>d2bwfa1 d.15.1.1 (A:2-74) DSK2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: DSK2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.86  E-value=4e-22  Score=122.01  Aligned_cols=72  Identities=25%  Similarity=0.418  Sum_probs=66.5

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEE
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISL   88 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~   88 (102)
                      +|+|+||+.++ .+ .++|++++||.+||++|++  ..|+|+++|||+|+|+.|+|+.+     |++|||++|++||++.
T Consensus         1 si~I~Vk~~~~-~~-~i~v~~~~tV~~lK~~I~~--~~gip~~~qrLi~~Gk~L~D~~t-----L~~~~I~~g~~i~lV~   71 (73)
T d2bwfa1           1 SLNIHIKSGQD-KW-EVNVAPESTVLQFKEAINK--ANGIPVANQRLIYSGKILKDDQT-----VESYHIQDGHSVHLVK   71 (73)
T ss_dssp             EEEEEEEETTE-EE-EEEECTTCBHHHHHHHHHH--HHCCCGGGEEEEETTEECCTTSB-----TGGGTCCTTCEEEEEE
T ss_pred             CEEEEEEeCCe-EE-EEEECCCChHHHHHHHHHH--HHCcChHHeEEEECCeEccCCCc-----HHHCCCCCCCEEEEEe
Confidence            58999998654 56 8999999999999999999  99999999999999999998888     9999999999999986


Q ss_pred             e
Q 034173           89 F   89 (102)
Q Consensus        89 ~   89 (102)
                      +
T Consensus        72 ~   72 (73)
T d2bwfa1          72 S   72 (73)
T ss_dssp             C
T ss_pred             e
Confidence            5

>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=99.86  E-value=1.5e-22  Score=124.14  Aligned_cols=71  Identities=17%  Similarity=0.167  Sum_probs=68.0

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      +|+|+||+..|+.+ .++|.+++||++||++|++  +.++||++|||+|+|+.|+|+.+     |++|||++|+||+|.
T Consensus         1 mi~i~vk~~~Gk~~-~v~V~~~~tV~~lK~~I~~--~~~i~~~~q~Li~~Gk~L~d~~t-----L~~y~I~~gstl~L~   71 (73)
T d1m94a_           1 MIEVVVNDRLGKKV-RVKCLAEDSVGDFKKVLSL--QIGTQPNKIVLQKGGSVLKDHIS-----LEDYEVHDQTNLELY   71 (73)
T ss_dssp             CEEEEEEETTTEEE-EEEECTTSBHHHHHHHHHH--HHCCTTTSEEEESSSCEECTTSB-----HHHHTCCTTEEEEEE
T ss_pred             CeEEEEECCCCCEE-EEEECCcCcHHHHHHHHHH--hhcccccEEEEEEEeEEecccCc-----HHHcCCCCCCEEEEE
Confidence            48999999999998 9999999999999999999  99999999999999999998888     999999999999974

>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=99.86  E-value=1.5e-21  Score=127.01  Aligned_cols=84  Identities=13%  Similarity=0.249  Sum_probs=74.6

Q ss_pred             CCCCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhc---cCCCCC--CCceEEEeCCeecCCCCCCCCCCccccCC
Q 034173            4 GEISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATS---SANHLP--IENLRLVFRGKVLDDTQDDDDRDDVYLQL   78 (102)
Q Consensus         4 ~~~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~---~~~~ip--~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I   78 (102)
                      ++..+.|+|+||+++|+.+..+.+++++||.+||++|++.   .+.++|  +++|||||+||.|+|+.+     |++|+|
T Consensus         2 ~~~~~~i~I~~r~~~G~~i~~~~v~~s~TV~~lK~~I~~~~~~~k~~iP~~~~~qRLIf~Gk~L~D~~t-----L~dy~i   76 (101)
T d1se9a_           2 AEVHNQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKT-----VKDYRS   76 (101)
T ss_dssp             CSSCCCEEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSB-----GGGGSC
T ss_pred             CCccceEEEEEEeCCCCeecceecCccCHHHHHHHHHHHhccccccCCCCCcccEEEEECCeEecCCCC-----HHHcCC
Confidence            4566789999999999987579999999999999999762   136788  889999999999998888     999999


Q ss_pred             CCCC------EEEEEEecCC
Q 034173           79 SNGG------NINISLFNLD   92 (102)
Q Consensus        79 ~~g~------ti~l~~~~~~   92 (102)
                      .+|+      |+||+++++.
T Consensus        77 ~~g~~~~~~~tmHlVvrpp~   96 (101)
T d1se9a_          77 PVSNLAGAVTTMHVIIQAPV   96 (101)
T ss_dssp             CTTSCTTCCEEEEEEECCCS
T ss_pred             CCCCcCCCceEEEEEeCCCC
Confidence            9998      9999999874

>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=99.85  E-value=1.2e-21  Score=127.00  Aligned_cols=75  Identities=20%  Similarity=0.335  Sum_probs=69.5

Q ss_pred             CCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173            6 ISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         6 ~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      .+..|+|+||+++++ . .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+.+     |++|||++|++||
T Consensus        29 ~~~~i~V~Vk~~~~~-~-~i~V~~~~tV~~LK~~I~~--~~gi~~~~qrLi~~Gk~L~D~~t-----L~~~~I~~g~~I~   99 (103)
T d1j8ca_          29 EPKIIKVTVKTPKEK-E-EFAVPENSSVQQFKEAISK--RFKSQTDQLVLIFAGKILKDQDT-----LIQHGIHDGLTVH   99 (103)
T ss_dssp             CCCCEEEEEECSSCE-E-EEEECTTCCHHHHHHHHHH--HHCSCSSSEEEEETTEEESTTSC-----GGGTTCSSSEEEE
T ss_pred             CCCeEEEEEECCCcc-E-EEEECCCChHHHHHHHHHH--HHCcCHHHeeeeeeeecccCCCc-----HHHcCCCCCCEEE
Confidence            445799999998765 4 7999999999999999999  99999999999999999998888     9999999999999


Q ss_pred             EEEe
Q 034173           86 ISLF   89 (102)
Q Consensus        86 l~~~   89 (102)
                      |++|
T Consensus       100 lvlr  103 (103)
T d1j8ca_         100 LVIK  103 (103)
T ss_dssp             EEEC
T ss_pred             EEEC
Confidence            9886

>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=99.84  E-value=1.8e-21  Score=126.23  Aligned_cols=73  Identities=16%  Similarity=0.175  Sum_probs=69.2

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      .+|+|+||+..|+.+ .++|.++.||.+||++|++  +.++|+++|||+|+|+.|+|+.+     |++|||++|+||+|-
T Consensus        27 ~~i~V~V~~~~Gk~~-~v~V~p~~TV~~LK~~I~~--~~gip~~~qrLi~~Gk~L~D~~t-----L~dygI~~GstI~L~   98 (100)
T d1uh6a_          27 TMIEVVCNDRLGKKV-RVKCNTDDTIGDLKKLIAA--QTGTRWNKIVLKKWYTIFKDHVS-----LGDYEIHDGMNLELY   98 (100)
T ss_dssp             CEEEEEEECSSSSCE-EEEEETTSBHHHHHHHHHH--HHCCCGGGCEEEETTEECCSSCB-----HHHHTCCTTEEEEEE
T ss_pred             ceEEEEEECCCCCEE-EEEECCcChHHHHHHHHHH--HHCCCcceEEEEEEeecccCcCC-----HHHcCCCCCCEEEEE
Confidence            458999999999999 9999999999999999999  99999999999999999998888     999999999999985


Q ss_pred             E
Q 034173           88 L   88 (102)
Q Consensus        88 ~   88 (102)
                      .
T Consensus        99 ~   99 (100)
T d1uh6a_          99 Y   99 (100)
T ss_dssp             C
T ss_pred             E
Confidence            3

>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=99.83  E-value=1.7e-20  Score=124.46  Aligned_cols=75  Identities=15%  Similarity=0.224  Sum_probs=68.0

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHH--------HhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCC
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLI--------ATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLS   79 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~I--------a~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~   79 (102)
                      ..|+|+||+++|+.+ .+.|++++||.+||++|        ++  +.++||++|||||+||.|.|+.+     |++|+|.
T Consensus        15 ~~i~i~v~~l~Gk~~-~~~v~p~~TV~~lK~~I~~~~p~~~~e--~~~~~~~~qRLiy~Gk~L~D~~t-----L~~~~i~   86 (116)
T d1wgha_          15 DMINLRLILVSGKTK-EFLFSPNDSASDIAKHVYDNWPMDWEE--EQVSSPNILRLIYQGRFLHGNVT-----LGALKLP   86 (116)
T ss_dssp             SSEEEEEECSSSCEE-EEEECTTCBHHHHHHHHHHSSSCCSSC--CCCCCTTTEEEEETTEEECSSCB-----TTTTTCC
T ss_pred             CeEEEEEEEcCCCEE-EEEECCcchHHHHHHHHHhhccccccc--ccCCChHHeEEEECCEEecCCCC-----HHHcCCC
Confidence            579999999999988 99999999999999999        45  78899999999999999998888     9999999


Q ss_pred             CCCE--EEEEEec
Q 034173           80 NGGN--INISLFN   90 (102)
Q Consensus        80 ~g~t--i~l~~~~   90 (102)
                      +|++  |||+++.
T Consensus        87 ~g~~~~lhlv~r~   99 (116)
T d1wgha_          87 FGKTTVMHLVARE   99 (116)
T ss_dssp             SSCEEEEEEEECS
T ss_pred             CCCEEEEEEEeCC
Confidence            9998  5555654

>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=99.82  E-value=1.6e-20  Score=118.47  Aligned_cols=67  Identities=18%  Similarity=0.315  Sum_probs=62.1

Q ss_pred             CCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEecC
Q 034173           17 IGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLFNL   91 (102)
Q Consensus        17 ~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~~~   91 (102)
                      ++|+.+ .++|++++||++||++|++  +.++|+++|||+|+|+.|+|+.+     |++|||++|++||++++..
T Consensus        19 L~G~~~-~l~v~~~~tV~~lK~~I~~--~~~ip~~~q~Li~~Gk~L~D~~t-----L~dY~I~~gsti~l~~r~R   85 (86)
T d1zkha1          19 LNGQVL-VFTLPLTDQVSVIKVKIHE--ATGMPAGKQKLQYEGIFIKDSNS-----LAYYNMANGAVIHLALKER   85 (86)
T ss_dssp             CSSCEE-EEEECTTSBHHHHHHHHHH--HTCCCTTTEEEEETTEEECTTSB-----HHHHTCCTTEEEEEEESCC
T ss_pred             cCCeEE-EEEECCCChHHHHHHHHHh--hhcCChHHEEEEeCCcCcCCCCC-----HHHcCCCCCCEEEEEEecC
Confidence            566666 8999999999999999999  99999999999999999988888     9999999999999998853

>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=99.82  E-value=1.8e-20  Score=120.38  Aligned_cols=77  Identities=13%  Similarity=0.148  Sum_probs=68.7

Q ss_pred             CCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecC-CCCCCCCCCccccCCCCCCEE
Q 034173            6 ISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLD-DTQDDDDRDDVYLQLSNGGNI   84 (102)
Q Consensus         6 ~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~-D~~t~~~~~L~~~~I~~g~ti   84 (102)
                      -+..|+|+||+++|+.+ .++|++++||.+||++|+.     .++++|||+|+||.|. |..+     |++|+|++|++|
T Consensus         4 ~~s~m~i~vK~l~~~~~-~v~v~~~~TV~~lK~~i~~-----~~~~~qrLi~~Gk~L~dd~~t-----L~~y~i~~g~~v   72 (95)
T d1wiaa_           4 GSSGINVRLKFLNDTEE-LAVARPEDTVGTLKSKYFP-----GQESQMKLIYQGRLLQDPART-----LSSLNITNNCVI   72 (95)
T ss_dssp             CCCSEEEEEEETTTEEE-EEEECSSSBHHHHHHHHSS-----STTTTCEEEETTEECCCSSCB-----TTTTTCCTTEEE
T ss_pred             CCCcEEEEEEcCCCCEE-EEEECCcCcHHHHHHHHhc-----CCcceeEEEECCEEcccCCCC-----HHHcCCCCCCEE
Confidence            35679999999999998 8999999999999999975     4789999999999996 4567     999999999999


Q ss_pred             EEEEecCCC
Q 034173           85 NISLFNLDD   93 (102)
Q Consensus        85 ~l~~~~~~~   93 (102)
                      |++++.+..
T Consensus        73 ~l~~~~~~~   81 (95)
T d1wiaa_          73 HCHRSPPGA   81 (95)
T ss_dssp             EEECCCCCC
T ss_pred             EEEEcCCCC
Confidence            999977643

>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=99.81  E-value=1.3e-20  Score=120.82  Aligned_cols=76  Identities=13%  Similarity=0.073  Sum_probs=69.0

Q ss_pred             CCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173            6 ISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         6 ~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      -++.|+|+||..+++.+ .++|++++||.+||++|++  ..++|+++|||+|+|+.|+|+ +     |++|||++|++|+
T Consensus         4 ~s~~~~I~VK~~~~~~~-~v~v~~~~tV~~lK~~i~~--~~gvp~~~QkLi~~Gk~L~d~-t-----L~~~gi~~g~~i~   74 (96)
T d1wgga_           4 GSSGYSVTVKWGKEKFE-GVELNTDEPPMVFKAQLFA--LTGVQPARQKVMVKGGTLKDD-D-----WGNIKMKNGMTVL   74 (96)
T ss_dssp             CCCEEEEEEEETTEEEE-EEEEESSSCHHHHHHHHHH--HTCCCTTTSCCEETTEECCSS-C-----CCSCCCCSSCEEE
T ss_pred             CCCceEEEEEeCCCCEE-EEEECCCCcHHHHHHHhhh--hcCccceeeEEeecCcccCCC-c-----HHHCCCCCCCEEE
Confidence            45679999999888766 8999999999999999999  999999999999999999864 6     9999999999999


Q ss_pred             EEEec
Q 034173           86 ISLFN   90 (102)
Q Consensus        86 l~~~~   90 (102)
                      |+...
T Consensus        75 lv~t~   79 (96)
T d1wgga_          75 MMGSA   79 (96)
T ss_dssp             CCCCC
T ss_pred             EEeeC
Confidence            87643

>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=99.80  E-value=6.6e-21  Score=124.17  Aligned_cols=78  Identities=18%  Similarity=0.088  Sum_probs=71.4

Q ss_pred             CCCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceE---------------EEeCCeecCCC-CCCC
Q 034173            6 ISESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLR---------------LVFRGKVLDDT-QDDD   69 (102)
Q Consensus         6 ~~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qr---------------Li~~Gk~L~D~-~t~~   69 (102)
                      -+..|+|+||+.+|+.+ .++|++++||.+||++|++  ..++|+++||               |+|+|+.|.|+ .+  
T Consensus         4 gss~M~v~Vk~~~G~~~-~v~V~~~~TV~~LK~~I~~--~~~ip~~~Qr~~~~~~~~~~~~~~~Li~~G~~L~d~~~t--   78 (105)
T d1v2ya_           4 GSSGMTVRVCKMDGEVM-PVVVVQNATVLDLKKAIQR--YVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKK--   78 (105)
T ss_dssp             CCCSEEEEEECSSSCEE-EEEECTTCBHHHHHHHHHH--HHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSB--
T ss_pred             CCCcEEEEEEeCCCCEE-EEEECCCChHHHHHHHHHH--HHCcCHHHhcccccccccccccceEEEECCEECcccCCC--
Confidence            35679999999999998 9999999999999999999  9999999998               99999999655 47  


Q ss_pred             CCCccccCCCCCCEEEEEEecC
Q 034173           70 DRDDVYLQLSNGGNINISLFNL   91 (102)
Q Consensus        70 ~~~L~~~~I~~g~ti~l~~~~~   91 (102)
                         |.+|||++|++|||+.+..
T Consensus        79 ---L~~~gI~~g~~l~lv~r~~   97 (105)
T d1v2ya_          79 ---LRDYGIRNRDEVSFIKKLG   97 (105)
T ss_dssp             ---HHHHTCCSSEEEEEEECSC
T ss_pred             ---HHHcCCCCCCEEEEEEecC
Confidence               9999999999999988754

>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=99.80  E-value=4.5e-20  Score=119.74  Aligned_cols=77  Identities=18%  Similarity=0.241  Sum_probs=69.7

Q ss_pred             CcEEEEE----EcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecC-CCCCCCCCCccccCCCCCC
Q 034173            8 ESVEITV----KTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLD-DTQDDDDRDDVYLQLSNGG   82 (102)
Q Consensus         8 ~~i~I~v----K~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~-D~~t~~~~~L~~~~I~~g~   82 (102)
                      .-|+|+|    |..++..+ .++|++++||.+||++|+.  +.++|+++|||+|+||.|. |+.+     |++|||++|+
T Consensus         6 ~~m~itV~~~~~~~~~~t~-~l~V~~~~tV~~LK~~Ie~--~~gip~~~Q~Li~~Gk~L~dd~~t-----L~~~gI~~g~   77 (102)
T d1v5oa_           6 SGMLITVYCVRRDLTEVTF-SLQVNPDFELSNFRVLCEL--ESGVPAEEAQIVYMEQLLTDDHCS-----LGSYGLKDGD   77 (102)
T ss_dssp             CCEEEEEEECCCCCCCCEE-EEEECTTCBHHHHHHHHHH--HTCCCGGGBCEEETTEEECCSSSB-----HHHHTCCTTE
T ss_pred             CCEEEEEEecccCCCCCEE-EEEECCcccHHHHHHHHHH--HhCCCcceEEEEeCCeEeecccCC-----HHHcCCCCCC
Confidence            4589999    88888888 9999999999999999999  9999999999999999995 4567     9999999999


Q ss_pred             EEEEEEecCC
Q 034173           83 NINISLFNLD   92 (102)
Q Consensus        83 ti~l~~~~~~   92 (102)
                      +|+|+.+...
T Consensus        78 ~i~l~~r~~~   87 (102)
T d1v5oa_          78 MVVLLQKDNV   87 (102)
T ss_dssp             EEEECBCCCC
T ss_pred             EEEEEECCCC
Confidence            9999887653

>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=99.79  E-value=1.2e-19  Score=119.40  Aligned_cols=77  Identities=17%  Similarity=0.210  Sum_probs=67.6

Q ss_pred             cEEEEEEcC-CCCCceEEEecC-CCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            9 SVEITVKTI-GPAPPSRLSVSS-PIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         9 ~i~I~vK~~-~~~~~~~l~v~~-~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      +++|.+++. +|+.+ .++|.+ ++||.+||++|++  +.++|+++|||+|+|+.|+|+.+     |++|||++|++|||
T Consensus        29 ti~V~v~~~~~G~~i-~l~v~~~sdtV~~lK~~I~~--~~gip~~~QrLi~~Gk~L~D~~t-----L~~ynI~~gsti~L  100 (111)
T d1we6a_          29 TIRVSKPNENDGQFM-EITVQSLSENVGSLKEKIAG--EIQIPANKQKLSGKAGFLKDNMS-----LAHYNVGAGEILTL  100 (111)
T ss_dssp             EEEECCTTCSSSCCE-EEEESCSSSBHHHHHHHHHH--HTTCCTTTSEEECSSSBCCTTSB-----TTTTTCSSSCEEEE
T ss_pred             EEEEEcccCCCCeEE-EEEecCCccHHHHHHHHHHH--HHCCCccceEEEEeeEEccccCC-----HHHcCCCCCCEEEE
Confidence            455555554 46666 899976 8999999999999  99999999999999999998888     99999999999999


Q ss_pred             EEecCCC
Q 034173           87 SLFNLDD   93 (102)
Q Consensus        87 ~~~~~~~   93 (102)
                      ++|.+..
T Consensus       101 ~lr~rGG  107 (111)
T d1we6a_         101 SLRERSG  107 (111)
T ss_dssp             ECSSCCS
T ss_pred             EeeCCCC
Confidence            9998754

>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=99.78  E-value=1.3e-19  Score=117.18  Aligned_cols=76  Identities=16%  Similarity=0.111  Sum_probs=68.5

Q ss_pred             CcEEEEE--EcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173            8 ESVEITV--KTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         8 ~~i~I~v--K~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      ++|+|++  |...++.+ .++|++++||.+||++|++  +.++|+++|||+|+||+|+|+.+     |++|||+++++|+
T Consensus        16 ati~V~~~~~~~~g~~~-~lev~~~~TV~~LK~~I~~--~~gi~~~~qkLi~~Gk~L~d~~t-----L~~~gI~~~s~i~   87 (100)
T d1wjua_          16 ATIEVFLPPRLKKDRKN-LLETRLHITGRELRSKIAE--TFGLQENYIKIVINKKQLQLGKT-----LEEQGVAHNVKAM   87 (100)
T ss_dssp             EEEEEECCTTTCCSSSE-EEEEESSSBHHHHHHHHHH--HTTCCSTTCEEEETTEECCTTSB-----HHHHTCCSSEEEE
T ss_pred             EEEEEEEeeccCCCeEE-EEEECCCcHHHHHHHHHHH--HHCCCCeeEEEEEcccCcCCCcC-----HHHcCCCCCCEEE
Confidence            4677777  55678888 9999999999999999999  99999999999999999998888     9999999999999


Q ss_pred             EEEecC
Q 034173           86 ISLFNL   91 (102)
Q Consensus        86 l~~~~~   91 (102)
                      ++....
T Consensus        88 vi~~~~   93 (100)
T d1wjua_          88 VLELKQ   93 (100)
T ss_dssp             EECCCC
T ss_pred             EEEcCC
Confidence            887553

>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=99.77  E-value=1.2e-18  Score=111.18  Aligned_cols=80  Identities=21%  Similarity=0.143  Sum_probs=66.1

Q ss_pred             CCcEEEEEEcCCCCCc-eEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCC--CCE
Q 034173            7 SESVEITVKTIGPAPP-SRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSN--GGN   83 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~-~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~--g~t   83 (102)
                      +..|+|+||+++++.. ..+++++++||.+||++|++....++|+++|||||+||.|.|+.+     |++|+++.  +.+
T Consensus         5 s~~i~l~Ik~~~~~~~~~~~~v~~~~TV~~LK~~I~~~~~~~~~~~~qrLIy~Gk~L~D~~~-----L~d~~~~~~~~~v   79 (93)
T d1wgda_           5 SSGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQC-----LRDLLPKQEKRHV   79 (93)
T ss_dssp             SCCCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECCSSSC-----HHHHSCSSSCSEE
T ss_pred             CCcEEEEEECCCCCceeEEEEcCCCCcHHHHHHHHHHHcCCCCChHHEEEEECCeEccCCCC-----HHHhCcccCCCCE
Confidence            5669999999988753 378889999999999999982224599999999999999999888     99997654  449


Q ss_pred             EEEEEecC
Q 034173           84 INISLFNL   91 (102)
Q Consensus        84 i~l~~~~~   91 (102)
                      |||+++..
T Consensus        80 iHLV~~~~   87 (93)
T d1wgda_          80 LHLVCNVK   87 (93)
T ss_dssp             EEEECCCC
T ss_pred             EEEEecCC
Confidence            99887543

>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=99.76  E-value=2e-19  Score=113.73  Aligned_cols=77  Identities=22%  Similarity=0.177  Sum_probs=67.7

Q ss_pred             CCCcEEEEEEcCCCCCceEE-EecCCCcHHHHHHHHHhccCCCCCCCceEEE---eCCeecCCCCCCCCCCccccCCCCC
Q 034173            6 ISESVEITVKTIGPAPPSRL-SVSSPIKVRDLRKLIATSSANHLPIENLRLV---FRGKVLDDTQDDDDRDDVYLQLSNG   81 (102)
Q Consensus         6 ~~~~i~I~vK~~~~~~~~~l-~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi---~~Gk~L~D~~t~~~~~L~~~~I~~g   81 (102)
                      -+..|+|+||..++ .+ .+ +|+++.||.+||++|++  ..++|+++|||+   |+|+.|+|+.+     |.+|+|++|
T Consensus         4 ~s~~~~i~Vk~~~~-~~-~i~~v~~~~tV~~LK~~i~~--~t~vp~~~QkLi~~~~~Gk~L~D~~t-----L~~~~i~~g   74 (90)
T d1v5ta_           4 GSSGLPIIVKWGGQ-EY-SVTTLSEDDTVLDLKQFLKT--LTGVLPERQKLLGLKVKGKPAENDVK-----LGALKLKPN   74 (90)
T ss_dssp             CCCSCCEEEEETTE-EE-EECSCCSSSBHHHHHHHHHH--HTCCCTTTCEEESCEETTEECCTTSB-----HHHHTCCTT
T ss_pred             CCCcEEEEEEECCe-EE-EEEEeCCCCcHHHHHHHHHH--HHcCCHHHhhhhhhccCCcCCCCcCc-----HHHcCCCCC
Confidence            35679999998554 44 55 79999999999999999  999999999999   59999998888     999999999


Q ss_pred             CEEEEEEecC
Q 034173           82 GNINISLFNL   91 (102)
Q Consensus        82 ~ti~l~~~~~   91 (102)
                      ++|||+....
T Consensus        75 ~~i~lv~s~~   84 (90)
T d1v5ta_          75 TKIMMMGTRE   84 (90)
T ss_dssp             EEEEEECCCS
T ss_pred             CEEEEEeeCC
Confidence            9999987654

>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=99.73  E-value=3.4e-18  Score=106.39  Aligned_cols=73  Identities=22%  Similarity=0.268  Sum_probs=62.5

Q ss_pred             EEEEEEcCCCCCceEEEec-----CCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecC-CCCCCCCCCccccCCCCCCE
Q 034173           10 VEITVKTIGPAPPSRLSVS-----SPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLD-DTQDDDDRDDVYLQLSNGGN   83 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~-----~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~-D~~t~~~~~L~~~~I~~g~t   83 (102)
                      |+|+|+..+ ..+ .++|+     +++||++||++|++  ..|+|+++|||+|+|+.|. |+.+     |++|||++|++
T Consensus         2 i~i~V~~~~-~~~-~i~v~~~~~~~~~Tv~~LK~~I~~--~tgvp~~~QkL~~~G~~L~~d~~t-----L~~~gi~~g~~   72 (81)
T d1wxva1           2 LTVTVTHSN-EKH-DLHVTSQQGSSEPVVQDLAQVVEE--VIGVPQSFQKLIFKGKSLKEMETP-----LSALGIQDGCR   72 (81)
T ss_dssp             EEEEEECSS-SEE-EEEECCCSSSSSCBHHHHHHHHHH--HTCCCTTTCEEEETTEEECCSSSB-----HHHHTCCSSEE
T ss_pred             EEEEEEECC-eeE-EEEEecCCCCCccHHHHHHHHHHH--HHCcCHHHEEeeecCeEeCcCCCC-----hHHCCCCCCCE
Confidence            788888744 444 67774     67899999999999  9999999999999999996 4456     99999999999


Q ss_pred             EEEEEecC
Q 034173           84 INISLFNL   91 (102)
Q Consensus        84 i~l~~~~~   91 (102)
                      |+|+.+..
T Consensus        73 i~lv~~~~   80 (81)
T d1wxva1          73 VMLIGKKN   80 (81)
T ss_dssp             EEEESCCS
T ss_pred             EEEEEecC
Confidence            99987653

>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=99.73  E-value=9.4e-19  Score=111.87  Aligned_cols=74  Identities=14%  Similarity=0.238  Sum_probs=66.8

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      +.|+|+|+. +++.+ .++|++++||.+||++|++  ..++|+++|||+|+|+ |+|+.+     |++|+|++|++|+|+
T Consensus        16 ~~i~v~V~~-~~k~~-~i~v~~~~TV~~LK~~I~~--~tgvp~~~q~Li~~g~-l~D~~t-----L~~~~I~~gs~i~lv   85 (95)
T d1v86a_          16 ELVDLKIIW-NKTKH-DVKVPLDSTGSELKQKIHS--ITGLPPAMQKVMYKGL-VPEDKT-----LREIKVTSGAKIMVV   85 (95)
T ss_dssp             CCEEEEEEE-TTEEE-EEEECTTSBHHHHHHHHHH--HHCSCSTTCCCBSSSB-CCSSSB-----HHHHCCCTTEEEEEC
T ss_pred             cEEEEEEEE-CCEEE-EEEECCCCcHHHHHHHHHH--HhCCChhHEEEEeccc-ccCCCc-----HHHCCCCCCCEEEEE
Confidence            569999996 66666 8999999999999999999  9999999999999997 888777     999999999999998


Q ss_pred             EecC
Q 034173           88 LFNL   91 (102)
Q Consensus        88 ~~~~   91 (102)
                      ....
T Consensus        86 gs~~   89 (95)
T d1v86a_          86 GSTI   89 (95)
T ss_dssp             CSSC
T ss_pred             ecCC
Confidence            6554

>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=99.70  E-value=1.8e-17  Score=105.96  Aligned_cols=81  Identities=11%  Similarity=0.067  Sum_probs=68.3

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCe-------ecCCCCCCCCCCccccCCC
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGK-------VLDDTQDDDDRDDVYLQLS   79 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk-------~L~D~~t~~~~~L~~~~I~   79 (102)
                      +..|.|+|++.......+..+++++||.+||++|+.  ..|+|+++|||+|.|+       .++|+.+     |.+|+|.
T Consensus         5 ss~v~v~I~s~~~~~~~E~r~~~~~TV~~LK~kle~--~tGip~~~qrL~~~~~~~~~~~~l~~d~~~-----L~~y~i~   77 (95)
T d1v6ea_           5 SSGVMVFISSSLNSFRSEKRYSRSLTIAEFKCKLEL--VVGSPASCMELELYGADDKFYSKLDQEDAL-----LGSYPVD   77 (95)
T ss_dssp             CCCEEEEEEETTSSSCEEEEECTTSBHHHHHHHHHH--HTCSCTTTCBCEEECSSSCEEEECCCSSSB-----TTSSSCC
T ss_pred             CCcEEEEEEECCCCcEEEEEeCCCCCHHHHHHHHHH--HhCcCchhEEEEEeCCCCceeecccCCcCC-----HHHCCCC
Confidence            456999999853333338899999999999999999  9999999999999998       4556666     9999999


Q ss_pred             CCCEEEEEEecCCCc
Q 034173           80 NGGNINISLFNLDDL   94 (102)
Q Consensus        80 ~g~ti~l~~~~~~~~   94 (102)
                      +|++|||+.+++...
T Consensus        78 dg~~ihlvd~~p~~~   92 (95)
T d1v6ea_          78 DGCRIHVIDHSGSGP   92 (95)
T ss_dssp             TTCEEEEBCCSCCSS
T ss_pred             CCCEEEEEeCCCCCC
Confidence            999999998887543

>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=99.68  E-value=2.1e-17  Score=107.46  Aligned_cols=73  Identities=11%  Similarity=0.107  Sum_probs=62.8

Q ss_pred             EEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCC-------CEE
Q 034173           12 ITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNG-------GNI   84 (102)
Q Consensus        12 I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g-------~ti   84 (102)
                      |||+...++....++|+++.||.+||++|++  +.|+|+++|||+|+|+.|+|+.+     |++|||.+.       .++
T Consensus         2 ifv~i~~~k~Ti~l~v~~~~TV~~lK~~I~~--~~gip~~~QrLi~~Gk~L~D~~T-----L~dYgI~~~~~~~~~~~~~   74 (103)
T d2c9wb1           2 VFLMIRRHKTTIFTDAKESSTVFELKRIVEG--ILKRPPDEQRLYKDDQLLDDGKT-----LGECGFTSQTARPQAPATV   74 (103)
T ss_dssp             EEEEEEEBTEEEEEEECTTSBHHHHHHHHHH--HHCCCGGGEEEEETTEECCTTSB-----HHHHTCCTTTSBTTBCEEE
T ss_pred             EEEEEeCCCEEEEEEeCCCCcHHHHHHHHHH--HhCCCcccEEEEECCEEcCCCCC-----HHHcCCCcccccccCCcEE
Confidence            6666665654447899999999999999999  99999999999999999998888     999999654       488


Q ss_pred             EEEEecC
Q 034173           85 NISLFNL   91 (102)
Q Consensus        85 ~l~~~~~   91 (102)
                      ++.++..
T Consensus        75 ~l~~~~~   81 (103)
T d2c9wb1          75 GLAFRAD   81 (103)
T ss_dssp             EEEEEET
T ss_pred             EEEEecC
Confidence            8888764

>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=99.66  E-value=8e-17  Score=103.22  Aligned_cols=73  Identities=15%  Similarity=0.174  Sum_probs=56.6

Q ss_pred             EEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCC-CCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEEEe
Q 034173           11 EITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHL-PIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINISLF   89 (102)
Q Consensus        11 ~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~i-p~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~~~   89 (102)
                      +..++.++.+.  ...++.+.||.+||++|++....+. +|++|||||+||.|+|+.+     |++|||++|+||||+.|
T Consensus        20 k~~i~~p~~~~--~~~~~~~~tV~~lK~~i~~~~~~~~P~p~~~rLIy~Gk~L~D~~t-----L~~y~I~~gstihLV~r   92 (94)
T d1x1ma1          20 KSILQLPETEL--GEYSLGGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQT-----LDFYGIQPGSTVHVLRK   92 (94)
T ss_dssp             CEEECCCCCSS--CSSCCCCCBHHHHHHHHHHHCTTTCCCSSSEEEEETTEECCTTCB-----HHHHTCCTTCEEEEEES
T ss_pred             cceEECCCCcc--CccCCCccCHHHHHHHHHHHcccCCCChhheEEEECCeEECCCcc-----HHHcCCCCCCEEEEEEe
Confidence            44555555433  2234557899999999987333344 4799999999999999888     99999999999999887


Q ss_pred             c
Q 034173           90 N   90 (102)
Q Consensus        90 ~   90 (102)
                      .
T Consensus        93 ~   93 (94)
T d1x1ma1          93 S   93 (94)
T ss_dssp             S
T ss_pred             C
Confidence            4

>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=99.65  E-value=3.8e-16  Score=96.22  Aligned_cols=76  Identities=14%  Similarity=0.266  Sum_probs=68.8

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      ++.|+|+|+. +++.. .+.|.+++++..||+.+++  +.++++++|||+|+|+.|.++.|     +++|+|++|++|++
T Consensus         2 ~~~I~ikv~~-~~~~~-~f~v~~~~~~~~l~~~~~~--~~~i~~~~~~l~f~G~~l~~~~T-----~~~~~i~dgd~I~v   72 (79)
T d1euvb_           2 ETHINLKVSD-GSSEI-FFKIKKTTPLRRLMEAFAK--RQGKEMDSLRFLYDGIRIQADQT-----PEDLDMEDNDIIEA   72 (79)
T ss_dssp             CSEEEEEEES-SSCEE-EEEEETTSCTHHHHHHHHH--HTTCCGGGEEEEETTEECCTTCC-----TTTTTCCTTEEEEE
T ss_pred             CcEEEEEECC-CCeEE-EEEECCCCcHHHHHHHHHH--HhCCChHhEEEEECCEEeCCCCC-----HHHCCCCCCCEEEE
Confidence            3568899987 56666 7999999999999999999  99999999999999999998888     99999999999999


Q ss_pred             EEecC
Q 034173           87 SLFNL   91 (102)
Q Consensus        87 ~~~~~   91 (102)
                      +++..
T Consensus        73 ~~~q~   77 (79)
T d1euvb_          73 HREQI   77 (79)
T ss_dssp             EECCB
T ss_pred             EEecc
Confidence            98754

>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=99.64  E-value=6.4e-16  Score=98.78  Aligned_cols=83  Identities=11%  Similarity=0.234  Sum_probs=66.2

Q ss_pred             CCcEEEEEEcCC---CCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCC---CCCCCCCccccCCCC
Q 034173            7 SESVEITVKTIG---PAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDT---QDDDDRDDVYLQLSN   80 (102)
Q Consensus         7 ~~~i~I~vK~~~---~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~---~t~~~~~L~~~~I~~   80 (102)
                      .+.|+|+|++++   ++.+ ++.|++++||.+||.+|+.  ..|+|+++|||+|.|+.+..-   ..+|+++|.+|||++
T Consensus         7 ~~~iti~i~~~~~~~~~~~-~~kv~~~~TV~~LK~~i~~--~~gip~~~qrL~y~~~~~~~~~~~l~~d~~tL~~YgI~d   83 (97)
T d1wjna_           7 GQLLTLKIKCSNQPERQIL-EKQLPDSMTVQKVKGLLSR--LLKVPVSELLLSYESSKMPGREIELENDLQPLQFYSVEN   83 (97)
T ss_dssp             SCEEEEEEEESSCSSSCCE-EEEEETTSBHHHHHHHHHT--TTTCCTTTCEEEEECTTSCSCEEECCCSSSBSGGGTCCT
T ss_pred             CCeEEEEEEeCCCCCCceE-EEEcCCCCCHHHHHHHHHH--HHCcChHHeEEEecCCCCCcccceecCCCcCHhhccCCC
Confidence            356888888654   4555 8999999999999999998  999999999999999843210   112345599999999


Q ss_pred             CCEEEEEEecCC
Q 034173           81 GGNINISLFNLD   92 (102)
Q Consensus        81 g~ti~l~~~~~~   92 (102)
                      |++|+|...+|.
T Consensus        84 g~~I~V~~~~P~   95 (97)
T d1wjna_          84 GDCLLVRWSGPS   95 (97)
T ss_dssp             TCEEEEECCSSC
T ss_pred             CCEEEEEeCCCC
Confidence            999999876663

>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=99.58  E-value=2.4e-15  Score=92.18  Aligned_cols=75  Identities=16%  Similarity=0.307  Sum_probs=70.5

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      +.|+|+|++.+|+.+ .+.|..+.++..|++++++  +.++|++++||+|.|+.|.++.|     ++++++++|++|++.
T Consensus         1 e~I~ikv~~~dg~~v-~f~v~~~t~l~kl~~~y~~--~~~~~~~~~~f~fdG~~l~~~~T-----~~~l~~edgD~Idv~   72 (77)
T d2uyzb1           1 EYIKLKVIGQDSSEI-HFKVKMTTHLKKLKESYCQ--RQGVPMNSLRFLFEGQRIADNHT-----PKELGMEEEDVIEVY   72 (77)
T ss_dssp             CEEEEEEECTTCCEE-EEEEETTSCTHHHHHHHHH--HHTCCGGGEEEEETTEECCTTCC-----HHHHTCCTTEEEEEE
T ss_pred             CEEEEEEECCCCCEE-EEEECCCChHHHHHHHHHH--HhCCChhHEEEEECCEECCCCCC-----HHHcCCCCCCEEEEE
Confidence            368999999999988 8999999999999999998  99999999999999999988888     999999999999998


Q ss_pred             Eec
Q 034173           88 LFN   90 (102)
Q Consensus        88 ~~~   90 (102)
                      ++.
T Consensus        73 ~~q   75 (77)
T d2uyzb1          73 QEQ   75 (77)
T ss_dssp             ECC
T ss_pred             Eec
Confidence            865

>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=99.53  E-value=2.6e-14  Score=90.11  Aligned_cols=79  Identities=14%  Similarity=0.165  Sum_probs=62.7

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCee-------cCCCCCCCCCCccccCCC
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKV-------LDDTQDDDDRDDVYLQLS   79 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~-------L~D~~t~~~~~L~~~~I~   79 (102)
                      ++.+.|.|.+...+...+..+++++||.+||++|+.  ..|+|++.|||+|.|+.       .+|+.+     |.+|||.
T Consensus         2 s~~~~l~it~~~t~~~~E~r~~~~~TV~~LK~kle~--~~Gip~~~q~L~~~~~~~~~~~~l~dd~~~-----L~~ygi~   74 (90)
T d1t0ya_           2 TEVYDLEITTNATDFPMEKKYPAGMSLNDLKKKLEL--VVGTTVDSMRIQLFDGDDQLKGELTDGAKS-----LKDLGVR   74 (90)
T ss_dssp             CCEEEEEEEESSCCSCEEEEEETTSBHHHHHHHHHH--HHCCCTTTEEEEEECSSSSEEEECCCCSSB-----TTTTTCC
T ss_pred             CcEEEEEEEECCCccEEEEecCCCCCHHHHHHHHHH--HHCCChhheEEEEeCCCCCcccccccCCCC-----HHHCCCC
Confidence            345677777633333237789999999999999999  99999999999999873       344445     9999999


Q ss_pred             CCCEEEEEEecCC
Q 034173           80 NGGNINISLFNLD   92 (102)
Q Consensus        80 ~g~ti~l~~~~~~   92 (102)
                      +|.+|||+=.++.
T Consensus        75 dG~~Ihvvd~~~~   87 (90)
T d1t0ya_          75 DGYRIHAVDVTGG   87 (90)
T ss_dssp             SSEEEEEEECTTC
T ss_pred             CCCEEEEEeCCCC
Confidence            9999999766653

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

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

Probab=99.00  E-value=7.1e-10  Score=66.62  Aligned_cols=69  Identities=14%  Similarity=0.336  Sum_probs=64.7

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      |+|+|+..+|+.+ .+.|..+.++..|....++  ..++++...+++|.|+.+..+.|     .+++++++|++|.+
T Consensus         2 I~lkv~~~~g~~v-~f~vk~~t~l~kl~~~y~~--~~~~~~~~~~f~fdG~~i~~~~T-----p~~l~med~D~Idv   70 (72)
T d1wm3a_           2 INLKVAGQDGSVV-QFKIKRHTPLSKLMKAYCE--RQGLSMRQIRFRFDGQPINETDT-----PAQLEMEDEDTIDV   70 (72)
T ss_dssp             EEEEEECTTSCEE-EEEECTTSCTHHHHHHHHH--HHTCCTTTCEEEETTEECCTTCC-----TTTTTCCTTEEEEE
T ss_pred             EEEEEECCCCCEE-EEEEcCCChHHHHHHHHHH--HhCCCccceEEEECCEEcCCCCC-----HHHcCCCCCCEEEE
Confidence            7899999999887 8999999999999999998  89999999999999999988888     99999999999976

>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=98.79  E-value=3.5e-09  Score=66.76  Aligned_cols=73  Identities=25%  Similarity=0.330  Sum_probs=54.7

Q ss_pred             EEEEcCCCCCceEEEecC-CCcHHHHHHHHHhccCCCCCCCceEEEeC-Ceec---------CCCCCCCCCCccccCCCC
Q 034173           12 ITVKTIGPAPPSRLSVSS-PIKVRDLRKLIATSSANHLPIENLRLVFR-GKVL---------DDTQDDDDRDDVYLQLSN   80 (102)
Q Consensus        12 I~vK~~~~~~~~~l~v~~-~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~-Gk~L---------~D~~t~~~~~L~~~~I~~   80 (102)
                      |.||+.+|-.  .++|+. ++||.+||++|++  ..++|.+.|+|-.. +-.|         ..+..+|...|+++||.+
T Consensus         3 iRiRsrdG~e--Rv~v~~~~~Tl~~LK~~Ie~--~L~VPv~~Q~LSl~~~llL~k~P~~~~~~~~l~d~~~~L~sl~i~h   78 (94)
T d1wf9a1           3 LRVRSRDGLE--RVSVDGPHITVSQLKTLIQD--QLQIPIHNQTLSTNRNLLLAKSPSDFLAFTDMADPNLRISSLNLAH   78 (94)
T ss_dssp             EEEECSSCEE--EEEECCTTSBHHHHHHHHHH--HSCCCTTTCCCBSSGGGGTCCSHHHHTTCCSSCCTTCBGGGTCCCT
T ss_pred             EEEEecCCce--EEEecCCCCcHHHHHHHHHH--HhCCCcccceeecChhhhccCCccccchhhhccCCccCHHHcCccC
Confidence            5688999865  688964 7899999999999  99999999999442 1111         001223344599999999


Q ss_pred             CCEEEEEE
Q 034173           81 GGNINISL   88 (102)
Q Consensus        81 g~ti~l~~   88 (102)
                      |+.||+.-
T Consensus        79 GsivyL~y   86 (94)
T d1wf9a1          79 GSMVYLAY   86 (94)
T ss_dssp             TCEEECCC
T ss_pred             ceEEEEEe
Confidence            99999854

>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=97.36  E-value=0.00062  Score=40.43  Aligned_cols=73  Identities=11%  Similarity=0.183  Sum_probs=58.7

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEE--eCCeecCCCCCCCCCCccccCCCCCCEEEE
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLV--FRGKVLDDTQDDDDRDDVYLQLSNGGNINI   86 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi--~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l   86 (102)
                      ..+|.||.++|+.+ .-....+.||.+|.+-|..  . +.++....|+  |-.+.+...  +.+.+|.+.|+.+..+|+|
T Consensus         5 ~~~i~iRlPdG~~~-~~~F~~~~tl~~v~~~v~~--~-~~~~~~~~l~~~~Pr~~l~~~--d~~~TL~e~gL~p~~~L~v   78 (82)
T d1h8ca_           5 VSKLRIRTPSGEFL-ERRFLASNKLQIVFDFVAS--K-GFPWDEYKLLSTFPRRDVTQL--DPNKSLLEVKLFPQETLFL   78 (82)
T ss_dssp             CEEEEEECTTSCEE-EEEECTTSBHHHHHHHHHH--H-TCCSSSEEEEETTTTEETTTC--CTTSBHHHHCCCSEEEEEE
T ss_pred             cEEEEEECCCCCEE-EEEECCCCcHHHHHHHHHh--c-CCCCCceEEEecCcccccccc--cccCCHHHCCCCCCCEEEE
Confidence            46799999999988 7799999999999999975  3 5667777776  677788522  2346699999999999887


Q ss_pred             E
Q 034173           87 S   87 (102)
Q Consensus        87 ~   87 (102)
                      .
T Consensus        79 q   79 (82)
T d1h8ca_          79 E   79 (82)
T ss_dssp             E
T ss_pred             E
Confidence            5

>d2al3a1 d.15.1.2 (A:10-85) Tether containing UBX domain for GLUT4 (Tug) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: Tether containing UBX domain for GLUT4 (Tug)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.30  E-value=0.00047  Score=41.28  Aligned_cols=68  Identities=13%  Similarity=0.165  Sum_probs=61.7

Q ss_pred             EEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeCCeecCCCCCCCCCCccccCCCCCCEEEEE
Q 034173           12 ITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFRGKVLDDTQDDDDRDDVYLQLSNGGNINIS   87 (102)
Q Consensus        12 I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~l~   87 (102)
                      |.|=+++|... ++.|.|++|+.++-+...+  +.|+.+++-.|-|+++.|+-+.+     +.-.||.+|..+.++
T Consensus         3 V~Vl~~~~rR~-~VKvtP~t~l~~VL~eaC~--k~~~~~~~~~Lkh~~k~ldLsl~-----~R~sgLpnnakLELv   70 (76)
T d2al3a1           3 VSVLAPNGRRH-TVKVTPSTVLLQVLEDTCR--RQDFNPSEYDLKFQRTVLDLSLQ-----WRFANLPNNAKLEMV   70 (76)
T ss_dssp             EEEECTTSCEE-EECCCTTSBHHHHHHHHHH--HTTCCGGGCEEEETTEEESSSCB-----HHHHCCCSSCEEEEE
T ss_pred             EEEECCCCcEE-EEEeCCCcCHHHHHHHHHH--HhCCChhHceeeeCCEEcCccce-----eeecCCCCCCEEEEE
Confidence            55667888877 8999999999999999998  99999999999999999987777     999999999999875

>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=97.21  E-value=0.0015  Score=39.62  Aligned_cols=75  Identities=12%  Similarity=0.075  Sum_probs=57.3

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEE--eCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLV--FRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi--~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      +.++|.||.++|+.+ .-....++||.+|..-|+.  . +......+|+  |--+.+.   .+.+.+|.++||.+..+|+
T Consensus        15 ~~~~i~iRlPdG~r~-~r~F~~~dtl~~l~~fv~~--~-~~~~~~f~l~~~~Pr~~~~---~d~~~TL~e~gl~p~~~L~   87 (96)
T d2cr5a1          15 EVVTVALRCPNGRVL-RRRFFKSWNSQVLLDWMMK--V-GYHKSLYRLSTSFPRRALE---VEGGSSLEDIGITVDTVLN   87 (96)
T ss_dssp             SEEEEEEECTTSCEE-EEEEESSSBTHHHHHHHHH--H-TCCTTTEEEECSSSCCBCC---CCSSCBHHHHTCSSCEEEE
T ss_pred             CeEEEEEECCCCCEE-EEEECCcccHHHHHHHHHH--h-ccCcccceeecCCCceecC---ccCCCcHHHCCCCCCCEEE
Confidence            569999999999988 7788999999999999875  3 3456667776  3445553   2335679999999998887


Q ss_pred             EEEe
Q 034173           86 ISLF   89 (102)
Q Consensus        86 l~~~   89 (102)
                      |.=+
T Consensus        88 v~~~   91 (96)
T d2cr5a1          88 VEEK   91 (96)
T ss_dssp             EEEC
T ss_pred             EecC
Confidence            7443

>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=96.84  E-value=0.0079  Score=36.01  Aligned_cols=73  Identities=15%  Similarity=0.182  Sum_probs=55.3

Q ss_pred             CCcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeC--CeecCCCCCCCCCCccccCCCCCCEE
Q 034173            7 SESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFR--GKVLDDTQDDDDRDDVYLQLSNGGNI   84 (102)
Q Consensus         7 ~~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~--Gk~L~D~~t~~~~~L~~~~I~~g~ti   84 (102)
                      ....+|.||.++|+.+ ......+.||.+|.+-+.. ...+.+.....|+..  -|.+.    +.+.+|.++||.+ ++|
T Consensus        12 ~p~t~I~iRlPdG~~~-~~~F~~~~tl~dv~~~v~~-~~~~~~~~~f~L~t~~Prr~l~----d~~~TL~e~gL~~-s~v   84 (89)
T d1i42a_          12 EPTTNIQIRLADGGRL-VQKFNHSHRISDIRLFIVD-ARPAMAATSFVLMTTFPNKELA----DENQTLKEANLLN-AVI   84 (89)
T ss_dssp             SCCEEEEEEETTTCCE-EEEECSSSCGGGHHHHHHH-HCTTTSSCCEEEEETTTTEECC----CCSSCSGGGTTCC-SEE
T ss_pred             CCcEEEEEEcCCCCEE-EEEECCchhHHHHHHHHHH-hCccCCCCCEEEecCCCCcccC----CCcCcHHHCCCcC-ceE
Confidence            3568999999999988 8899999999999999975 133566677888754  56674    3346699999996 455


Q ss_pred             EE
Q 034173           85 NI   86 (102)
Q Consensus        85 ~l   86 (102)
                      .+
T Consensus        85 l~   86 (89)
T d1i42a_          85 VQ   86 (89)
T ss_dssp             EE
T ss_pred             EE
Confidence            43

>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=96.64  E-value=0.0037  Score=36.97  Aligned_cols=66  Identities=18%  Similarity=0.296  Sum_probs=44.2

Q ss_pred             cEEEEEEcCC------CCCceEEEecCCCcHHHHHHHHHhccCCC-----------CCCCceEEEeCCeecCCCCCCCCC
Q 034173            9 SVEITVKTIG------PAPPSRLSVSSPIKVRDLRKLIATSSANH-----------LPIENLRLVFRGKVLDDTQDDDDR   71 (102)
Q Consensus         9 ~i~I~vK~~~------~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~-----------ip~~~qrLi~~Gk~L~D~~t~~~~   71 (102)
                      +|+|+||...      |.....++++.+.||.+|++.+.+  +..           ......++..+|+...++      
T Consensus         1 smkI~v~~Fa~lre~~G~~~~~~~~~~~~Tv~~l~~~L~~--~~~~~~~~l~~~~~~~~~~i~iavN~~~~~~d------   72 (88)
T d1vjka_           1 SVKVKVKYFARFRQLAGVDEEEIELPEGARVRDLIEEIKK--RHEKFKEEVFGEGYDEDADVNIAVNGRYVSWD------   72 (88)
T ss_dssp             CEEEEEEECTHHHHHHSSSEEEEEECTTCBHHHHHHHHHH--HCGGGGGSCBCSSSCTTSSBEEEETTBCCCTT------
T ss_pred             CeEEEEEEhHHHHHHhCCCeEEEECCCCCCHHHHHHHHHH--HChHHHHHhhhccccccccEEEEEcceEcCCC------
Confidence            5888888653      333336889999999999999976  431           111234555677766433      


Q ss_pred             CccccCCCCCCEEEE
Q 034173           72 DDVYLQLSNGGNINI   86 (102)
Q Consensus        72 ~L~~~~I~~g~ti~l   86 (102)
                          +-|++||.|-+
T Consensus        73 ----~~L~~gDevai   83 (88)
T d1vjka_          73 ----EELKDGDVVGV   83 (88)
T ss_dssp             ----CBCCTTCEEEE
T ss_pred             ----cCcCCCCEEEE
Confidence                34889998875

>d1wj4a_ d.15.1.2 (A:) Hypothetical protein KIAA0794 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: Hypothetical protein KIAA0794
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.48  E-value=0.0072  Score=38.34  Aligned_cols=77  Identities=14%  Similarity=0.159  Sum_probs=58.8

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEE--eCCeecCCCCCCCCCCccccCCCCCCEEE
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLV--FRGKVLDDTQDDDDRDDVYLQLSNGGNIN   85 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi--~~Gk~L~D~~t~~~~~L~~~~I~~g~ti~   85 (102)
                      ...+|.||.++|+.+ ......+.||.+|..-|..  . +++....+|+  |--+.|...  +.+.+|.++||.+..+|+
T Consensus        42 p~~~l~iRlPdG~r~-~r~F~~~~tl~~l~~~v~~--~-~~~~~~~~L~~~fPr~~l~~~--d~~~TL~e~gL~P~~~L~  115 (124)
T d1wj4a_          42 PKAQLMLRYPDGKRE-QITLPEQAKLLALVKHVQS--K-GYPNERFELLTNFPRRKLSHL--DYDITLQEAGLCPQETVF  115 (124)
T ss_dssp             CEEEEEEECTTSCEE-EEEEETTSCHHHHHHHHHH--H-HCCTTTEEEECSSSCCEETSS--CSSSCTTTTTCCSSBCCE
T ss_pred             CceEEEEECCCCCEE-EEEeCCCCcHHHHHHHHHh--c-ccCCcceEEeecccccccccc--cccCcHHHcCCCCCCEEE
Confidence            458999999999998 7899999999999999975  3 4566677775  455666421  234569999999999998


Q ss_pred             EEEec
Q 034173           86 ISLFN   90 (102)
Q Consensus        86 l~~~~   90 (102)
                      |.=..
T Consensus       116 vee~~  120 (124)
T d1wj4a_         116 VQESG  120 (124)
T ss_dssp             EEECC
T ss_pred             EEecC
Confidence            75433

>d1y8xb1 c.111.1.2 (B:349-440) UBA3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Activating enzymes of the ubiquitin-like proteins
superfamily: Activating enzymes of the ubiquitin-like proteins
family: Ubiquitin activating enzymes (UBA)
domain: UBA3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.71  E-value=0.84  Score=27.39  Aligned_cols=62  Identities=13%  Similarity=0.307  Sum_probs=39.0

Q ss_pred             EEEecCCCcHHHHHHHHHhccCCCCCCCc----------eEEEeCCee--cCCCCCCC--CCCccccCCCCCCEEEEEE
Q 034173           24 RLSVSSPIKVRDLRKLIATSSANHLPIEN----------LRLVFRGKV--LDDTQDDD--DRDDVYLQLSNGGNINISL   88 (102)
Q Consensus        24 ~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~----------qrLi~~Gk~--L~D~~t~~--~~~L~~~~I~~g~ti~l~~   88 (102)
                      .+++++++|..+|-+.+++  ...+....          ++-.|--.+  |+. .|..  +++|.++|+.+|+.|+|+=
T Consensus         4 ~l~~~~~~TL~~li~~L~e--~p~~qlk~Psltt~~~g~~ktLYm~~pp~Lee-~Tr~NL~k~L~eLgl~dG~ei~VtD   79 (92)
T d1y8xb1           4 NIQFSPSAKLQEVLDYLTN--SASLQMKSPAITATLEGKNRTLYMQSVTSIEE-RTRPNLSKTLKELGLVDGQELAVAD   79 (92)
T ss_dssp             CEECCTTCBHHHHHHHHHH--CTTCCCSSCEEEEEETTEEEEEECSSCHHHHH-HHHHHHHSBSGGGTCCTTCEEEEEC
T ss_pred             eEEcCCCCcHHHHHHHHhh--ChHhhccCCceeeecCCCccEEEecCcHHHHH-HhhhccccCHHHhCCcCCCEEEEec
Confidence            5899999999999999998  43322222          222232212  211 0000  1459999999999999864

>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=87.45  E-value=0.68  Score=26.94  Aligned_cols=45  Identities=18%  Similarity=0.195  Sum_probs=32.4

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeC
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFR   58 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~   58 (102)
                      .+|+|++.. ++... .+.++++.+..+|+++|++  +.+.  +..+|-|.
T Consensus        11 ~~ikVKv~~-~~D~~-~~~l~~~it~~dL~~kI~~--rf~~--~~~~lkY~   55 (85)
T d1ip9a_          11 KTTKIKFYY-KDDIF-ALMLKGDTTYKELRSKIAP--RIDT--DNFKLQTK   55 (85)
T ss_dssp             CCEEEEECB-TTCCE-EEEECSCCCHHHHHHHHHH--HHTS--SCEEEEEC
T ss_pred             CCEEEEEEE-CCcEE-EEEeCCCCCHHHHHHHHHH--HhCC--CceEEEEE
Confidence            346665555 33444 8999999999999999988  6654  45677554

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

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

Probab=86.75  E-value=1.3  Score=25.66  Aligned_cols=65  Identities=9%  Similarity=0.113  Sum_probs=45.6

Q ss_pred             cEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCc-eEEEeCCe-----ecCCCCCCCCCCccccCCCCCC
Q 034173            9 SVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIEN-LRLVFRGK-----VLDDTQDDDDRDDVYLQLSNGG   82 (102)
Q Consensus         9 ~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~-qrLi~~Gk-----~L~D~~t~~~~~L~~~~I~~g~   82 (102)
                      +|+|.|..++++ + .+.++..++..+|=+++.+  ..++.... .=|.|.++     -|+.++.     |..+.++.+.
T Consensus         1 t~~v~V~~LD~~-~-~~~v~~~a~G~~l~~~Vc~--~l~L~E~dYFGL~y~d~~~~~~WLd~~k~-----l~kq~~~~~~   71 (84)
T d1ef1a3           1 TISVRVTTMDAE-L-EFAIQPNTTGKQLFDQVVK--TIGLREVWFFGLQYQDTKGFSTWLKLNKK-----VTAQDVRKES   71 (84)
T ss_dssp             CEEEEEEETTEE-E-EEEECTTCBHHHHHHHHHH--HHTCCCGGGEEEEEEBTTSCEEECCSSSB-----GGGSCBCCCS
T ss_pred             CEEEEEEEcCCE-E-EEEEcCCChHHHHHHHHHH--HcCCcccccceEEEECCCCCeEeccCCCc-----hhhhccCCCC
Confidence            589999999974 6 8999999999999999998  77765333 44444321     2433344     7776655554

>d1wxma1 d.15.1.5 (A:8-80) A-Raf proto-oncogene serine/threonine-protein kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ras-binding domain, RBD
domain: A-Raf proto-oncogene serine/threonine-protein kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.50  E-value=1.8  Score=24.71  Aligned_cols=42  Identities=12%  Similarity=0.020  Sum_probs=35.1

Q ss_pred             EEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEE
Q 034173           12 ITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLV   56 (102)
Q Consensus        12 I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi   56 (102)
                      |.|=-++|+.. .+.+.|+.||.++=.++-+  +.|+.++.-.+.
T Consensus         3 iRv~LPngq~T-~V~vrpG~tir~~L~k~l~--kRgl~~~~~~V~   44 (73)
T d1wxma1           3 VKVYLPNKQRT-VVTVRDGMSVYDSLDKALK--VRGLNQDCCVVY   44 (73)
T ss_dssp             EEEECSSSCEE-EEECCSSCBSHHHHHHHHH--TTTCCSSSEEEE
T ss_pred             EEEEcCCCCeE-EEEecCCCCHHHHHHHHHH--HcCCCHHHEEEE
Confidence            34446777776 7999999999999999988  999999987774

>d1xo3a_ d.15.3.3 (A:) C9orf74 homolog {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: C9orf74 homolog
domain: C9orf74 homolog
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=86.23  E-value=0.44  Score=28.43  Aligned_cols=35  Identities=20%  Similarity=0.311  Sum_probs=23.8

Q ss_pred             CcEEEEEEcCCCC-------CceEEEec---CCCcHHHHHHHHHh
Q 034173            8 ESVEITVKTIGPA-------PPSRLSVS---SPIKVRDLRKLIAT   42 (102)
Q Consensus         8 ~~i~I~vK~~~~~-------~~~~l~v~---~~~TV~~LK~~Ia~   42 (102)
                      ++|+|+|+..++-       .-..++++   ..+||++|-+.+++
T Consensus         3 ~~m~V~V~F~g~L~~lf~~~r~~~v~l~~~~~~~TV~dll~~L~~   47 (101)
T d1xo3a_           3 APLCVKVEFGGGAELLFDGVKKHQVALPGQEEPWDIRNLLVWIKK   47 (101)
T ss_dssp             SSCEEEEEECSSGGGGGTTCCCEEEECCSSSCCCCHHHHHHHHHH
T ss_pred             CCeEEEEEEechHHHHhCCcceEEEEcCCCCCCcCHHHHHHHHHH
Confidence            5689999985532       11245554   34799999998876

>d1c1yb_ d.15.1.5 (B:) c-Raf1 RBD {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ras-binding domain, RBD
domain: c-Raf1 RBD
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.35  E-value=3  Score=23.92  Aligned_cols=41  Identities=12%  Similarity=0.006  Sum_probs=34.4

Q ss_pred             EEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEE
Q 034173           13 TVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLV   56 (102)
Q Consensus        13 ~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi   56 (102)
                      .|=-++|+.. .+.+.|+.||.++=.++-+  +.|++++.-.+.
T Consensus         5 Rv~LPngq~T-~V~vrpG~tird~L~k~l~--kRgl~~~~c~V~   45 (77)
T d1c1yb_           5 RVFLPNKQRT-VVNVRNGMSLHDCLMKALK--VRGLQPECCAVF   45 (77)
T ss_dssp             EEEETTTEEE-EEECCTTCBHHHHHHHHHH--TTTCCGGGEEEE
T ss_pred             EEECCCCCeE-EEEecCCCCHHHHHHHHHH--HcCCCHHHEEEE
Confidence            3345777776 7999999999999999988  999999987774

>d1oeya_ d.15.2.2 (A:) Neutrophil cytosol factor 2 (p67phox component of NADPH oxidase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: CAD & PB1 domains
family: PB1 domain
domain: Neutrophil cytosol factor 2 (p67phox component of NADPH oxidase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.15  E-value=0.63  Score=27.44  Aligned_cols=44  Identities=14%  Similarity=0.271  Sum_probs=35.7

Q ss_pred             EEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEEeC
Q 034173           10 VEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLVFR   58 (102)
Q Consensus        10 i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi~~   58 (102)
                      -.|+|...  -++ .+.++++...++|.++|++  +...+++.-+|-|+
T Consensus         6 ~~vkVh~~--fTV-al~v~~G~~y~~L~~lvs~--KL~l~~~~~~LSY~   49 (82)
T d1oeya_           6 YTLKVHYK--YTV-VMKTQPGLPYSQVRDMVSK--KLELRLEHTKLSYR   49 (82)
T ss_dssp             EEEEEESS--SEE-EEEECTTCCHHHHHHHHHH--HTTCCGGGCCEEEC
T ss_pred             EEEEEEEE--EEE-EEEccCCCCHHHHHHHHHH--HhCCChhheEEEec
Confidence            34445542  233 6889999999999999999  99999999999996

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

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

Probab=81.08  E-value=0.68  Score=28.44  Aligned_cols=75  Identities=17%  Similarity=0.169  Sum_probs=51.2

Q ss_pred             CcEEEEEEcCCCCCceEEEecCCCcHHHHHHHHHhccCCCCCCCceEEE---eCCeec--CCCCCCCCCCccccCCCCCC
Q 034173            8 ESVEITVKTIGPAPPSRLSVSSPIKVRDLRKLIATSSANHLPIENLRLV---FRGKVL--DDTQDDDDRDDVYLQLSNGG   82 (102)
Q Consensus         8 ~~i~I~vK~~~~~~~~~l~v~~~~TV~~LK~~Ia~~~~~~ip~~~qrLi---~~Gk~L--~D~~t~~~~~L~~~~I~~g~   82 (102)
                      +.|-..|-..+.+.. ++.++.++|+.++++.+++  +.+++.+.+.|+   .+|..+  ++++.     --.-.+.-..
T Consensus         8 dei~~~VY~~Dhsy~-tlr~~v~~sa~eI~~~vae--Kl~~~~e~L~LV~V~SsGEr~~lkp~d~-----sV~TsL~lN~   79 (104)
T d1wgya_           8 EEIFCHVYITEHSYV-SVKAKVSSIAQEILKVVAE--KIQYAEEDLALVAITFSGEKHELQPNDL-----VISKSLEASG   79 (104)
T ss_dssp             SCCCEEEECSSSCEE-EECCCTTCBSHHHHHHHHH--HHTSCGGGEEEEEECSSCCCCBCCTTSB-----SSCCSSCSSC
T ss_pred             CeEEEEEEecCCcEE-EEEeeccCcHHHHHHHHHH--HhCCCCCceEEEEEccCCcEEeeCccce-----eEEeeeeecc
Confidence            345556667777666 8999999999999999999  889998988776   455443  32222     1122344556


Q ss_pred             EEEEEEec
Q 034173           83 NINISLFN   90 (102)
Q Consensus        83 ti~l~~~~   90 (102)
                      -|++..+.
T Consensus        80 rLFvc~~d   87 (104)
T d1wgya_          80 RIYVYRKD   87 (104)
T ss_dssp             EEEEEECC
T ss_pred             eEEEechh
Confidence            77776654