Psyllid ID: psy16998

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------10
Protein Sequence
MADNSSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTSE
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccEEEEEEcccccEEEEEEcccccHHHHHHHHHHHHcccccccccccccccccccccccccEEEEEccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccEEEEEEEEccccEEEEEEEcccHHHHHHHHHHHHHcccccEEccccccccccccccccccEEEEcccccc
Coil and Loop (DISEMBL)
madnssvsyqtskppmksssadggdnvEYIKLKVLSSDSNEIHFRVKmttpmgklkkSYSErvenkpmykampmgtglpfgqthggnsfycvnsgtse
Flexible Loop (DISEMBL)
madnssvsyqtskppmksssadggdNVEYIKLKvlssdsneihfrvkmttpmgklkksySERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTSE
Low Complexity Region (SEG)
MADNSSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTSE
Disordered region (IsUnstruct)
***************************EYIKLKVL******IHFR**********************************F***HGGNSFYCV******
Disordered Region (DISOPRED)
*******************************LKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMP***********GGNSFYCVNSG***
Disordered Region (DISEMBL)
***********************GDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTSE
Disordered Region (DISPRO)
**************************VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYC*******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MADNSSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTSE
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	98	2.2.26 [Sep-21-2011]
P55853	91	Small ubiquitin-related m	yes	N/A	0.479	0.516	0.617	5e-11
Q9PT08	101	Small ubiquitin-related m	N/A	N/A	0.520	0.504	0.584	4e-09
Q6DEP7	102	Small ubiquitin-related m	yes	N/A	0.530	0.509	0.559	2e-08
Q5EAX4	102	Small ubiquitin-related m	N/A	N/A	0.530	0.509	0.559	2e-08
Q7SZR5	100	Small ubiquitin-related m	yes	N/A	0.438	0.43	0.622	3e-08
Q8QGH2	101	Small ubiquitin-related m	yes	N/A	0.530	0.514	0.551	3e-08
Q2EF74	101	Small ubiquitin-related m	N/A	N/A	0.530	0.514	0.551	3e-08
Q5I0H3	101	Small ubiquitin-related m	yes	N/A	0.530	0.514	0.551	3e-08
Q5R6J4	101	Small ubiquitin-related m	no	N/A	0.530	0.514	0.551	3e-08
A7WLH8	101	Small ubiquitin-related m	yes	N/A	0.530	0.514	0.551	3e-08

>sp|P55853|SUMO_CAEEL Small ubiquitin-related modifier OS=Caenorhabditis elegans GN=smo-1 PE=1 SV=1

 Score = 66.2 bits (160), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 29/47 (61%), Positives = 35/47 (74%)

Query: 16 MKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          M   +A  GDN EYIK+KV+  DSNE+HFRVK  T M KLKKSY++R
Sbjct: 1  MADDAAQAGDNAEYIKIKVVGQDSNEVHFRVKYGTSMAKLKKSYADR 47

Ubiquitin-like protein which can be covalently attached to target lysines as a monomer. Does not seem to be involved in protein degradation and may function as an antagonist of ubiquitin in the degradation process. Plays a role in a number of cellular processes such as nuclear transport, DNA replication and repair, mitosis and signal transduction. Covalent attachment to its substrates requires prior activation by the E1 complex aos-1-uba-2 and linkage to the E2 enzyme ubc-9, and can be promoted by an E3 ligase such as gei-17. Required for embryonic development, fertility, vulval morphogenesis and inhibition of vulval cell fates.
Caenorhabditis elegans (taxid: 6239)

>sp|Q9PT08|SUMO1_ONCMY Small ubiquitin-related modifier 1 OS=Oncorhynchus mykiss GN=sumo1 PE=3 SV=1

 Score = 60.1 bits (144), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 31/53 (58%), Positives = 39/53 (73%), Gaps = 2/53 (3%)

Query: 12 SKPPMKSSSADGGD--NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          S    K S  DGGD  + EYIKLKV+  D++EIHF+VKMTT + KLK+SYS+R
Sbjct: 2  SDTDTKPSGQDGGDQKDGEYIKLKVIGQDNSEIHFKVKMTTHLKKLKESYSQR 54

Ubiquitin-like protein that can be covalently attached to proteins as a monomer or a lysine-linked polymer. Covalent attachment via an isopeptide bond to its substrates requires prior activation by the E1 complex sae1-sae2 and linkage to the E2 enzyme ube2i. This post-translational modification on lysine residues of proteins plays a crucial role in a number of cellular processes such as nuclear transport, DNA replication and repair, mitosis and signal transduction. Polymeric sumo1 chains are also susceptible to polyubiquitination which functions as a signal for proteasomal degradation of modified proteins.

Oncorhynchus mykiss (taxid: 8022)

>sp|Q6DEP7|SUMO1_XENTR Small ubiquitin-related modifier 1 OS=Xenopus tropicalis GN=sumo1 PE=3 SV=1

 Score = 57.4 bits (137), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 33/59 (55%), Positives = 41/59 (69%), Gaps = 7/59 (11%)

Query: 7  VSYQTSKPPMKSSSADGGDNVE---YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          +S Q +KP    SS D GD  E   YIKLKV+  DS+EIHF+VKMTT + KLK+SY +R
Sbjct: 1  MSDQEAKP----SSEDLGDKKEGGDYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR 55

Ubiquitin-like protein that can be covalently attached to proteins as a monomer or a lysine-linked polymer. Covalent attachment via an isopeptide bond to its substrates requires prior activation by the E1 complex sae1-sae2 and linkage to the E2 enzyme ube2i. This post-translational modification on lysine residues of proteins plays a crucial role in a number of cellular processes such as nuclear transport, DNA replication and repair, mitosis and signal transduction. Polymeric sumo1 chains are also susceptible to polyubiquitination which functions as a signal for proteasomal degradation of modified proteins.

Xenopus tropicalis (taxid: 8364)

>sp|Q5EAX4|SMO1B_XENLA Small ubiquitin-related modifier 1-B OS=Xenopus laevis GN=sumo1-b PE=3 SV=1

 Score = 57.4 bits (137), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 33/59 (55%), Positives = 41/59 (69%), Gaps = 7/59 (11%)

Query: 7  VSYQTSKPPMKSSSADGGDNVE---YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          +S Q +KP    SS D GD  E   YIKLKV+  DS+EIHF+VKMTT + KLK+SY +R
Sbjct: 1  MSDQEAKP----SSEDLGDKKEGGDYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR 55

Ubiquitin-like protein that can be covalently attached to proteins as a monomer or a lysine-linked polymer. Covalent attachment via an isopeptide bond to its substrates requires prior activation by the E1 complex sae1-sae2 and linkage to the E2 enzyme ube2i. This post-translational modification on lysine residues of proteins plays a crucial role in a number of cellular processes such as nuclear transport, DNA replication and repair, mitosis and signal transduction. Polymeric sumo1 chains are also susceptible to polyubiquitination which functions as a signal for proteasomal degradation of modified proteins.

Xenopus laevis (taxid: 8355)

>sp|Q7SZR5|SUMO1_DANRE Small ubiquitin-related modifier 1 OS=Danio rerio GN=sumo1 PE=2 SV=1

 Score = 57.4 bits (137), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 28/45 (62%), Positives = 38/45 (84%), Gaps = 2/45 (4%)

Query: 20 SADGGD--NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          S+DGG+  + EYIKLKV+  D++EIHF+VKMTT + KLK+SYS+R
Sbjct: 9  SSDGGEKKDGEYIKLKVIGQDNSEIHFKVKMTTHLKKLKESYSQR 53

Ubiquitin-like protein that can be covalently attached to proteins as a monomer or a lysine-linked polymer. Covalent attachment via an isopeptide bond to its substrates requires prior activation by the E1 complex sae1-sae2 and linkage to the E2 enzyme ube2i. This post-translational modification on lysine residues of proteins plays a crucial role in a number of cellular processes such as nuclear transport, DNA replication and repair, mitosis and signal transduction. Polymeric sumo1 chains are also susceptible to polyubiquitination which functions as a signal for proteasomal degradation of modified proteins.

Danio rerio (taxid: 7955)

>sp|Q8QGH2|SUMO1_CHICK Small ubiquitin-related modifier 1 OS=Gallus gallus GN=SUMO1 PE=3 SV=1

 Score = 57.0 bits (136), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 32/58 (55%), Positives = 41/58 (70%), Gaps = 6/58 (10%)

Query: 7  VSYQTSKPPMKSSSADGGDNVE--YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          +S Q +KP    S+ D GD  E  YIKLKV+  DS+EIHF+VKMTT + KLK+SY +R
Sbjct: 1  MSDQEAKP----SAEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR 54

Ubiquitin-like protein that can be covalently attached to proteins as a monomer or a lysine-linked polymer. Covalent attachment via an isopeptide bond to its substrates requires prior activation by the E1 complex SAE1-SAE2 and linkage to the E2 enzyme UBE2I. This post-translational modification on lysine residues of proteins plays a crucial role in a number of cellular processes such as nuclear transport, DNA replication and repair, mitosis and signal transduction. Polymeric SUMO1 chains are also susceptible to polyubiquitination which functions as a signal for proteasomal degradation of modified proteins.

Gallus gallus (taxid: 9031)

>sp|Q2EF74|SUMO1_SPETR Small ubiquitin-related modifier 1 OS=Spermophilus tridecemlineatus GN=SUMO1 PE=3 SV=1

 Score = 57.0 bits (136), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 32/58 (55%), Positives = 41/58 (70%), Gaps = 6/58 (10%)

Query: 7  VSYQTSKPPMKSSSADGGDNVE--YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          +S Q +KP    S+ D GD  E  YIKLKV+  DS+EIHF+VKMTT + KLK+SY +R
Sbjct: 1  MSDQEAKP----STEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR 54

Ubiquitin-like protein that can be covalently attached to proteins as a monomer or a lysine-linked polymer. Covalent attachment via an isopeptide bond to its substrates requires prior activation by the E1 complex SAE1-SAE2 and linkage to the E2 enzyme UBE2I, and can be promoted by E3 ligases such as PIAS1-4, RANBP2 or CBX4. This post-translational modification on lysine residues of proteins plays a crucial role in a number of cellular processes such as nuclear transport, DNA replication and repair, mitosis and signal transduction. Involved for instance in targeting RANGAP1 to the nuclear pore complex protein RANBP2. Polymeric SUMO1 chains are also susceptible to polyubiquitination which functions as a signal for proteasomal degradation of modified proteins (By similarity). May be involved in modified proteins. May also regulate a network of genes involved in palate development.

Spermophilus tridecemlineatus (taxid: 43179)

>sp|Q5I0H3|SUMO1_RAT Small ubiquitin-related modifier 1 OS=Rattus norvegicus GN=Sumo1 PE=1 SV=1

 Score = 57.0 bits (136), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 32/58 (55%), Positives = 41/58 (70%), Gaps = 6/58 (10%)

Query: 7  VSYQTSKPPMKSSSADGGDNVE--YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          +S Q +KP    S+ D GD  E  YIKLKV+  DS+EIHF+VKMTT + KLK+SY +R
Sbjct: 1  MSDQEAKP----STEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR 54

Ubiquitin-like protein that can be covalently attached to proteins as a monomer or a lysine-linked polymer. Covalent attachment via an isopeptide bond to its substrates requires prior activation by the E1 complex SAE1-SAE2 and linkage to the E2 enzyme UBE2I, and can be promoted by E3 ligases such as PIAS1-4, RANBP2 or CBX4. This post-translational modification on lysine residues of proteins plays a crucial role in a number of cellular processes such as nuclear transport, DNA replication and repair, mitosis and signal transduction. Involved for instance in targeting RANGAP1 to the nuclear pore complex protein RANBP2. Polymeric SUMO1 chains are also susceptible to polyubiquitination which functions as a signal for proteasomal degradation of modified proteins. May also regulate a network of genes involved in palate development.

Rattus norvegicus (taxid: 10116)

>sp|Q5R6J4|SUMO1_PONAB Small ubiquitin-related modifier 1 OS=Pongo abelii GN=SUMO1 PE=3 SV=1

 Score = 57.0 bits (136), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 32/58 (55%), Positives = 41/58 (70%), Gaps = 6/58 (10%)

Query: 7  VSYQTSKPPMKSSSADGGDNVE--YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          +S Q +KP    S+ D GD  E  YIKLKV+  DS+EIHF+VKMTT + KLK+SY +R
Sbjct: 1  MSDQEAKP----STEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR 54

Ubiquitin-like protein that can be covalently attached to proteins as a monomer or a lysine-linked polymer. Covalent attachment via an isopeptide bond to its substrates requires prior activation by the E1 complex SAE1-SAE2 and linkage to the E2 enzyme UBE2I, and can be promoted by E3 ligases such as PIAS1-4, RANBP2 or CBX4. This post-translational modification on lysine residues of proteins plays a crucial role in a number of cellular processes such as nuclear transport, DNA replication and repair, mitosis and signal transduction. Involved for instance in targeting RANGAP1 to the nuclear pore complex protein RANBP2. Polymeric SUMO1 chains are also susceptible to polyubiquitination which functions as a signal for proteasomal degradation of modified proteins. May also regulate a network of genes involved in palate development.

Pongo abelii (taxid: 9601)

>sp|A7WLH8|SUMO1_PIG Small ubiquitin-related modifier 1 OS=Sus scrofa GN=SUMO1 PE=3 SV=1

 Score = 57.0 bits (136), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 32/58 (55%), Positives = 41/58 (70%), Gaps = 6/58 (10%)

Query: 7  VSYQTSKPPMKSSSADGGDNVE--YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          +S Q +KP    S+ D GD  E  YIKLKV+  DS+EIHF+VKMTT + KLK+SY +R
Sbjct: 1  MSDQEAKP----STEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR 54

Ubiquitin-like protein that can be covalently attached to proteins as a monomer or a lysine-linked polymer. Covalent attachment via an isopeptide bond to its substrates requires prior activation by the E1 complex SAE1-SAE2 and linkage to the E2 enzyme UBE2I, and can be promoted by E3 ligases such as PIAS1-4, RANBP2 or CBX4. This post-translational modification on lysine residues of proteins plays a crucial role in a number of cellular processes such as nuclear transport, DNA replication and repair, mitosis and signal transduction. Involved for instance in targeting RANGAP1 to the nuclear pore complex protein RANBP2. Polymeric SUMO1 chains are also susceptible to polyubiquitination which functions as a signal for proteasomal degradation of modified proteins. May also regulate a network of genes involved in palate development.

Sus scrofa (taxid: 9823)

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	98
241649961	96	conserved hypothetical protein [Ixodes s	0.479	0.489	0.765	7e-13
146446849	92	SUMO-1-like protein [Artemia franciscana	0.489	0.521	0.755	1e-11
383477569	92	sumo-1 like protein [Artemia sinica]	0.489	0.521	0.755	1e-11
156544940	102	PREDICTED: small ubiquitin-related modif	0.551	0.529	0.634	2e-10
238816825	93	small ubiquitin-like modifier-1 [Litopen	0.469	0.494	0.734	2e-10
340712345	98	PREDICTED: small ubiquitin-related modif	0.551	0.551	0.619	2e-10
48102954	98	PREDICTED: small ubiquitin-related modif	0.551	0.551	0.619	2e-10
225719762	107	Small ubiquitin-related modifier precurs	0.448	0.411	0.75	3e-10
225719364	107	Small ubiquitin-related modifier precurs	0.448	0.411	0.75	3e-10
321462723	93	hypothetical protein DAPPUDRAFT_231336 [	0.428	0.451	0.813	3e-10

>gi|241649961|ref|XP_002411230.1| conserved hypothetical protein [Ixodes scapularis] gi|215503860|gb|EEC13354.1| conserved hypothetical protein [Ixodes scapularis] gi|442748271|gb|JAA66295.1| Putative protein localization to chromosome [Ixodes ricinus]

 Score = 77.8 bits (190), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 36/47 (76%), Positives = 40/47 (85%)

Query: 17 KSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERV 63
          + S ADGGD+ EYIKLKV+  D NEIHF+VKMTT MGKLKKSYSERV
Sbjct: 6  QDSKADGGDSCEYIKLKVVGQDGNEIHFKVKMTTQMGKLKKSYSERV 52

Source: Ixodes scapularis

Species: Ixodes scapularis

Genus: Ixodes

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|146446849|gb|ABQ41279.1| SUMO-1-like protein [Artemia franciscana]

 Score = 73.9 bits (180), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 37/49 (75%), Positives = 39/49 (79%), Gaps = 1/49 (2%)

Query: 16 MKSSSADGGD-NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERV 63
          M   + D GD N EYIKLKV+  DSNEIHFRVKMTT MGKLKKSYSERV
Sbjct: 1  MADENKDAGDANSEYIKLKVVGQDSNEIHFRVKMTTQMGKLKKSYSERV 49

Source: Artemia franciscana

Species: Artemia franciscana

Genus: Artemia

Family: Artemiidae

Order: Anostraca

Class: Branchiopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383477569|gb|AFH36133.1| sumo-1 like protein [Artemia sinica]

 Score = 73.6 bits (179), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 37/49 (75%), Positives = 39/49 (79%), Gaps = 1/49 (2%)

Query: 16 MKSSSADGGD-NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERV 63
          M   + D GD N EYIKLKV+  DSNEIHFRVKMTT MGKLKKSYSERV
Sbjct: 1  MSDENKDAGDANSEYIKLKVVGQDSNEIHFRVKMTTQMGKLKKSYSERV 49

Source: Artemia sinica

Species: Artemia sinica

Genus: Artemia

Family: Artemiidae

Order: Anostraca

Class: Branchiopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156544940|ref|XP_001607301.1| PREDICTED: small ubiquitin-related modifier-like [Nasonia vitripennis]

 Score = 69.7 bits (169), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 40/63 (63%), Positives = 43/63 (68%), Gaps = 9/63 (14%)

Query: 1  MADNSSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYS 60
          M DN     Q  KP     S  G  N EYIKLKV+ +DSNEIHFRVKMTT MGKLKKSYS
Sbjct: 1  MGDN-----QEQKP----DSGPGDVNSEYIKLKVVGNDSNEIHFRVKMTTQMGKLKKSYS 51

Query: 61 ERV 63
          +RV
Sbjct: 52 DRV 54

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|238816825|gb|ACR56783.1| small ubiquitin-like modifier-1 [Litopenaeus vannamei] gi|294860898|gb|ADF45345.1| small ubiquitin-related modifier protein [Eriocheir sinensis] gi|310788575|gb|ADP24260.1| small ubiquitin-like modifier-1 [Scylla paramamosain] gi|320382442|gb|ADW27186.1| small ubiquitin-like modifier-1 [Eriocheir sinensis] gi|410466227|gb|AFV69239.1| small ubiquitin-like modifier SUMO [Procambarus clarkii]

 Score = 69.7 bits (169), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 36/49 (73%), Positives = 39/49 (79%), Gaps = 3/49 (6%)

Query: 18 SSSADG---GDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERV 63
          S +AD    G+  EYIKLKV+  DSNEIHFRVKMTT MGKLKKSYSERV
Sbjct: 2  SDNADAKPEGEGNEYIKLKVVGQDSNEIHFRVKMTTQMGKLKKSYSERV 50

Source: Litopenaeus vannamei

Species: Litopenaeus vannamei

Genus: Litopenaeus

Family: Penaeidae

Order: Decapoda

Class: Malacostraca

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340712345|ref|XP_003394722.1| PREDICTED: small ubiquitin-related modifier-like [Bombus terrestris] gi|350417630|ref|XP_003491516.1| PREDICTED: small ubiquitin-related modifier-like [Bombus impatiens]

 Score = 69.3 bits (168), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 39/63 (61%), Positives = 44/63 (69%), Gaps = 9/63 (14%)

Query: 1  MADNSSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYS 60
          M+DN     Q  KP     +  G  N EYIKLKV+ +DSNEIHFRVKMTT MGKLKKSYS
Sbjct: 1  MSDN-----QEQKP----EAGPGDANSEYIKLKVVGNDSNEIHFRVKMTTQMGKLKKSYS 51

Query: 61 ERV 63
          +RV
Sbjct: 52 DRV 54

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|48102954|ref|XP_392826.1| PREDICTED: small ubiquitin-related modifier-like [Apis mellifera] gi|380014026|ref|XP_003691045.1| PREDICTED: small ubiquitin-related modifier-like [Apis florea] gi|383857096|ref|XP_003704042.1| PREDICTED: small ubiquitin-related modifier-like [Megachile rotundata] gi|307214873|gb|EFN89741.1| Small ubiquitin-related modifier [Harpegnathos saltator]

 Score = 69.3 bits (168), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 39/63 (61%), Positives = 44/63 (69%), Gaps = 9/63 (14%)

Query: 1  MADNSSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYS 60
          M+DN     Q  KP     +  G  N EYIKLKV+ +DSNEIHFRVKMTT MGKLKKSYS
Sbjct: 1  MSDN-----QEQKP----EAGPGDANSEYIKLKVVGNDSNEIHFRVKMTTQMGKLKKSYS 51

Query: 61 ERV 63
          +RV
Sbjct: 52 DRV 54

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|225719762|gb|ACO15727.1| Small ubiquitin-related modifier precursor [Caligus clemensi]

 Score = 69.3 bits (168), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 33/44 (75%), Positives = 36/44 (81%)

Query: 20 SADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERV 63
          S +  D  EYIKLKV+  DSNEIHFRVKM+T MGKLKKSYSERV
Sbjct: 2  SGENKDETEYIKLKVVGQDSNEIHFRVKMSTQMGKLKKSYSERV 45

Source: Caligus clemensi

Species: Caligus clemensi

Genus: Caligus

Family: Caligidae

Order: Siphonostomatoida

Class: Maxillopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|225719364|gb|ACO15528.1| Small ubiquitin-related modifier precursor [Caligus clemensi]

 Score = 69.3 bits (168), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 33/44 (75%), Positives = 36/44 (81%)

Query: 20 SADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERV 63
          S +  D  EYIKLKV+  DSNEIHFRVKM+T MGKLKKSYSERV
Sbjct: 2  SGENKDETEYIKLKVVGQDSNEIHFRVKMSTQMGKLKKSYSERV 45

Source: Caligus clemensi

Species: Caligus clemensi

Genus: Caligus

Family: Caligidae

Order: Siphonostomatoida

Class: Maxillopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|321462723|gb|EFX73744.1| hypothetical protein DAPPUDRAFT_231336 [Daphnia pulex]

 Score = 69.3 bits (168), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 35/43 (81%), Positives = 36/43 (83%), Gaps = 1/43 (2%)

Query: 22 DGGD-NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERV 63
          D GD   EYIKLKV+  DSNEIHFRVKMTT MGKLKKSYSERV
Sbjct: 8  DAGDAGSEYIKLKVVGQDSNEIHFRVKMTTQMGKLKKSYSERV 50

Source: Daphnia pulex

Species: Daphnia pulex

Genus: Daphnia

Family: Daphniidae

Order: Diplostraca

Class: Branchiopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	98
WB|WBGene00004888	91	smo-1 [Caenorhabditis elegans	0.479	0.516	0.617	2.2e-11
UNIPROTKB|P55853	91	smo-1 "Small ubiquitin-related	0.479	0.516	0.617	2.2e-11
UNIPROTKB|O57686	102	sumo1-a "Small ubiquitin-relat	0.591	0.568	0.515	8.4e-10
ZFIN|ZDB-GENE-040426-2186	100	sumo1 "SMT3 suppressor of mif	0.438	0.43	0.622	1.1e-09
UNIPROTKB|F1P3Q1	102	SUMO1 "Small ubiquitin-related	0.520	0.5	0.574	1.8e-09
UNIPROTKB|Q8QGH2	101	SUMO1 "Small ubiquitin-related	0.520	0.504	0.574	1.8e-09
UNIPROTKB|Q5E9D1	101	SUMO1 "Small ubiquitin-related	0.520	0.504	0.574	1.8e-09
UNIPROTKB|E2RR10	101	SUMO1 "Uncharacterized protein	0.520	0.504	0.574	1.8e-09
UNIPROTKB|P63165	101	SUMO1 "Small ubiquitin-related	0.520	0.504	0.574	1.8e-09
UNIPROTKB|A7WLH8	101	SUMO1 "Small ubiquitin-related	0.520	0.504	0.574	1.8e-09

WB|WBGene00004888 smo-1 [Caenorhabditis elegans (taxid:6239)]

 Score = 156 (60.0 bits), Expect = 2.2e-11, P = 2.2e-11
 Identities = 29/47 (61%), Positives = 35/47 (74%)

Query:    16 MKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
             M   +A  GDN EYIK+KV+  DSNE+HFRVK  T M KLKKSY++R
Sbjct:     1 MADDAAQAGDNAEYIKIKVVGQDSNEVHFRVKYGTSMAKLKKSYADR 47

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

GO:0040035 "hermaphrodite genitalia development" evidence=IMP

GO:0009790 "embryo development" evidence=IMP

GO:0001703 "gastrulation with mouth forming first" evidence=IMP

GO:0040010 "positive regulation of growth rate" evidence=IMP

GO:0010171 "body morphogenesis" evidence=IMP

GO:0000003 "reproduction" evidence=IMP

GO:0040002 "collagen and cuticulin-based cuticle development" evidence=IMP

GO:0040027 "negative regulation of vulval development" evidence=IMP

GO:0040025 "vulval development" evidence=IMP

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0070194 "synaptonemal complex disassembly" evidence=IGI;IMP

GO:0034502 "protein localization to chromosome" evidence=IMP

UNIPROTKB|P55853 smo-1 "Small ubiquitin-related modifier" [Caenorhabditis elegans (taxid:6239)]

 Score = 156 (60.0 bits), Expect = 2.2e-11, P = 2.2e-11
 Identities = 29/47 (61%), Positives = 35/47 (74%)

Query:    16 MKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
             M   +A  GDN EYIK+KV+  DSNE+HFRVK  T M KLKKSY++R
Sbjct:     1 MADDAAQAGDNAEYIKIKVVGQDSNEVHFRVKYGTSMAKLKKSYADR 47

GO:0042802 "identical protein binding" evidence=IPI

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|O57686 sumo1-a "Small ubiquitin-related modifier 1-A" [Xenopus laevis (taxid:8355)]

 Score = 141 (54.7 bits), Expect = 8.4e-10, P = 8.4e-10
 Identities = 33/64 (51%), Positives = 43/64 (67%)

Query:     7 VSYQTSKPPMKS--SSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVE 64
             +S Q +KP  +      DGGD   YIKLKV+  DS+EIHF+VKMTT + KLK+SY +R +
Sbjct:     1 MSDQEAKPSSEDLGDKKDGGD---YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYRQR-Q 56

Query:    65 NKPM 68
               PM
Sbjct:    57 GVPM 60

GO:0005515 "protein binding" evidence=IPI

ZFIN|ZDB-GENE-040426-2186 sumo1 "SMT3 suppressor of mif two 3 homolog 1 (yeast)" [Danio rerio (taxid:7955)]

 Score = 140 (54.3 bits), Expect = 1.1e-09, P = 1.1e-09
 Identities = 28/45 (62%), Positives = 37/45 (82%)

Query:    20 SADGGDNV--EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
             S+DGG+    EYIKLKV+  D++EIHF+VKMTT + KLK+SYS+R
Sbjct:     9 SSDGGEKKDGEYIKLKVIGQDNSEIHFKVKMTTHLKKLKESYSQR 53

GO:0009790 "embryo development" evidence=IGI

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|F1P3Q1 SUMO1 "Small ubiquitin-related modifier 1" [Gallus gallus (taxid:9031)]

 Score = 138 (53.6 bits), Expect = 1.8e-09, P = 1.8e-09
 Identities = 31/54 (57%), Positives = 39/54 (72%)

Query:    17 KSSSADGGDNVE--YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPM 68
             K S+ D GD  E  YIKLKV+  DS+EIHF+VKMTT + KLK+SY +R +  PM
Sbjct:     8 KPSAEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR-QGVPM 60

GO:0016605 "PML body" evidence=IEA

GO:0016925 "protein sumoylation" evidence=IEA

GO:0031334 "positive regulation of protein complex assembly" evidence=IEA

GO:0031625 "ubiquitin protein ligase binding" evidence=IEA

GO:0032436 "positive regulation of proteasomal ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0043392 "negative regulation of DNA binding" evidence=IEA

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

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IEA

UNIPROTKB|Q8QGH2 SUMO1 "Small ubiquitin-related modifier 1" [Gallus gallus (taxid:9031)]

 Score = 138 (53.6 bits), Expect = 1.8e-09, P = 1.8e-09
 Identities = 31/54 (57%), Positives = 39/54 (72%)

Query:    17 KSSSADGGDNVE--YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPM 68
             K S+ D GD  E  YIKLKV+  DS+EIHF+VKMTT + KLK+SY +R +  PM
Sbjct:     7 KPSAEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR-QGVPM 59

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|Q5E9D1 SUMO1 "Small ubiquitin-related modifier 1" [Bos taurus (taxid:9913)]

 Score = 138 (53.6 bits), Expect = 1.8e-09, P = 1.8e-09
 Identities = 31/54 (57%), Positives = 39/54 (72%)

Query:    17 KSSSADGGDNVE--YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPM 68
             K S+ D GD  E  YIKLKV+  DS+EIHF+VKMTT + KLK+SY +R +  PM
Sbjct:     7 KPSTEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR-QGVPM 59

GO:0060021 "palate development" evidence=ISS

GO:0031625 "ubiquitin protein ligase binding" evidence=ISS

GO:0031965 "nuclear membrane" evidence=IEA

GO:0016607 "nuclear speck" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|E2RR10 SUMO1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 138 (53.6 bits), Expect = 1.8e-09, P = 1.8e-09
 Identities = 31/54 (57%), Positives = 39/54 (72%)

Query:    17 KSSSADGGDNVE--YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPM 68
             K S+ D GD  E  YIKLKV+  DS+EIHF+VKMTT + KLK+SY +R +  PM
Sbjct:     7 KPSTEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR-QGVPM 59

GO:0090204 "protein localization to nuclear pore" evidence=IEA

GO:0060021 "palate development" evidence=IEA

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IEA

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

GO:0043392 "negative regulation of DNA binding" evidence=IEA

GO:0032436 "positive regulation of proteasomal ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0031625 "ubiquitin protein ligase binding" evidence=IEA

GO:0031334 "positive regulation of protein complex assembly" evidence=IEA

GO:0030578 "PML body organization" evidence=IEA

GO:0019789 "SUMO ligase activity" evidence=IEA

GO:0016925 "protein sumoylation" evidence=IEA

GO:0016605 "PML body" evidence=IEA

GO:0008134 "transcription factor binding" evidence=IEA

UNIPROTKB|P63165 SUMO1 "Small ubiquitin-related modifier 1" [Homo sapiens (taxid:9606)]

 Score = 138 (53.6 bits), Expect = 1.8e-09, P = 1.8e-09
 Identities = 31/54 (57%), Positives = 39/54 (72%)

Query:    17 KSSSADGGDNVE--YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPM 68
             K S+ D GD  E  YIKLKV+  DS+EIHF+VKMTT + KLK+SY +R +  PM
Sbjct:     7 KPSTEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR-QGVPM 59

GO:0008134 "transcription factor binding" evidence=IEA

GO:0019789 "SUMO ligase activity" evidence=IEA

GO:0030425 "dendrite" evidence=IEA

GO:0030578 "PML body organization" evidence=IEA

GO:0045202 "synapse" evidence=IEA

GO:0090204 "protein localization to nuclear pore" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0016607 "nuclear speck" evidence=IEA

GO:0031965 "nuclear membrane" evidence=IEA

GO:0032880 "regulation of protein localization" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

GO:0016925 "protein sumoylation" evidence=IDA

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IMP;IDA

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

GO:0043392 "negative regulation of DNA binding" evidence=IMP

GO:0032436 "positive regulation of proteasomal ubiquitin-dependent protein catabolic process" evidence=IDA

GO:0031625 "ubiquitin protein ligase binding" evidence=IPI

GO:0016605 "PML body" evidence=IDA

GO:0060021 "palate development" evidence=ISS

GO:0005643 "nuclear pore" evidence=TAS

GO:0006281 "DNA repair" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0019221 "cytokine-mediated signaling pathway" evidence=TAS

GO:0060333 "interferon-gamma-mediated signaling pathway" evidence=TAS

GO:0060334 "regulation of interferon-gamma-mediated signaling pathway" evidence=TAS

GO:0031334 "positive regulation of protein complex assembly" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

UNIPROTKB|A7WLH8 SUMO1 "Small ubiquitin-related modifier 1" [Sus scrofa (taxid:9823)]

 Score = 138 (53.6 bits), Expect = 1.8e-09, P = 1.8e-09
 Identities = 31/54 (57%), Positives = 39/54 (72%)

Query:    17 KSSSADGGDNVE--YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPM 68
             K S+ D GD  E  YIKLKV+  DS+EIHF+VKMTT + KLK+SY +R +  PM
Sbjct:     7 KPSTEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR-QGVPM 59

GO:0060021 "palate development" evidence=ISS

GO:0031625 "ubiquitin protein ligase binding" evidence=ISS

GO:0031965 "nuclear membrane" evidence=IEA

GO:0016607 "nuclear speck" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P63166	SUMO1_MOUSE	No assigned EC number	0.5517	0.5306	0.5148	yes	N/A
Q6DEP7	SUMO1_XENTR	No assigned EC number	0.5593	0.5306	0.5098	yes	N/A
Q7SZR5	SUMO1_DANRE	No assigned EC number	0.6222	0.4387	0.43	yes	N/A
Q5E9D1	SUMO1_BOVIN	No assigned EC number	0.5517	0.5306	0.5148	yes	N/A
P63165	SUMO1_HUMAN	No assigned EC number	0.5517	0.5306	0.5148	yes	N/A
P55853	SUMO_CAEEL	No assigned EC number	0.6170	0.4795	0.5164	yes	N/A
Q8QGH2	SUMO1_CHICK	No assigned EC number	0.5517	0.5306	0.5148	yes	N/A
Q5I0H3	SUMO1_RAT	No assigned EC number	0.5517	0.5306	0.5148	yes	N/A
A7WLH8	SUMO1_PIG	No assigned EC number	0.5517	0.5306	0.5148	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	98
cd01763	87	cd01763, Sumo, Small ubiquitin-related modifier (S	2e-13
pfam11976	72	pfam11976, Rad60-SLD, Ubiquitin-2 like Rad60 SUMO-	3e-05
COG5227	103	COG5227, SMT3, Ubiquitin-like protein (sentrin) [P	6e-05
smart00213	72	smart00213, UBQ, Ubiquitin homologues	0.004

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

 Score = 59.6 bits (145), Expect = 2e-13
 Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 1/50 (2%)

Query: 19 SSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPM 68
            +  G+  E+I LKV   D NE+ F++K +TP+ KL ++Y +R     M
Sbjct: 1  EKSGKGEISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQ-GLSM 49

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

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

 Score = 38.3 bits (90), Expect = 3e-05
 Identities = 11/34 (32%), Positives = 20/34 (58%)

Query: 30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERV 63
          I++K+   D  E+  +VK TT + KL  +Y ++ 
Sbjct: 1  IRIKLKGKDGKEVFIKVKPTTTLSKLINAYRKKR 34

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

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

 Score = 38.4 bits (89), Expect = 6e-05
 Identities = 18/59 (30%), Positives = 26/59 (44%), Gaps = 3/59 (5%)

Query: 5  SSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERV 63
          SS S    K              ++I LKV+  D  E+ F++K TT   KL  ++S R 
Sbjct: 3  SSDSGSEFKTNENP---LVKPITKHINLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQ 58

Length = 103

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

 Score = 33.0 bits (76), Expect = 0.004
 Identities = 10/41 (24%), Positives = 18/41 (43%), Gaps = 1/41 (2%)

Query: 30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYK 70
          I+L V + D   I   VK +  + +LK+     +   P  +
Sbjct: 1  IELTVKTLDGKTITLEVKPSDTVSELKEKI-AELTGIPPEQ 40

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	98
KOG1769|consensus	99		99.98
COG5227	103	SMT3 Ubiquitin-like protein (sentrin) [Posttransla	99.96
cd01763	87	Sumo Small ubiquitin-related modifier (SUMO). Smal	99.84
PF11976	72	Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; Inter	99.78
cd01806	76	Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also kn	98.77
cd01809	72	Scythe_N Ubiquitin-like domain of Scythe protein.	98.4
smart00213	64	UBQ Ubiquitin homologues. Ubiquitin-mediated prote	98.24
cd01812	71	BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-ter	98.13
cd01807	74	GDX_N ubiquitin-like domain of GDX. GDX contains a	98.0
cd01769	69	UBL Ubiquitin-like domain of UBL. UBLs function by	97.98
PTZ00044	76	ubiquitin; Provisional	97.91
cd01803	76	Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40	97.9
cd01798	70	parkin_N amino-terminal ubiquitin-like of parkin p	97.88
cd01805	77	RAD23_N Ubiquitin-like domain of RAD23. RAD23 belo	97.7
PF00240	69	ubiquitin: Ubiquitin family; InterPro: IPR000626 U	97.62
cd01810	74	ISG15_repeat2 ISG15 ubiquitin-like protein, second	97.47
cd01791	73	Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also know	97.47
cd01792	80	ISG15_repeat1 ISG15 ubiquitin-like protein, first	97.36
cd01802	103	AN1_N ubiquitin-like domain of AN1. AN1 (also know	97.23
cd01808	71	hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC	97.06
cd01793	74	Fubi Fubi ubiquitin-like protein. Fubi is a ubiqui	96.98
cd01804	78	midnolin_N Ubiquitin-like domain of midnolin. midn	96.97
cd00196	69	UBQ Ubiquitin-like proteins. Ubiquitin homologs; I	96.91
PF11470	65	TUG-UBL1: GLUT4 regulating protein TUG; InterPro:	96.69
cd01797	78	NIRF_N amino-terminal ubiquitin-like domain of Np9	96.67
cd01794	70	DC_UbP_C dendritic cell derived ubiquitin-like pro	96.64
cd01796	71	DDI1_N DNA damage inducible protein 1 ubiquitin-li	96.44
cd01799	75	Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HO	96.2
cd01800	76	SF3a120_C Ubiquitin-like domain of Mammalian splic	95.56
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	95.28
KOG0005|consensus	70		94.3
PF08817	79	YukD: WXG100 protein secretion system (Wss), prote	93.17
cd06409	86	PB1_MUG70 The MUG70 protein is a product of the me	93.07
cd01790	79	Herp_N Homocysteine-responsive endoplasmic reticul	92.35
smart00455	70	RBD Raf-like Ras-binding domain.	91.06
smart00295	207	B41 Band 4.1 homologues. Also known as ezrin/radix	90.64
KOG0010|consensus	493		90.31
PLN02560	308	enoyl-CoA reductase	89.59
PF11543	80	UN_NPL4: Nuclear pore localisation protein NPL4; I	89.16
cd01789	84	Alp11_N Ubiquitin-like domain of Alp11 tubulin-fol	88.16
cd01813	74	UBP_N UBP ubiquitin processing protease. The UBP (	87.64
PF00789	82	UBX: UBX domain; InterPro: IPR001012 The UBX domai	86.9
PF09379	80	FERM_N: FERM N-terminal domain ; InterPro: IPR0189	86.26
smart00666	81	PB1 PB1 domain. Phox and Bem1p domain, present in	82.74
cd01814	113	NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and AT	81.99
cd06407	82	PB1_NLP A PB1 domain is present in NIN like protei	81.55

>KOG1769|consensus

Probab=99.98  E-value=8.7e-33  Score=188.67  Aligned_cols=70  Identities=27%  Similarity=0.300  Sum_probs=67.7

Q ss_pred             CcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        27 ~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      +.||+|||++|++++++||||++|+|+|||+|||+|+|+++ ++|||+|||+||++++||++|+|=++|..
T Consensus        18 ~~hi~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~~-~s~RFlFdG~rI~~~~TP~~L~mEd~D~I   87 (99)
T KOG1769|consen   18 SEHINLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQGLSM-NSLRFLFDGQRIRETHTPADLEMEDGDEI   87 (99)
T ss_pred             cceEEEEEecCCCCEEEEEeecCChHHHHHHHHHHHcCCcc-ceEEEEECCcCcCCCCChhhhCCcCCcEE
Confidence            68999999999999999999999999999999999999998 79999999999999999999999999864

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

Probab=99.96  E-value=3.2e-29  Score=170.27  Aligned_cols=86  Identities=20%  Similarity=0.166  Sum_probs=76.6

Q ss_pred             CcCCCCCCCCCCCCCCCCCCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcC
Q psy16998          8 SYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGN   87 (98)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~   87 (98)
                      +-++.|+.   -..++++..+||+|||.+|||++++|+||++|+|+|||+|||.|+|.+. +++||||||.||+.++||.
T Consensus         6 ~~~e~kt~---~~p~vkp~t~hinLkvv~qd~telfFkiKktT~f~klm~af~~rqGK~m-~slRfL~dG~rI~~dqTP~   81 (103)
T COG5227           6 SGSEFKTN---ENPLVKPITKHINLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGKNM-SSLRFLFDGKRIDLDQTPG   81 (103)
T ss_pred             cchhhccc---cCccccccccccceEEecCCCCEEEEEEeccchHHHHHHHHHHHhCcCc-ceeEEEEcceecCCCCChh
Confidence            44555653   1447888889999999999999999999999999999999999999997 7999999999999999999


Q ss_pred             ceeeccCCcC
Q psy16998         88 SFYCVNSGTS   97 (98)
Q Consensus        88 ~L~~~~~~~~   97 (98)
                      +|.|-|.+-.
T Consensus        82 dldmEdnd~i   91 (103)
T COG5227          82 DLDMEDNDEI   91 (103)
T ss_pred             hcCCccchHH
Confidence            9999988754

>cd01763 Sumo Small ubiquitin-related modifier (SUMO)

Probab=99.84  E-value=9.5e-21  Score=124.42  Aligned_cols=72  Identities=24%  Similarity=0.306  Sum_probs=68.9

Q ss_pred             CCCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         25 DNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        25 ~~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      +++.+|+|+|++++|..+.|+|+++++|.+||++||++.|+++ ..+||+|||.+|..++||++|+|-|+++.
T Consensus         7 ~~~~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~-~~~rf~f~G~~L~~~~T~~~l~m~d~d~I   78 (87)
T cd01763           7 EISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSM-NSVRFLFDGQRIRDNQTPDDLGMEDGDEI   78 (87)
T ss_pred             CCCCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCc-cceEEEECCeECCCCCCHHHcCCCCCCEE
Confidence            4678999999999999999999999999999999999999998 69999999999999999999999999874

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

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

Probab=99.78  E-value=1.8e-19  Score=112.79  Aligned_cols=68  Identities=28%  Similarity=0.308  Sum_probs=62.3

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      |+|+|++++|..+.|+|+++|+|.+||++||++.|++..+.++|.|||.+|++++||.+|+|-|+++.
T Consensus         1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~T~~~~~ied~d~I   68 (72)
T PF11976_consen    1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPNDTPEDLGIEDGDTI   68 (72)
T ss_dssp             EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTSCHHHHT-STTEEE
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCCCHHHCCCCCCCEE
Confidence            78999999999999999999999999999999999987358999999999999999999999999874

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

>cd01806 Nedd8 Nebb8-like ubiquitin protein

Probab=98.77  E-value=2.7e-08  Score=61.85  Aligned_cols=67  Identities=13%  Similarity=0.200  Sum_probs=61.9

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      +.|.|+..+|..+.+.|.++.....|...++++.|+++ ...||.|+|..+..+.|..++.+.|+.+.
T Consensus         1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~-~~qrL~~~g~~L~d~~tl~~~~i~~g~~i   67 (76)
T cd01806           1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPP-QQQRLIYSGKQMNDDKTAADYKLEGGSVL   67 (76)
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCCh-hhEEEEECCeEccCCCCHHHcCCCCCCEE
Confidence            36888899999999999999999999999999999998 68999999999999999999999888763

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

>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein

Probab=98.40  E-value=1.2e-06  Score=53.87  Aligned_cols=67  Identities=19%  Similarity=0.160  Sum_probs=61.2

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      |+|.|+..+|..+.|.|.++.....|.+..+++.|+++ ...++.|+|..+..+.|-.+..+-++.+.
T Consensus         1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~-~~q~L~~~g~~L~d~~~L~~~~i~~~~~l   67 (72)
T cd01809           1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPV-EQQRLIYSGRVLKDDETLSEYKVEDGHTI   67 (72)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCH-HHeEEEECCEECCCcCcHHHCCCCCCCEE
Confidence            67889999999999999999999999999999999988 68999999999999999999888777653

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

>smart00213 UBQ Ubiquitin homologues

Probab=98.24  E-value=5e-06  Score=49.35  Aligned_cols=63  Identities=17%  Similarity=0.168  Sum_probs=55.3

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccC
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNS   94 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~   94 (98)
                      +.|.|+..+ ....|.|..++....|...++++.|+++ ...+++|+|..+..+.|..++.+-|+
T Consensus         1 ~~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~~~~-~~~~L~~~g~~L~d~~tL~~~~i~~~   63 (64)
T smart00213        1 IELTVKTLD-GTITLEVKPSDTVSELKEKIAELTGIPV-EQQRLIYKGKVLEDDRTLADYNIQDG   63 (64)
T ss_pred             CEEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHCCCH-HHEEEEECCEECCCCCCHHHcCCcCC
Confidence            457777777 6788999999999999999999999987 68999999999999889888877664

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

>cd01812 BAG1_N Ubiquitin-like domain of BAG1

Probab=98.13  E-value=7e-06  Score=50.47  Aligned_cols=66  Identities=12%  Similarity=0.117  Sum_probs=58.5

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      |+|+|+.. |....+.|.++..+..|+...+++.|+++ ...|++|+|..+..+.|..++.+-++.+.
T Consensus         1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi~~-~~q~L~~~g~~l~d~~~L~~~~i~~g~~l   66 (71)
T cd01812           1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGVEP-RDQKLIFKGKERDDAETLDMSGVKDGSKV   66 (71)
T ss_pred             CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCCh-HHeEEeeCCcccCccCcHHHcCCCCCCEE
Confidence            67788775 77778999999999999999999999998 68999999999998889999988887653

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

>cd01807 GDX_N ubiquitin-like domain of GDX

Probab=98.00  E-value=2.4e-05  Score=49.19  Aligned_cols=66  Identities=15%  Similarity=0.087  Sum_probs=59.7

Q ss_pred             EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      .|.|+..+|..+.+.|.++.....|....|++.|+.+ ...|+.|.|+.+..+.|-.+...-++.|.
T Consensus         2 ~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~-~~q~L~~~G~~L~d~~~L~~~~i~~~~~l   67 (74)
T cd01807           2 FLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPE-EQQRLLFKGKALADDKRLSDYSIGPNAKL   67 (74)
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCH-HHeEEEECCEECCCCCCHHHCCCCCCCEE
Confidence            4677778899999999999999999999999999998 68999999999999999999888777653

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

>cd01769 UBL Ubiquitin-like domain of UBL

Probab=97.98  E-value=3e-05  Score=46.48  Aligned_cols=62  Identities=11%  Similarity=0.110  Sum_probs=54.4

Q ss_pred             EeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         34 VLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        34 V~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      |+..+|..+.|.+..++.+..|++.++++.|+++ ..++++|+|..+..+.|-.++...++.+
T Consensus         2 v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~~~~-~~~~l~~~g~~l~d~~~l~~~~v~~~~~   63 (69)
T cd01769           2 VKTLTGKTFELEVSPDDTVAELKAKIAAKEGVPP-EQQRLIYAGKILKDDKTLSDYGIQDGST   63 (69)
T ss_pred             eEccCCCEEEEEECCCChHHHHHHHHHHHHCcCh-HHEEEEECCcCCCCcCCHHHCCCCCCCE
Confidence            5566899999999999999999999999999988 6899999999998888888777766654

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.

>PTZ00044 ubiquitin; Provisional

Probab=97.91  E-value=4.6e-05  Score=47.64  Aligned_cols=65  Identities=9%  Similarity=0.109  Sum_probs=58.8

Q ss_pred             EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      .|.|+..+|..+.+.|.++.....|....+++.|+++ ...|+.|+|..+..+.|-+++.+-++.|
T Consensus         2 ~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~-~~q~L~~~g~~L~d~~~l~~~~i~~~~~   66 (76)
T PTZ00044          2 QILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDV-KQIRLIYSGKQMSDDLKLSDYKVVPGST   66 (76)
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCH-HHeEEEECCEEccCCCcHHHcCCCCCCE
Confidence            5677889999999999999999999999999999988 6899999999999888988888777655

>cd01803 Ubiquitin Ubiquitin

Probab=97.90  E-value=5.5e-05  Score=46.74  Aligned_cols=65  Identities=11%  Similarity=0.133  Sum_probs=58.6

Q ss_pred             EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      .|.|+..+|..+.+.|.++.....|+...+++.|+++ ...|+.|+|..+..+.|-.++..-++.|
T Consensus         2 ~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~-~~q~L~~~g~~L~d~~~L~~~~i~~~~~   66 (76)
T cd01803           2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLSDYNIQKEST   66 (76)
T ss_pred             EEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCH-HHeEEEECCEECCCCCcHHHcCCCCCCE
Confidence            5778888999999999999999999999999999988 6899999999999998888887777655

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

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

Probab=97.88  E-value=4.1e-05  Score=47.57  Aligned_cols=65  Identities=14%  Similarity=0.066  Sum_probs=57.8

Q ss_pred             EEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         32 LKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        32 lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      |.|+...|..+.+.|.++.....|.+..+++.|+++ ...|+.|.|..+..+.|..+...-++.|.
T Consensus         1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~-~~q~Li~~G~~L~d~~~l~~~~i~~~stl   65 (70)
T cd01798           1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPP-DQLRVIFAGKELRNTTTIQECDLGQQSIL   65 (70)
T ss_pred             CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCH-HHeEEEECCeECCCCCcHHHcCCCCCCEE
Confidence            356678899999999999999999999999999988 68999999999999999998877766653

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.

>cd01805 RAD23_N Ubiquitin-like domain of RAD23

Probab=97.70  E-value=0.00018  Score=44.97  Aligned_cols=65  Identities=11%  Similarity=0.092  Sum_probs=57.7

Q ss_pred             EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcC--CCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVEN--KPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl--~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      .|.|+.-+|..+.+.|..++...-|...++++.|+  .+ ...++.|+|..+..+.|-.++..-++++
T Consensus         2 ~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~-~~q~L~~~G~~L~d~~~L~~~~i~~~~~   68 (77)
T cd01805           2 KITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPP-EQQKLIYSGKILKDDTTLEEYKIDEKDF   68 (77)
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCCh-hHeEEEECCEEccCCCCHHHcCCCCCCE
Confidence            46677788999999999999999999999999999  77 6899999999999888888888777765

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).

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

Probab=97.62  E-value=0.00017  Score=44.11  Aligned_cols=59  Identities=12%  Similarity=0.139  Sum_probs=53.6

Q ss_pred             cCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         37 SDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        37 qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      .+|..+.|.|..+.....|.+..+++.|+++ ...++.|+|+.+..+.|-.++..-++.+
T Consensus         3 ~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~-~~~~L~~~G~~L~d~~tL~~~~i~~~~~   61 (69)
T PF00240_consen    3 LSGKTFTLEVDPDDTVADLKQKIAEETGIPP-EQQRLIYNGKELDDDKTLSDYGIKDGST   61 (69)
T ss_dssp             TTSEEEEEEEETTSBHHHHHHHHHHHHTSTG-GGEEEEETTEEESTTSBTGGGTTSTTEE
T ss_pred             CCCcEEEEEECCCCCHHHhhhhccccccccc-ccceeeeeeecccCcCcHHHcCCCCCCE
Confidence            5788999999999999999999999999998 6999999999998888988888777654

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 ....

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

Probab=97.47  E-value=0.00037  Score=43.81  Aligned_cols=65  Identities=17%  Similarity=0.159  Sum_probs=58.8

Q ss_pred             EEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         32 LKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        32 lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      |.|+...|..+.+.|.++.....|....+++.|+.+ ...++.|+|..+..+.|-.+..+-++.|+
T Consensus         1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~-~~q~L~~~G~~L~D~~tL~~~~i~~~~tl   65 (74)
T cd01810           1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQA-DQFWLSFEGRPMEDEHPLGEYGLKPGCTV   65 (74)
T ss_pred             CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCCH-HHeEEEECCEECCCCCCHHHcCCCCCCEE
Confidence            457788999999999999999999999999999987 68999999999999999999888887764

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.

>cd01791 Ubl5 UBL5 ubiquitin-like modifier

Probab=97.47  E-value=0.00069  Score=43.30  Aligned_cols=66  Identities=12%  Similarity=0.108  Sum_probs=59.5

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      +.|.|++..|..+...|.++.....|.+..+++.|+++ ...|+.|.|..+..+.|-.+..+-|+.|
T Consensus         2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~-~~qrLi~~Gk~L~D~~tL~~ygi~~~st   67 (73)
T cd01791           2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRP-EKIVLKKWYTIFKDHISLGDYEIHDGMN   67 (73)
T ss_pred             EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCh-HHEEEEeCCcCCCCCCCHHHcCCCCCCE
Confidence            67899998999999999999999999999999999998 6899999999988888888888777665

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.

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

Probab=97.36  E-value=0.00069  Score=43.32  Aligned_cols=66  Identities=14%  Similarity=0.077  Sum_probs=58.1

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeee--eeCCcccCCCCCcCceeeccCCc
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMP--MGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rF--lfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      |+|.|+.-.|..+.+.|.++.....|.+..+++.|+.+ ...|+  .|+|..+..+.|-.++..-++.|
T Consensus         3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~-~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~   70 (80)
T cd01792           3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPA-FQQRLAHLDSREVLQDGVPLVSQGLGPGST   70 (80)
T ss_pred             eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCH-HHEEEEeccCCCCCCCCCCHHHcCCCCCCE
Confidence            77888888999999999999999999999999999987 68999  89999999888877776666654

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=97.23  E-value=0.0017  Score=44.03  Aligned_cols=70  Identities=9%  Similarity=-0.014  Sum_probs=62.7

Q ss_pred             CcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        27 ~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      .+.+.|.|+...|..+.+.|.++....-|...-+++.|+.+ ...|+.|.|..+..+.|-++...-++.|.
T Consensus        25 ~~~M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip~-~~QrLi~~Gk~L~D~~tL~dy~I~~~stL   94 (103)
T cd01802          25 YDTMELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPV-AQQHLIWNNMELEDEYCLNDYNISEGCTL   94 (103)
T ss_pred             CCCEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCh-HHEEEEECCEECCCCCcHHHcCCCCCCEE
Confidence            35688899999999999999999999999999999999988 68999999999999999888877666653

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.

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

Probab=97.06  E-value=0.0024  Score=39.72  Aligned_cols=65  Identities=14%  Similarity=0.152  Sum_probs=55.0

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      |+|.|+...|.. .+.|.++.....|....+++.|+.. ..+|+.|.|.-+..+.|-.++.+-++.|
T Consensus         1 ~~i~vk~~~g~~-~l~v~~~~TV~~lK~~I~~~~~i~~-~~~~Li~~Gk~L~d~~tL~~~~i~~~st   65 (71)
T cd01808           1 IKVTVKTPKDKE-EIEIAEDASVKDFKEAVSKKFKANQ-EQLVLIFAGKILKDTDTLTQHNIKDGLT   65 (71)
T ss_pred             CEEEEEcCCCCE-EEEECCCChHHHHHHHHHHHhCCCH-HHEEEEECCeEcCCCCcHHHcCCCCCCE
Confidence            456777777864 8999999999999999999999987 6899999999999888877777666554

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.

>cd01793 Fubi Fubi ubiquitin-like protein

Probab=96.98  E-value=0.0033  Score=39.41  Aligned_cols=63  Identities=13%  Similarity=0.041  Sum_probs=54.4

Q ss_pred             EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      +|.|++  ++.+.+.|.++.....|...-+++.|+.+ ...|+.|.|..+..+.|-.+...-++.|
T Consensus         2 qi~vk~--~~~~~l~v~~~~tV~~lK~~i~~~~gip~-~~q~Li~~Gk~L~D~~tL~~~~i~~~~t   64 (74)
T cd01793           2 QLFVRA--QNTHTLEVTGQETVSDIKAHVAGLEGIDV-EDQVLLLAGVPLEDDATLGQCGVEELCT   64 (74)
T ss_pred             EEEEEC--CCEEEEEECCcCcHHHHHHHHHhhhCCCH-HHEEEEECCeECCCCCCHHHcCCCCCCE
Confidence            466666  36788999999999999999999999988 6899999999999999998877666554

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.

>cd01804 midnolin_N Ubiquitin-like domain of midnolin

Probab=96.97  E-value=0.004  Score=39.78  Aligned_cols=65  Identities=12%  Similarity=0.119  Sum_probs=55.1

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ++|.|+...|....+.|-++.....|.+..+++.|+.+ ...|+.|.|..+..+ |=.+...-|+.|
T Consensus         2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~-~~qrL~~~Gk~L~d~-~L~~~gi~~~~~   66 (78)
T cd01804           2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPK-ERLALLHRETRLSSG-KLQDLGLGDGSK   66 (78)
T ss_pred             eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCCh-HHEEEEECCcCCCCC-cHHHcCCCCCCE
Confidence            57888888899999999999999999999999999988 689999999988876 766655555443

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

>cd00196 UBQ Ubiquitin-like proteins

Probab=96.91  E-value=0.0036  Score=34.09  Aligned_cols=50  Identities=14%  Similarity=0.161  Sum_probs=44.5

Q ss_pred             ccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCc
Q psy16998         36 SSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGG   86 (98)
Q Consensus        36 ~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP   86 (98)
                      -.+|..+.+.+..++.+..|.+..+++.|..+ ..+++.++|..+....+.
T Consensus         4 ~~~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~-~~~~l~~~~~~~~~~~~~   53 (69)
T cd00196           4 LNDGKTVELLVPSGTTVADLKEKLAKKLGLPP-EQQRLLVNGKILPDSLTL   53 (69)
T ss_pred             ecCCCEEEEEcCCCCcHHHHHHHHHHHHCcCh-HHeEEEECCeECCCCCcH
Confidence            34788999999999999999999999999887 689999999999887764

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.

>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=96.69  E-value=0.0024  Score=40.53  Aligned_cols=52  Identities=10%  Similarity=0.084  Sum_probs=37.8

Q ss_pred             EeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCc
Q psy16998         34 VLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGG   86 (98)
Q Consensus        34 V~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP   86 (98)
                      |...+++...+||-++|.|..+.+.-|+++|++. ....+.+++..|.....-
T Consensus         1 vi~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~-~~~~L~h~~k~ldlslp~   52 (65)
T PF11470_consen    1 VICYNFRRFKVKVTPNTTLNQVLEEACKKFGLDP-SSYDLKHNNKPLDLSLPF   52 (65)
T ss_dssp             EE-TTS-EEEE---TTSBHHHHHHHHHHHTT--G-GG-EEEETTEEESSS-BH
T ss_pred             CCccCCcEEEEEECCCCCHHHHHHHHHHHcCCCc-cceEEEECCEEeccccce
Confidence            4567899999999999999999999999999998 589999999888765543

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.

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

Probab=96.67  E-value=0.0072  Score=38.83  Aligned_cols=65  Identities=14%  Similarity=0.086  Sum_probs=56.7

Q ss_pred             EEEEeccCCCE-EEEE-EcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         31 KLKVLSSDSNE-IHFR-VKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        31 ~lkV~~qdg~e-v~Fk-IK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      .|.|+...|.. +.+. +.++.....|...-+++.|+++ ...|+.|.|..+..+.|-.+..+-++.|
T Consensus         2 ~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~-~~QrLi~~Gk~L~D~~tL~~y~i~~~~~   68 (78)
T cd01797           2 WIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEP-ECQRLFYRGKQMEDGHTLFDYNVGLNDI   68 (78)
T ss_pred             EEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCH-HHeEEEeCCEECCCCCCHHHcCCCCCCE
Confidence            46777788987 4674 8899999999999999999988 6899999999999999998888877765

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.

>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein

Probab=96.64  E-value=0.0067  Score=38.24  Aligned_cols=62  Identities=18%  Similarity=0.135  Sum_probs=54.5

Q ss_pred             EEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccC
Q psy16998         32 LKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNS   94 (98)
Q Consensus        32 lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~   94 (98)
                      |||+.-.|+.+.+.|.++.....|...-+++.|+++ ...|+.|.|+.+..+.|-.+...-++
T Consensus         1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~-~~q~Li~~G~~L~D~~~l~~~~i~~~   62 (70)
T cd01794           1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVDP-CCQRWFFSGKLLTDKTRLQETKIQKD   62 (70)
T ss_pred             CeEEcCCCCEEEEEECCcChHHHHHHHHHHHhCCCH-HHeEEEECCeECCCCCCHHHcCCCCC
Confidence            467778899999999999999999999999999988 68999999999999999887654443

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

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

Probab=96.44  E-value=0.0095  Score=37.30  Aligned_cols=63  Identities=6%  Similarity=-0.001  Sum_probs=51.5

Q ss_pred             EEecc-CCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCC-CcCceeeccCCc
Q psy16998         33 KVLSS-DSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTH-GGNSFYCVNSGT   96 (98)
Q Consensus        33 kV~~q-dg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~-TP~~L~~~~~~~   96 (98)
                      .|+.. .|+.+.+.|.++.....|+..-+++.|+++ ...|+.|+|..+..+. |-.+...-++++
T Consensus         2 ~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~gip~-~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~   66 (71)
T cd01796           2 TVYTARSETTFSLDVDPDLELENFKALCEAESGIPA-SQQQLIYNGRELVDNKRLLALYGVKDGDL   66 (71)
T ss_pred             EEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCH-HHeEEEECCeEccCCcccHHHcCCCCCCE
Confidence            34456 688889999999999999999999999988 6899999999997774 445666656554

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.

>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1

Probab=96.20  E-value=0.019  Score=36.74  Aligned_cols=64  Identities=16%  Similarity=0.040  Sum_probs=52.2

Q ss_pred             EEEEec--cCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccC-CCCCcCceeec-cCCc
Q psy16998         31 KLKVLS--SDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFG-QTHGGNSFYCV-NSGT   96 (98)
Q Consensus        31 ~lkV~~--qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~-~~~TP~~L~~~-~~~~   96 (98)
                      ++.|.+  ..|..+.+.|.++.....|...-+++.|+++ ...|+ |+|.++. .+.|-.++.+- +|+|
T Consensus         2 ~~~~~~~~~~~~t~~l~v~~~~TV~~lK~kI~~~~gip~-~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~   69 (75)
T cd01799           2 NVSVEDAQSHTVTIWLTVRPDMTVAQLKDKVFLDYGFPP-AVQRW-VIGQRLARDQETLYSHGIRTNGDS   69 (75)
T ss_pred             EEEEeccccCCCeEEEEECCCCcHHHHHHHHHHHHCcCH-HHEEE-EcCCeeCCCcCCHHHcCCCCCCCE
Confidence            444444  3477889999999999999999999999998 58899 9999996 55788888877 5555

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.

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

Probab=95.56  E-value=0.033  Score=35.11  Aligned_cols=59  Identities=14%  Similarity=0.166  Sum_probs=52.6

Q ss_pred             CCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         38 DSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        38 dg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      +|..+.+.|.++....-|........|+.+ ...+++|.|..+..+.|-.++.+-++.+.
T Consensus         6 ~g~~~~l~v~~~~TV~~lK~~i~~~~gip~-~~q~L~~~G~~L~d~~tL~~~~i~~g~~l   64 (76)
T cd01800           6 NGQMLNFTLQLSDPVSVLKVKIHEETGMPA-GKQKLQYEGIFIKDSNSLAYYNLANGTII   64 (76)
T ss_pred             CCeEEEEEECCCCcHHHHHHHHHHHHCCCH-HHEEEEECCEEcCCCCcHHHcCCCCCCEE
Confidence            577778999999999999999999999988 68999999999999999999988887763

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.

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=95.28  E-value=0.051  Score=44.61  Aligned_cols=66  Identities=6%  Similarity=0.054  Sum_probs=57.0

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhc---CCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVE---NKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~g---l~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ++|.|+.-.|..+.+.|..+.....|++..+++.|   +.. ...|+.|.|..+..+.|-.++..-++++
T Consensus         1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~-~~QkLIy~GkiL~Dd~tL~dy~I~e~~~   69 (378)
T TIGR00601         1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPV-AQQKLIYSGKILSDDKTVREYKIKEKDF   69 (378)
T ss_pred             CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCCh-hHeEEEECCEECCCCCcHHHcCCCCCCE
Confidence            35778888899999999999999999999999998   877 5899999999999998888876656554

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

Probab=94.30  E-value=0.059  Score=34.67  Aligned_cols=63  Identities=14%  Similarity=0.223  Sum_probs=56.6

Q ss_pred             EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccC
Q psy16998         31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNS   94 (98)
Q Consensus        31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~   94 (98)
                      .|||+.-.|.+|-.-|-++.+..++.+..-++-|+.+ ..-|+.|-|...+.+.|+++....-|
T Consensus         2 ~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp-~qqrli~~gkqm~DD~tA~~Y~~~~G   64 (70)
T KOG0005|consen    2 LIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPP-QQQRLIYAGKQMNDDKTAAHYNLLGG   64 (70)
T ss_pred             eeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCc-hhhhhhhccccccccccHHHhhhccc
Confidence            4788888999999999999999999999999999998 68999999999999999988765433

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

Probab=93.17  E-value=0.29  Score=31.11  Aligned_cols=69  Identities=9%  Similarity=0.074  Sum_probs=50.7

Q ss_pred             ceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCC--c---eeeee-eCCcccCCCCCcCceeeccCCcC
Q psy16998         29 YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPM--Y---KAMPM-GTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        29 ~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~--~---s~rFl-fDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      +|+|.|...+|..+-+.+-.+.+++.|+..-.+..+....  .   ..++- -+|.++.+++|-++....||+.+
T Consensus         2 ~~rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~g~~L~~~~tL~~~gV~dGd~L   76 (79)
T PF08817_consen    2 LCRVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARAGGRPLDPDQTLADAGVRDGDVL   76 (79)
T ss_dssp             EEEEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-GGTEEEETTSBCGGGT--TT-EE
T ss_pred             EEEEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEecCCcccCCcCcHhHcCCCCCCEE
Confidence            6788888866899999999999999999999998877221  1   35666 78999999999999999999875

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.

>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=93.07  E-value=0.42  Score=31.89  Aligned_cols=44  Identities=14%  Similarity=0.175  Sum_probs=38.5

Q ss_pred             EEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCC--ceeeeee
Q psy16998         32 LKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPM--YKAMPMG   75 (98)
Q Consensus        32 lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~--~s~rFlf   75 (98)
                      +|++++.|..+.|++.++--+..|+..-++|.|.+..  +.+.+.|
T Consensus         3 FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~Y   48 (86)
T cd06409           3 FKFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSY   48 (86)
T ss_pred             EEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEE
Confidence            6788999999999999999999999999999999852  3566666

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

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

Probab=92.35  E-value=0.8  Score=29.97  Aligned_cols=60  Identities=13%  Similarity=0.026  Sum_probs=50.2

Q ss_pred             ceEEEEeccCCCEEEEEE--cCCCchHHHHHHHHHHhc--CCCCceeeeeeCCcccCCCCCcCce
Q psy16998         29 YIKLKVLSSDSNEIHFRV--KMTTPMGKLKKSYSERVE--NKPMYKAMPMGTGLPFGQTHGGNSF   89 (98)
Q Consensus        29 ~I~lkV~~qdg~ev~FkI--K~~T~L~KLm~aYc~r~g--l~~~~s~rFlfDG~rI~~~~TP~~L   89 (98)
                      .|+|.|+..++...-|.|  ..+.....|.+.-++..+  -++ ...|+.|-|+-+..++|=.+.
T Consensus         1 ~i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~-~~QrLIy~GKiLkD~~tL~~~   64 (79)
T cd01790           1 PVTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLE-QDQRLIYSGKLLPDHLKLRDV   64 (79)
T ss_pred             CeEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCCh-hHeEEEEcCeeccchhhHHHH
Confidence            488999999999877777  899999999999998875  334 589999999999888777665

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.

>smart00455 RBD Raf-like Ras-binding domain

Probab=91.06  E-value=1.3  Score=28.07  Aligned_cols=45  Identities=13%  Similarity=0.052  Sum_probs=37.4

Q ss_pred             EEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCC
Q psy16998         32 LKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTG   77 (98)
Q Consensus        32 lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG   77 (98)
                      ++|.=+||..+..++|++..+..+...-|+++|+++. .....+-|
T Consensus         2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~l~~~-~~~v~~~g   46 (70)
T smart00455        2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKKRGLNPE-CCVVRLRG   46 (70)
T ss_pred             eEEECCCCCEEEEEECCCCCHHHHHHHHHHHcCCCHH-HEEEEEcC
Confidence            4566689999999999999999999999999999984 45544433

>smart00295 B41 Band 4

Probab=90.64  E-value=1.7  Score=30.66  Aligned_cols=48  Identities=17%  Similarity=0.068  Sum_probs=40.4

Q ss_pred             cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeee
Q psy16998         28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMG   75 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlf   75 (98)
                      ..+.|+|.-.||..+.|.|..+|.-..|.+.-|++.|+.....+.+.+
T Consensus         2 ~~~~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~   49 (207)
T smart00295        2 KPRVLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQF   49 (207)
T ss_pred             CcEEEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEE
Confidence            467888988999999999999999999999999999996544444443

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.

>KOG0010|consensus

Probab=90.31  E-value=0.49  Score=40.46  Aligned_cols=67  Identities=13%  Similarity=0.167  Sum_probs=59.7

Q ss_pred             cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ..|+|+|+..+. ...|.|-.+..++.|++.-+++.+.++ ..+++.|-|+-+..++|-.+...-|+-|
T Consensus        14 ~~irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a~~-dqlvLIfaGrILKD~dTL~~~gI~Dg~T   80 (493)
T KOG0010|consen   14 SLIRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGAPP-DQLVLIYAGRILKDDDTLKQYGIQDGHT   80 (493)
T ss_pred             ceeEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCCCh-hHeeeeecCccccChhhHHHcCCCCCcE
Confidence            569999999877 669999999999999999999999998 5899999999999888988877777655

>PLN02560 enoyl-CoA reductase

Probab=89.59  E-value=1.3  Score=35.45  Aligned_cols=65  Identities=22%  Similarity=0.277  Sum_probs=49.9

Q ss_pred             EEEEeccCCCEE---EEEEcCCCchHHHHHHHHHHhcC-CCCceeeeeeC---Cc----ccCCCCCcCceeeccCCc
Q psy16998         31 KLKVLSSDSNEI---HFRVKMTTPMGKLKKSYSERVEN-KPMYKAMPMGT---GL----PFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        31 ~lkV~~qdg~ev---~FkIK~~T~L~KLm~aYc~r~gl-~~~~s~rFlfD---G~----rI~~~~TP~~L~~~~~~~   96 (98)
                      .|.|+...|..+   .+.|.+++....|.++++++.+. .+ ...|+.++   |.    .+..+.|-.++..-++.|
T Consensus         2 ~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~-~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gst   77 (308)
T PLN02560          2 KVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYP-SRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGT   77 (308)
T ss_pred             EEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCCh-hheEEEEecCCCCcCccccCCCCCHHhcCCCCCce
Confidence            466667778886   68999999999999999999886 55 57999983   43    556666777777666654

>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=89.16  E-value=1.2  Score=28.89  Aligned_cols=47  Identities=19%  Similarity=0.198  Sum_probs=30.9

Q ss_pred             cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeC
Q psy16998         28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGT   76 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfD   76 (98)
                      +.+-|||++.||.. .+.|.++..+..|++...+..+++. .++.+..|
T Consensus         3 ~~milRvrS~dG~~-Rie~~~~~t~~~L~~kI~~~l~~~~-~~~~L~~~   49 (80)
T PF11543_consen    3 SSMILRVRSKDGMK-RIEVSPSSTLSDLKEKISEQLSIPD-SSQSLSKD   49 (80)
T ss_dssp             ---EEEEE-SSEEE-EEEE-TTSBHHHHHHHHHHHS---T-TT---BSS
T ss_pred             ccEEEEEECCCCCE-EEEcCCcccHHHHHHHHHHHcCCCC-cceEEEec
Confidence            46789999999966 7789999999999999999999986 45554333

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.

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

Probab=88.16  E-value=3.6  Score=26.49  Aligned_cols=65  Identities=15%  Similarity=0.054  Sum_probs=46.5

Q ss_pred             EEEEecc-CCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeee-eeCCcc-----c-CCCCCcCceeeccCCc
Q psy16998         31 KLKVLSS-DSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMP-MGTGLP-----F-GQTHGGNSFYCVNSGT   96 (98)
Q Consensus        31 ~lkV~~q-dg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rF-lfDG~r-----I-~~~~TP~~L~~~~~~~   96 (98)
                      +|.|... ....+..|+-++.....|...=....|+++ ...|+ +|+|..     + .++.+=.++.+.||.+
T Consensus         3 ~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~-~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~   75 (84)
T cd01789           3 TVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPA-SSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCR   75 (84)
T ss_pred             EEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCc-cceEEEEEcCCCCeEeecCCCccEeeeccCCCCCE
Confidence            3444432 355567889999999999999999999998 68999 689984     3 2333556666666543

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.

>cd01813 UBP_N UBP ubiquitin processing protease

Probab=87.64  E-value=2.8  Score=26.43  Aligned_cols=56  Identities=13%  Similarity=0.062  Sum_probs=44.2

Q ss_pred             CCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeee---CCcccCCCCCcCceeeccC
Q psy16998         38 DSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMG---TGLPFGQTHGGNSFYCVNS   94 (98)
Q Consensus        38 dg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlf---DG~rI~~~~TP~~L~~~~~   94 (98)
                      .|....+.|-.+..+..|...-+++.|+.+ ..-+++|   -|.-+..+.|-.++..-++
T Consensus         8 ~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~-~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g   66 (74)
T cd01813           8 GGQEYSVTTLSEDTVLDLKQFIKTLTGVLP-ERQKLLGLKVKGKPAEDDVKISALKLKPN   66 (74)
T ss_pred             CCEEEEEEECCCCCHHHHHHHHHHHHCCCH-HHEEEEeecccCCcCCCCcCHHHcCCCCC
Confidence            456667899999999999999999999998 5899996   6776666666555544443

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.

>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=86.90  E-value=5.6  Score=24.78  Aligned_cols=63  Identities=6%  Similarity=0.018  Sum_probs=44.3

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCce-eeee--eCCcccCCCC--CcCce
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYK-AMPM--GTGLPFGQTH--GGNSF   89 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s-~rFl--fDG~rI~~~~--TP~~L   89 (98)
                      +...++|+|+=.||..+.-+..++.++.-|++.-........ .. +++.  |-.+.|..++  |=.++
T Consensus         3 ~~~~~~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~-~~~f~L~~~~Pr~~l~~~~~~tl~e~   70 (82)
T PF00789_consen    3 ESDVVRIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPE-ESDFELITAFPRRELTDEDSKTLEEA   70 (82)
T ss_dssp             TSSEEEEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTT-TSSEEEEESSSTEECCSTTTSBTCCC
T ss_pred             CCCEEEEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCC-CccEEEEeCCCCcCCCccccccHHHh
Confidence            346788889899999999999999999999965544444443 22 5653  5566666665  44444

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 ....

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

Probab=86.26  E-value=2.5  Score=26.03  Aligned_cols=41  Identities=15%  Similarity=-0.051  Sum_probs=35.4

Q ss_pred             eccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeee
Q psy16998         35 LSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMG   75 (98)
Q Consensus        35 ~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlf   75 (98)
                      .=.||..+.|.|.+++.-+.|++.-|++.|+....-+.+.|
T Consensus         2 ~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~   42 (80)
T PF09379_consen    2 RLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQY   42 (80)
T ss_dssp             EESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE
T ss_pred             CCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEE
Confidence            34689999999999999999999999999997655666666

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

>smart00666 PB1 PB1 domain

Probab=82.74  E-value=7.3  Score=24.04  Aligned_cols=45  Identities=9%  Similarity=0.049  Sum_probs=35.4

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeC
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGT   76 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfD   76 (98)
                      |+|||.- .|....|.+.+...+..|...-+++.++.. ..+++.|-
T Consensus         2 ~~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~-~~~~l~Y~   46 (81)
T smart00666        2 VDVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDN-QSFTLKYQ   46 (81)
T ss_pred             ccEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCC-CCeEEEEE
Confidence            4566654 444559999999999999999999999974 46777764

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.

>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4

Probab=81.99  E-value=3.5  Score=29.00  Aligned_cols=62  Identities=16%  Similarity=0.121  Sum_probs=52.7

Q ss_pred             cceEEEEeccCCCEE-EEEEcCCCchHHHHHHHHHHhc-------CCCCceeeeeeCCcccCCCCCcCcee
Q psy16998         28 EYIKLKVLSSDSNEI-HFRVKMTTPMGKLKKSYSERVE-------NKPMYKAMPMGTGLPFGQTHGGNSFY   90 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev-~FkIK~~T~L~KLm~aYc~r~g-------l~~~~s~rFlfDG~rI~~~~TP~~L~   90 (98)
                      +.|-||.+-.||..| -|++.+++....|...-.+..+       ..+ ..+++.|-|.-+..+.|-.+..
T Consensus         3 ~~~e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~-~~qKLIysGKiLeD~~TL~d~~   72 (113)
T cd01814           3 EQIEIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTV-NEVKLISAGKILENSKTVGECR   72 (113)
T ss_pred             ccEEEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCH-HHeEEEeCCeecCCCCcHHHhC
Confidence            567788888999998 9999999999999999997774       336 5899999999999988866654

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

>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=81.55  E-value=7.5  Score=25.29  Aligned_cols=44  Identities=18%  Similarity=0.172  Sum_probs=33.7

Q ss_pred             EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeee
Q psy16998         31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMG   75 (98)
Q Consensus        31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlf   75 (98)
                      +||+.= .|.-+.|++.++..+..|.+.-++|.+++..+.+.+-|
T Consensus         2 ~vK~~~-~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY   45 (82)
T cd06407           2 RVKATY-GEEKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKY   45 (82)
T ss_pred             EEEEEe-CCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEE
Confidence            455532 45667999999999999999999999986424566655

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

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	98
3rzw_C	99	Crystal Structure Of The Monobody Ysmb-9 Bound To H		6e-10
1a5r_A	103	Structure Determination Of The Small Ubiquitin-Rela		1e-09
2kqs_A	99	Phosphorylation Of Sumo-Interacting Motif By Ck2 En		1e-09
3kyd_D	115	Human Sumo E1~sumo1-amp Tetrahedral Intermediate Mi		1e-09
3kyc_D	97	Human Sumo E1 Complex With A Sumo1-Amp Mimic Length		2e-09
1y8r_C	97	Sumo E1 Activating Enzyme Sae1-Sae2-Sumo1-Mg-Atp Co		3e-09
2iy1_B	83	Senp1 (Mutant) Full Length Sumo1 Length = 83		2e-08
2uyz_B	79	Non-Covalent Complex Between Ubc9 And Sumo1 Length		2e-08
1z5s_B	82	Crystal Structure Of A Complex Between Ubc9, Sumo-1		2e-08
2iy0_B	82	Senp1 (Mutant) Sumo1 Rangap Length = 82		2e-08
1tgz_B	80	Structure Of Human Senp2 In Complex With Sumo-1 Len		2e-08
2g4d_B	78	Crystal Structure Of Human Senp1 Mutant (C603s) In		2e-08
2bf8_B	77	Crystal Structure Of Sumo Modified Ubiquitin Conjug		7e-08
1wz0_A	104	Solution Structure Of Human Sumo-2 (Smt3b), A Ubiqu		7e-04

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

Iteration: 1
 Score = 59.3 bits (142), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 33/59 (55%), Positives = 43/59 (72%), Gaps = 6/59 (10%)
Query: 6  SVSYQTSKPPMKSSSADGGDNVE--YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          S+S Q +KP    S+ D GD  E  YIKLKV+  DS+EIHF+VKMTT + KLK+SY++R
Sbjct: 2  SMSDQEAKP----STEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYAQR 56

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

Iteration: 1
 Score = 58.5 bits (140), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 33/59 (55%), Positives = 42/59 (71%), Gaps = 6/59 (10%)
Query: 6  SVSYQTSKPPMKSSSADGGDNVE--YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          S+S Q +KP    S+ D GD  E  YIKLKV+  DS+EIHF+VKMTT + KLK+SY +R
Sbjct: 2  SMSDQEAKP----STEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR 56

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

Iteration: 1
 Score = 58.5 bits (140), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 33/59 (55%), Positives = 42/59 (71%), Gaps = 6/59 (10%)
Query: 6  SVSYQTSKPPMKSSSADGGDNVE--YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          S+S Q +KP    S+ D GD  E  YIKLKV+  DS+EIHF+VKMTT + KLK+SY +R
Sbjct: 2  SMSDQEAKP----STEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR 56

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

Iteration: 1
 Score = 58.2 bits (139), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 33/64 (51%), Positives = 43/64 (67%), Gaps = 6/64 (9%)
Query: 1  MADNSSVSYQTSKPPMKSSSADGGDNVE--YIKLKVLSSDSNEIHFRVKMTTPMGKLKKS 58
          +   S +S Q +KP    S+ D GD  E  YIKLKV+  DS+EIHF+VKMTT + KLK+S
Sbjct: 14 LVPRSHMSDQEAKP----STEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKES 69
Query: 59 YSER 62
          Y +R
Sbjct: 70 YCQR 73

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

Iteration: 1
 Score = 57.0 bits (136), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 32/58 (55%), Positives = 41/58 (70%), Gaps = 6/58 (10%)
Query: 7  VSYQTSKPPMKSSSADGGDNVE--YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          +S Q +KP    S+ D GD  E  YIKLKV+  DS+EIHF+VKMTT + KLK+SY +R
Sbjct: 1  MSDQEAKP----STEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR 54

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

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 32/58 (55%), Positives = 41/58 (70%), Gaps = 6/58 (10%)
Query: 7  VSYQTSKPPMKSSSADGGDNVE--YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          +S Q +KP    S+ D GD  E  YIKLKV+  DS+EIHF+VKMTT + KLK+SY +R
Sbjct: 1  MSDQEAKP----STEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR 54

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

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 24/35 (68%), Positives = 30/35 (85%)
Query: 28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          EYIKLKV+  DS+EIHF+VKMTT + KLK+SY +R
Sbjct: 1  EYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR 35

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

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 24/36 (66%), Positives = 31/36 (86%)
Query: 27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          +EYIKLKV+  DS+EIHF+VKMTT + KLK+SY +R
Sbjct: 1  MEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR 36

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

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 24/35 (68%), Positives = 30/35 (85%)
Query: 28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          EYIKLKV+  DS+EIHF+VKMTT + KLK+SY +R
Sbjct: 5  EYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR 39

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

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 24/35 (68%), Positives = 30/35 (85%)
Query: 28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          EYIKLKV+  DS+EIHF+VKMTT + KLK+SY +R
Sbjct: 1  EYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR 35

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

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 24/35 (68%), Positives = 30/35 (85%)
Query: 28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          EYIKLKV+  DS+EIHF+VKMTT + KLK+SY +R
Sbjct: 3  EYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR 37

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

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 24/35 (68%), Positives = 30/35 (85%)
Query: 28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          EYIKLKV+  DS+EIHF+VKMTT + KLK+SY +R
Sbjct: 1  EYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR 35

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

Iteration: 1
 Score = 52.4 bits (124), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 23/34 (67%), Positives = 29/34 (85%)
Query: 29 YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          YIKLKV+  DS+EIHF+VKMTT + KLK+SY +R
Sbjct: 1  YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR 34

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

Iteration: 1
 Score = 38.9 bits (89), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 16/38 (42%), Positives = 25/38 (65%)
Query: 25 DNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          +N ++I LKV   D + + F++K  TP+ KL K+Y ER
Sbjct: 20 ENNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCER 57

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	98
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	6e-12
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	4e-11
1wm3_A	72	Ubiquitin-like protein SMT3B; ubiquitin fold, half	6e-11
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	2e-10
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	2e-10
3v7o_A	227	Minor nucleoprotein VP30; ssgcid, seattle structur	3e-10
2eke_C	106	Ubiquitin-like protein SMT3; UBC9, SUMO binding mo	4e-10
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	6e-10
2d07_B	93	Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Ho	8e-10
3tix_A	207	Ubiquitin-like protein SMT3, RNA-induced transcri	1e-09
3a4r_A	79	Nfatc2-interacting protein; ubiquitin fold, coiled	2e-09
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	2e-09
3kyd_D	115	Small ubiquitin-related modifier 1; SUMO, thioeste	7e-09
2jxx_A	97	Nfatc2-interacting protein; nuclear factor of acti	3e-08
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	6e-08

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

 Score = 55.1 bits (133), Expect = 6e-12
 Identities = 24/36 (66%), Positives = 31/36 (86%)

Query: 27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          +EYIKLKV+  DS+EIHF+VKMTT + KLK+SY +R
Sbjct: 1  MEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR 36

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

 Score = 53.3 bits (128), Expect = 4e-11
 Identities = 16/40 (40%), Positives = 24/40 (60%)

Query: 23 GGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          G    ++I LKV   D + + F++K  TP+ KL K+Y ER
Sbjct: 1  GSHMNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCER 40

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

 Score = 52.5 bits (126), Expect = 6e-11
 Identities = 15/34 (44%), Positives = 22/34 (64%)

Query: 29 YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          +I LKV   D + + F++K  TP+ KL K+Y ER
Sbjct: 1  HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCER 34

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

 Score = 52.1 bits (125), Expect = 2e-10
 Identities = 15/35 (42%), Positives = 23/35 (65%)

Query: 28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          ++I LKV   D + + F++K  TP+ KL K+Y ER
Sbjct: 4  DHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCER 38

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

 Score = 51.9 bits (124), Expect = 2e-10
 Identities = 14/62 (22%), Positives = 31/62 (50%), Gaps = 3/62 (4%)

Query: 1  MADNSSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYS 60
          M++N     + S    + +     +    + +KV+++D  E+ FR+K  T + KL  +Y 
Sbjct: 1  MSNNGG---EPSNNGGEGAEGTCKEETALVAVKVVNADGAEMFFRIKSRTALKKLIDTYC 57

Query: 61 ER 62
          ++
Sbjct: 58 KK 59

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

 Score = 53.6 bits (128), Expect = 3e-10
 Identities = 19/62 (30%), Positives = 32/62 (51%), Gaps = 9/62 (14%)

Query: 1  MADNSSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYS 60
          M  +        KP +K           +I LKV S  S+EI F++K TTP+ +L ++++
Sbjct: 1  MGHHHHHHSGEVKPEVKPE--------THINLKV-SDGSSEIFFKIKKTTPLRRLMEAFA 51

Query: 61 ER 62
          +R
Sbjct: 52 KR 53

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

 Score = 51.1 bits (122), Expect = 4e-10
 Identities = 18/60 (30%), Positives = 30/60 (50%), Gaps = 1/60 (1%)

Query: 3  DNSSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
           +     Q    P  S          +I LKV S  S+EI F++K TTP+ +L +++++R
Sbjct: 5  HHHHHHSQDPLVPRGSEVKPEVKPETHINLKV-SDGSSEIFFKIKKTTPLRRLMEAFAKR 63

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

 Score = 50.6 bits (121), Expect = 6e-10
 Identities = 19/62 (30%), Positives = 35/62 (56%), Gaps = 6/62 (9%)

Query: 1  MADNSSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYS 60
           + +S ++ +  K  +K+      +N ++I LKV   D + + F++K  TP+ KL K+Y 
Sbjct: 2  SSGSSGMADEKPKEGVKT------ENNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYC 55

Query: 61 ER 62
          ER
Sbjct: 56 ER 57

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

 Score = 50.2 bits (120), Expect = 8e-10
 Identities = 17/46 (36%), Positives = 26/46 (56%)

Query: 17 KSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          K       +N ++I LKV   D + + F++K  TP+ KL K+Y ER
Sbjct: 5  KPKEGVKTENNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCER 50

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

 Score = 51.7 bits (123), Expect = 1e-09
 Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 1/60 (1%)

Query: 3  DNSSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
             S+         K           +I LKV S  S+EI F++K TTP+ +L +++++R
Sbjct: 31 KTGSLQDSEVNQEAKPEVKPEVKPETHINLKV-SDGSSEIFFKIKKTTPLRRLMEAFAKR 89

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

 Score = 49.0 bits (117), Expect = 2e-09
 Identities = 7/46 (15%), Positives = 19/46 (41%), Gaps = 1/46 (2%)

Query: 23 GGDNVEYIKLKVLSSDSNE-IHFRVKMTTPMGKLKKSYSERVENKP 67
          G    + ++L+V   + ++ +   +   +P+  L   Y E +    
Sbjct: 1  GPLGSQELRLRVQGKEKHQMLEISLSPDSPLKVLMSHYEEAMGLSG 46

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

 Score = 49.1 bits (117), Expect = 2e-09
 Identities = 26/62 (41%), Positives = 35/62 (56%), Gaps = 8/62 (12%)

Query: 1  MADNSSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYS 60
          M+D         +    +         EYIKLKV+  DS+EIHF+VKMTT + KLK+SY 
Sbjct: 1  MSDQ--------EAKPSTEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYC 52

Query: 61 ER 62
          +R
Sbjct: 53 QR 54

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

 Score = 48.1 bits (114), Expect = 7e-09
 Identities = 29/59 (49%), Positives = 38/59 (64%), Gaps = 2/59 (3%)

Query: 4  NSSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
           S +S Q +KP  +          EYIKLKV+  DS+EIHF+VKMTT + KLK+SY +R
Sbjct: 17 RSHMSDQEAKPSTEDLGDK--KEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR 73

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

 Score = 46.1 bits (109), Expect = 3e-08
 Identities = 9/60 (15%), Positives = 24/60 (40%), Gaps = 4/60 (6%)

Query: 5  SSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNE-IHFRVKMTTPMGKLKKSYSERV 63
          S   +  S   +   S +     + ++L+V   + ++ +   +   +P+  L   Y E +
Sbjct: 4  SHHHHHHSSGLVPRGSTETS---QQLQLRVQGKEKHQTLEVSLSRDSPLKTLMSHYEEAM 60

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

 Score = 47.2 bits (111), Expect = 6e-08
 Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 1/59 (1%)

Query: 4  NSSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
          +  +S        K           +I LKV S  S+EI F++K TTP+ +L +++++R
Sbjct: 4  HHHMSDSEVNQEAKPEVKPEVKPETHINLKV-SDGSSEIFFKIKKTTPLRRLMEAFAKR 61

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	98
3kyd_D	115	Small ubiquitin-related modifier 1; SUMO, thioeste	99.96
2l76_A	95	Nfatc2-interacting protein; ubiquitin-like domain,	99.96
2jxx_A	97	Nfatc2-interacting protein; nuclear factor of acti	99.94
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	99.93
1wm3_A	72	Ubiquitin-like protein SMT3B; ubiquitin fold, half	99.93
2d07_B	93	Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Ho	99.93
2eke_C	106	Ubiquitin-like protein SMT3; UBC9, SUMO binding mo	99.92
3a4r_A	79	Nfatc2-interacting protein; ubiquitin fold, coiled	99.92
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	99.92
3tix_A	207	Ubiquitin-like protein SMT3, RNA-induced transcri	99.91
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	99.91
3v7o_A	227	Minor nucleoprotein VP30; ssgcid, seattle structur	99.91
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	99.91
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	99.91
3uf8_A	209	Ubiquitin-like protein SMT3, peptidyl-prolyl CIS-	99.89
3ix6_A	360	TS, tsase, thymidylate synthase; niaid, ssgcid, se	99.86
4da1_A	389	Protein phosphatase 1K, mitochondrial; metal-ION-a	99.85
3goe_A	82	DNA repair protein RAD60; SUMO-like domain, sumoyl	99.8
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	99.52
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	99.44
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	98.57
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	98.54
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	98.51
3v6c_B	91	Ubiquitin; structural genomics, structural genomic	98.47
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	98.46
3vdz_A	111	Ubiquitin-40S ribosomal protein S27A; gadolinium,	98.44
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	98.44
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	98.43
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	98.41
4hcn_B	98	Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidas	98.4
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	98.4
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	98.39
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	98.36
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	98.35
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	98.33
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	98.28
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	98.26
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	98.26
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	98.26
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	98.25
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	98.16
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	98.15
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	98.14
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	98.09
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	98.06
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	98.05
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	98.03
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	97.99
3plu_A	93	Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-	97.99
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	97.98
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	97.96
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	97.96
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	97.92
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	97.84
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	97.04
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	97.83
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	97.82
1wia_A	95	Hypothetical ubiquitin-like protein (riken cDNA 20	97.82
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	97.76
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	97.68
2daf_A	118	FLJ35834 protein; hypothetical protein FLJ35834, u	97.67
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	97.61
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	97.57
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	97.52
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	97.52
1uh6_A	100	Ubiquitin-like 5; beta-grAsp fold, structural geno	97.47
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	97.46
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	97.43
4a20_A	98	Ubiquitin-like protein MDY2; protein binding, GET-	97.4
1we6_A	111	Splicing factor, putative; structural genomics, ub	97.37
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	97.29
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	97.29
3u5c_f	152	40S ribosomal protein S31; translation, ribosome,	97.19
1x1m_A	107	Ubiquitin-like protein SB132; structural genomics,	97.08
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	96.99
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	96.94
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	96.88
2al3_A	90	TUG long isoform; TUG UBL1 insulin, endocytosis/ex	96.76
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	96.72
1wgg_A	96	Ubiquitin carboxyl-terminal hydrolase 14; ubiquiti	96.65
2lxa_A	87	Ubiquitin-like protein MDY2; ubiquitin-like domain	96.6
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	96.54
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	96.39
1wxv_A	92	BAG-family molecular chaperone regulator-1; struct	96.37
2kdb_A	99	Homocysteine-responsive endoplasmic reticulum- res	96.36
1wju_A	100	NEDD8 ultimate buster-1; ubiquitin-like domain, st	96.27
1v2y_A	105	3300001G02RIK protein; hypothetical protein, ubiqu	96.14
2kzr_A	86	Ubiquitin thioesterase OTU1; structural genomics,	96.13
1v5t_A	90	8430435I17RIK protein; hypothetical protein, ubiqu	96.12
2gow_A	125	HCG-1 protein, ubiquitin-like protein 3; BC059385,	96.08
1wgh_A	116	Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fo	96.01
1wf9_A	107	NPL4 family protein; beta-grAsp fold like domain,	95.96
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	95.75
2kjr_A	95	CG11242; UBL, ubiquitin, ubiquitin-like, structura	95.32
4dbg_A	105	Ranbp-type and C3HC4-type zinc finger-containing;	95.32
1se9_A	126	Ubiquitin family; ubiquitin-like, cell-free, wheat	95.07
2fnj_B	118	Transcription elongation factor B polypeptide 2; b	94.79
1v6e_A	95	Cytoskeleton-associated protein 1; tubulin-specifi	94.58
2dzj_A	88	Synaptic glycoprotein SC2; ubiquitin-like fold, st	94.55
2kj6_A	97	Tubulin folding cofactor B; methods development, N	93.71
1t0y_A	122	Tubulin folding cofactor B; ubiquitin-like, cytosk	93.5
4ajy_B	118	Transcription elongation factor B polypeptide 2; E	92.56
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	92.34
1wjn_A	97	Tubulin-folding protein TBCE; ubiquitin-like domai	91.49
3shq_A	320	UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila	90.91
2cr5_A	109	Reproduction 8; UBX domain, D0H8S2298E protein, st	89.75
1wj4_A	124	KIAA0794 protein; UBX domain, beta-grAsp fold, str	88.83
3qx1_A	84	FAS-associated factor 1; UBX, protein binding, P97	88.25
3qij_A	296	Protein 4.1; cytoskeleton, structural genomics, st	87.08
2kvr_A	130	Ubiquitin carboxyl-terminal hydrolase 7; USP7, ubi	86.94
2bps_A	81	YUKD protein; ubiquitin-like protein, ubiquitin; 2	86.71
1h4r_A	314	Merlin; FERM, neurofibromatosis, NF2, structural p	85.32
1ef1_A	294	Moesin; membrane, FERM domain, tail domain, membra	84.76
3ivf_A	371	Talin-1; FERM domain, cell membrane, cell projecti	84.46
2pjh_A	80	Protein NPL4, nuclear protein localization protein	83.09
4efo_A	94	Serine/threonine-protein kinase TBK1; ubiquitin li	81.47
4b6w_A	86	Tubulin-specific chaperone; CAP-Gly, ubiquitin-lik	81.27
2ylm_A	530	Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70	80.42

>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=99.96  E-value=1.5e-30  Score=180.36  Aligned_cols=89  Identities=34%  Similarity=0.406  Sum_probs=67.4

Q ss_pred             CCCcCCCCCCCCCCCCCCCCCCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCC
Q psy16998          6 SVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHG   85 (98)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~T   85 (98)
                      -|+.++++|+.  ..++++.++++|+|||++|+|.+|+|+||++|+|+|||++||+|.|+++ .++||+|||+||++++|
T Consensus        19 ~~~~~~~~~~~--~~~~~k~~~~~I~LKV~~qdg~ev~fkIk~tt~L~KLm~aY~er~Gl~~-~~irFlFDG~rI~~~~T   95 (115)
T 3kyd_D           19 HMSDQEAKPST--EDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPM-NSLRFLFEGQRIADNHT   95 (115)
T ss_dssp             ----------------------CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHHTCCT-TSEEEEETTEECCTTCC
T ss_pred             ccccccccCcc--ccccCCCCCCeEEEEEEcCCCCEEEEEEccCChHHHHHHHHHHHhCCCh-hhEEEEECCeECCCCCC
Confidence            47889999862  2345666789999999999999999999999999999999999999998 69999999999999999


Q ss_pred             cCceeeccCCcC
Q psy16998         86 GNSFYCVNSGTS   97 (98)
Q Consensus        86 P~~L~~~~~~~~   97 (98)
                      |++|+|-|+|+.
T Consensus        96 P~dL~MEDgD~I  107 (115)
T 3kyd_D           96 PKELGMEEEDVI  107 (115)
T ss_dssp             TTTTTCCTTCEE
T ss_pred             HHHcCCCCCCEE
Confidence            999999999975

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

Probab=99.96  E-value=5.3e-30  Score=173.03  Aligned_cols=71  Identities=8%  Similarity=0.155  Sum_probs=67.2

Q ss_pred             CCCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         25 DNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        25 ~~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      +.+.+|||||+ ++|++++||||++|+|+|||+|||+|.|+++ +++||+|||+||++++||++|+|-|+|+.
T Consensus        17 ~~~~~IniKV~-~~g~ev~FkIK~tt~l~KL~~aYc~r~gv~~-~sirFlfDG~rI~~~~TP~~L~meD~DiI   87 (95)
T 2l76_A           17 ETPRLFPLKIR-CRADLVRLPLRMSEPLQSVVDHMATHLGVSP-SRILLLFGETELSPTATPRTLKLGVADII   87 (95)
T ss_dssp             SCCCCEEEEEE-CSSSEEEEEECSSSCTHHHHHHHHHHHTSCG-GGEEEEETTEECCTTSCHHHHTCCSSCEE
T ss_pred             CCCCeEEEEEE-cCCcEEEEEEecCChHHHHHHHHHhhcCCCh-hhEEEEECCcCCCCCCCHhHcCCCCCCEE
Confidence            45789999999 5899999999999999999999999999999 79999999999999999999999999974

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

Probab=99.94  E-value=8.5e-28  Score=161.91  Aligned_cols=72  Identities=11%  Similarity=0.135  Sum_probs=68.2

Q ss_pred             CCCcceEEEEeccCCC-EEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         25 DNVEYIKLKVLSSDSN-EIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        25 ~~~~~I~lkV~~qdg~-ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      +++++|+|||++|+|+ +|+|+||++|+|+|||++||+++|+++ +++||+|||+||.+++||++|+|-|+|+.
T Consensus        21 ~~~~~I~LkV~~~dg~~~v~fkIk~~t~l~kLm~aY~~~~g~~~-~~vrF~FDG~rI~~~~TP~dLdMEDgD~I   93 (97)
T 2jxx_A           21 ETSQQLQLRVQGKEKHQTLEVSLSRDSPLKTLMSHYEEAMGLSG-RKLSFFFDGTKLSGRELPADLGMESGDLI   93 (97)
T ss_dssp             CSCSEEEEEEEESSSSCEEEEEEETTSCHHHHHHHHHHHTTCSS-SCCEEEETTEECCSCSCHHHHTCCTTEEE
T ss_pred             CCCCeEEEEEEcCCCCEEEEEEECCCChHHHHHHHHHHHHCCCc-ccEEEEECCEEcCCCCCHHHcCCCCCCEE
Confidence            4678999999999995 899999999999999999999999998 69999999999999999999999999874

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

Probab=99.93  E-value=6.9e-26  Score=153.47  Aligned_cols=77  Identities=26%  Similarity=0.301  Sum_probs=70.7

Q ss_pred             CCCCCC-CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         20 SADGGD-NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        20 ~~~~~~-~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      .+.++. ++++|+|+|++++|++|+|+|+++|+|+|||++||++.|+++ .++||+|||+||.+++||++|+|-|+++.
T Consensus        14 ~~~~~~~~~~~I~IkVk~~~g~~i~~kVk~~t~l~kL~~~y~ek~gi~~-~~~rf~FdG~~l~~~~Tp~dl~medgD~I   91 (104)
T 1wz0_A           14 KEGVKTENNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSM-RQIRFRFDGQPINETDTPAQLEMEDEDTI   91 (104)
T ss_dssp             CCCCCCSCSCCEEEEEECSSSCEEEEEECTTSCHHHHHHHHHHHHTCCT-TTSCEESSSSBCCTTSCTTTTTCCTTEEE
T ss_pred             cccCCCCCCCeEEEEEECCCCCEEEEEEcCCChHHHHHHHHHHHhCCCc-ceEEEEECCEEcCCCCCHHHcCCCCCCEE
Confidence            444443 568999999999999999999999999999999999999998 69999999999999999999999999875

>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=99.93  E-value=4.3e-26  Score=143.82  Aligned_cols=68  Identities=28%  Similarity=0.340  Sum_probs=65.8

Q ss_pred             ceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         29 YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        29 ~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      ||+|+|++++|++++|+|+++|+|+|||++||++.|+++ .++||+|||+||.+++||++|+|-|+++.
T Consensus         1 ~i~lkV~~~~g~~v~~~v~~~t~l~kl~~~y~~~~gi~~-~~~rf~fdG~~l~~~~Tp~~l~medgD~I   68 (72)
T 1wm3_A            1 HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSM-RQIRFRFDGQPINETDTPAQLEMEDEDTI   68 (72)
T ss_dssp             CEEEEEECTTSCEEEEEECTTSCTHHHHHHHHHHHTCCT-TTCEEEETTEECCTTCCTTTTTCCTTEEE
T ss_pred             CEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCc-ceEEEEECCEEcCCCCCHHHcCCCCCCEE
Confidence            699999999999999999999999999999999999998 69999999999999999999999999874

>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=99.93  E-value=5.2e-26  Score=150.48  Aligned_cols=71  Identities=28%  Similarity=0.345  Sum_probs=67.6

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      ++.+|+|+|++++|++|+|+|+++|+|+|||++||++.|+++ .++||+|||.||.+++||++|+|-|+++.
T Consensus        14 ~~~~i~ikV~~~~g~~i~~~v~~~t~l~kl~~~y~~~~gi~~-~~~rf~fdG~~l~~~~Tp~dl~medgD~I   84 (93)
T 2d07_B           14 NNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSM-RQIRFRFDGQPINETDTPAQLEMEDEDTI   84 (93)
T ss_dssp             -CCEEEEEEECTTSCEEEEEEETTSCHHHHHHHHHHHHTCCG-GGEEEEETTEECCTTCCTTTTTCCTTEEE
T ss_pred             CCCeEEEEEECCCCCEEEEEEccCCHHHHHHHHHHHHhCCCc-cceEEEECCEEcCCCCCHHHcCCCCCCEE
Confidence            568999999999999999999999999999999999999998 69999999999999999999999999874

>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=99.92  E-value=2.6e-25  Score=151.57  Aligned_cols=74  Identities=20%  Similarity=0.253  Sum_probs=69.4

Q ss_pred             CCCCCCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         22 DGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        22 ~~~~~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      ++.+++++|+|||++ +|.+++|+|+++|+|+|||++||++.|+++ .++||+|||+||.+++||++|+|-|+++.
T Consensus        24 ~~~~~~~~I~IkV~~-~g~~i~fkIk~tt~l~kL~~ay~ek~gi~~-~~~rF~FdG~rl~~~~Tp~dl~medgD~I   97 (106)
T 2eke_C           24 PEVKPETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEM-DSLRFLYDGIRIQADQTPEDLDMEDNDII   97 (106)
T ss_dssp             CCCCCCSEEEEEEEC-SSCEEEEEEETTSCTHHHHHHHHHHHTCCG-GGEEEEETTEECCTTCCTTTTTCCTTEEE
T ss_pred             CCCCCCCeEEEEEec-CCcEEEEEeCCCCHHHHHHHHHHHHhCCCc-ccEEEEECCeEcCCCCCHHHcCCCCCCEE
Confidence            344577899999999 999999999999999999999999999998 69999999999999999999999999875

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

Probab=99.92  E-value=1.3e-25  Score=144.39  Aligned_cols=71  Identities=11%  Similarity=0.105  Sum_probs=67.8

Q ss_pred             CCcceEEEEeccCCC-EEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         26 NVEYIKLKVLSSDSN-EIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~-ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      ++++|+|+|++++|+ +++|+|+++|+|+|||++||++.|+++ .++||+|||+||.+++||++|+|-|+++.
T Consensus         4 ~~~~i~ikV~~~~g~~~i~~~i~~~t~l~kl~~~y~~~~gi~~-~~~rf~fdG~~l~~~~Tp~~l~medgD~I   75 (79)
T 3a4r_A            4 GSQELRLRVQGKEKHQMLEISLSPDSPLKVLMSHYEEAMGLSG-HKLSFFFDGTKLSGKELPADLGLESGDLI   75 (79)
T ss_dssp             CCCCEEEEEECSSTTCEEEEEECTTSCHHHHHHHHHHHHTCTT-CCCEEEETTEECCSCCCHHHHTCCTTCEE
T ss_pred             CCCEEEEEEEeCCCCEEEEEEECCCChHHHHHHHHHHHhCCCc-ccEEEEECCEEcCCCCCHHHcCCCCCCEE
Confidence            568999999999996 899999999999999999999999998 59999999999999999999999999975

>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=99.92  E-value=1.5e-25  Score=148.39  Aligned_cols=70  Identities=27%  Similarity=0.332  Sum_probs=66.9

Q ss_pred             CcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        27 ~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      +++|+|+|++++|++|+|+|+++|+|+|||++||++.|+++ .++||+|||+||.+++||++|+|-|+++.
T Consensus         3 ~~~i~ikVk~~~g~~v~~~vk~~t~l~kl~~~y~~~~gi~~-~~~rf~FdG~~l~~~~Tp~dl~medgD~I   72 (91)
T 2io0_B            3 NDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSM-RQIRFRFDGQPINETDTPAQLEMEDEDTI   72 (91)
T ss_dssp             -CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHTTCCS-TTEEEEETTEECCTTCCTTTTTCCTTEEE
T ss_pred             CCeEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCc-ccEEEEECCEEcCCCCCHHHcCCCCCCEE
Confidence            57999999999999999999999999999999999999998 69999999999999999999999999874

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

Probab=99.91  E-value=2.2e-25  Score=167.17  Aligned_cols=70  Identities=21%  Similarity=0.295  Sum_probs=66.3

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      ++++|+|||. ++|++|+||||++|+|+|||++||+|+|+++ .++||+|||+||++++||++|+|-|+|+.
T Consensus        54 p~e~InLKVk-~dG~eV~FKIKrtTpL~KLmeAYcERqGL~~-~sIRFLFDGqRI~~ddTPeDLdMEDGDtI  123 (207)
T 3tix_A           54 PETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEM-DSLTFLYDGIEIQADQTPEDLDMEDNDII  123 (207)
T ss_dssp             -CCEEEEEEE-CSSCEEEEEEETTSCTHHHHHHHHHHTTCCG-GGSCEEETTEECCSSCCTTTTTCCTTEEE
T ss_pred             CCCcEEEEEe-cCCCEEEEEEccCChHHHHHHHHHHHhCCCc-ccEEEEECCeecCCCCCHHHcCCCCCCEE
Confidence            4789999997 6999999999999999999999999999998 79999999999999999999999999975

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

Probab=99.91  E-value=3.8e-25  Score=165.02  Aligned_cols=71  Identities=21%  Similarity=0.286  Sum_probs=67.3

Q ss_pred             CCCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         25 DNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        25 ~~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      +++++|+|||+ ++|.+|+|+||++|+|+|||++||+|+|+++ .++||+|||+||++++||++|+|-|+|+.
T Consensus        25 ~~~~~I~LkV~-~~g~~v~fkIk~~t~l~kL~~ay~er~Gi~~-~~~RF~FdG~rI~~~~TP~dL~MEdgD~I   95 (200)
T 3pge_A           25 KPETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEM-DSLRFLYDGIRIQADQTPEDLDMEDNDII   95 (200)
T ss_dssp             CCCCCEEEEEE-CSSCEEEEEECTTSCTHHHHHHHHHHHSSCG-GGEEEEETTEECCTTCCTTTTTCCTTEEE
T ss_pred             CCCCeEEEEEe-cCCCEEEEEEecCCHHHHHHHHHHHHhCCCh-hhEEEEECCEEcCCCCCHHHcCCCCCCEE
Confidence            45799999997 5999999999999999999999999999998 79999999999999999999999999975

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

Probab=99.91  E-value=2.3e-26  Score=174.45  Aligned_cols=71  Identities=24%  Similarity=0.321  Sum_probs=0.0

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcCC
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTSE   98 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~~   98 (98)
                      ++++|+||| +++|++|+||||++|+|+|||++||+|.|+++ +++||+|||+||++++||++|+|-|+|+.+
T Consensus        18 p~e~InLKV-~qdGseV~FKIKrtTpL~KLM~AYcERqGLs~-~siRFLFDGqRI~dddTPadL~MEDGDtID   88 (227)
T 3v7o_A           18 PETHINLKV-SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEM-DSLRFLYDGIRIQADQTPEDLDMEDNDIIE   88 (227)
T ss_dssp             -------------------------------------------------------------------------
T ss_pred             CCCeEEEEE-eCCCCEEEEEEccCChHHHHHHHHHHHhCCCc-cceEEEECCEecCCCCCHHHcCCCCCCEEE
Confidence            578999999 99999999999999999999999999999998 699999999999999999999999999853

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

Probab=99.91  E-value=7.7e-25  Score=149.95  Aligned_cols=72  Identities=19%  Similarity=0.314  Sum_probs=68.7

Q ss_pred             CCCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         25 DNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        25 ~~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      +++.+|+|+|++++|.+|+|+|+++|+|+|||++||++.|+++ .++||+|||+||.+++||++|+|-|+++.
T Consensus        22 ~~~~~I~IkVk~~~g~~i~fkVk~~t~l~kL~~ay~ek~gi~~-~~~rfiFdG~~L~~~~Tp~dl~mEDgD~I   93 (110)
T 2k8h_A           22 EETALVAVKVVNADGAEMFFRIKSRTALKKLIDTYCKKQGISR-NSVRFLFDGTPIDETKTPEELGMEDDDVI   93 (110)
T ss_dssp             CCCCCEEEEEEETTSCCEEEEECTTSSHHHHHHHHHHHHTCCS-SSCEEESSSCBCCSSSHHHHHHCSSEEEE
T ss_pred             CCCCeEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCc-ccEEEEECCEEcCCCCCHHHcCCCCCCEE
Confidence            4678999999999999999999999999999999999999998 59999999999999999999999999874

>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=99.91  E-value=1.7e-24  Score=143.73  Aligned_cols=72  Identities=26%  Similarity=0.315  Sum_probs=67.1

Q ss_pred             CCCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         25 DNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        25 ~~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      .++++|+|+|++++|++|+|+|+++|+|+|||++||++.|+++ .++||+|||+||.+++||++|+|-|+++.
T Consensus         3 ~~~~~i~ikVk~~~g~~i~~~v~~~t~l~kl~~~y~~~~gi~~-~~~rf~FdG~~l~~~~Tp~dl~medgD~I   74 (94)
T 2io1_B            3 HMNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSM-RQIRFRFDGQPINETDTPAQLEMEDEDTI   74 (94)
T ss_dssp             ---CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHHTCCG-GGEEEEETTEECCTTCCTTTTTCCTTCEE
T ss_pred             CCCCeEEEEEECCCCCEEEEEECCCCHHHHHHHHHHHHhCCCc-ccEEEEECCEEcCCCCCHHHcCCCCCCEE
Confidence            3568999999999999999999999999999999999999998 69999999999999999999999999975

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

Probab=99.89  E-value=7.5e-24  Score=156.82  Aligned_cols=70  Identities=21%  Similarity=0.288  Sum_probs=67.0

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      ++++|+|||++ +|++|+||||++|+|+|||++||+|+|+++ .++||+|||++|.+++||++|+|-|+|+.
T Consensus        18 ~~~~i~ikv~~-~~~~v~~~i~~~~~l~kl~~~y~~~~g~~~-~~~~f~fdG~~i~~~~Tpk~L~~ed~d~I   87 (209)
T 3uf8_A           18 PETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEM-DSLRFLYDGIRIQADQTPEDLDMEDNDII   87 (209)
T ss_dssp             CCSEEEEEEEC-SSCEEEEEEETTSCTHHHHHHHHHHHTCCG-GGCEEEETTEECCTTCCTTTTTCCTTEEE
T ss_pred             CCCcEEEEEEc-CCCEEEEEEeeCCHHHHHHHHHHHhhCCCh-heEEEEECCEeccCCCChHHhhhcccccc
Confidence            67999999998 889999999999999999999999999998 79999999999999999999999999874

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

Probab=99.86  E-value=2.6e-23  Score=166.29  Aligned_cols=71  Identities=23%  Similarity=0.301  Sum_probs=0.0

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcCC
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTSE   98 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~~   98 (98)
                      ++++|+|||++ +|++|+||||++|+|+|||++||+|.|+++ .++||+|||+||++++||++|+|-|+|+.+
T Consensus        18 ~~~~I~LKV~~-~g~~v~FkIk~~t~l~kLm~aY~~r~G~~~-~~~rFlFdG~rI~~~~TP~~L~MEDgD~Id   88 (360)
T 3ix6_A           18 PETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEM-DSLRFLYDGIRIQADQTPEDLDMEDNDIIE   88 (360)
T ss_dssp             -------------------------------------------------------------------------
T ss_pred             CCCeEEEEEec-CCcEEEEEEecCChHHHHHHHHHHHhCCCc-ceEEEEECCeECCCCCChHHcCCCccchhh
Confidence            56899999998 689999999999999999999999999998 699999999999999999999999999753

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

Probab=99.85  E-value=4.7e-23  Score=162.14  Aligned_cols=71  Identities=23%  Similarity=0.308  Sum_probs=0.0

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcCC
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTSE   98 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~~   98 (98)
                      ++++|+|||++ +|.+++||||++|+|+|||++||+|+|+++ .++||+|||+||.+++||++|+|-|+|+.+
T Consensus        27 ~~~~i~lkv~~-~~~~~~~~i~~~~~~~~l~~~y~~~~g~~~-~~~~f~f~G~~i~~~~Tp~~l~med~d~i~   97 (389)
T 4da1_A           27 PETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEM-DSLRFLYDGIRIQADQAPEDLDMEDNDIIE   97 (389)
T ss_dssp             -------------------------------------------------------------------------
T ss_pred             CCCcEEEEEec-CCcEEEEEECCCChHHHHHHHHHHHhCCCc-ceEEEEECCEEcCCCCCHHHcCCCCCCEee
Confidence            55899999998 889999999999999999999999999998 699999999999999999999999999753

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

Probab=99.80  E-value=7.5e-20  Score=120.31  Aligned_cols=69  Identities=16%  Similarity=0.089  Sum_probs=65.0

Q ss_pred             cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      .-|+|-.++.-...++|+|+++|++.|||+|||.++|++++.++||+|||.||++++||++|||-|+|-
T Consensus         8 ~~~~~~~~~~~~~dl~f~I~~~t~v~kLi~ayc~~~~I~~~~~IrllFDGdRLdp~~tp~DlemeD~D~   76 (82)
T 3goe_A            8 KLITLLLRSSKSEDLRLSIPVDFTVKDLIKRYCTEVKISFHERIRLEFEGEWLDPNDQVQSTELEDEDQ   76 (82)
T ss_dssp             CEEEEEEEESSSCCEEEEEETTSBHHHHHHHHHHHHTCCCCTTCEEEETTEECCTTSBGGGSSCCTTCE
T ss_pred             HHHHHhhhccCCCCeEEEecCCCCHHHHHHHHHHHcCCCcCceEEEEEcCcccCccCChhhhCCcCCce
Confidence            468899999888899999999999999999999999999966999999999999999999999999974

>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=99.52  E-value=2.2e-14  Score=93.97  Aligned_cols=72  Identities=36%  Similarity=0.438  Sum_probs=66.8

Q ss_pred             CCCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         25 DNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        25 ~~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      +++..|+|+|+..+|..+.|+|.+++.+..|+..||++.|+++ ...||+|+|+++..+.|+.++.+-+++|.
T Consensus        17 ~~~~~m~I~Vk~~~g~~~~l~v~~~~tv~~lK~~i~~~~gip~-~~qrLif~Gk~L~d~~tl~dy~i~~g~~I   88 (97)
T 1wyw_B           17 KEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPM-NSLRFLFEGQRIADNHTPKELGMEEEDVI   88 (97)
T ss_dssp             --CCEEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCG-GGEEEEETTEECCTTCCHHHHTCCTTCEE
T ss_pred             CCCCcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCh-hhEEEEECCeEcCCCCCHHHCCCCCCCEE
Confidence            4668999999999999999999999999999999999999998 69999999999999999999999998874

>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=99.44  E-value=2.2e-13  Score=84.80  Aligned_cols=69  Identities=38%  Similarity=0.466  Sum_probs=65.4

Q ss_pred             cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      ++|+|+|++.+|..+.|+|.+++++.+|+++||++.|+++ ...||.|+|.++.++.|++++++-|++|.
T Consensus         2 ~~m~i~vk~~~g~~~~~~v~~~~tv~~lk~~i~~~~gi~~-~~qrL~~~G~~L~d~~tl~~~~i~~~~~i   70 (79)
T 2uyz_B            2 EYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPM-NSLRFLFEGQRIADNHTPKELGMEEEDVI   70 (79)
T ss_dssp             CEEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCG-GGEEEEETTEECCTTCCHHHHTCCTTEEE
T ss_pred             CeEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHHCCCc-ccEEEEECCEEeCCCCCHHHcCCCCCCEE
Confidence            4799999999999999999999999999999999999998 69999999999999999999999998774

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

Probab=98.57  E-value=3.8e-07  Score=56.86  Aligned_cols=71  Identities=13%  Similarity=0.184  Sum_probs=64.9

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      ....++|.|+..+|..+.+.|.+++....|+...+++.|+++ ...|++|+|..+..+.|..++..-++.|.
T Consensus         9 ~~~~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~-~~qrL~~~G~~L~d~~tL~~~~i~~~~~i   79 (88)
T 3dbh_I            9 SGGSMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPP-QQQRLIYSGKQMNDEKTAADYKILGGSVL   79 (88)
T ss_dssp             CCCCEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCG-GGCCEEETTEECCTTSBGGGGTCCTTCEE
T ss_pred             CCCcEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcCH-HHEEEEECCeECCCCCcHHHcCCCCCCEE
Confidence            346799999999999999999999999999999999999998 68999999999999999999988887763

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

Probab=98.54  E-value=1.9e-07  Score=57.80  Aligned_cols=69  Identities=10%  Similarity=0.106  Sum_probs=62.1

Q ss_pred             cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      ..++|.|+..+|..+.+.|.+++....|...++++.|+++ ...|++|+|..+..+.|..++..-+++|.
T Consensus         2 s~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~ip~-~~qrL~~~g~~L~d~~tL~~~~i~~~~~i   70 (85)
T 3n3k_B            2 SHMRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLSDYNIHNHSAL   70 (85)
T ss_dssp             --CEEEEECGGGCEEEEECCTTCBHHHHHHHHHHHHCCCG-GGEEEEETBEECCTTCBTTTTTCCTTCEE
T ss_pred             CeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCH-HHEEEEECCeECCCCCCHHHCCCCCCCEE
Confidence            3688999999999999999999999999999999999998 68999999999999999999988777663

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

Probab=98.51  E-value=4.7e-07  Score=55.84  Aligned_cols=68  Identities=10%  Similarity=0.112  Sum_probs=62.1

Q ss_pred             cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ..++|.|+..+|..+.+.|.+++....|....+++.|+++ ...|++|+|..+..+.|..++..-++.|
T Consensus         2 s~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~i~~-~~qrL~~~g~~L~d~~tL~~~~i~~~~~   69 (85)
T 3mtn_B            2 SHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLSDYNIQKWST   69 (85)
T ss_dssp             -CEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCG-GGCEEEETTEECCTTSBTGGGTCCTTCE
T ss_pred             CeEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcCh-HHEEEEECCEECCCCCCHHHcCCCCCCE
Confidence            4689999999999999999999999999999999999998 6899999999999999999988777765

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

Probab=98.47  E-value=1e-06  Score=56.01  Aligned_cols=71  Identities=10%  Similarity=0.094  Sum_probs=65.4

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      ....++|.|+..+|..+.+.|..++....|....+++.|+.+ ...|++|.|..+..+.|-.++..-++.|.
T Consensus        14 ~~~~m~i~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~-~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i   84 (91)
T 3v6c_B           14 PRGSMQIFVNTLTGTHITLEVEPSDTIENVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLSDYNIQKESTL   84 (91)
T ss_dssp             CCCSEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCG-GGCEEEETTEECCTTCBTGGGTCCTTCEE
T ss_pred             CCCeEEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCCCh-hhEEEEECCeECCCcCcHHHCCCCCCCEE
Confidence            457899999999999999999999999999999999999998 68999999999999999999988888763

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

Probab=98.46  E-value=8.7e-07  Score=54.55  Aligned_cols=69  Identities=14%  Similarity=0.081  Sum_probs=63.5

Q ss_pred             cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      ..+.|.|+..+|..+.+.|.+++....|....+++.|+++ ...|+.|.|..+..+.|-.++..-++.|.
T Consensus         3 ~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~-~~qrL~~~G~~L~d~~tL~~~~i~~~~~l   71 (79)
T 3phx_B            3 EPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQD-DLFWLTFEGKPLEDQLPLGEYGLKPLSTV   71 (79)
T ss_dssp             CCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCG-GGEEEEETTEECCTTSBGGGGTCCTTCEE
T ss_pred             CCEEEEEEeCCCCEEEEEECCcChHHHHHHHHHhhcCCCH-HHEEEEECCEECCCCCcHHHCCCCCCCEE
Confidence            4688999999999999999999999999999999999998 68999999999999999999988887763

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

Probab=98.44  E-value=1.2e-06  Score=58.35  Aligned_cols=70  Identities=10%  Similarity=0.124  Sum_probs=64.3

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      +...++|.|+..+|..+.|.|.+++....|+...+++.|+.+ ...|++|.|+.+..+.|..++..-++.|
T Consensus        32 ~~~~m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~-~~QrLi~~Gk~L~D~~tL~~~gI~~gs~  101 (111)
T 3vdz_A           32 ELLAMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLSDYNIQKEST  101 (111)
T ss_dssp             GGGCEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCCCG-GGEEEEETTEECCTTSBTTTTTCCTTCE
T ss_pred             CCccEEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCh-HHEEEEECCEECCCCCcHHHCCCCCCCE
Confidence            345899999999999999999999999999999999999998 6899999999999999999998877765

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

Probab=98.44  E-value=4.1e-07  Score=56.85  Aligned_cols=69  Identities=13%  Similarity=0.041  Sum_probs=62.3

Q ss_pred             CcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        27 ~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      +..++|.|+..+|..+.+.|.+++....|+...+++.|+++ ...|++|+|+.+..+.|..++..-++.|
T Consensus         5 ~~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~-~~qrL~~~Gk~L~d~~tL~~~~i~~g~~   73 (87)
T 1wh3_A            5 SSGIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPK-KQQQLEFQGQVLQDWLGLGIYGIQDSDT   73 (87)
T ss_dssp             SSSEEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTCCCT-TTEEEEETTEECCSSSBHHHHTCCTTEE
T ss_pred             CCCEEEEEEcCCCCEEEEEeCCCChHHHHHHHHHHHhCCCh-HHEEEEECCEEccCCCCHHHCCCCCCCE
Confidence            35799999999999999999999999999999999999998 6899999999999888988887777655

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

Probab=98.43  E-value=9.3e-07  Score=53.17  Aligned_cols=66  Identities=14%  Similarity=0.234  Sum_probs=59.8

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ++|.|+..+|..+.+.|.+++....|....+++.|+++ ...|++|+|..+..+.|-.++..-++.|
T Consensus         1 M~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~~i~~-~~q~L~~~g~~L~d~~tL~~~~i~~g~~   66 (76)
T 1ndd_A            1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPP-QQQRLIYSGKQMNDEKTAADYKILGGSV   66 (76)
T ss_dssp             CEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHCCCG-GGEEEEETTEECCTTSBGGGGTCCTTCE
T ss_pred             CEEEEECCCCCEEEEEECCCChHHHHHHHHHHHHCcCh-HHEEEEECCEECCCCCcHHHcCCCCCCE
Confidence            36788888999999999999999999999999999998 6899999999999888988888777765

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

Probab=98.41  E-value=4.6e-06  Score=56.90  Aligned_cols=69  Identities=14%  Similarity=0.130  Sum_probs=61.8

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      +...|+|.|+.. |..+.+.|..++....|+...+++.|+.+ ...|++|.|+.+..+.|-.++..-++.|
T Consensus        29 ~~~~m~I~Vk~~-g~~~~l~v~~~~TV~~LK~~I~~~~gip~-~~QrLi~~Gk~L~D~~tL~dygI~~gst   97 (125)
T 1j8c_A           29 EPKIIKVTVKTP-KEKEEFAVPENSSVQQFKEAISKRFKSQT-DQLVLIFAGKILKDQDTLIQHGIHDGLT   97 (125)
T ss_dssp             CCCCEEEEEECS-SCEEEEEECTTCCHHHHHHHHHHHHCSCS-SSEEEEETTEEESTTSCGGGTTCSSSEE
T ss_pred             CCCcEEEEEEeC-CeEEEEEECCCCcHHHHHHHHHHHHCcCc-ceEEEEECCEEcCCCCCHHHcCCCCCCE
Confidence            456799999998 89999999999999999999999999998 6899999999999888988887776655

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

Probab=98.40  E-value=6.6e-07  Score=57.94  Aligned_cols=71  Identities=10%  Similarity=0.099  Sum_probs=62.4

Q ss_pred             CCCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         25 DNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        25 ~~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ..+..++|.|+..+|..+.+.|.+++....|....+++.|+.+ ...|++|+|..+..+.|-.++..-++.|
T Consensus        18 ~~~~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~-~~qrLi~~Gk~L~D~~tL~~~~i~~g~~   88 (98)
T 4hcn_B           18 FQGRPMQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPP-DQQRLIFAGKQLEDGRTLSDYNIQKEST   88 (98)
T ss_dssp             ----CCEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCG-GGCEEEETTEECCTTCBSGGGTCCTTEE
T ss_pred             CCCCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCCCh-hHEEEEECCEECCCCCcHHHCCCCCCCE
Confidence            3567899999999999999999999999999999999999998 6899999999999999999988777765

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

Probab=98.40  E-value=1.2e-06  Score=55.25  Aligned_cols=68  Identities=13%  Similarity=0.102  Sum_probs=62.0

Q ss_pred             CcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        27 ~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      +..++|.|+..+|..+.|.|..++....|+...+++.|+.+ ...|++|.|+.+..+.|-.++.. ++.|
T Consensus         3 ~~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~-~~qrLi~~Gk~L~d~~tL~~~~i-~g~~   70 (90)
T 4dwf_A            3 PDSLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPS-EKQRLIYQGRVLQDDKKLQEYNV-GGKV   70 (90)
T ss_dssp             CCEEEEEEEETTCCEEEEEEETTCBHHHHHHHHHHHHTCCG-GGEEEEETTEECCTTSBGGGGTC-TTEE
T ss_pred             CcEEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCCCH-HHEEEEECCeECCCCCCHHHcCC-CCcE
Confidence            46799999999999999999999999999999999999998 68999999999999989998887 6554

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

Probab=98.39  E-value=1.3e-06  Score=52.54  Aligned_cols=65  Identities=11%  Similarity=0.130  Sum_probs=59.1

Q ss_pred             EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      +|.|+..+|..+.+.|..++....|....+++.|+++ ...|+.|+|..+..+.|-.++..-++.|
T Consensus         2 ~i~vk~~~g~~~~i~v~~~~tv~~lK~~i~~~~~i~~-~~q~L~~~g~~L~d~~tL~~~~i~~g~~   66 (76)
T 3a9j_A            2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLSDYNIQREST   66 (76)
T ss_dssp             EEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCG-GGEEEEETTEECCTTCBTGGGTCCTTCE
T ss_pred             EEEEEcCCCCEEEEEECCCCcHHHHHHHHHHHHCcCH-HHeEEEECCeECCCCCcHHHcCCCCCCE
Confidence            5788888999999999999999999999999999998 6899999999999888988888777765

>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=98.36  E-value=1.3e-06  Score=55.55  Aligned_cols=67  Identities=10%  Similarity=0.131  Sum_probs=61.0

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      ++|.|+..+|..+.+.|..++....|+...+++.|+.+ ...|++|+|..+..+.|-.++..-++.|.
T Consensus         2 m~i~vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~gip~-~~qrL~~~G~~L~d~~tL~~~~i~~~~~i   68 (96)
T 3k9o_B            2 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLSDYNIQKESTL   68 (96)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCG-GGEEEEETTEECCTTSBTGGGTCCTTCEE
T ss_pred             cEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCCCh-hHEEEEECCEECCCCCcHHHcCCCCCCEE
Confidence            56788888999999999999999999999999999998 68999999999999999999988777663

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

Probab=98.35  E-value=2.7e-06  Score=52.04  Aligned_cols=70  Identities=13%  Similarity=0.087  Sum_probs=63.0

Q ss_pred             CcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        27 ~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      +..++|.|+..+|..+.+.|..++....|....+++.|+.+ ...|+.|.|+.+..+.|-.++..-++.|.
T Consensus         5 ~~~m~i~vk~~~g~~~~~~v~~~~tV~~LK~~i~~~~~i~~-~~qrL~~~gk~L~d~~tL~~~~i~~g~~i   74 (81)
T 2dzi_A            5 SSGMQLTVKALQGRECSLQVPEDELVSTLKQLVSEKLNVPV-RQQRLLFKGKALADGKRLSDYSIGPNSKL   74 (81)
T ss_dssp             SSSEEEEEEETTSCEEEEEECSSCBHHHHHHHHHHHTCCCT-TTCEEEETTEECCTTSBGGGGTCCSSBCC
T ss_pred             CCcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCH-HHEEEEECCeECCCCCcHHHcCCCCCCEE
Confidence            45788999988899999999999999999999999999998 68999999999998889988888777764

>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=98.33  E-value=2.4e-06  Score=54.62  Aligned_cols=68  Identities=13%  Similarity=0.100  Sum_probs=61.5

Q ss_pred             CcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        27 ~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ...|+|.|+.. |..+.+.|..++....|.+..+++.|+.+ ...|++|.|+.+..+.|-.++..-++.|
T Consensus        15 ~~~m~i~Vk~~-g~~~~~~v~~~~TV~~LK~~I~~~~gip~-~~qrL~~~Gk~L~D~~tL~~~gi~~g~~   82 (96)
T 1wx8_A           15 SRIIRVSVKTP-QDCHEFFLAENSNVRRFKKQISKYLHCNA-DRLVLIFTGKILRDQDILSQRGILDGST   82 (96)
T ss_dssp             SCEEEEEEECS-SSEEEEEEETTCCHHHHHHHHHHHTCSCT-TTBCCEETTEECCTTSCHHHHTCCTTEE
T ss_pred             CCcEEEEEEEC-CeEEEEEECCCCCHHHHHHHHHHHhCCCH-HHEEEEECCEECCCcCCHHHCCCCCCCE
Confidence            46899999998 99999999999999999999999999998 6899999999999888988887777655

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

Probab=98.28  E-value=4e-06  Score=55.53  Aligned_cols=69  Identities=10%  Similarity=0.103  Sum_probs=63.4

Q ss_pred             cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      ..++|+|+..+|..+.+.|..++....|+...+++.|+.+ ...|++|+|+.+..+.|..++..-++.|.
T Consensus        34 ~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~-~~qrLi~~Gk~L~D~~tL~~~gI~~gs~I  102 (111)
T 2ojr_A           34 LAMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLSDYNIQKESTL  102 (111)
T ss_dssp             SCEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCCCT-TTEEEEETTEECCSSCBTTTTTCCTTCEE
T ss_pred             CeEEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHHHCcCc-ccEEEEECCEECCCCCcHHHcCCCCCCEE
Confidence            5799999999999999999999999999999999999998 68999999999999889999888777653

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

Probab=98.26  E-value=2.3e-06  Score=54.25  Aligned_cols=69  Identities=14%  Similarity=0.081  Sum_probs=61.8

Q ss_pred             cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      ..++|.|+..+|..+.+.|.+++....|....+++.|+++ ...|++|.|..+..+.|-.++..-++.|.
T Consensus         3 ~~m~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~gip~-~~qrL~~~Gk~L~D~~tL~~~~I~~g~~i   71 (88)
T 2hj8_A            3 EPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQD-DLFWLTFEGKPLEDQLPLGEYGLKPLSTV   71 (88)
T ss_dssp             CEEEEEEEETTSCEEEEEEESSSBHHHHHHHHHHHTCSCT-TTEEEESSSSCCCTTSBHHHHHCSTTCEE
T ss_pred             ccEEEEEECCCCCEEEEEECCCCcHHHHHHHHHHHhCCCh-hHEEEEECCEECCCCCcHHHcCCCCCCEE
Confidence            3588999998999999999999999999999999999998 68999999999988889888877777653

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

Probab=98.26  E-value=1.4e-06  Score=57.26  Aligned_cols=71  Identities=11%  Similarity=0.049  Sum_probs=63.2

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      ....++|.|+..+|..+.+.|..++....|+...+++.|+.+ ...|++|.|..+..+.|-.++..-++.|.
T Consensus        20 ~~~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~-~~qrLi~~Gk~L~D~~tL~~ygI~~g~ti   90 (106)
T 1ttn_A           20 SGYECQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEP-GSQRWFFSGRPLTDKMKFEELKIPKDYVV   90 (106)
T ss_dssp             -CCSEEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTCCCS-TTCEEEETTEECCTTSHHHHCCCSSSCEE
T ss_pred             CCCeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHHCcCc-ccEEEEECCEECCCCCcHHHcCCCCCCEE
Confidence            456799999999999999999999999999999999999998 68999999999988888888887777653

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

Probab=98.26  E-value=4.1e-06  Score=50.76  Aligned_cols=65  Identities=8%  Similarity=0.078  Sum_probs=59.1

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ++|.|+. .|..+.+.|..++....|....+++.|+++ ...|+.|.|..+..+.|-.++..-++.|
T Consensus         5 m~i~vk~-~g~~~~~~v~~~~tV~~LK~~i~~~~~i~~-~~qrL~~~gk~L~d~~tL~~~~i~~g~~   69 (77)
T 2bwf_A            5 LNIHIKS-GQDKWEVNVAPESTVLQFKEAINKANGIPV-ANQRLIYSGKILKDDQTVESYHIQDGHS   69 (77)
T ss_dssp             EEEEEEE-TTEEEEEEECTTCBHHHHHHHHHHHHCCCG-GGEEEEETTEECCTTSBTGGGTCCTTCE
T ss_pred             EEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHhCCCH-HHEEEEECCeEcCCCCCHHHcCCCCCCE
Confidence            7888888 888899999999999999999999999998 6899999999999888988887777765

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

Probab=98.25  E-value=3.3e-06  Score=54.28  Aligned_cols=65  Identities=11%  Similarity=0.133  Sum_probs=59.3

Q ss_pred             EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      +|+|+..+|..+.+.|..++....|....+++.|+++ ...|++|+|+.+..+.|..++..-++.|
T Consensus         2 ~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~gi~~-~~qrL~~~Gk~L~D~~tL~~~gi~~g~~   66 (98)
T 1yx5_B            2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLSDYNIQKEST   66 (98)
T ss_dssp             EEEEEETTSCEEEEECCTTCBHHHHHHHHHHHTCCCG-GGEEEEETTEECCTTSBTGGGTCCTTCE
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCh-hhEEEEECCEECCCCCCHHHcCCCCCCE
Confidence            5788888999999999999999999999999999998 6899999999999888999888877765

>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=98.16  E-value=9.4e-06  Score=49.59  Aligned_cols=67  Identities=13%  Similarity=0.101  Sum_probs=60.0

Q ss_pred             ceEEEEeccCCCEE-EEE-EcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         29 YIKLKVLSSDSNEI-HFR-VKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        29 ~I~lkV~~qdg~ev-~Fk-IK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      .+.|.|+..+|..+ .+. |.+++....|....+++.|+.+ ...|+.|.|..+..+.|-.++..-++.|
T Consensus         2 ~m~i~Vk~~~g~~~~~l~~v~~~~tv~~lK~~i~~~~gip~-~~qrL~~~g~~L~d~~tL~~~~i~~g~~   70 (78)
T 2faz_A            2 SMWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEP-GLQRLFYRGKQMEDGHTLFDYEVRLNDT   70 (78)
T ss_dssp             CEEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCCCG-GGEEEEETTEECCTTCBTTTTTCCTTCE
T ss_pred             cEEEEEEECCCCEEEEEeccCCCCCHHHHHHHHHHHHCcCh-hhEEEEECCEECCCCCCHHHcCCCCCCE
Confidence            46788888899886 898 9999999999999999999998 6899999999999888999888777765

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

Probab=98.15  E-value=9.5e-06  Score=50.82  Aligned_cols=69  Identities=13%  Similarity=0.105  Sum_probs=62.0

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      .+..|+|.|+..+|..+.+.|.+++....|....+++.|+.+ ...|+.|.|+.+..+.|-.++.. ++.|
T Consensus        14 ~~~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~-~~qrLi~~Gk~L~D~~tL~~~~i-~g~~   82 (88)
T 4eew_A           14 EPDSLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPS-EKQRLIYQGRVLQDDKKLQEYNV-GGKV   82 (88)
T ss_dssp             -CCEEEEEEEETTSCEEEEEEETTCBHHHHHHHHHHHHTCCG-GGEEEEETTEECCTTSBGGGGTC-TTEE
T ss_pred             CCCeEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCCCH-HHEEEEECCEECCCCCcHHHcCC-CCcE
Confidence            346799999999999999999999999999999999999998 68999999999999999998887 7654

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

Probab=98.14  E-value=7.3e-06  Score=51.99  Aligned_cols=67  Identities=9%  Similarity=0.105  Sum_probs=60.4

Q ss_pred             ceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         29 YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        29 ~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      -+.|.|+..+|..+.+.|.+++....|....+++.|+++ ...|++|+|..+..+.|..++..-++.|
T Consensus         9 ~~~i~v~~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~-~~qrL~~~Gk~L~D~~tL~~~gi~~g~~   75 (88)
T 1sif_A            9 GLQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLSDYNIQKEST   75 (88)
T ss_dssp             -CEEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCCCG-GGCEEEETTEECCTTSBSGGGTCCTTCE
T ss_pred             ceEEEEEeCCCCEEEEEECCCChHHHHHHHHHHHHCcCh-hhEEEEECCEECCCCCcHHHcCCCCCCE
Confidence            356788889999999999999999999999999999998 6899999999999888999988877765

>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=98.09  E-value=1.7e-05  Score=51.89  Aligned_cols=69  Identities=19%  Similarity=0.192  Sum_probs=59.9

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      +...|+|+|+...|. +.+.|..++.+..|+...+++.|+.+ ...|++|.|+.+..+.|-.++..-++.|
T Consensus        14 ~~~~m~I~Vk~~~g~-~~l~v~~~~TV~~LK~~I~~~~gip~-~~qrLi~~Gk~L~D~~tL~~~gi~~g~~   82 (106)
T 1wx7_A           14 DPHLIKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKAHP-DQLVLIFAGKILKDPDSLAQCGVRDGLT   82 (106)
T ss_dssp             CSSEEEEEEECSSCE-EEEEEETTCCHHHHHHHHHHHHTCCT-TTEEEEETTEECCTTSCHHHHTCCTTEE
T ss_pred             CCceEEEEEEeCCCc-EEEEECCCCcHHHHHHHHHHHHCcCh-hhEEEEECCEECCCcCcHHHcCCCCCCE
Confidence            357799999998885 68999999999999999999999998 6899999999998888888777666554

>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=98.06  E-value=1.8e-05  Score=53.18  Aligned_cols=68  Identities=10%  Similarity=0.116  Sum_probs=61.4

Q ss_pred             cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ..+.|.|+..+|..+.+.|.+++....|.+..+++.|+++ ...|+.|+|..+..+.|..++..-++.|
T Consensus        75 ~~~~i~Vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~-~~qrL~~~g~~L~d~~tL~~~~i~~~~~  142 (152)
T 3b08_A           75 GGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLSDYNIQKEST  142 (152)
T ss_dssp             TCEEEEEEESSSCEEEEEECTTCBHHHHHHHHHHHHCCCG-GGEEEEETTEECCTTSBTGGGTCCTTCE
T ss_pred             cccceeeeecCCCEEEEEeCCCCcHHHHHHHHHHHhCcCh-hhEEEEECCEECCCCCCHHHcCCCCCCE
Confidence            3477888888999999999999999999999999999998 6899999999999988999988777765

>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=98.05  E-value=1.3e-05  Score=50.81  Aligned_cols=67  Identities=13%  Similarity=0.220  Sum_probs=60.3

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      +.|.|+..+|..+.+.|.+++....|....+++.|+.+ ...|++|.|..+..+.|-.++..-++.|.
T Consensus         1 M~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~-~~qrLi~~Gk~L~D~~tL~~~~i~~g~~l   67 (88)
T 4fbj_B            1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPP-QQQRLIYSGKQMNDEKTAADYKILGGSVL   67 (88)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCG-GGCEEEETTEECCTTSBTTTTTCCTTCEE
T ss_pred             CEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcCh-hHEEEEECCeECCCCCcHHHcCCCCCCEE
Confidence            35778888999999999999999999999999999998 68999999999999999999888777653

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

Probab=98.03  E-value=7.7e-06  Score=52.56  Aligned_cols=67  Identities=13%  Similarity=0.063  Sum_probs=57.9

Q ss_pred             CcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        27 ~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ...++|.|+.  |..+.+.|.+++....|....+++.|+.+ ...|++|.|..+..+.|-.++..-++.|
T Consensus        17 ~~~m~I~Vk~--g~~~~l~v~~~~TV~~LK~~I~~~~gip~-~~qrLi~~Gk~L~D~~tL~~y~I~~gst   83 (93)
T 2l7r_A           17 RGSMQLFVRA--QELHTFEVTGQETVAQIKAHVASLEGIAP-EDQVVLLAGAPLEDEATLGQCGVEALTT   83 (93)
T ss_dssp             ---CEEEEES--SSEEEEECCSSCBHHHHHHHHHHHHTCCG-GGCEEEETTEECCTTSBHHHHTCCSSCE
T ss_pred             CCcEEEEEEC--CCEEEEEeCCCCcHHHHHHHHHHHhCcCh-hHEEEEECCEECCCCCcHHHCCCCCCCE
Confidence            3568888887  88999999999999999999999999998 6899999999998888888887777665

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

Probab=97.99  E-value=3.3e-05  Score=50.44  Aligned_cols=69  Identities=13%  Similarity=0.133  Sum_probs=61.0

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      +...++|.|+.. |..+.+.|..++....|....+++.|+.+ ...|++|.|+.+..+.|-.++..-++.|
T Consensus        22 ~~~~m~I~Vk~~-g~~~~l~v~~~~TV~~LK~~I~~~~gip~-~~qrLi~~Gk~L~D~~tL~~~gI~~g~~   90 (101)
T 2klc_A           22 HPKIMKVTVKTP-KEKEEFAVPENSSVQQFKEEISKRFKSHT-DQLVLIFAGKILKDQDTLSQHGIHDGLT   90 (101)
T ss_dssp             -CCCEEEEEECS-SCEEEEEECSCCCHHHHHHHHHHHHTCCG-GGEEEEETTEEECTTCCTGGGTCCTTCE
T ss_pred             CCCeEEEEEEeC-CcEEEEEECCCCCHHHHHHHHHHHHCcCh-hhEEEEECCEECCCcCcHHHcCCCCCCE
Confidence            346788899888 88899999999999999999999999998 6899999999999888988887777665

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

Probab=97.99  E-value=2.4e-05  Score=52.03  Aligned_cols=72  Identities=13%  Similarity=0.143  Sum_probs=65.9

Q ss_pred             CCCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         25 DNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        25 ~~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      ..++-|.|.|++..|..+.++|.++.....|.+.-+++.|+.+ ...|+.|.|+.+..+.|-.+.+.-|+.|+
T Consensus        17 ~~~~mIqI~Vk~~~Gkk~~v~v~p~DTI~~LK~~I~~k~Gip~-~qQrLif~Gk~LkD~~TL~dY~I~dgstL   88 (93)
T 3plu_A           17 RGSHMIEVVVNDRLGKKVRVKCLGEDSVGDFKKVLSLQIGTQP-NKIVLQKGGSVLKDHISLEDYEVHDQTNL   88 (93)
T ss_dssp             ---CEEEEEEECTTSCEEEEEEETTSBHHHHHHHHHHHHTCCG-GGEEEEETTEECCTTSBTGGGTCCTTCEE
T ss_pred             CCCceEEEEEECCCCCEEEEEECCcCHHHHHHHHHHHHhCCCH-HHEEEEeCCEEccCcCCHHHcCCCCCCEE
Confidence            4567999999999999999999999999999999999999998 68999999999999999999999998875

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

Probab=97.98  E-value=2.5e-05  Score=48.85  Aligned_cols=69  Identities=9%  Similarity=0.007  Sum_probs=60.3

Q ss_pred             CcceEEEEeccCC-CEEEE-EEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         27 VEYIKLKVLSSDS-NEIHF-RVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        27 ~~~I~lkV~~qdg-~ev~F-kIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ...++|.|+..+| ..+.+ .|.+++....|....+++.|+.+ ...|++|.|..+..+.|-.++..-++.|
T Consensus         5 ~~~m~i~Vk~~~g~~~~~l~~v~~~~tV~~lK~~i~~~~gip~-~~qrL~~~gk~L~d~~tL~~~~i~~g~~   75 (89)
T 1wy8_A            5 SSGMWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRP-ECQRLFYRGKQLENGYTLFDYDVGLNDI   75 (89)
T ss_dssp             SSCEEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCCT-TTEEEEETTEECCSSSBHHHHTCCTTCE
T ss_pred             CCcEEEEEEECCCCceEEEEecCCCCCHHHHHHHHHHHHCcCh-hhEEEEECCeECCCCCCHHHCCCCCCCE
Confidence            3568899998889 68899 59999999999999999999998 6899999999998888888777666654

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

Probab=97.96  E-value=4.9e-05  Score=46.89  Aligned_cols=68  Identities=6%  Similarity=-0.010  Sum_probs=60.6

Q ss_pred             cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHH---hcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER---VENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r---~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ..++|.|+..+|..+.+.|..++....|....+++   .|+.+ ...|++|.|..+..+.|-.++..-++.|
T Consensus         4 ~~m~i~vk~~~g~~~~~~v~~~~TV~~lK~~i~~~~~~~gip~-~~qrLi~~Gk~L~D~~tL~~~~i~~g~~   74 (85)
T 2wyq_A            4 MAVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPV-AGQKLIYAGKILSDDVPIRDYRIDEKNF   74 (85)
T ss_dssp             CCEEEEEEETTSCEEEEEECTTSBHHHHHHHHHHHHCTTTCCG-GGEEEEETTEECCTTSBGGGGCCCTTSE
T ss_pred             ceEEEEEEECCCCEEEEEECCCCCHHHHHHHHHhhccccCCCH-HHeEEEECCEECcCCCCHHHcCCCCCCE
Confidence            46888998889999999999999999999999998   78988 6899999999999888988887777765

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

Probab=97.96  E-value=2.4e-05  Score=54.65  Aligned_cols=70  Identities=10%  Similarity=0.112  Sum_probs=62.6

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ....+.|.|+..+|..+.+.|..++....|+...+++.|+.+ ...|++|.|..+..+.|-.++..-++.|
T Consensus        17 ~~~~m~i~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~-~~QrL~~~g~~L~d~~tL~~~~i~~~~~   86 (172)
T 3u30_A           17 RGSHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLSDYNIQKEST   86 (172)
T ss_dssp             --CCEEEEEEETTTEEEEEEECTTCBHHHHHHHHHHHHCCCG-GGEEEEETTEECCTTCBTGGGTCCTTCE
T ss_pred             CCCcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCh-HHEEEEECCccccccCCHhHcCCcccce
Confidence            456799999999999999999999999999999999999998 5899999999999999999888777665

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

Probab=97.92  E-value=3e-05  Score=50.62  Aligned_cols=70  Identities=19%  Similarity=0.184  Sum_probs=61.1

Q ss_pred             CCCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         25 DNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        25 ~~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ..+..|+|.|+...|. +.+.|..++....|....+++.|+.+ ...|++|.|..+..+.|-.++..-++.|
T Consensus        18 ~~~~~m~I~Vk~~~g~-~~l~v~~~~TV~~LK~~I~~~~gip~-~~QrLi~~Gk~L~D~~tL~~ygI~~gst   87 (100)
T 1yqb_A           18 GSPHLIKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKAHP-DQLVLIFAGKILKDPDSLAQCGVRDGLT   87 (100)
T ss_dssp             CCTTEEEEEEECSSCE-EEEEEETTCBHHHHHHHHHHHHTCCG-GGEEEEETTEECCTTSBHHHHTCCTTCE
T ss_pred             CCCCeEEEEEEcCCCc-EEEEECCCCcHHHHHHHHHHHHCcCh-hhEEEEECCEECCCcCcHHHCCCCCCCE
Confidence            3557899999998885 68999999999999999999999998 6899999999998888888877666654

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

Probab=97.84  E-value=7.3e-05  Score=51.27  Aligned_cols=70  Identities=14%  Similarity=0.066  Sum_probs=63.1

Q ss_pred             CcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        27 ~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      +..+.|.|+..+|..+.+.|.++.....|....+++.|+++ ...|+.|+|..+..+.|-.++..-++.|.
T Consensus        79 ~~~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~-~~q~L~~~G~~L~d~~tL~~y~i~~g~~l  148 (159)
T 3rt3_B           79 DEPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQD-DLFWLTFEGKPLEDQLPLGEYGLKPLSTV  148 (159)
T ss_dssp             CCCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCG-GGEEEEETTEECCTTSBGGGGTCCTTCEE
T ss_pred             CCcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCH-HHEEEEECCeecCCCCCHHHcCCCCCCEE
Confidence            35678889999999999999999999999999999999998 68999999999999999999887777663

>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=97.04  E-value=2.4e-06  Score=51.94  Aligned_cols=66  Identities=11%  Similarity=-0.040  Sum_probs=59.0

Q ss_pred             EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      .|.|+..+|..+.+.|.+++....|....+++.|+++ ...|++|+|..+..+.|-.++..-++.|.
T Consensus         2 ~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~-~~qrL~~~gk~L~d~~tL~~~~i~~g~~i   67 (76)
T 3b1l_X            2 IVFVRFNSSYGFPVEVDSDTSILQLKEVVAKQQGVPA-DQLRVIFAGKELPNHLTVQNCDLEQQSIV   67 (76)
Confidence            4677788899889999999999999999999999998 68999999999998889998888777664

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

Probab=97.83  E-value=6.4e-05  Score=48.15  Aligned_cols=66  Identities=5%  Similarity=0.015  Sum_probs=58.0

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHH---hcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER---VENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r---~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ++|.|+..+|..+.+.|..++....|....+++   .|+.+ ...|++|.|..+..+.|-.++..-++.|
T Consensus         1 M~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~~~~gip~-~~qrLi~~Gk~L~D~~tL~~ygI~~g~~   69 (95)
T 1uel_A            1 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPV-AGQKLIYAGKILNDDTALKEYKIDEKNF   69 (95)
T ss_dssp             CEEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHCTTTCCT-TTEEEEETTEECCTTSBGGGGTCCSSSE
T ss_pred             CEEEEEeCCCCEEEEEECCCCHHHHHHHHHHhhcccCCCCh-hhEEEEECCEECCCcCcHHHCCCCCCCE
Confidence            357788888999999999999999999999999   68988 6899999999998888888887777665

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

Probab=97.82  E-value=3.1e-05  Score=50.95  Aligned_cols=66  Identities=5%  Similarity=0.062  Sum_probs=59.2

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ++|.|+..+|..+.+.|..+.....|....+++.|+.+ ...|++|.|+.+..+.|-.++..-++.|
T Consensus         2 m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~-~~QrLi~~Gk~L~D~~tL~~~~i~~g~~   67 (106)
T 3m62_B            2 VSLTFKNFKKEKVPLDLEPSNTILETKTKLAQSISCEE-SQIKLIYSGKVLQDSKTVSECGLKDGDQ   67 (106)
T ss_dssp             -CEEEECTTCCEEEECCCTTSBHHHHHHHHHHTTTSCG-GGCEEEETTEECCTTSBTTTTTCCTTCE
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCh-hhEEEEECCEECCCcCCHHHcCCCCCCE
Confidence            56788888999999999999999999999999999988 6899999999999998998888777765

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

Probab=97.82  E-value=3.6e-05  Score=49.07  Aligned_cols=66  Identities=14%  Similarity=0.068  Sum_probs=58.3

Q ss_pred             CcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCC-CCcCceeeccCCc
Q psy16998         27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQT-HGGNSFYCVNSGT   96 (98)
Q Consensus        27 ~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~-~TP~~L~~~~~~~   96 (98)
                      ...|+|.|+..+|..+.+.|.++.....|+...+++.   + ...|++|.|+.+..+ .|-.++..-++.+
T Consensus         5 ~~~m~i~Vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~---~-~~qrLi~~Gk~L~D~~~tL~~y~i~~g~~   71 (95)
T 1wia_A            5 SSGINVRLKFLNDTEELAVARPEDTVGTLKSKYFPGQ---E-SQMKLIYQGRLLQDPARTLSSLNITNNCV   71 (95)
T ss_dssp             CCSEEEEEEETTTEEEEEEECSSSBHHHHHHHHSSST---T-TTCEEEETTEECCCSSCBTTTTTCCTTEE
T ss_pred             CCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHhhC---c-CcEEEEECCEEccCCcCCHHHcCCCCCCE
Confidence            4579999998899999999999999999999999988   4 479999999999998 8999887777654

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

Probab=97.76  E-value=8.9e-05  Score=49.69  Aligned_cols=65  Identities=11%  Similarity=0.133  Sum_probs=58.3

Q ss_pred             EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      .|.|+..+|..+.+.|.+++.+..|....+++.|+.+ ...|++|.|+.+..+.|-.++..-++.|
T Consensus         2 ~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gip~-~~q~L~~~g~~L~d~~tL~~~~i~~~~~   66 (152)
T 3b08_A            2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLSDYNIQKEST   66 (152)
T ss_dssp             EEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCG-GGEEEEETTEECCTTSBTGGGTCCTTCE
T ss_pred             EEEEEeCCCCEEEEEECCCCCHHHHHHHHHHHHCcCh-HHeEEEECCeECcCcccHHHhccCCCCe
Confidence            5777778899999999999999999999999999998 6899999999998888988887777665

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

Probab=97.68  E-value=2.2e-05  Score=51.44  Aligned_cols=69  Identities=7%  Similarity=0.057  Sum_probs=59.3

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      .+-.|+|+|+. .|..+.+.|..+.....|....+++.|+.+ ...|++|.|..+..+.|-.++..-++.|
T Consensus        25 ~~m~i~I~Vk~-~g~~~~l~v~~~~TV~~LK~~I~~~~gip~-~~QrLi~~Gk~L~D~~tL~~~gI~~g~t   93 (101)
T 3m63_B           25 GAMSLNIHIKS-GQDKWEVNVAPESTVLQFKEAINKANGIPV-ANQRLIYSGKILKDDQTVESYHIQDGHS   93 (101)
T ss_dssp             ----CCEEEEC-SSCCCCBCCCTTSBHHHHHHHHHHHHSCCS-TTCCEEETTEECCTTSBTTTTTCCTTEE
T ss_pred             CCcEEEEEEEE-CCEEEEEEeCCCCCHHHHHHHHHHHHCcCh-HHEEEEECCEECCCcCcHHHCCCCCCCE
Confidence            34578889987 888889999999999999999999999998 5899999999999999999988777765

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

Probab=97.67  E-value=0.00026  Score=48.93  Aligned_cols=69  Identities=14%  Similarity=0.001  Sum_probs=62.3

Q ss_pred             CcceEEEEe-ccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         27 VEYIKLKVL-SSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        27 ~~~I~lkV~-~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ...|+|||+ ...|..+.+-+..++.++.|.+..+.+.++.. ..+|+.|+|+-+..++|-.++..-++.|
T Consensus        13 ~~~itvkv~l~~~~~k~tv~v~~d~TV~dLKe~ls~~~~iP~-e~qrLIy~GKiLKD~eTL~~~gIk~g~T   82 (118)
T 2daf_A           13 DSLATVKVVLIPVGQEIVIPFKVDTILKYLKDHFSHLLGIPH-SVLQIRYSGKILKNNETLVQHGVKPQEI   82 (118)
T ss_dssp             SSCEEEEEEETTTCCEEEEEECSSSCSHHHHHHHHHHHTCCT-TTEEEEETTEEECSSCCHHHHSCCSSCE
T ss_pred             CccEEEEEEEcCCCcEEEEEeCCCCcHHHHHHHHHhhhCCCh-HHEEEEECCeEcCCcchHHHcCCCCCCE
Confidence            445888887 67788999999999999999999999999988 6899999999999999999988888776

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

Probab=97.61  E-value=0.0002  Score=47.73  Aligned_cols=67  Identities=9%  Similarity=0.120  Sum_probs=59.9

Q ss_pred             ceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         29 YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        29 ~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ...|.|+..+|..+.+.|.+++....|....+++.|+++ ...|++|.|..+..+.|-.++..-++.|
T Consensus         9 ~~~i~vk~l~G~~~~l~v~~~~TV~~LK~~I~~~~gip~-~~qrLi~~Gk~L~D~~tL~~ygI~~gst   75 (114)
T 2kdi_A            9 EFQIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPP-DQQRLIWAGKQLEDGRTLSDYNIQREST   75 (114)
T ss_dssp             CCEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCG-GGEEEEETTEECCTTCBTTTTTCCSSCE
T ss_pred             cEEEEEEeCCCcEEEEEECCCCcHHHHHHHHHHHHCcCh-HHEEEEECCEECCCCCcHHHCCCCCCCE
Confidence            456777788999999999999999999999999999998 6899999999999888988887777665

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

Probab=97.57  E-value=0.00021  Score=50.78  Aligned_cols=66  Identities=11%  Similarity=0.156  Sum_probs=59.6

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      +.|.|+..+|..+.+.|.++.....|....+++.|+.+ ...|+.|.|+.+..+.|-.++..-++.|
T Consensus         1 MqI~Vk~~~Gk~~~l~v~~~~TV~~LK~~I~~~~gip~-~~QrLi~~Gk~L~D~~tL~~y~I~~gst   66 (169)
T 3l0w_B            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPP-DQQRLIFAGKQLEDGRTLSDYNIQKEST   66 (169)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCT-TTEEEEETTEECCTTSBGGGGTCCTTCE
T ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHHCcCH-HHEEEEECCccccCcCcHHHcCCCCCCE
Confidence            35778889999999999999999999999999999998 5899999999999998999888777665

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

Probab=97.52  E-value=0.00031  Score=44.36  Aligned_cols=68  Identities=10%  Similarity=0.071  Sum_probs=60.1

Q ss_pred             cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcc-cCCCCCcCceeeccCCc
Q psy16998         28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLP-FGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~r-I~~~~TP~~L~~~~~~~   96 (98)
                      .+.+|.|+.-.|..+.+.|.++.....|....+++.|+.+ ...|+.|.|.. +..+.|=.++..-++.|
T Consensus         9 ~~~~i~vk~l~g~~~~l~v~~~~TV~~LK~~I~~~~gip~-~~QrLi~~Gk~lL~D~~tL~~y~I~~gs~   77 (84)
T 2kk8_A            9 SHMKFLVENLNGSSFELEVDYRDTLLVVKQKIERSQHIPV-SKQTLIVDGIVILREDLTVEQCQIVPTSD   77 (84)
T ss_dssp             CCEEEEEEETTSCEEEEEECTTSBHHHHHHHHHHHHTCCG-GGEEEEETTEECCCSSSBHHHHTCCTTSC
T ss_pred             CceEEEEEecCCcEEEEEECCCChHHHHHHHHHHHHCcCh-HHEEEEECCEEecCCcCCHHHcCCCCCCE
Confidence            5788999999999999999999999999999999999998 68999999998 88777777776666655

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

Probab=97.52  E-value=0.00026  Score=51.75  Aligned_cols=68  Identities=10%  Similarity=0.075  Sum_probs=62.4

Q ss_pred             ceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         29 YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        29 ~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      .+.|.|+..+|..+.+.|.++.....|....+++.|+.+ ...|++|.|..+..+.|-.++..-++.|.
T Consensus       105 eMqI~VKtl~Gkt~~l~V~~s~TV~~LK~kI~~~~gIp~-~~QrLi~~Gk~L~D~~tL~dygI~~gstI  172 (189)
T 3q3f_A          105 GGQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLSDYNIQKESTL  172 (189)
T ss_dssp             CEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCG-GGCCEEETTEECCTTCBGGGGTCCTTCEE
T ss_pred             ceeeeeecCCCCEEEEEeCCCCcHHHHHHHHHhccCCCH-HHEEEEECCEECCCCCCHHHCCCCCCCEE
Confidence            389999999999999999999999999999999999998 68999999999999999999887777653

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

Probab=97.47  E-value=0.00046  Score=46.01  Aligned_cols=69  Identities=10%  Similarity=0.047  Sum_probs=61.6

Q ss_pred             cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      +-|.|.|+...|..+.+.|.++.....|...-+++.|+++ ...|+.|.|..+..+.|-.+...-++.|+
T Consensus        27 ~mm~I~VKtl~Gk~i~lev~p~dTV~~lK~~Ia~k~Gip~-~qQrLi~~Gk~L~D~~TL~dygI~~gstl   95 (100)
T 1uh6_A           27 TMIEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRW-NKIVLKKWYTIFKDHVSLGDYEIHDGMNL   95 (100)
T ss_dssp             CEEEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCCCG-GGCEEEETTEECCSSCBHHHHTCCTTEEE
T ss_pred             CeEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCH-HHEEEEECCEECCCCCCHHHcCCCCCCEE
Confidence            4599999999999999999999999999999999999998 68999999999988888887776666553

>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=97.46  E-value=0.00035  Score=44.96  Aligned_cols=65  Identities=15%  Similarity=0.158  Sum_probs=51.8

Q ss_pred             CcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccC
Q psy16998         27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNS   94 (98)
Q Consensus        27 ~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~   94 (98)
                      ...|+|+|+. .|..+.+.|..++.+..|...-+++.|+.+ ...|++|.|..+ .+.|-.++..-++
T Consensus        15 ~~~~~i~Vk~-~g~~~~i~v~~~~TV~~LK~~I~~~tgip~-~~QrL~~~Gk~L-dd~tL~~~~i~~g   79 (95)
T 1v86_A           15 KELVDLKIIW-NKTKHDVKVPLDSTGSELKQKIHSITGLPP-AMQKVMYKGLVP-EDKTLREIKVTSG   79 (95)
T ss_dssp             CCCEEEEEEE-TTEEEEEEECTTSBHHHHHHHHHHHHCSCS-TTCCCBSSSBCC-SSSBHHHHCCCTT
T ss_pred             CceEEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHHCcCH-HHeEEEECCeeC-CcCcHHHCCCCCC
Confidence            4578888874 577888999999999999999999999998 589999999988 4445444433333

>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=97.43  E-value=2e-05  Score=53.37  Aligned_cols=67  Identities=10%  Similarity=0.143  Sum_probs=0.0

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      +.|.|+..+|..+.+.|.+++....|....+++.|+++ ...|++|.|..+..+.|..++..-++.|.
T Consensus         1 M~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~-~~QrLi~~Gk~L~D~~tL~~~~I~~gsti   67 (128)
T 3u5e_m            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPP-DQQRLIFAGKQLEDGRTLSDYNIQKESTL   67 (128)
T ss_dssp             --------------------------------------------------------------------
T ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCcCh-HHEEEEECCEECCCCCchhhhccCCCCEE
Confidence            35677788899999999999999999999999999998 58999999999999999999988887764

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

Probab=97.40  E-value=0.00045  Score=45.42  Aligned_cols=74  Identities=9%  Similarity=0.035  Sum_probs=57.9

Q ss_pred             CCCCCCcceEEEEeccCCCEEEE--EEcCCCchHHHHHHH-HHHhcCCCCceeeeeeCCcccCCCCCcCceee-ccCCc
Q psy16998         22 DGGDNVEYIKLKVLSSDSNEIHF--RVKMTTPMGKLKKSY-SERVENKPMYKAMPMGTGLPFGQTHGGNSFYC-VNSGT   96 (98)
Q Consensus        22 ~~~~~~~~I~lkV~~qdg~ev~F--kIK~~T~L~KLm~aY-c~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~-~~~~~   96 (98)
                      +.+.....|+|.|+...|....+  .|.++.....|.... .++.|+.+ ...|++|.|..+..+.|-.++.. -++.|
T Consensus        12 ~~~~~~~~m~I~VKtl~g~~~~i~v~v~~~~TV~~lK~~I~~~~~gip~-~~QrLi~~Gk~L~D~~tL~dy~I~~~g~t   89 (98)
T 4a20_A           12 DDKMDNAAVHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASHI-SEIKLLLKGKVLHDNLFLSDLKVTPANST   89 (98)
T ss_dssp             ------CCEEEEEEECSSSCEEEEEEECTTCBHHHHHHHHHHTTSCSCG-GGEEEEETTEEECTTCBGGGSCCBTTBCE
T ss_pred             cccCCCCCEEEEEEcCCCCEEEEEEecCCCChHHHHHHHHHHHhcCCCh-hhEEEEECCEECcCcCCHHHcCcCCCCCE
Confidence            34445678999999988986655  556999999999998 77779988 68999999999999989888876 56655

>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=97.37  E-value=0.00062  Score=44.69  Aligned_cols=69  Identities=12%  Similarity=0.099  Sum_probs=61.0

Q ss_pred             CcceEEEEecc---CCCEEEEEEcC-CCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         27 VEYIKLKVLSS---DSNEIHFRVKM-TTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        27 ~~~I~lkV~~q---dg~ev~FkIK~-~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      +..|+|.|+..   +|..+.+.|.+ ++....|....+++.|+.+ ...|++|.|..+..+.|-.++..-++.|
T Consensus        25 ~~~i~i~Vk~~~~~~g~~~~l~v~~l~~TV~~LK~~I~~~~gip~-~~QrL~~~Gk~L~D~~tL~~y~I~~g~~   97 (111)
T 1we6_A           25 PGPATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPA-NKQKLSGKAGFLKDNMSLAHYNVGAGEI   97 (111)
T ss_dssp             CSCEEEEECCTTCSSSCCEEEEESCSSSBHHHHHHHHHHHTTCCT-TTSEEECSSSBCCTTSBTTTTTCSSSCE
T ss_pred             CCcEEEEEEecccCCCcEEEEEecCCCCcHHHHHHHHHHHHCCCH-HHeEEEECCEECCCCCcHHHCCCCCCCE
Confidence            45799999987   88899999998 9999999999999999998 6899999999998888888877777665

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

Probab=97.29  E-value=0.00066  Score=43.67  Aligned_cols=68  Identities=13%  Similarity=0.106  Sum_probs=57.5

Q ss_pred             CcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCC-CCcCceeeccCCc
Q psy16998         27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQT-HGGNSFYCVNSGT   96 (98)
Q Consensus        27 ~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~-~TP~~L~~~~~~~   96 (98)
                      ...|+|.|+...| .+.+.|.+++....|....+++.|+++ ...|++|.|..+..+ .|-.++..-++.|
T Consensus        13 ~~~~~I~Vk~~~~-~~~l~v~~~~TV~~LK~~I~~~~gip~-~~QrLi~~Gk~L~D~~~tL~~ygI~~gst   81 (94)
T 2kan_A           13 VRKIHVTVKFPSK-QFTVEVDRTETVSSLKDKIHIVENTPI-KRMQLYYSGIELADDYRNLNEYGITEFSE   81 (94)
T ss_dssp             SCCEEEEEECSSC-EEEEEECTTCBHHHHHHHHHHHSSSCT-TTEEEEETTEEECCTTSBHHHHTCCTTEE
T ss_pred             CCCEEEEEEcCCc-EEEEEECCCCcHHHHHHHHHHHHCcCH-HHEEEEECCEECCCCcccHHHCCCCCCCE
Confidence            4568899998877 788999999999999999999999998 689999999999877 6766665555543

>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=97.29  E-value=0.00055  Score=45.30  Aligned_cols=68  Identities=12%  Similarity=0.121  Sum_probs=57.4

Q ss_pred             cceEEEEeccC----------CCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         28 EYIKLKVLSSD----------SNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        28 ~~I~lkV~~qd----------g~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ..|+|+|+..+          |..+.+.|..++....|....+++.|+.+ ...|+.|.|..+..+.|-.++..-++.|
T Consensus        24 ~~i~l~V~~p~~~~~~~~~L~G~~~~l~v~~~~TV~~LK~~I~~~~gip~-~~QrL~~~Gk~L~D~~tL~~y~i~~g~~  101 (115)
T 1we7_A           24 GPVSIKVQVPNMQDKTEWKLNGQGLVFTLPLTDQVSVIKVKIHEATGMPA-GKQKLQYEGIFIKDSNSLAYYNMASGAV  101 (115)
T ss_dssp             SCEEEEEEECCCSSSCSSCCSSEEEEEEECSCSBTHHHHHHHHHHSSCCT-TTEEEEETTEEECTTSBHHHHTCCSSCE
T ss_pred             CCEEEEEEcCCCccccccccCCeEEEEEECCCCCHHHHHHHHHHHHCCCh-HHEEEEECCEECCCCCCHHHCCCCCCCE
Confidence            46777777653          66789999999999999999999999998 6899999999998887877777666654

>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=97.19  E-value=5.4e-05  Score=53.52  Aligned_cols=67  Identities=10%  Similarity=0.143  Sum_probs=0.0

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      +.|.|+..+|..+.+.|.+++....|....+++.|+++ ...|++|.|..+..+.|-.++..-++.|.
T Consensus         1 MqI~VK~l~G~~~~l~V~~~~TV~~LK~~I~~~~gip~-~~QrLi~~Gk~L~D~~tL~dygI~~gstL   67 (152)
T 3u5c_f            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPP-DQQRLIFAGKQLEDGRTLSDYNIQKESTL   67 (152)
T ss_dssp             --------------------------------------------------------------------
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHHHHhCCCH-HHEEEEECCEEccccCcHHHcCCCCCCEE
Confidence            35677788899999999999999999999999999998 68999999999999999999988877764

>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=97.08  E-value=0.0013  Score=42.95  Aligned_cols=68  Identities=10%  Similarity=0.015  Sum_probs=53.8

Q ss_pred             cceEEEEeccCC---CEEEEE--------EcCC-CchHHHHHHHHHHh--cCCCCce-eeeeeCCcccCCCCCcCceeec
Q psy16998         28 EYIKLKVLSSDS---NEIHFR--------VKMT-TPMGKLKKSYSERV--ENKPMYK-AMPMGTGLPFGQTHGGNSFYCV   92 (98)
Q Consensus        28 ~~I~lkV~~qdg---~ev~Fk--------IK~~-T~L~KLm~aYc~r~--gl~~~~s-~rFlfDG~rI~~~~TP~~L~~~   92 (98)
                      ..|+|.|+...+   ....+.        |.++ +....|....+++.  |+.+ .. .|++|.|+.+..+.|-.++..-
T Consensus        11 ~~~~i~Vk~~~~~~~~~~~l~v~~~~~~~v~~~~~TV~~LK~~i~~~~~~gip~-~~~qrLi~~Gk~L~D~~tL~~y~i~   89 (107)
T 1x1m_A           11 SDWHLAVKLADQPLAPKSILQLPETELGEYSLGGYSISFLKQLIAGKLQESVPD-PELIDLIYCGRKLKDDQTLDFYGIQ   89 (107)
T ss_dssp             CSCCEEEEETTCTTSCCEEECCCCCSSCSSCCCCCBHHHHHHHHHHHCTTTCCC-SSSEEEEETTEECCTTCBHHHHTCC
T ss_pred             CceEEEEEeCCCCCccEEEEEecCccccccCcccCCHHHHHHHHHHHhccCCCh-hhcEEEEECCeECCCCCcHHHcCCC
Confidence            346666666666   666777        4454 99999999999999  9998 58 9999999999888888777766


Q ss_pred             cCCc
Q psy16998         93 NSGT   96 (98)
Q Consensus        93 ~~~~   96 (98)
                      ++.|
T Consensus        90 ~g~~   93 (107)
T 1x1m_A           90 PGST   93 (107)
T ss_dssp             TTCE
T ss_pred             CCCE
Confidence            6654

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

Probab=96.99  E-value=0.0024  Score=44.39  Aligned_cols=68  Identities=10%  Similarity=0.109  Sum_probs=59.9

Q ss_pred             ceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         29 YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        29 ~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      .+.|.|+..+|..+.+.|.++.....|...-+.+.|+.+ ...|+.|+|+.+..+.|-.++..-++.|.
T Consensus        96 g~~i~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~-~~q~L~~~g~~L~D~~tL~~y~i~~g~tl  163 (172)
T 3u30_A           96 GMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLSDYNIQKESTL  163 (172)
T ss_dssp             CEEEEEEESSCCEEEEEECTTCBHHHHHHHHHHHHCCCG-GGCCEEETTEECCTTSBSGGGTCCTTCEE
T ss_pred             cccceeecccCcceeEEecCCCCHHHHHHHHHHHhCCCc-eeEEEEECCccCCCCCcHHHhCCCCCCEE
Confidence            456667778899999999999999999999999999998 68999999999998889888887777653

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

Probab=96.94  E-value=0.0017  Score=40.99  Aligned_cols=67  Identities=13%  Similarity=0.082  Sum_probs=54.7

Q ss_pred             cceEEEEeccCCC--EEEEEEcCCCchHHHHHHHHHHh--cCCCCceeeeeeCCcccCCCCCcCce--eeccCC
Q psy16998         28 EYIKLKVLSSDSN--EIHFRVKMTTPMGKLKKSYSERV--ENKPMYKAMPMGTGLPFGQTHGGNSF--YCVNSG   95 (98)
Q Consensus        28 ~~I~lkV~~qdg~--ev~FkIK~~T~L~KLm~aYc~r~--gl~~~~s~rFlfDG~rI~~~~TP~~L--~~~~~~   95 (98)
                      ..|+|.|+...|.  .+.+.+..++....|....+++.  |+.+ ...|+.|.|+.+..+.|-.++  ..-++.
T Consensus         6 ~~m~i~Vk~~~~~~~~~~v~v~~~~TV~~lK~~I~~~~~~~i~~-~~QrLi~~Gk~L~D~~tL~~~~~~i~~~~   78 (93)
T 1wgd_A            6 SGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRP-EDQRLIYSGKLLLDHQCLRDLLPKQEKRH   78 (93)
T ss_dssp             CCCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCCT-TTCEEEETTEECCSSSCHHHHSCSSSCSE
T ss_pred             cEEEEEEEeCCCCeEEEEEecCCCCcHHHHHHHHHHHhcCCCCh-HHeEEEECCEECcCcCCHHHHhcCCCCCC
Confidence            4688888888887  56666779999999999999998  9988 589999999999888777666  444443

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

Probab=96.88  E-value=0.0037  Score=42.60  Aligned_cols=66  Identities=14%  Similarity=0.131  Sum_probs=57.9

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeee-e-CCcccCCCCCcCceeeccCCc
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPM-G-TGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFl-f-DG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ++|.|+..+|..+.+.|.++.....|...-+++.|+++ ..-|+. | .|..+..+.|=.++..-++.|
T Consensus         3 m~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~-~~QrL~~~~~g~~L~d~~tL~~y~i~~~~~   70 (159)
T 3rt3_B            3 WDLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHA-FQQRLAVHPSGVALQDRVPLASQGLGPGST   70 (159)
T ss_dssp             CEEEEEETTSCEEEEECCTTCCHHHHHHHHHHHHCCCG-GGEEEEEETTCCBCCTTSCGGGGTCCTTCE
T ss_pred             eEEEEEECCCCEEEEEeCCCCcHHHHHHHHHHHhCCCH-HHEEEEEcCCCCCCCCCCCHHHcCCCCCCE
Confidence            56788888999999999999999999999999999988 589999 9 799998888888877666554

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

Probab=96.76  E-value=0.0015  Score=43.24  Aligned_cols=54  Identities=11%  Similarity=0.050  Sum_probs=49.2

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCC
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTH   84 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~   84 (98)
                      ..|.|...+|+...+||-++|.|..|.+.-|+++|+++ ....+.|++..|....
T Consensus        10 m~v~Vl~~n~rr~~VKvtp~t~L~~VL~eaC~K~gl~~-~~~~Lkh~~k~lDLSl   63 (90)
T 2al3_A           10 SAVSVLAPNGRRHTVKVTPSTVLLQVLEDTCRRQDFNP-SEYDLKFQRTVLDLSL   63 (90)
T ss_dssp             CCEEEECTTSCEEEECCCTTSBHHHHHHHHHHHTTCCG-GGCEEEETTEEESSSC
T ss_pred             cEEEEEcCCCcEEEEEECCCCCHHHHHHHHHHHhCCCh-hhCeEEeCCEeccccc
Confidence            37889999999999999999999999999999999998 6899999999886654

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

Probab=96.72  E-value=0.004  Score=39.08  Aligned_cols=59  Identities=12%  Similarity=-0.005  Sum_probs=51.5

Q ss_pred             cCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         37 SDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        37 qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      -.|..+.+.|..++....|....+++.|+.+ ...|++|.|..+..+.|-.++..-++.+
T Consensus        19 ~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~-~~qrL~~~Gk~L~D~~tL~~~gi~~g~~   77 (85)
T 2kd0_A           19 FGGKSIPLSVSPDCTVKDLKSQLQPITNVLP-RGQKLIFKGKVLVETSTLKQSDVGSGAK   77 (85)
T ss_dssp             ETTEEEEEEECTTSBHHHHHHHHHHHHCCCT-TTCEEEETTEECCTTCBTTTTTCCTTEE
T ss_pred             ECCEEEEEEECCCCcHHHHHHHHHHHHCcCh-HHEEEEECCeECCCcCCHHHCCCCCCCE
Confidence            4688888999999999999999999999998 6899999999998888888777666654

>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=96.65  E-value=0.0068  Score=39.01  Aligned_cols=66  Identities=12%  Similarity=0.028  Sum_probs=55.0

Q ss_pred             cceEEEEeccCCCEE-EEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         28 EYIKLKVLSSDSNEI-HFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev-~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ..|+|+|+. .|..+ .+.|..+..+..|...-+++.|+.+ ...|++|.|..+..+ |-.++..-++.|
T Consensus         6 ~~m~i~Vk~-~g~~~~~l~v~~~~TV~~lK~~I~~~tgip~-~~QkLi~~Gk~L~D~-tL~~~~I~~g~~   72 (96)
T 1wgg_A            6 SGYSVTVKW-GKEKFEGVELNTDEPPMVFKAQLFALTGVQP-ARQKVMVKGGTLKDD-DWGNIKMKNGMT   72 (96)
T ss_dssp             CEEEEEEEE-TTEEEEEEEEESSSCHHHHHHHHHHHTCCCT-TTSCCEETTEECCSS-CCCSCCCCSSCE
T ss_pred             cEEEEEEEE-CCEEEEEEEECCCCcHHHHHHHHHHHHCcCH-HHeEEEECCcCCCCC-CHHHCCCCCCCE
Confidence            468888885 56666 4999999999999999999999998 589999999999877 777776656554

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

Probab=96.60  E-value=0.0024  Score=41.00  Aligned_cols=61  Identities=8%  Similarity=0.036  Sum_probs=53.4

Q ss_pred             eEEEEeccCCCEEEEEEc--CCCchHHHHHHH-HHHhcCCCCceeeeeeCCcccCCCCCcCceee
Q psy16998         30 IKLKVLSSDSNEIHFRVK--MTTPMGKLKKSY-SERVENKPMYKAMPMGTGLPFGQTHGGNSFYC   91 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK--~~T~L~KLm~aY-c~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~   91 (98)
                      +.|.|+...|..+.+.|.  ++.....|...- +++.|+.+ ...|+.|.|+.+..+.|-.++..
T Consensus         2 mqI~VKtl~g~~~~i~v~v~~~~TV~~lK~~I~~~~~gip~-~~QrLi~~Gk~L~D~~tL~~y~I   65 (87)
T 2lxa_A            2 VHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASHI-SEIKLLLKGKVLHDNLFLSDLKV   65 (87)
T ss_dssp             CEEEEEECSSSCEECCEECCTTCBHHHHHHHHHHTTSCSSS-TTEEEEETTEECCTTCBHHHHCC
T ss_pred             EEEEEEcCCCCEEEEEEcCCCCCcHHHHHHHHHHHhcCCCh-HHEEEEECCEECcCcCCHHHcCC
Confidence            568888899988888766  999999999998 99999998 58999999999998888777665

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

Probab=96.54  E-value=0.0059  Score=39.43  Aligned_cols=67  Identities=6%  Similarity=-0.050  Sum_probs=52.8

Q ss_pred             ceEEEEeccC----CCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCC-CCcCceeeccCCc
Q psy16998         29 YIKLKVLSSD----SNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQT-HGGNSFYCVNSGT   96 (98)
Q Consensus        29 ~I~lkV~~qd----g~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~-~TP~~L~~~~~~~   96 (98)
                      .+.|.|+...    |..+.+.|..++....|....+++.|+.+ ...|++|.|..+..+ .|-.++..-++.+
T Consensus         7 ~m~I~Vk~~~~~~~~~~~~i~v~~~~TV~~LK~~I~~~~gip~-~~qrL~~~gk~L~D~~~tL~~ygI~~g~~   78 (102)
T 1v5o_A            7 GMLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPA-EEAQIVYMEQLLTDDHCSLGSYGLKDGDM   78 (102)
T ss_dssp             CEEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTCCCG-GGBCEEETTEEECCSSSBHHHHTCCTTEE
T ss_pred             eEEEEEEECCCCcCceEEEEEcCCCCCHHHHHHHHHHHHCcCh-HHeEEEECCEECCCCcccHHHCCCCCCCE
Confidence            4566665543    36778999999999999999999999998 689999999998766 4666665555544

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

Probab=96.39  E-value=0.011  Score=46.05  Aligned_cols=69  Identities=10%  Similarity=0.124  Sum_probs=61.1

Q ss_pred             CcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        27 ~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ...++|.|+..+|..+.+.|..++....|...-+++.|+.+ ...|++|.|+.+..+.|-.++..-++.|
T Consensus       231 ~~~MqI~VKtl~Gk~~~leV~~s~TV~dLK~kI~~~~GIp~-~~QRLi~~Gk~L~D~~TLsdygI~~gst  299 (307)
T 3ai5_A          231 TGSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLSDYNIQKEST  299 (307)
T ss_dssp             CCCEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCG-GGCEEEETTEECCTTSBTGGGTCCTTCE
T ss_pred             CCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCh-HHEEEEeCCeecCCCCCHHHcCCCCCCE
Confidence            35688899998999999999999999999999999999998 6899999999998888888877766665

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

Probab=96.37  E-value=0.01  Score=37.20  Aligned_cols=64  Identities=8%  Similarity=0.013  Sum_probs=51.4

Q ss_pred             cceEEEEeccCCCEEEEEEcCC-----CchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCC-CcCceeecc
Q psy16998         28 EYIKLKVLSSDSNEIHFRVKMT-----TPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTH-GGNSFYCVN   93 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev~FkIK~~-----T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~-TP~~L~~~~   93 (98)
                      ..|+|.|+. .|....+.|..+     +.+..|...-+++.|+.+ ...|++|.|..+..++ |=.++..-+
T Consensus         6 ~~~~v~Vk~-~~~~~~i~v~~~~~~~~~TV~~LK~~i~~~~gip~-~~qrL~~~Gk~L~D~~~~L~~~~i~~   75 (92)
T 1wxv_A            6 SGLTVTVTH-SNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQ-SFQKLIFKGKSLKEMETPLSALGIQD   75 (92)
T ss_dssp             SSEEEEEEC-SSSEEEEEECCCSSSSSCBHHHHHHHHHHHTCCCT-TTCEEEETTEEECCSSSBHHHHTCCS
T ss_pred             CeEEEEEEE-CCEEEEEEECCCcCcccCcHHHHHHHHHHHHCcCH-HHEEEEECCeecCCCcccHHHCCCCC
Confidence            468899987 477788999985     999999999999999998 6899999999997744 444443333

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

Probab=96.36  E-value=0.0052  Score=40.27  Aligned_cols=65  Identities=11%  Similarity=0.035  Sum_probs=51.2

Q ss_pred             CCCcceEEEEeccCCC--EEEEEEcCCCchHHHHHHHHHHh-cCCCCceeeeeeCCcccCCCCCcCce
Q psy16998         25 DNVEYIKLKVLSSDSN--EIHFRVKMTTPMGKLKKSYSERV-ENKPMYKAMPMGTGLPFGQTHGGNSF   89 (98)
Q Consensus        25 ~~~~~I~lkV~~qdg~--ev~FkIK~~T~L~KLm~aYc~r~-gl~~~~s~rFlfDG~rI~~~~TP~~L   89 (98)
                      .....|+|+|+..+|.  .+.+.|.+++....|...-+++. |..+....|+.|.|+.+..+.|-.++
T Consensus        19 ~~~~~m~I~VK~~~g~~~~i~l~v~~~~TV~~LK~~I~~~~~g~pp~~~QrLIy~Gk~L~D~~tL~~y   86 (99)
T 2kdb_A           19 FQGHPVTLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYPSKPLTKDQRLVYSGRLLPDHLQLKDI   86 (99)
T ss_dssp             ----CEEEEEECTTSSSCCEEEEECTTSBHHHHHHHHHHHSTTCCCTTTCCEEETTEEECTTSBTHHH
T ss_pred             CCCCeEEEEEEcCCCCEEEEEEEcCCCCHHHHHHHHHHHHhcCCCChhhEEEEECCEECCCCCCHHHH
Confidence            3456799999988887  67889999999999999999875 44432589999999999988787765

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

Probab=96.27  E-value=0.005  Score=40.95  Aligned_cols=66  Identities=5%  Similarity=-0.102  Sum_probs=54.0

Q ss_pred             ceEEEEeccC--CCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCC
Q psy16998         29 YIKLKVLSSD--SNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSG   95 (98)
Q Consensus        29 ~I~lkV~~qd--g~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~   95 (98)
                      .|+|++.+..  +..+.+.|.++.....|...-+++.|+++ ...|+.|.|..+..+.|-.+...-++.
T Consensus        17 ti~V~~~~~~~~~~~~~lev~~~~TV~~lK~kI~~k~gip~-~qQrLI~~GKiL~D~~TL~~y~I~~gs   84 (100)
T 1wju_A           17 TIEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQE-NYIKIVINKKQLQLGKTLEEQGVAHNV   84 (100)
T ss_dssp             EEEEECCTTTCCSSSEEEEEESSSBHHHHHHHHHHHTTCCS-TTCEEEETTEECCTTSBHHHHTCCSSE
T ss_pred             EEEEEecCCCCCCcEEEEEeCCcCHHHHHHHHHHHHHCcCH-HHeEEEeCCeECCCCCcHHHcCCCCCC
Confidence            4555555533  77899999999999999999999999998 589999999999988887666554443

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

Probab=96.14  E-value=0.0062  Score=40.59  Aligned_cols=70  Identities=14%  Similarity=0.073  Sum_probs=58.1

Q ss_pred             CcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCC--------------ceeeeeeCCcccCC-CCCcCceee
Q psy16998         27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPM--------------YKAMPMGTGLPFGQ-THGGNSFYC   91 (98)
Q Consensus        27 ~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~--------------~s~rFlfDG~rI~~-~~TP~~L~~   91 (98)
                      +..++|.|+.-+|..+.+.|.++.....|..+-.++.|+.+.              ..+|+.|.|+.+.. +.|-.++..
T Consensus         5 ~~~M~I~Vk~l~g~~~~v~V~~~~TV~dLK~~I~~~~~i~~~~q~g~~~isw~~~w~q~~Li~~Gk~L~dD~~tL~dygI   84 (105)
T 1v2y_A            5 SSGMTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKLRDYGI   84 (105)
T ss_dssp             CCSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSBHHHHTC
T ss_pred             CCcEEEEEEecCCCEEEEEECCCChHHHHHHHHHHHhCCCcccccCcceeeeeecceeEEEEeCCcCccCCcCCHHHcCC
Confidence            456999999999999999999999999999999999987541              24799999999974 468777776


Q ss_pred             ccCCc
Q psy16998         92 VNSGT   96 (98)
Q Consensus        92 ~~~~~   96 (98)
                      -|++|
T Consensus        85 ~~g~~   89 (105)
T 1v2y_A           85 RNRDE   89 (105)
T ss_dssp             CSSEE
T ss_pred             CCCCE
Confidence            66655

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

Probab=96.13  E-value=0.0063  Score=38.08  Aligned_cols=65  Identities=5%  Similarity=0.001  Sum_probs=50.7

Q ss_pred             eEEEEeccCCCEEEEE-EcCCCchHHHHHHHHHHhcCCCCceeeeeeC--CcccC---CCCCcCceeeccCCc
Q psy16998         30 IKLKVLSSDSNEIHFR-VKMTTPMGKLKKSYSERVENKPMYKAMPMGT--GLPFG---QTHGGNSFYCVNSGT   96 (98)
Q Consensus        30 I~lkV~~qdg~ev~Fk-IK~~T~L~KLm~aYc~r~gl~~~~s~rFlfD--G~rI~---~~~TP~~L~~~~~~~   96 (98)
                      ++|+|+..+|..+ +. +..++.+..|....+++.|+.+ ...|++|.  |..+.   .+.|-.++...+|.+
T Consensus         1 m~i~vr~~~G~~~-v~~l~~~~Tv~~Lk~~I~~~~gi~~-~~qrL~~~~p~k~l~l~~~~~tL~~~gl~~g~~   71 (86)
T 2kzr_A            1 WRVRCKAKGGTHL-LQGLSSRTRLRELQGQIAAITGIAP-GSQRILVGYPPECLDLSDRDITLGDLPIQSGDM   71 (86)
T ss_dssp             CCEEEEETTEEEE-ECSCCTTCBHHHHHHHHHHHTCCCT-TTCCCEESSCCCCCCCCCSSCBTTTSSCCTTCE
T ss_pred             CEEEEEcCCCCEE-eeecCCCCCHHHHHHHHHHHhCCCc-cceEEEeCCCCcccccCCCCCCHHHcCCCCCCE
Confidence            3578888999775 66 8899999999999999999976 46788775  46663   455777777777665

>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=96.12  E-value=0.005  Score=38.91  Aligned_cols=66  Identities=11%  Similarity=0.001  Sum_probs=52.4

Q ss_pred             cceEEEEeccCCCEEEE-EEcCCCchHHHHHHHHHHhcCCCCceeeee---eCCcccCCCCCcCceeeccCC
Q psy16998         28 EYIKLKVLSSDSNEIHF-RVKMTTPMGKLKKSYSERVENKPMYKAMPM---GTGLPFGQTHGGNSFYCVNSG   95 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev~F-kIK~~T~L~KLm~aYc~r~gl~~~~s~rFl---fDG~rI~~~~TP~~L~~~~~~   95 (98)
                      ..|+|+|+. .|..+.+ .|..+..+..|...-+++.|+.+ ...|++   |.|..+..+.|-.++..-++.
T Consensus         6 ~~m~i~Vk~-~g~~~~i~~v~~~~TV~~lK~~I~~~~gip~-~~QkLi~~k~~Gk~L~D~~~L~~~~i~~g~   75 (90)
T 1v5t_A            6 SGLPIIVKW-GGQEYSVTTLSEDDTVLDLKQFLKTLTGVLP-ERQKLLGLKVKGKPAENDVKLGALKLKPNT   75 (90)
T ss_dssp             CSCCEEEEE-TTEEEEECSCCSSSBHHHHHHHHHHHTCCCT-TTCEEESCEETTEECCTTSBHHHHTCCTTE
T ss_pred             ceEEEEEEE-CCEEEEEEEeCCCCCHHHHHHHHHHHHCcCH-HHeEEEeeccCCcCcCCCCCHHHcCCCCCC
Confidence            357777775 5777778 88999999999999999999998 589999   999988776665555444443

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

Probab=96.08  E-value=0.018  Score=39.35  Aligned_cols=68  Identities=10%  Similarity=0.063  Sum_probs=57.3

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHH------HhcC--CCCceeeeeeCCcccCCCCCcCceeeccC
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSE------RVEN--KPMYKAMPMGTGLPFGQTHGGNSFYCVNS   94 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~------r~gl--~~~~s~rFlfDG~rI~~~~TP~~L~~~~~   94 (98)
                      +...|+|+|+.-+|..+.|.|.+++....|.....+      +-|+  .+ ...|+.|.|+.+..+.|-.++..-.+
T Consensus        14 ~~~~m~I~vktl~G~~~~lev~~s~TV~~lK~~I~~~~p~dwke~ip~~~-~~qrLIy~GK~LeD~~TL~~y~I~~~   89 (125)
T 2gow_A           14 PADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSP-NILRLIYQGRFLHGNVTLGALKLPFG   89 (125)
T ss_dssp             CTTCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHSSCCCSCCCCTTCCG-GGEEEESSSSEEESSCBTGGGCCCTT
T ss_pred             CCCeEEEEEEeCCCCEEEEEeCCccHHHHHHHHHHHHCCcccccCCCCCh-HHEEEEECCcCCCCCCcHHHcCCCCC
Confidence            345799999999999999999999999999999998      4565  35 58999999999999889887665433

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

Probab=96.01  E-value=0.077  Score=35.78  Aligned_cols=65  Identities=11%  Similarity=0.088  Sum_probs=55.3

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHH------hcC--CCCceeeeeeCCcccCCCCCcCceee
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER------VEN--KPMYKAMPMGTGLPFGQTHGGNSFYC   91 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r------~gl--~~~~s~rFlfDG~rI~~~~TP~~L~~   91 (98)
                      +.+.|+|+|+.-.|..+.|.|.++.....|....+++      -|+  .+ ...|+.|.|..+..+.|-.+...
T Consensus        13 ~~~~m~I~vKtl~G~t~~lev~~s~TV~~lK~kI~~~~p~dwke~~p~p~-~qqrLIy~GK~LeD~~TL~~y~I   85 (116)
T 1wgh_A           13 PADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSP-NILRLIYQGRFLHGNVTLGALKL   85 (116)
T ss_dssp             CSSSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCT-TTEEEEETTEEECSSCBTTTTTC
T ss_pred             CCCeEEEEEEeCCCCEEEEEECCcCHHHHHHHHHHHhcccccccCCCCCh-HHEEEEECCcCCCCCCcHHHcCC
Confidence            3467999999989999999999999999999999994      354  35 58999999999999988877654

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

Probab=95.96  E-value=0.019  Score=37.46  Aligned_cols=67  Identities=15%  Similarity=0.074  Sum_probs=54.2

Q ss_pred             cceEEEEeccCCCEEEEEEc-CCCchHHHHHHHHHHhcCCCCceeeeeeCCc-----------cc----CCCCCcCceee
Q psy16998         28 EYIKLKVLSSDSNEIHFRVK-MTTPMGKLKKSYSERVENKPMYKAMPMGTGL-----------PF----GQTHGGNSFYC   91 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev~FkIK-~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~-----------rI----~~~~TP~~L~~   91 (98)
                      ..+.|+|+..+|.. .+.|. ++..+..|...-+++.|+.+ ...|+.|+|.           .|    ..+.|-.++..
T Consensus         6 ~~M~irvrs~~G~~-~v~v~~~~~Tv~~LK~kI~~~~gip~-~~QrL~~~~~~~~~k~~~~~~~l~~~l~d~~tL~~~gi   83 (107)
T 1wf9_A            6 SGTMLRVRSRDGLE-RVSVDGPHITVSQLKTLIQDQLQIPI-HNQTLSTNRNLLLAKSPSDFLAFTDMADPNLRISSLNL   83 (107)
T ss_dssp             CCEEEEEECSSCEE-EEEECCTTSBHHHHHHHHHHHSCCCT-TTCCCBSSGGGGTCCSHHHHTTCCSSCCTTCBGGGTCC
T ss_pred             CeEEEEEECCCCCE-EEEECCCCCcHHHHHHHHHHHhCcCc-ccCEEEECCccccccCccccccccccCCCCCCHHHCCC
Confidence            34889999999977 68899 99999999999999999988 5789989988           33    45556666666


Q ss_pred             ccCCc
Q psy16998         92 VNSGT   96 (98)
Q Consensus        92 ~~~~~   96 (98)
                      -++++
T Consensus        84 ~~G~~   88 (107)
T 1wf9_A           84 AHGSM   88 (107)
T ss_dssp             CTTCE
T ss_pred             CCCCE
Confidence            66654

>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=95.75  E-value=0.013  Score=46.43  Aligned_cols=68  Identities=7%  Similarity=0.022  Sum_probs=57.8

Q ss_pred             cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHH---HhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSE---RVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~---r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ..++|.|+...|..+.+.|..+.....|+...+.   +.|+.+ ...|++|.|+.+..+.|-.++..-++.+
T Consensus         6 ~~M~I~VKtl~Gk~~~leV~~~~TV~~LK~~I~~~~~~~gip~-~~QrLiy~GK~L~D~~tL~dygI~~gst   76 (368)
T 1oqy_A            6 SAVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPV-AGQKLIYAGKILSDDVPIRDYRIDEKNF   76 (368)
T ss_dssp             CCCCEEEEETTTEEEEECCCTTCBHHHHHHHHHHHTCSSSCCS-TEEEEESSSSEECSSSBTTTTCCCTTSC
T ss_pred             ceEEEEEEeCCCCEEEEEeCCCChHHHHHHHHHHHhCcCCCCh-hheEEEECCeecCCcCCHHHcCCCCCCE
Confidence            4577888888899999999999999999999999   456887 6899999999998888888777666655

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

Probab=95.32  E-value=0.069  Score=34.47  Aligned_cols=69  Identities=9%  Similarity=0.044  Sum_probs=53.6

Q ss_pred             CcceEEEEeccCCC--EEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeC--Cc---cc-CCCCCcCceeeccCCc
Q psy16998         27 VEYIKLKVLSSDSN--EIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGT--GL---PF-GQTHGGNSFYCVNSGT   96 (98)
Q Consensus        27 ~~~I~lkV~~qdg~--ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfD--G~---rI-~~~~TP~~L~~~~~~~   96 (98)
                      ...|+|.|....+.  .+.++|.++.....|...-.++.|+.+ ..-|+.|.  |.   .+ ..+.|-.++..-++.|
T Consensus        13 ~~~v~l~It~s~~~~~~~~~~v~~~~TV~~LK~kI~~~~GiP~-~~QrL~~~~~g~~~~~L~~D~~tL~~Y~i~~gst   89 (95)
T 2kjr_A           13 SDFIKVNVSNSHNDAVAFEVKLAKDLTVAQLKTKLEILTGGCA-GTMKVQVFKGDTCVSTMDNNDAQLGYYANSDGLR   89 (95)
T ss_dssp             CCEEEEEEEESSCSCEEEEEEEETTCBHHHHHHHHHHHHCSCT-TTEEEEEEETTEEEEECCCTTSBHHHHCCSSSCE
T ss_pred             CCeEEEEEEECCCCceEEEEEeCccCHHHHHHHHHHHHHCcCH-HHeEEEEecCCcccceeCCCCCCHhHCCcCCCCE
Confidence            57899999876654  789999999999999999999999998 68999997  44   33 4444655555555544

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

Probab=95.32  E-value=0.08  Score=35.35  Aligned_cols=69  Identities=12%  Similarity=-0.086  Sum_probs=55.2

Q ss_pred             CcceEEEEeccCC--CEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeec-cCCc
Q psy16998         27 VEYIKLKVLSSDS--NEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCV-NSGT   96 (98)
Q Consensus        27 ~~~I~lkV~~qdg--~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~-~~~~   96 (98)
                      .-.++|.|.+-.+  ..+.+.|.++.....|.....++.|+++ ..-|+.|.|+-...+.|-.+...- ||+|
T Consensus        22 ~i~l~v~v~d~~s~~~~i~l~V~ps~TV~~LK~~I~~k~Gipp-~~QRli~ggkll~D~~TL~~ygI~~~G~t   93 (105)
T 4dbg_A           22 DIRLWVSVEDAQMHTVTIWLTVRPDMTVASLKDMVFLDYGFPP-VLQQWVIGQRLARDQETLHSHGVRQNGDS   93 (105)
T ss_dssp             CEEEEEEEEESSSCCEEEEEEECTTCBHHHHHHHHHHHHCCCG-GGEEEEETTEEECTTCBTGGGTCCSTTCE
T ss_pred             cEEEEEEEEccCCCCceEEEEECCcChHHHHHHHHHHHhCCCH-HHEEEeccCeEccCcCcHHHcCCCCCCCE
Confidence            4566777777654  6889999999999999999999999998 578988777755667788887763 6665

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

Probab=95.07  E-value=0.1  Score=35.90  Aligned_cols=67  Identities=12%  Similarity=0.126  Sum_probs=55.2

Q ss_pred             cceEEEEeccCCCEE-EEEEcCCCchHHHHHHHHHH-----hcCCCC-ceeeeeeCCcccCCCCCcCceeeccC
Q psy16998         28 EYIKLKVLSSDSNEI-HFRVKMTTPMGKLKKSYSER-----VENKPM-YKAMPMGTGLPFGQTHGGNSFYCVNS   94 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev-~FkIK~~T~L~KLm~aYc~r-----~gl~~~-~s~rFlfDG~rI~~~~TP~~L~~~~~   94 (98)
                      +.+.|+|+.-+|..+ .|.+.+++....|...-...     -|+.+. ...|+.|.|..+..+.|-.+...-++
T Consensus        15 ~~~~i~~kt~~G~~i~~l~v~psdTV~~lK~kI~~~~p~dkegiP~~~~qQrLIy~GK~LeD~~TLsdy~I~~~   88 (126)
T 1se9_A           15 NQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVS   88 (126)
T ss_dssp             CCEEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCTT
T ss_pred             ccEEEEEEECCCCEEEeeecCccCHHHHHHHHHHhhcccccccCCCChhhEEEEECCeECcCCCcHHHcCCCcC
Confidence            789999999999999 69999999999999988554     345431 47999999999999989888765544

>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=94.79  E-value=0.11  Score=35.43  Aligned_cols=59  Identities=10%  Similarity=0.022  Sum_probs=48.8

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCcee
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFY   90 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~   90 (98)
                      |.|+|+... ..+++.|..+.....|...-+++.|+.+ ...|+.|+|+.+..+.|-.+..
T Consensus         3 mfl~ir~~k-tti~lev~~sdTV~~lK~kI~~~egIP~-~qQrLi~~Gk~LeD~~TLsdy~   61 (118)
T 2fnj_B            3 VFLMIRRHK-TTIFTDAKESSTVFELKRIVEGILKRPP-EEQRLYKDDQLLDDGKTLGECG   61 (118)
T ss_dssp             EEEEEEEBT-EEEEEEEETTSBHHHHHHHHHHHHCCCG-GGEEEEETTEECCTTSBHHHHT
T ss_pred             EEEEEecCC-EEEEEEeCCcChHHHHHHHHHHHhCCCH-HHeEEEECCeECCCCCCHHHcC
Confidence            567776633 4578899999999999999999999998 6899999999998877755433

>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=94.58  E-value=0.11  Score=32.79  Aligned_cols=67  Identities=10%  Similarity=-0.094  Sum_probs=51.2

Q ss_pred             ceEEEEeccCCC-EEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCC---cc---c-CCCCCcCceeeccCCc
Q psy16998         29 YIKLKVLSSDSN-EIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTG---LP---F-GQTHGGNSFYCVNSGT   96 (98)
Q Consensus        29 ~I~lkV~~qdg~-ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG---~r---I-~~~~TP~~L~~~~~~~   96 (98)
                      .|+|.|...... .+.++|.++.....|...-+++.|+.+ ...|+.|.|   ..   + ..+.|-.++..-++.|
T Consensus         7 ~v~l~I~~~~~~~~~~~~v~~~~TV~~lK~ki~~~~gip~-~~qrL~~~~~~g~~~~~l~~D~~tL~~y~i~~g~~   81 (95)
T 1v6e_A            7 GVMVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGSPA-SCMELELYGADDKFYSKLDQEDALLGSYPVDDGCR   81 (95)
T ss_dssp             CEEEEEEETTSSSCEEEEECTTSBHHHHHHHHHHHTCSCT-TTCBCEEECSSSCEEEECCCSSSBTTSSSCCTTCE
T ss_pred             EEEEEEEECCCCeeEEEEcCccCHHHHHHHHHHHHHCCCH-HHeEEEEeCCCCccccccCCCcCCHhHCCCCCCCE
Confidence            488888876543 578899999999999999999999998 689999976   43   3 4555666555555443

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

Probab=94.55  E-value=0.047  Score=34.65  Aligned_cols=68  Identities=10%  Similarity=0.157  Sum_probs=54.5

Q ss_pred             cceEEEEeccCCCEE--EE-EEcCCCchHHHHHHHHHH-hcCCCCceeeeeeC--CcccCCCCCcCceeeccCCc
Q psy16998         28 EYIKLKVLSSDSNEI--HF-RVKMTTPMGKLKKSYSER-VENKPMYKAMPMGT--GLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev--~F-kIK~~T~L~KLm~aYc~r-~gl~~~~s~rFlfD--G~rI~~~~TP~~L~~~~~~~   96 (98)
                      ..+.|.|+...|.+.  .+ .|.++.....|....+++ .|+.+ ...|+.|.  |..+..+.|-.++..-++.|
T Consensus         9 ~~M~I~Vk~~~g~~~~~~l~~v~~~~TV~~lK~~I~~~~~~i~~-~~QrL~~~~~Gk~L~D~~tL~~y~i~~~st   82 (88)
T 2dzj_A            9 KHYEVEILDAKTREKLCFLDKVEPHATIAEIKNLFTKTHPQWYP-ARQSLRLDPKGKSLKDEDVLQKLPVGTTAT   82 (88)
T ss_dssp             CCEEEEEEESSSCCCCEEEEEECSSCBHHHHHHHHHHHCSSSCT-TTCCEESSTTSCCCCTTCBTTTSSCCSEEE
T ss_pred             EEEEEEEECCCCCEEeeEEeEcCCCCcHHHHHHHHHHHhcCCCh-HHeEEEecCCCcCcCCCCCHHHcCCCCCCE
Confidence            358889998887664  47 899999999999999995 68887 57888877  88998888888776655544

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

Probab=93.71  E-value=0.18  Score=32.66  Aligned_cols=70  Identities=6%  Similarity=-0.047  Sum_probs=52.0

Q ss_pred             CCcceEEEEeccCC--CEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCc---c---c-CCCCCcCceeeccCCc
Q psy16998         26 NVEYIKLKVLSSDS--NEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGL---P---F-GQTHGGNSFYCVNSGT   96 (98)
Q Consensus        26 ~~~~I~lkV~~qdg--~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~---r---I-~~~~TP~~L~~~~~~~   96 (98)
                      ....|+|.|.....  ..+.++|.++.....|...-.++.|+.+ ..-|+.|.|.   .   + ..+.|-.++..-++.|
T Consensus        11 ~~~~v~l~It~s~~~~~~~e~~v~~~~TV~~LK~kIe~~~Gip~-~~QrLi~~g~~g~~~~~L~~D~~tL~~Y~I~~g~~   89 (97)
T 2kj6_A           11 GDDSVHLHITHANLKSFSADARFSPQMSVEAVKEKLWKKCGTSV-NSMALELYDDSGSKVAVLSDDSRPLGFFSPFDGFR   89 (97)
T ss_dssp             CCCCEEEEEEETTSSCCCEEEEECTTCCHHHHHHHHHHHHCCCT-TSEEEEEECSSSCBCCCSSGGGSCHHHHCCCSCCE
T ss_pred             CCceEEEEEEECCCCceEEEEEeCCCChHHHHHHHHHHHHCcCH-HHeEEEEecCCCcccceecCCcCCHHHCCCCCCCE
Confidence            35678888887544  4689999999999999999999999998 6899999884   3   2 3333544444444443

>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=93.50  E-value=0.28  Score=32.55  Aligned_cols=67  Identities=9%  Similarity=-0.001  Sum_probs=51.0

Q ss_pred             cceEEEEeccCCC-EEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCC---cc---c-CCCCCcCceeeccCC
Q psy16998         28 EYIKLKVLSSDSN-EIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTG---LP---F-GQTHGGNSFYCVNSG   95 (98)
Q Consensus        28 ~~I~lkV~~qdg~-ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG---~r---I-~~~~TP~~L~~~~~~   95 (98)
                      ..|+|.|....+. .+.++|.++.....|...-+++.|+.+ ...|+.|.|   ..   + ..+.|-.+....++.
T Consensus         5 ~~v~l~V~~~~~~~~~e~~v~~~~TV~~lK~ki~~~~Gip~-~~qrL~~~g~~~~~~~~l~~D~~tL~~y~i~~g~   79 (122)
T 1t0y_A            5 EVYDLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTV-DSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGY   79 (122)
T ss_dssp             CEEEEEEEESSCCSCEEEEEETTSBHHHHHHHHHHHHCCCT-TTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSE
T ss_pred             CEEEEEEEECCCCccEEEEeCCCCcHHHHHHHHHHHhCCCH-HHeEEEEecCCCccccccCCCcCCHHHCCCCCCC
Confidence            4688999876553 578899999999999999999999998 689999976   32   2 344465555554444

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

Probab=92.56  E-value=0.28  Score=33.49  Aligned_cols=52  Identities=10%  Similarity=0.006  Sum_probs=45.3

Q ss_pred             CCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCcee
Q psy16998         38 DSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFY   90 (98)
Q Consensus        38 dg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~   90 (98)
                      ....|++.++++.....|......+.|+.+ ..-|+.|+|+.+..+.|-.+..
T Consensus        10 ~ktTI~ldve~sdTV~~lK~kI~~~~giPp-~qQrLI~~Gk~LeD~kTL~dy~   61 (118)
T 4ajy_B           10 HKTTIFTDAKESSTVFELKRIVEGILKRPP-DEQRLYKDDQLLDDGKTLGECG   61 (118)
T ss_dssp             BTEEEEEEEETTSBHHHHHHHHHHHHCCCG-GGEEEEETTEECCTTSBTTTTT
T ss_pred             CCEEEEEEcCCCChHHHHHHHHHHHHCCCH-HHeEEEeCCeECCCcCCHHHcC
Confidence            355788999999999999999999999998 5899999999998887765544

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

Probab=92.34  E-value=0.024  Score=41.48  Aligned_cols=56  Identities=13%  Similarity=0.070  Sum_probs=0.0

Q ss_pred             EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcC
Q psy16998         31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGN   87 (98)
Q Consensus        31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~   87 (98)
                      .|.|+.-+|..+.+.|.++.....|...-.++.|+++ ...|+.|+|..+..+.|-.
T Consensus         2 qI~VKtL~GktitLeV~~sdTV~~LK~kI~~keGIP~-~qQRLIf~GK~LeD~~TLs   57 (189)
T 2xzm_9            2 QVQVKTLEGETKIYTLEQGTSVLDLKSQISQDMGFEI-DMMTLVNNGFIAPNTELVT   57 (189)
T ss_dssp             ---------------------------------------------------------
T ss_pred             EEEEEcCCCCEEEEEECCcChHHHHHHHHHHHhCcCh-hHEEEEecCeECCCCCccc
Confidence            4566677888999999999999999999999999998 6899999999997766543

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

Probab=91.49  E-value=0.73  Score=28.97  Aligned_cols=70  Identities=9%  Similarity=0.033  Sum_probs=52.1

Q ss_pred             CCcceEEEEec---cCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCc-----cc---CCCCCcCceeeccC
Q psy16998         26 NVEYIKLKVLS---SDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGL-----PF---GQTHGGNSFYCVNS   94 (98)
Q Consensus        26 ~~~~I~lkV~~---qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~-----rI---~~~~TP~~L~~~~~   94 (98)
                      ....|+|.|..   .+|..+..++-+++...+|...-++..|+.+ ...|+.|.+.     .+   ....|=.++...||
T Consensus         6 ~~~~v~l~I~~~~~~~~~~~e~~l~~~~TV~~LK~~i~~~~gip~-~~q~L~~~~~~~~~~~~~L~~d~~~L~~y~i~~G   84 (97)
T 1wjn_A            6 SGQLLTLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKVPV-SELLLSYESSKMPGREIELENDLQPLQFYSVENG   84 (97)
T ss_dssp             SSCEEEEEEEESSCSSSCCEEEEEETTSBHHHHHHHHHTTTTCCT-TTCEEEEECTTSCSCEEECCCSSSBSGGGTCCTT
T ss_pred             cCccEEEEEEecCCCCCcEEEEECCCCCCHHHHHHHHHHHHCCCh-hHeEEEEEcCCCCceeeccCCCcccHhhcCCCCC
Confidence            35678888875   4677889999999999999999999999998 6889888642     22   23334455555565


Q ss_pred             Cc
Q psy16998         95 GT   96 (98)
Q Consensus        95 ~~   96 (98)
                      ++
T Consensus        85 ~~   86 (97)
T 1wjn_A           85 DC   86 (97)
T ss_dssp             CE
T ss_pred             CE
Confidence            54

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

Probab=90.91  E-value=0.5  Score=36.49  Aligned_cols=67  Identities=9%  Similarity=0.021  Sum_probs=54.4

Q ss_pred             CcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeee---eCCcccCCCCCcCceeeccCC
Q psy16998         27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPM---GTGLPFGQTHGGNSFYCVNSG   95 (98)
Q Consensus        27 ~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFl---fDG~rI~~~~TP~~L~~~~~~   95 (98)
                      .+.|+|+|+. .|....+.|-.+.....|...-+++.|+.+ ..-|++   |.|..+..+.|-.++..-+|.
T Consensus         3 ~~~i~i~Vk~-~g~~~~v~v~~~~Tv~~lK~~I~~~tgVpp-~~QkLi~~k~~Gk~l~D~~~L~~~~ik~g~   72 (320)
T 3shq_A            3 VKEVVVIVKW-SGKEYPVDLTDQDTVEVLRHEIFRKTQVRP-ERQKLLNLKYKGKTAADNVKISALELKPNF   72 (320)
T ss_dssp             -CEEEEEEEE-TTEEEEEEEETTSBHHHHHHHHHHHHCCCG-GGCEETTCBSSSSBCCTTSBTTSSCCC--C
T ss_pred             CceEEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHHCcCH-HHeEEeecccCCcccCccccHHHcCCCCCC
Confidence            3568888886 578888999999999999999999999998 578999   899888877777766654443

>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=89.75  E-value=2.9  Score=27.17  Aligned_cols=73  Identities=5%  Similarity=-0.087  Sum_probs=47.4

Q ss_pred             CCCCCCCCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeee--CCcccC--CCCCcCceeeccC
Q psy16998         20 SADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMG--TGLPFG--QTHGGNSFYCVNS   94 (98)
Q Consensus        20 ~~~~~~~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlf--DG~rI~--~~~TP~~L~~~~~   94 (98)
                      .|........++|.|+-.||..+.-+...+.++..|++ |++..+... ..++|.-  =.+.+.  .+.|=.++..+++
T Consensus        14 ~EP~~~~~~~~~IqiRlpdG~r~~rrF~~~~tl~~v~~-fv~~~~~~~-~~f~L~t~fPrk~l~~d~~~TL~e~gL~p~   90 (109)
T 2cr5_A           14 EEPSETAEEVVTVALRCPNGRVLRRRFFKSWNSQVLLD-WMMKVGYHK-SLYRLSTSFPRRALEVEGGSSLEDIGITVD   90 (109)
T ss_dssp             CCCCSSCSSEEEEEEECTTSCEEEEEEESSSBTHHHHH-HHHHHTCCT-TTEEEECSSSCCBCCCCSSCBHHHHTCSSC
T ss_pred             CCCCCCCCCcEEEEEECCCCCEEEEEeCCCCCHHHHHH-HHHhcCCCC-CCeEEEeCCCCcCCCCCCCCCHHHcCCCCC
Confidence            34333345688999999999999888889999998886 555555544 4566643  344453  2345555444443

>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=88.83  E-value=3.8  Score=27.39  Aligned_cols=72  Identities=8%  Similarity=-0.143  Sum_probs=50.9

Q ss_pred             CCCCCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeee--eCCcccC---CCCCcCceeeccCCc
Q psy16998         23 GGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPM--GTGLPFG---QTHGGNSFYCVNSGT   96 (98)
Q Consensus        23 ~~~~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFl--fDG~rI~---~~~TP~~L~~~~~~~   96 (98)
                      +......++|+|+=.||..+.-+...+.+|..|++.-.. .+... ..+.|+  |=.+.+.   .+.|=.+|..+++.+
T Consensus        37 ~d~~~~~t~IqIRlPdG~rl~~rF~~~~tl~~V~~fV~~-~~~~~-~~F~L~t~fPrk~l~~~d~~~TL~e~gL~psa~  113 (124)
T 1wj4_A           37 IDVNGPKAQLMLRYPDGKREQITLPEQAKLLALVKHVQS-KGYPN-ERFELLTNFPRRKLSHLDYDITLQEAGLCPQET  113 (124)
T ss_dssp             CCCSSCEEEEEEECTTSCEEEEEEETTSCHHHHHHHHHH-HHCCT-TTEEEECSSSCCEETSSCSSSCTTTTTCCSSBC
T ss_pred             cCCCCCcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHh-cCCCC-CCeEEecCCCCcCCccCCCCCCHHHCCCCCceE
Confidence            334567889999999999999999999999999875544 46654 456665  3355563   345777777666544

>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=88.25  E-value=2.4  Score=26.03  Aligned_cols=67  Identities=6%  Similarity=-0.102  Sum_probs=46.7

Q ss_pred             cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeee--eCCcccC---CCCCcCceeeccCCc
Q psy16998         28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPM--GTGLPFG---QTHGGNSFYCVNSGT   96 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFl--fDG~rI~---~~~TP~~L~~~~~~~   96 (98)
                      +..+|+|+-.||..+.-+...+.++..|++ |.+..+.+. ..+.|.  |=.+.+.   .+.|=.++..+.+.+
T Consensus         6 ~~~~i~iRlpdG~r~~~~F~~~~tl~~v~~-fv~~~~~~~-~~f~L~t~fPrk~l~~~d~~~TL~e~gL~p~a~   77 (84)
T 3qx1_A            6 PVSKLRIRTPSGEFLERRFLASNKLQIVFD-FVASKGFPW-DEYKLLSTFPRRDVTQLDPNKSLLEVKLFPQET   77 (84)
T ss_dssp             CEEEEEEECTTSCEEEEEEETTSBHHHHHH-HHHHTTCCT-TTEEEECSSSCCBGGGSCTTSBTTTTTCCSEEE
T ss_pred             CeEEEEEECCCCCEEEEEeCCCCCHHHHHH-HHHHcCCCC-CCeEEEeCCCCCCCcCCCCCCCHHHCCCCCCCE
Confidence            466778888999999889999999998887 555567655 567776  3355563   344666666555443

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

Probab=87.08  E-value=1.6  Score=32.53  Aligned_cols=51  Identities=14%  Similarity=-0.180  Sum_probs=40.6

Q ss_pred             CCCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeee
Q psy16998         25 DNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMG   75 (98)
Q Consensus        25 ~~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlf   75 (98)
                      +....|.++|.=.||..+.|.|..+|.-+.|++.-|++.||....-+-+.|
T Consensus        13 ~~~~~~~~~V~lldgt~~~~~vd~~tt~~el~~~v~~~l~L~e~~~FgL~~   63 (296)
T 3qij_A           13 NLYFQGHCKVSLLDDTVYECVVEKHAKGQDLLKRVCEHLNLLEEDYFGLAI   63 (296)
T ss_dssp             ----CCEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHTCSSGGGEEEEE
T ss_pred             CCCceEEEEEEccCCCEEEEEECCCCCHHHHHHHHHHHcCCCCcceeEEEE
Confidence            345789999999999999999999999999999999999996433344443

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

Probab=86.94  E-value=1.2  Score=30.39  Aligned_cols=46  Identities=11%  Similarity=0.004  Sum_probs=38.0

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcC
Q psy16998         41 EIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGN   87 (98)
Q Consensus        41 ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~   87 (98)
                      ...|||.++++|..|....++..|+++ ..+||++=-.|=+.+.=|+
T Consensus        57 ~~~~rv~k~~~~~~~~~~va~~lg~~~-~~~RlW~~~~RqN~T~Rp~  102 (130)
T 2kvr_A           57 YTVFKVLKNSSLAEFVQSLSQTMGFPQ-DQIRLWPMQARSNGTKRPA  102 (130)
T ss_dssp             CEEEECCTTSBHHHHHHHHHHHHCCCG-GGCEEEECCCCBTTBCCCC
T ss_pred             cceEEEeccCcHHHHHHHHHHHhCCCc-ccEEEEEeecCCCCCCCCC
Confidence            347999999999999999999999998 6899998766655555454

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

Probab=86.71  E-value=2.3  Score=26.99  Aligned_cols=72  Identities=11%  Similarity=-0.004  Sum_probs=57.8

Q ss_pred             CcceEEEEec--cCCCEEEEEEcCCCchHHHHHHHHHHhcCCC----CceeeeeeCCcccCCCCCcCceeeccCCcCC
Q psy16998         27 VEYIKLKVLS--SDSNEIHFRVKMTTPMGKLKKSYSERVENKP----MYKAMPMGTGLPFGQTHGGNSFYCVNSGTSE   98 (98)
Q Consensus        27 ~~~I~lkV~~--qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~----~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~~   98 (98)
                      +.||+|.+-=  -.+..+=+||-..-.+++|...-.+-++++.    +.++|..==|.-+.++++=++....|||.+|
T Consensus         2 ~~yI~ITidl~~y~~~~~DLRIP~~~tvK~Li~~l~ea~~l~~~~~~~~~irv~NK~~~L~~~~~L~d~~ItnGD~Le   79 (81)
T 2bps_A            2 GSYIDITIDLKHYNGSVFDLRLSDYHPVKKVIDIAWQAQSVSMPPREGHWIRVVNKDKVFSGECKLSDCGITNGDRLE   79 (81)
T ss_dssp             CCEEEEEEECTTTTCCEEEEEEETTSBTTHHHHHHHHHSCCCSCCCTTCEEEEGGGTEEEETTSBTGGGTCCTTCEEE
T ss_pred             CcEEEEEEEeeccCCceEEEECCCchhHHHHHHHHHHHhCCCcCCCCCCEEEEecCCEEEcCCCEEeeCCcCCCCEEE
Confidence            4688888863  5788999999999999999999999999875    2567766667777788877777777777643

>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=85.32  E-value=2.8  Score=31.02  Aligned_cols=48  Identities=10%  Similarity=0.077  Sum_probs=40.2

Q ss_pred             CcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeee
Q psy16998         27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMG   75 (98)
Q Consensus        27 ~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlf   75 (98)
                      ...|.++|.=-|| ++.|.|..+|.-+.|++.-|++.|+....-|.+.|
T Consensus        20 ~~~~~~~V~lldg-~~~~~v~~~t~~~el~~~v~~~l~L~e~~~FgL~~   67 (314)
T 1h4r_A           20 PKTFTVRIVTMDA-EMEFNCEMKWKGKDLFDLVCRTLGLRETWFFGLQY   67 (314)
T ss_dssp             -CEEEEEEECSSC-EEEEEEETTCBHHHHHHHHHHHHTCCCGGGEEEEE
T ss_pred             CCeeEEEEEeCCc-eEEEEeCCCCcHHHHHHHHHHHhCCCCCccceEEE
Confidence            5789999999999 88999999999999999999999996544444444

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

Probab=84.76  E-value=2.5  Score=30.87  Aligned_cols=46  Identities=15%  Similarity=0.156  Sum_probs=38.4

Q ss_pred             ceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeee
Q psy16998         29 YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMG   75 (98)
Q Consensus        29 ~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlf   75 (98)
                      .|+++|.=-|| ++.|.|..+|.-+.|++.-|++.|+....-+.+.|
T Consensus         1 ~i~~~V~l~d~-~~~~~v~~~tt~~el~~~v~~~l~L~e~~~FgL~~   46 (294)
T 1ef1_A            1 TISVRVTTMDA-ELEFAIQPNTTGKQLFDQVVKTIGLREVWFFGLQY   46 (294)
T ss_dssp             CEEEEEEETTE-EEEEEECTTCBHHHHHHHHHHHHTCCCGGGEEEEE
T ss_pred             CEEEEEEECCc-eEEEEECCCCcHHHHHHHHHHHcCCCCcceeEEEE
Confidence            37888888888 78999999999999999999999996544455554

>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=84.46  E-value=2.6  Score=32.07  Aligned_cols=50  Identities=10%  Similarity=-0.002  Sum_probs=42.9

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeee
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMG   75 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlf   75 (98)
                      ...++.++|.=.||....|.|..+|.-+.|++.-|++.|+.....|.+.+
T Consensus        82 ~~~~~~~~V~l~dg~~~~~~vd~~tt~~el~~~v~~~l~L~e~~~FgL~~  131 (371)
T 3ivf_A           82 RKKQRPLKIRMLDGTVKTIMVDDSKTVTDMLMTICARIGITNHDEYSLVR  131 (371)
T ss_dssp             EECEEEEEEECTTSCEEEEEEETTSBHHHHHHHHHHHTTCSCGGGEEEEC
T ss_pred             cCceeEEEEECcCCCEEEEEECCCCCHHHHHHHHHHHcCCCCccccEEEE
Confidence            45689999999999999999999999999999999999996544455544

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

Probab=83.09  E-value=1.1  Score=27.73  Aligned_cols=67  Identities=9%  Similarity=-0.004  Sum_probs=45.6

Q ss_pred             cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcc---c--CCCCCcCceeeccCCc
Q psy16998         28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLP---F--GQTHGGNSFYCVNSGT   96 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~r---I--~~~~TP~~L~~~~~~~   96 (98)
                      +.+.|||++.+|.. .+.|-.++.+..|.+.-+++.++.. ....+.+.-.+   +  ..+.|-.+|..-+||+
T Consensus         3 ~~m~lRvrs~~G~~-Ri~v~~~~t~~~L~~~I~~~~~i~~-~~~~l~~~~~p~~~l~~~~~~~l~~lgl~hGd~   74 (80)
T 2pjh_A            3 ESIIIRVQSPDGVK-RITATKRETAATFLKKVAKEFGFQN-NGFSVYINRNKTGEITASSSKSLHLLKIKHGDL   74 (80)
T ss_dssp             CCCCCEEECSSEEE-ECCCCSSCCHHHHHHHHHHHTCCCT-TTCCCCCSCCGGGGSSSCCCCTTTTTCCCTTCC
T ss_pred             CcEEEEEECCCCCE-EEEcCCcChHHHHHHHHHHHcCCCC-CcceEEecCCCCCcccCCCCCCHHHcCCCCCCE
Confidence            34779999999944 4557789999999999999999875 34333333222   2  2455666666666665

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

Probab=81.47  E-value=8.2  Score=25.06  Aligned_cols=53  Identities=6%  Similarity=-0.009  Sum_probs=43.7

Q ss_pred             eEEEEec-cCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCC
Q psy16998         30 IKLKVLS-SDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQT   83 (98)
Q Consensus        30 I~lkV~~-qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~   83 (98)
                      .-|.|-+ +.+.-..|-|.+...+..+.++-+++.|+.+ ..-|++|.|..+.-+
T Consensus        13 kvvHVf~~~~a~~h~v~I~~~etv~~~ke~V~eqTgIp~-~~Q~LL~eg~~l~l~   66 (94)
T 4efo_A           13 MVIHVFSLQQMTAHKIYIHSYNTATIFHELVYKQTKIIS-SNQELIYEGRRLVLE   66 (94)
T ss_dssp             EEEEEEETTTTEEEEEEEETTCBHHHHHHHHHHHHCCCG-GGEEEEETTEEECCC
T ss_pred             eeEEEEEcccceEEEEEeccchHHHHHHHHHHHHhCCCH-HHHHHHhCCCccccC
Confidence            3455555 4566779999999999999999999999998 578999999776544

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

Probab=81.27  E-value=4.7  Score=25.09  Aligned_cols=66  Identities=9%  Similarity=0.053  Sum_probs=50.5

Q ss_pred             eEEEEecc--CCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeee-------CCcccCCCCCcCceeeccCCc
Q psy16998         30 IKLKVLSS--DSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMG-------TGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        30 I~lkV~~q--dg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlf-------DG~rI~~~~TP~~L~~~~~~~   96 (98)
                      |+|.|...  .......|+-++.....|...-..+.|+.+ ..-|+.|       -|.-...+.|-.+...-||.|
T Consensus         3 V~v~iths~~~~~~~E~r~~~s~TI~~lK~ki~~~~Gip~-~~QrLi~~~~~~~~~g~~l~d~~tL~~Y~i~~g~~   77 (86)
T 4b6w_A            3 VKVSLTHSASRMRVPEKRYGLAQTIESIKENVFTHFATPP-EYMQLQLIDDRGITIEKNMANDKQLGYYQCRDEFV   77 (86)
T ss_dssp             EEEEEEETTCSCCEEEEEEETTSBHHHHHHHHHTTSCCCG-GGEEEEEECTTSCEEESSCCTTSBGGGGTCCTTCE
T ss_pred             EEEEEEEcCCCCeEEEEEcCccCcHHHHHHHHHHHHCCCH-HHEEEEEecCCCCceeeEcCCCCCHHHCCCCCCCE
Confidence            56666543  344457889999999999999999999998 5889986       366677777777777666655

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

Probab=80.42  E-value=2  Score=35.15  Aligned_cols=37  Identities=11%  Similarity=0.057  Sum_probs=32.9

Q ss_pred             EEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcc
Q psy16998         42 IHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLP   79 (98)
Q Consensus        42 v~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~r   79 (98)
                      ..|||.+++++..|.+..++..|+++ ..+|||.=-.|
T Consensus        38 ~~~rv~k~~~~~~l~~~va~~lg~~~-~~~RlW~~~~R   74 (530)
T 2ylm_A           38 TVFKVLKNSSLAEFVQSLSQTMGFPQ-DQIRLWPMQAR   74 (530)
T ss_dssp             EEEEEETTSBHHHHHHHHHHHHTSCG-GGEEEEEEEEC
T ss_pred             ceEEEcCcCCHHHHHHHHHHHhCcCc-ccEEEEEEEcC
Confidence            47999999999999999999999998 68999876554

---

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	98
d1wm3a_	72	d.15.1.1 (A:) SUMO-2 {Human (Homo sapiens) [TaxId:	5e-11
d2uyzb1	77	d.15.1.1 (B:20-96) SUMO-1 (smt3 homologue) {Human	2e-10
d1euvb_	79	d.15.1.1 (B:) SUMO-1 (smt3 homologue) {Baker's yea	9e-09

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

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

 Score = 51.3 bits (123), Expect = 5e-11
 Identities = 15/36 (41%), Positives = 22/36 (61%)

Query: 29 YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVE 64
          +I LKV   D + + F++K  TP+ KL K+Y ER  
Sbjct: 1  HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQG 36

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

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

 Score = 50.5 bits (121), Expect = 2e-10
 Identities = 24/36 (66%), Positives = 30/36 (83%)

Query: 28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERV 63
          EYIKLKV+  DS+EIHF+VKMTT + KLK+SY +R 
Sbjct: 1  EYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQ 36

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

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

 Score = 46.0 bits (109), Expect = 9e-09
 Identities = 15/35 (42%), Positives = 26/35 (74%), Gaps = 1/35 (2%)

Query: 28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
           +I LKV S  S+EI F++K TTP+ +L +++++R
Sbjct: 3  THINLKV-SDGSSEIFFKIKKTTPLRRLMEAFAKR 36

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	98
d1wm3a_	72	SUMO-2 {Human (Homo sapiens) [TaxId: 9606]}	99.93
d2uyzb1	77	SUMO-1 (smt3 homologue) {Human (Homo sapiens) [Tax	99.9
d1euvb_	79	SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomy	99.85
d1j8ca_	103	Ubiquitin-like N-terminal domain of PLIC-2 {Human	98.64
d1ttna1	80	Dendritic cell-derived ubiquitin-like protein {Hum	98.14
d1uh6a_	100	Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculu	98.14
d1wx8a1	83	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	98.09
d1z2ma2	76	Interferon-induced 15 kDa protein {Human (Homo sap	98.07
d1m94a_	73	Ubiquitin-like modifier protein hub1 {Baker's yeas	97.99
d1wgha_	116	Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculu	97.96
d1oqya4	77	Ubiquitin-like domain of Rad23 homolog A (Hhr23a)	97.95
d1bt0a_	73	Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxI	97.91
d1ogwa_	76	Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}	97.89
d1wh3a_	87	2'-5'-oligoadenylate synthetase-like protein, OASL	97.79
d2faza1	76	Ubiquitin-like PHD and RING finger domain-containi	97.73
d2bwfa1	73	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	97.64
d1wx9a1	73	Large proline-rich protein BAT3 {Human (Homo sapie	97.64
d1yqba1	84	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	97.64
d2zeqa1	78	Ubiquitin-like domain of parkin {Mouse (Mus muscul	97.55
d1v86a_	95	hypothetical D7wsu128e protein {Mouse (Mus musculu	97.51
d1se9a_	101	Hypothetical protein At3g01050 {Thale cress (Arabi	97.41
d1z2ma1	76	Interferon-induced 15 kDa protein {Human (Homo sap	97.4
d1uela_	95	Ubiquitin-like domain of Rad23 homolog B (Hhr23B)	97.35
d1wgga_	96	Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (M	97.24
d1wy8a1	76	Ubiquitin-like PHD and RING finger domain-containi	97.19
d1zkha1	86	Splicing factor 3 subunit 1, C-terminal domain {Hu	97.17
d1we6a_	111	Splicing factor 3 subunit 1, C-terminal domain {Th	97.06
d1wjua_	100	NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens	97.01
d1v5oa_	102	1700011n24rik protein {Mouse (Mus musculus) [TaxId	96.99
d2al3a1	76	Tether containing UBX domain for GLUT4 (Tug) {Mous	96.86
d1v2ya_	105	Ubiquitin-like protein 3300001g02rik {Mouse (Mus m	96.24
d2c9wb1	103	Elongin B {Human (Homo sapiens) [TaxId: 9606]}	95.82
d1wjna_	97	Tubulin-folding protein TbcE {Mouse (Mus musculus)	95.73
d1wgda_	93	Homocysteine-responsive endoplasmic reticulum-resi	95.61
d1wiaa_	95	Ubiquitin-like protein bab25500 (2010008E23Rik) {M	95.5
d1wxva1	81	Bag-family molecular chaperone regulator-1 {Human	94.7
d1v5ta_	90	8430435i17rik protein {Mouse (Mus musculus) [TaxId	94.69
d2cr5a1	96	UBX domain-containing protein 6 (Reproduction 8) {	94.59
d1ef1a3	84	Moesin {Human (Homo sapiens) [TaxId: 9606]}	92.67
d1h4ra3	84	Merlin {Human (Homo sapiens) [TaxId: 9606]}	88.67
d1x1ma1	94	Ubiquitin-like protein 7 {Mouse (Mus musculus) [Ta	85.84
d1gg3a3	81	Erythroid membrane protein 4.1R {Human (Homo sapie	85.29
d1v6ea_	95	Ubiquitin-like domain of tubulin folding cofactor	83.91
d1i42a_	89	p47 {Rat (Rattus norvegicus) [TaxId: 10116]}	83.55
d1t0ya_	90	Ubiquitin-like domain of tubulin folding cofactor	82.25
d1wgya_	104	Rap guanine nucleotide exchange factor 5, RapGEF5	82.07
d2npta1	105	Mitogen activated protein kinase kinase 5, Map2k5	80.66
d1ip9a_	85	Bud emergence mediator Bemp1 {Baker's yeast (Sacch	80.34

>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=99.93  E-value=1.4e-26  Score=145.71  Aligned_cols=68  Identities=28%  Similarity=0.340  Sum_probs=65.7

Q ss_pred             ceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         29 YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        29 ~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      ||+|||++++|++++|+||++|+|+|||++||++.|+++ +.++|+|||++|.+++||++|+|-|+|+.
T Consensus         1 ~I~lkv~~~~g~~v~f~vk~~t~l~kl~~~y~~~~~~~~-~~~~f~fdG~~i~~~~Tp~~l~med~D~I   68 (72)
T d1wm3a_           1 HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSM-RQIRFRFDGQPINETDTPAQLEMEDEDTI   68 (72)
T ss_dssp             CEEEEEECTTSCEEEEEECTTSCTHHHHHHHHHHHTCCT-TTCEEEETTEECCTTCCTTTTTCCTTEEE
T ss_pred             CEEEEEECCCCCEEEEEEcCCChHHHHHHHHHHHhCCCc-cceEEEECCEEcCCCCCHHHcCCCCCCEE
Confidence            799999999999999999999999999999999999998 68999999999999999999999999864

>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=99.90  E-value=1.7e-24  Score=136.80  Aligned_cols=69  Identities=38%  Similarity=0.466  Sum_probs=66.5

Q ss_pred             cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      ++|+|||+++||++++|+|+++|+|+|||++||++.|+++ +.+||+|||.+|.+++||++|+|-|+++.
T Consensus         1 e~I~ikv~~~dg~~v~f~v~~~t~l~kl~~~y~~~~~~~~-~~~~f~fdG~~l~~~~T~~~l~~edgD~I   69 (77)
T d2uyzb1           1 EYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPM-NSLRFLFEGQRIADNHTPKELGMEEEDVI   69 (77)
T ss_dssp             CEEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCG-GGEEEEETTEECCTTCCHHHHTCCTTEEE
T ss_pred             CEEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCh-hHEEEEECCEECCCCCCHHHcCCCCCCEE
Confidence            4899999999999999999999999999999999999998 79999999999999999999999999874

>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=99.85  E-value=5.9e-22  Score=125.35  Aligned_cols=69  Identities=22%  Similarity=0.297  Sum_probs=65.4

Q ss_pred             CcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        27 ~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      .++|+|||++ +|.+++|+|+++|+|++||++||++.|+++ +.+||+|||++|.+++||++|+|-|++|.
T Consensus         2 ~~~I~ikv~~-~~~~~~f~v~~~~~~~~l~~~~~~~~~i~~-~~~~l~f~G~~l~~~~T~~~~~i~dgd~I   70 (79)
T d1euvb_           2 ETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEM-DSLRFLYDGIRIQADQTPEDLDMEDNDII   70 (79)
T ss_dssp             CSEEEEEEES-SSCEEEEEEETTSCTHHHHHHHHHHTTCCG-GGEEEEETTEECCTTCCTTTTTCCTTEEE
T ss_pred             CcEEEEEECC-CCeEEEEEECCCCcHHHHHHHHHHHhCCCh-HhEEEEECCEEeCCCCCHHHCCCCCCCEE
Confidence            5799999976 799999999999999999999999999998 68999999999999999999999999874

>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=98.64  E-value=2.1e-07  Score=59.95  Aligned_cols=69  Identities=14%  Similarity=0.126  Sum_probs=61.6

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      .+..|+|+|+...+. ..|.|..++....|...-+++.|+.+ ...|++|.|+.+..+.|-.++..-++.|
T Consensus        29 ~~~~i~V~Vk~~~~~-~~i~V~~~~tV~~LK~~I~~~~gi~~-~~qrLi~~Gk~L~D~~tL~~~~I~~g~~   97 (103)
T d1j8ca_          29 EPKIIKVTVKTPKEK-EEFAVPENSSVQQFKEAISKRFKSQT-DQLVLIFAGKILKDQDTLIQHGIHDGLT   97 (103)
T ss_dssp             CCCCEEEEEECSSCE-EEEEECTTCCHHHHHHHHHHHHCSCS-SSEEEEETTEEESTTSCGGGTTCSSSEE
T ss_pred             CCCeEEEEEECCCcc-EEEEECCCChHHHHHHHHHHHHCcCH-HHeeeeeeeecccCCCcHHHcCCCCCCE
Confidence            556899999987664 58999999999999999999999998 6899999999999999999988877765

>d1ttna1 d.15.1.1 (A:21-100) Dendritic cell-derived ubiquitin-like protein {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=98.14  E-value=2e-06  Score=52.82  Aligned_cols=68  Identities=12%  Similarity=0.068  Sum_probs=62.2

Q ss_pred             cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ..|.|+|+..+|..+.|.|.++.....|...-+++.|+++ ...||+|.|+.+..+.|-+++..-++.|
T Consensus         2 ~e~qi~Vk~~~G~~~~l~V~~~~tV~~lK~~I~~~~~ip~-~~qrLi~~Gk~L~d~~tL~~y~I~~~st   69 (80)
T d1ttna1           2 YECQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEP-GSQRWFFSGRPLTDKMKFEELKIPKDYV   69 (80)
T ss_dssp             CSEEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTCCCS-TTCEEEETTEECCTTSHHHHCCCSSSCE
T ss_pred             CeEEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCc-ccEEEEECceEcCCCCcHHHcCCCCCCE
Confidence            4688999999999999999999999999999999999998 6899999999999988988887777665

>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=98.14  E-value=2.3e-06  Score=55.44  Aligned_cols=71  Identities=10%  Similarity=0.045  Sum_probs=65.8

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      ....|+|.|++..|..+.++|.++.....|.+.-+++.|+.+ ...|+.|.|+.+..+.|=.+...-||.|.
T Consensus        25 ~~~~i~V~V~~~~Gk~~~v~V~p~~TV~~LK~~I~~~~gip~-~~qrLi~~Gk~L~D~~tL~dygI~~GstI   95 (100)
T d1uh6a_          25 AATMIEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRW-NKIVLKKWYTIFKDHVSLGDYEIHDGMNL   95 (100)
T ss_dssp             CCCEEEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCCCG-GGCEEEETTEECCSSCBHHHHTCCTTEEE
T ss_pred             CCceEEEEEECCCCCEEEEEECCcChHHHHHHHHHHHHCCCc-ceEEEEEEeecccCcCCHHHcCCCCCCEE
Confidence            457899999999999999999999999999999999999998 69999999999999989999888888774

>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=98.09  E-value=3.8e-06  Score=51.93  Aligned_cols=70  Identities=13%  Similarity=0.093  Sum_probs=61.0

Q ss_pred             CCCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         25 DNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        25 ~~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      +.+..|+|+|+..++ ...|.|.++.....|....+++.|+++ ...|++|.|..+..+.|-.++..-++.|
T Consensus         6 ~~~~~i~v~Vk~~~~-~~~i~v~~~~tV~~lK~~I~~~~~v~~-~~qrL~f~Gk~L~d~~tL~~~gI~~gs~   75 (83)
T d1wx8a1           6 PSSRIIRVSVKTPQD-CHEFFLAENSNVRRFKKQISKYLHCNA-DRLVLIFTGKILRDQDILSQRGILDGST   75 (83)
T ss_dssp             CCSCEEEEEEECSSS-EEEEEEETTCCHHHHHHHHHHHTCSCT-TTBCCEETTEECCTTSCHHHHTCCTTEE
T ss_pred             CCCCeEEEEEEcCCC-cEEEEECCCChHHHHHHHHHHHhCCCh-hHEEEEEEhhccccCCcHHHcCCCCCCE
Confidence            345779999998655 458999999999999999999999998 6899999999999999988887777654

>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=98.07  E-value=1.1e-05  Score=48.66  Aligned_cols=68  Identities=15%  Similarity=0.087  Sum_probs=62.2

Q ss_pred             cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      +.|.|.|+..+|..+.+.|.++.....|....+++.|+.+ ...|+.|.|+.+..+.|=++...-++.|
T Consensus         2 ~~~qi~Vk~~~G~~~~l~v~~~~tV~~lK~~I~~~~gi~~-~~qrL~~~gk~L~d~~tL~~y~I~~~st   69 (76)
T d1z2ma2           2 EPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQD-DLFWLTFEGKPLEDQLPLGEYGLKPLST   69 (76)
T ss_dssp             CCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCG-GGEEEEETTEECCTTSBGGGGTCCTTCE
T ss_pred             CCEEEEEEcCCCCEEEEEECCCCcHHHHHHHHHHHhcCCh-hHeEEEECCeECCCCCcHHHcCCCCCCE
Confidence            4688999999999999999999999999999999999998 6999999999999998988887777665

>d1m94a_ d.15.1.1 (A:) Ubiquitin-like modifier protein hub1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like modifier protein hub1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.99  E-value=4.5e-06  Score=50.51  Aligned_cols=67  Identities=13%  Similarity=0.171  Sum_probs=61.2

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      |+|.|++..|..+.+.|.++.....|...-+++.|+++ ...|+.|+|+.+..+.|=++...-|+.|.
T Consensus         2 i~i~vk~~~Gk~~~v~V~~~~tV~~lK~~I~~~~~i~~-~~q~Li~~Gk~L~d~~tL~~y~I~~gstl   68 (73)
T d1m94a_           2 IEVVVNDRLGKKVRVKCLAEDSVGDFKKVLSLQIGTQP-NKIVLQKGGSVLKDHISLEDYEVHDQTNL   68 (73)
T ss_dssp             EEEEEEETTTEEEEEEECTTSBHHHHHHHHHHHHCCTT-TSEEEESSSCEECTTSBHHHHTCCTTEEE
T ss_pred             eEEEEECCCCCEEEEEECCcCcHHHHHHHHHHhhcccc-cEEEEEEEeEEecccCcHHHcCCCCCCEE
Confidence            67888899999999999999999999999999999998 68999999999998888888877777664

>d1wgha_ d.15.1.1 (A:) Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 3, Ubl3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.96  E-value=2.2e-05  Score=51.87  Aligned_cols=70  Identities=11%  Similarity=0.059  Sum_probs=62.7

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHH--------HHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSY--------SERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aY--------c~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      +...|+|+|+-.+|....|.|.+++....|....        +++.|+++ ...|+.|.|+-+..+.|-.++...++.|
T Consensus        13 ~~~~i~i~v~~l~Gk~~~~~v~p~~TV~~lK~~I~~~~p~~~~e~~~~~~-~~qRLiy~Gk~L~D~~tL~~~~i~~g~~   90 (116)
T d1wgha_          13 PADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSP-NILRLIYQGRFLHGNVTLGALKLPFGKT   90 (116)
T ss_dssp             CSSSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCT-TTEEEEETTEEECSSCBTTTTTCCSSCE
T ss_pred             CCCeEEEEEEEcCCCEEEEEECCcchHHHHHHHHHhhcccccccccCCCh-HHeEEEECCEEecCCCCHHHcCCCCCCE
Confidence            3578999999999999999999999999999998        57789988 5899999999999999999987776654

>d1oqya4 d.15.1.1 (A:1-77) Ubiquitin-like domain of Rad23 homolog A (Hhr23a) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of Rad23 homolog A (Hhr23a)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.95  E-value=1e-05  Score=49.13  Aligned_cols=67  Identities=6%  Similarity=0.002  Sum_probs=60.2

Q ss_pred             ceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhc---CCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         29 YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVE---NKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        29 ~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~g---l~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      .|+|.|+..+|....+.|.++.....|....+.+.|   +.+ ...|+.|.|+.+..+.|-.++..-++++
T Consensus         2 ~~~i~vk~l~g~~~~l~v~~~~TV~~lK~~i~~~~g~~~i~~-~~qrLi~~Gk~L~D~~tL~~y~I~~~s~   71 (77)
T d1oqya4           2 AVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPV-AGQKLIYAGKILSDDVPIRDYRIDEKNF   71 (77)
T ss_dssp             CCCEEEEETTTEEEEECCCTTCBHHHHHHHHHHHTCSSSCCS-TEEEEESSSSEECSSSBTTTTCCCTTSC
T ss_pred             cEEEEEECCCCCEEEEEECCCCcHHHHHHHHHHhcCCCCCCh-HHEEeEECCcCccCCCcHHHcCCCCCCE
Confidence            478899999999999999999999999999999998   666 5899999999999999999888777664

>d1bt0a_ d.15.1.1 (A:) Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Rub1
species: Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.91  E-value=2.3e-05  Score=46.90  Aligned_cols=65  Identities=14%  Similarity=0.229  Sum_probs=58.7

Q ss_pred             EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      .|.|+.-+|..+.+.|.++.....|....+++.|+.+ ...|+.|.|+.+..+.|-++..--++.|
T Consensus         2 ~I~Vk~~~G~~~~l~V~~~~tV~~lK~~i~~~~gi~~-~~qrLi~~Gk~L~d~~tL~~y~I~~~st   66 (73)
T d1bt0a_           2 LIKVKTLTGKEIEIDIEPTDTIDRIKERVEEKEGIPP-VQQRLIYAGKQLADDKTAKDYNIEGGSV   66 (73)
T ss_dssp             EEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHCCCG-GGEEEEETTEECCTTSBTGGGTCCTTCE
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCCCh-HHEEEEECCeEcCCCCcHHHcCCCCCCE
Confidence            4778889999999999999999999999999999998 6899999999999999988877666655

>d1ogwa_ d.15.1.1 (A:) Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.89  E-value=2.3e-05  Score=47.28  Aligned_cols=66  Identities=11%  Similarity=0.143  Sum_probs=58.9

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      +.|.|+..+|..+.+.|.+++....|....+.+.|+++ ...|++|.|+.+..+.|-++..--++.|
T Consensus         1 MqI~Vk~l~G~~~~l~v~~~~tV~~lK~~I~~~~gi~~-~~qrL~~~Gk~L~d~~tL~~y~i~~~s~   66 (76)
T d1ogwa_           1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLSDYNIQKEST   66 (76)
T ss_dssp             CEEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCCCG-GGEEEEETTEECCTTSBGGGGTCCTTCE
T ss_pred             CEEEEEcCCCCEEEEEECCCCcHHHHHHhhhhhcCCCh-HHEEeEECCeEcCCCCCHHHcCCCCCCE
Confidence            35778889999999999999999999999999999998 6899999999999988888877666654

>d1wh3a_ d.15.1.1 (A:) 2'-5'-oligoadenylate synthetase-like protein, OASL {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 2'-5'-oligoadenylate synthetase-like protein, OASL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.79  E-value=2.3e-05  Score=48.51  Aligned_cols=69  Identities=13%  Similarity=0.041  Sum_probs=61.8

Q ss_pred             CcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        27 ~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      +..+.|.|+..+|..+.+.|.++.....|....+.+.|+.+ ...|+.|.|+.+..+.|-.+...-++.|
T Consensus         5 s~~mqI~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~-~~qrLi~~Gk~L~d~~tL~~y~I~~~st   73 (87)
T d1wh3a_           5 SSGIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPK-KQQQLEFQGQVLQDWLGLGIYGIQDSDT   73 (87)
T ss_dssp             SSSEEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTCCCT-TTEEEEETTEECCSSSBHHHHTCCTTEE
T ss_pred             CCcEEEEEECCCCCEEEEEECCcCcHHHHHHHHHHHHCcCh-HHeEEEeeceEcCCCCcHHHcCCCCCCE
Confidence            56788899999999999999999999999999999999998 6899999999999888888877666554

>d2faza1 d.15.1.1 (A:1-76) Ubiquitin-like PHD and RING finger domain-containing protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like PHD and RING finger domain-containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.73  E-value=6.2e-05  Score=45.79  Aligned_cols=66  Identities=14%  Similarity=0.083  Sum_probs=57.2

Q ss_pred             EEEEeccCCCE-EEE-EEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         31 KLKVLSSDSNE-IHF-RVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        31 ~lkV~~qdg~e-v~F-kIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      .|.|+.-+|.+ ..+ .+.+++....|....+++.|+++ ...||.|.|..+..+.|-.+...-++.|.
T Consensus         2 ~I~Vktl~Gk~t~~l~~v~~~~tV~~lK~~I~~~~gip~-~~qrLi~~Gk~L~D~~tL~~y~I~~~sti   69 (76)
T d2faza1           2 WIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEP-GLQRLFYRGKQMEDGHTLFDYEVRLNDTI   69 (76)
T ss_dssp             EEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCCCG-GGEEEEETTEECCTTCBTTTTTCCTTCEE
T ss_pred             EEEEEeCCCCcEEEEecCCCCCCHHHHHHHHHHHHCcCh-HHeEEEEeeEeccCCCcHHHcCCCCCCEE
Confidence            46777889975 444 69999999999999999999998 69999999999999999999888777763

>d2bwfa1 d.15.1.1 (A:2-74) DSK2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: DSK2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.64  E-value=0.00011  Score=44.03  Aligned_cols=65  Identities=8%  Similarity=0.080  Sum_probs=57.5

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      |+|+|+.. ++...+.|.++.....|......+.|+++ ...|++|.|+.+..+.|-.+...-++.|
T Consensus         2 i~I~Vk~~-~~~~~i~v~~~~tV~~lK~~I~~~~gip~-~~qrLi~~Gk~L~D~~tL~~~~I~~g~~   66 (73)
T d2bwfa1           2 LNIHIKSG-QDKWEVNVAPESTVLQFKEAINKANGIPV-ANQRLIYSGKILKDDQTVESYHIQDGHS   66 (73)
T ss_dssp             EEEEEEET-TEEEEEEECTTCBHHHHHHHHHHHHCCCG-GGEEEEETTEECCTTSBTGGGTCCTTCE
T ss_pred             EEEEEEeC-CeEEEEEECCCChHHHHHHHHHHHHCcCh-HHeEEEECCeEccCCCcHHHCCCCCCCE
Confidence            78888875 45678999999999999999999999998 6899999999999999999888777765

>d1wx9a1 d.15.1.1 (A:8-80) Large proline-rich protein BAT3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Large proline-rich protein BAT3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.64  E-value=4.8e-05  Score=45.69  Aligned_cols=61  Identities=15%  Similarity=0.120  Sum_probs=55.3

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceee
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYC   91 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~   91 (98)
                      +.|.|+.-+|..+.+.|.+++....|...-+++.|+++ ...|+.|.|+-+..+.|=.++..
T Consensus         1 m~I~Vk~~~g~~~~l~V~~~~tV~~lK~~I~~~~gip~-~~qrLi~~Gk~L~d~~tL~dy~i   61 (73)
T d1wx9a1           1 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPS-EKQRLIYQGRVLQDDKKLQEYNV   61 (73)
T ss_dssp             EEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHCCCT-TTCCCEETTEECCSSSBHHHHTC
T ss_pred             CEEEEEcCCCCEEEEEECCCChHHHHHHHHHHHhCCCh-HHEEEEECCeEccCCCCHHHhCC
Confidence            56888889999999999999999999999999999998 58999999999998888777654

>d1yqba1 d.15.1.1 (A:15-98) Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquilin-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.64  E-value=8.3e-05  Score=45.69  Aligned_cols=68  Identities=19%  Similarity=0.190  Sum_probs=60.2

Q ss_pred             cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      ..|+|.|+..++ ...|.|.++.....|...-+++.|+++ ...|++|.|..+..+.|-.++..-++.|.
T Consensus         6 ~~i~I~Vkt~~~-~~~~~V~~~~tV~~lK~~i~~~~gi~~-~~qrL~~~Gk~L~D~~tL~~y~i~~gsti   73 (84)
T d1yqba1           6 HLIKVTVKTPKD-KEDFSVTDTCTIQQLKEEISQRFKAHP-DQLVLIFAGKILKDPDSLAQCGVRDGLTV   73 (84)
T ss_dssp             TEEEEEEECSSC-EEEEEEETTCBHHHHHHHHHHHHTCCG-GGEEEEETTEECCTTSBHHHHTCCTTCEE
T ss_pred             CEEEEEEEcCCC-cEEEEECCCCcHHHHHHHHHHHHCcCc-hhEEEEEeeeeccccCcHHHcCCCCCCEE
Confidence            469999999755 568999999999999999999999998 68999999999999889888888777663

>d2zeqa1 d.15.1.1 (A:1-78) Ubiquitin-like domain of parkin {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of parkin
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.55  E-value=0.00017  Score=43.77  Aligned_cols=66  Identities=12%  Similarity=-0.006  Sum_probs=59.7

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ..|.|+..+|..+.+.|.+++....|....+++.|+++ ...|+.|.|+.+..+.|-++...-++.|
T Consensus         3 M~I~Vk~~~g~t~~l~v~~~~tV~~lK~~i~~~~gip~-~~qrLi~~Gk~L~d~~tL~~y~I~~~st   68 (78)
T d2zeqa1           3 MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKRQGVPA-DQLRVIFAGKELPNHLTVQNCDLEQQSI   68 (78)
T ss_dssp             EEEEEESSSSSCEEEEECTTCBHHHHHHHHHHHHTCCG-GGEEEEETTEEECTTCBGGGSSCCTTCE
T ss_pred             eEEEEEcCCCCEEEEEEcccccHHHHHHHHHHHHCcCh-hHeEEEEeeeEcCCCCCHHHcCCCCCCE
Confidence            46888888999999999999999999999999999998 6899999999999998988877766655

>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=97.51  E-value=0.00014  Score=45.72  Aligned_cols=67  Identities=15%  Similarity=0.178  Sum_probs=56.5

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCC
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSG   95 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~   95 (98)
                      ..+.|.|+|+ -.+....+.|..+.....|.+.-+++.|+.+ ...|++|.|. +..+.|-.++...++.
T Consensus        14 ~~~~i~v~V~-~~~k~~~i~v~~~~TV~~LK~~I~~~tgvp~-~~q~Li~~g~-l~D~~tL~~~~I~~gs   80 (95)
T d1v86a_          14 GKELVDLKII-WNKTKHDVKVPLDSTGSELKQKIHSITGLPP-AMQKVMYKGL-VPEDKTLREIKVTSGA   80 (95)
T ss_dssp             CCCCEEEEEE-ETTEEEEEEECTTSBHHHHHHHHHHHHCSCS-TTCCCBSSSB-CCSSSBHHHHCCCTTE
T ss_pred             CccEEEEEEE-ECCEEEEEEECCCCcHHHHHHHHHHHhCCCh-hHEEEEeccc-ccCCCcHHHCCCCCCC
Confidence            4578999998 4777889999999999999999999999998 6899999996 7777776666655543

>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=97.41  E-value=0.00056  Score=44.19  Aligned_cols=69  Identities=12%  Similarity=0.106  Sum_probs=59.2

Q ss_pred             CcceEEEEeccCCCEE-EEEEcCCCchHHHHHHHHHH-----hcCC--CCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         27 VEYIKLKVLSSDSNEI-HFRVKMTTPMGKLKKSYSER-----VENK--PMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        27 ~~~I~lkV~~qdg~ev-~FkIK~~T~L~KLm~aYc~r-----~gl~--~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      .+.|.|+|+-.+|..+ -|.|.+++....|.+.-.++     .|+.  + ...|+.|.|+-+..+.|-.+....+|.+
T Consensus         5 ~~~i~I~~r~~~G~~i~~~~v~~s~TV~~lK~~I~~~~~~~k~~iP~~~-~~qRLIf~Gk~L~D~~tL~dy~i~~g~~   81 (101)
T d1se9a_           5 HNQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTV-KEVKLISAGKVLENSKTVKDYRSPVSNL   81 (101)
T ss_dssp             CCCEEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSG-GGEEEEETTEECCTTSBGGGGSCCTTSC
T ss_pred             cceEEEEEEeCCCCeecceecCccCHHHHHHHHHHHhccccccCCCCCc-ccEEEEECCeEecCCCCHHHcCCCCCCc
Confidence            4789999999999998 59999999999999999776     4553  4 4799999999999999998888877763

>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=97.40  E-value=0.00037  Score=41.96  Aligned_cols=66  Identities=14%  Similarity=0.116  Sum_probs=59.5

Q ss_pred             EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeC--CcccCCCCCcCceeeccCCcC
Q psy16998         31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGT--GLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfD--G~rI~~~~TP~~L~~~~~~~~   97 (98)
                      +|+|+.-+|..+.+.|.+++....|...-+++.|+++ ..-|+.|+  |+.+..+.|-.+...-++.|.
T Consensus         2 ~l~Vk~l~G~~~~v~V~~~~tV~~lK~~I~~~~gip~-~~QrLi~~~~Gk~L~D~~tL~~y~i~~g~~i   69 (76)
T d1z2ma1           2 DLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHA-FQQRLAVHPSGVALQDRVPLASQGLGPGSTV   69 (76)
T ss_dssp             EEEEEESSSCEEEEECCSSCCHHHHHHHHHHHHCCCG-GGEEEEEETTCCBCCSSSCSGGGTCCTTCEE
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhccCC-ccEEEEEcCCCeeccCCCcHHHcCCCCCCEE
Confidence            5788889999999999999999999999999999988 68999994  999999889999988888763

>d1uela_ d.15.1.1 (A:) Ubiquitin-like domain of Rad23 homolog B (Hhr23B) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of Rad23 homolog B (Hhr23B)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.35  E-value=0.00039  Score=43.16  Aligned_cols=65  Identities=5%  Similarity=0.005  Sum_probs=56.2

Q ss_pred             EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhc---CCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVE---NKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~g---l~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      .|.|+.-+|..+.+.|.++.....|...-+++.|   +.+ ...|+.|.|+.+..+.|-.++...++.|
T Consensus         2 ~I~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~~~~i~~-~~qrLi~~Gk~L~d~~tL~~y~I~~~s~   69 (95)
T d1uela_           2 QVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPV-AGQKLIYAGKILNDDTALKEYKIDEKNF   69 (95)
T ss_dssp             EEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHCTTTCCT-TTEEEEETTEECCTTSBGGGGTCCSSSE
T ss_pred             EEEEEeCCCCEEEEEECCCccHHHHHHHHHhhhcccCCCc-cceEEEECCeEccCCCcHHHcCCCCCCE
Confidence            4566778899999999999999999999999987   445 5799999999999999988887777665

>d1wgga_ d.15.1.1 (A:) Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin carboxyl-terminal hydrolase 14
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.24  E-value=0.0005  Score=43.20  Aligned_cols=69  Identities=12%  Similarity=-0.012  Sum_probs=58.5

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ....|+|+|+.-.+....+.|.++.....|....+++.|+.+ ...|++|.|+.+.. +|=.++..-|+.+
T Consensus         4 ~s~~~~I~VK~~~~~~~~v~v~~~~tV~~lK~~i~~~~gvp~-~~QkLi~~Gk~L~d-~tL~~~gi~~g~~   72 (96)
T d1wgga_           4 GSSGYSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQP-ARQKVMVKGGTLKD-DDWGNIKMKNGMT   72 (96)
T ss_dssp             CCCEEEEEEEETTEEEEEEEEESSSCHHHHHHHHHHHTCCCT-TTSCCEETTEECCS-SCCCSCCCCSSCE
T ss_pred             CCCceEEEEEeCCCCEEEEEECCCCcHHHHHHHhhhhcCccc-eeeEEeecCcccCC-CcHHHCCCCCCCE
Confidence            357899999887777778999999999999999999999998 58999999999985 5766666666654

>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=97.19  E-value=0.00056  Score=41.32  Aligned_cols=65  Identities=9%  Similarity=0.019  Sum_probs=55.2

Q ss_pred             EEEEeccCCC-EEEE-EEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         31 KLKVLSSDSN-EIHF-RVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        31 ~lkV~~qdg~-ev~F-kIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      .|.|+.-+|. ...+ .|.+++....|....+++.|+++ ...|+.|.|+.+..+.|-.+...-++.|
T Consensus         2 ~I~Vk~l~G~~t~~~~~v~~~~TV~~lK~~I~~~~gip~-~~qrLi~~Gk~L~d~~tL~~y~I~~~s~   68 (76)
T d1wy8a1           2 WIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRP-ECQRLFYRGKQLENGYTLFDYDVGLNDI   68 (76)
T ss_dssp             EEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCCT-TTEEEEETTEECCSSSBHHHHTCCTTCE
T ss_pred             EEEEEeCCCCceEEEeccCCCChHHHHHHHHHHHHCCCc-hhcEEEEEeeEecCCCCHHHcCCCCCCE
Confidence            4666677884 4555 69999999999999999999998 6999999999999998988887777665

>d1zkha1 d.15.1.1 (A:1-86) Splicing factor 3 subunit 1, C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Splicing factor 3 subunit 1, C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.17  E-value=0.00053  Score=42.41  Aligned_cols=58  Identities=12%  Similarity=0.114  Sum_probs=51.6

Q ss_pred             CCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         38 DSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        38 dg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      +|..+.|.|.++.....|....+++.|+++ ...++.|.|+.+..+.|=++...-++.|
T Consensus        20 ~G~~~~l~v~~~~tV~~lK~~I~~~~~ip~-~~q~Li~~Gk~L~D~~tL~dY~I~~gst   77 (86)
T d1zkha1          20 NGQVLVFTLPLTDQVSVIKVKIHEATGMPA-GKQKLQYEGIFIKDSNSLAYYNMANGAV   77 (86)
T ss_dssp             SSCEEEEEECTTSBHHHHHHHHHHHTCCCT-TTEEEEETTEEECTTSBHHHHTCCTTEE
T ss_pred             CCeEEEEEECCCChHHHHHHHHHhhhcCCh-HHEEEEeCCcCcCCCCCHHHcCCCCCCE
Confidence            688899999999999999999999999998 6899999999999888877776666554

>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=97.06  E-value=0.00097  Score=43.25  Aligned_cols=69  Identities=12%  Similarity=0.104  Sum_probs=58.4

Q ss_pred             cceEEEEe--c-cCCCEEEEEEcC-CCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998         28 EYIKLKVL--S-SDSNEIHFRVKM-TTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS   97 (98)
Q Consensus        28 ~~I~lkV~--~-qdg~ev~FkIK~-~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~   97 (98)
                      ..++|+|.  + .+|..+.+.|.+ ++....|....+++.|+.+ ...|+.|.|+.+..+.|=++...-++.|.
T Consensus        26 g~~ti~V~v~~~~~G~~i~l~v~~~sdtV~~lK~~I~~~~gip~-~~QrLi~~Gk~L~D~~tL~~ynI~~gsti   98 (111)
T d1we6a_          26 GPATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPA-NKQKLSGKAGFLKDNMSLAHYNVGAGEIL   98 (111)
T ss_dssp             SCEEEEECCTTCSSSCCEEEEESCSSSBHHHHHHHHHHHTTCCT-TTSEEECSSSBCCTTSBTTTTTCSSSCEE
T ss_pred             CCEEEEEEcccCCCCeEEEEEecCCccHHHHHHHHHHHHHCCCc-cceEEEEeeEEccccCCHHHcCCCCCCEE
Confidence            34555554  3 468999999987 8999999999999999998 68999999999999999999888777663

>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=97.01  E-value=0.00036  Score=44.47  Aligned_cols=68  Identities=4%  Similarity=-0.086  Sum_probs=58.4

Q ss_pred             cceEEEE--eccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998         28 EYIKLKV--LSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        28 ~~I~lkV--~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ..|+|.|  +...|..+.+.|+.+...+.|.+.-+++.|+++ ...|+.|.|+.+..+.|=.+...-++.+
T Consensus        16 ati~V~~~~~~~~g~~~~lev~~~~TV~~LK~~I~~~~gi~~-~~qkLi~~Gk~L~d~~tL~~~gI~~~s~   85 (100)
T d1wjua_          16 ATIEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQE-NYIKIVINKKQLQLGKTLEEQGVAHNVK   85 (100)
T ss_dssp             EEEEEECCTTTCCSSSEEEEEESSSBHHHHHHHHHHHTTCCS-TTCEEEETTEECCTTSBHHHHTCCSSEE
T ss_pred             EEEEEEEeeccCCCeEEEEEECCCcHHHHHHHHHHHHHCCCC-eeEEEEEcccCcCCCcCHHHcCCCCCCE
Confidence            4666666  335689999999999999999999999999998 6899999999999999988887766644

>d1v5oa_ d.15.1.1 (A:) 1700011n24rik protein {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 1700011n24rik protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.99  E-value=0.00058  Score=43.57  Aligned_cols=68  Identities=6%  Similarity=-0.061  Sum_probs=56.6

Q ss_pred             cceEEEE----eccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCC-CCcCceeeccCCc
Q psy16998         28 EYIKLKV----LSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQT-HGGNSFYCVNSGT   96 (98)
Q Consensus        28 ~~I~lkV----~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~-~TP~~L~~~~~~~   96 (98)
                      .-.+|.|    ++.++..+.+.|.+++.+..|...-..+.|+.+ ...|+.|+|+.+..+ .|=.++..-|+++
T Consensus         6 ~~m~itV~~~~~~~~~~t~~l~V~~~~tV~~LK~~Ie~~~gip~-~~Q~Li~~Gk~L~dd~~tL~~~gI~~g~~   78 (102)
T d1v5oa_           6 SGMLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPA-EEAQIVYMEQLLTDDHCSLGSYGLKDGDM   78 (102)
T ss_dssp             CCEEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTCCCG-GGBCEEETTEEECCSSSBHHHHTCCTTEE
T ss_pred             CCEEEEEEecccCCCCCEEEEEECCcccHHHHHHHHHHHhCCCc-ceEEEEeCCeEeecccCCHHHcCCCCCCE
Confidence            3445566    567789999999999999999999999999998 689999999999654 5888887777665

>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=96.86  E-value=0.00055  Score=42.57  Aligned_cols=53  Identities=11%  Similarity=0.063  Sum_probs=48.1

Q ss_pred             EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCC
Q psy16998         31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTH   84 (98)
Q Consensus        31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~   84 (98)
                      .+.|.+.+|+.+..||.++|.|..+.+.-|+++|+++ ....+.|.+..|....
T Consensus         2 ~V~Vl~~~~rR~~VKvtP~t~l~~VL~eaC~k~~~~~-~~~~Lkh~~k~ldLsl   54 (76)
T d2al3a1           2 AVSVLAPNGRRHTVKVTPSTVLLQVLEDTCRRQDFNP-SEYDLKFQRTVLDLSL   54 (76)
T ss_dssp             CEEEECTTSCEEEECCCTTSBHHHHHHHHHHHTTCCG-GGCEEEETTEEESSSC
T ss_pred             cEEEECCCCcEEEEEeCCCcCHHHHHHHHHHHhCCCh-hHceeeeCCEEcCccc
Confidence            3678899999999999999999999999999999998 6899999998887665

>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=96.24  E-value=0.0012  Score=42.06  Aligned_cols=71  Identities=14%  Similarity=0.075  Sum_probs=59.5

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCc--------------eeeeeeCCcccCCCC-CcCcee
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMY--------------KAMPMGTGLPFGQTH-GGNSFY   90 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~--------------s~rFlfDG~rI~~~~-TP~~L~   90 (98)
                      .+.-|+|+|+..+|....+.|.++.....|...-+++.|+.+..              .+.++|.|+.+..+. |-.++.
T Consensus         4 gss~M~v~Vk~~~G~~~~v~V~~~~TV~~LK~~I~~~~~ip~~~Qr~~~~~~~~~~~~~~~Li~~G~~L~d~~~tL~~~g   83 (105)
T d1v2ya_           4 GSSGMTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKLRDYG   83 (105)
T ss_dssp             CCCSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSBHHHHT
T ss_pred             CCCcEEEEEEeCCCCEEEEEECCCChHHHHHHHHHHHHCcCHHHhcccccccccccccceEEEECCEECcccCCCHHHcC
Confidence            35789999999999999999999999999999999888886521              366999999997664 777777


Q ss_pred             eccCCc
Q psy16998         91 CVNSGT   96 (98)
Q Consensus        91 ~~~~~~   96 (98)
                      .-|++|
T Consensus        84 I~~g~~   89 (105)
T d1v2ya_          84 IRNRDE   89 (105)
T ss_dssp             CCSSEE
T ss_pred             CCCCCE
Confidence            777766

>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=95.82  E-value=0.015  Score=37.12  Aligned_cols=59  Identities=10%  Similarity=0.023  Sum_probs=48.9

Q ss_pred             eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCcee
Q psy16998         30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFY   90 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~   90 (98)
                      |-|+|+. .+..++..|.++.....|....+++.|+.+ ...|+.|.|+.+..+.|=.+..
T Consensus         2 ifv~i~~-~k~Ti~l~v~~~~TV~~lK~~I~~~~gip~-~~QrLi~~Gk~L~D~~TL~dYg   60 (103)
T d2c9wb1           2 VFLMIRR-HKTTIFTDAKESSTVFELKRIVEGILKRPP-DEQRLYKDDQLLDDGKTLGECG   60 (103)
T ss_dssp             EEEEEEE-BTEEEEEEECTTSBHHHHHHHHHHHHCCCG-GGEEEEETTEECCTTSBHHHHT
T ss_pred             EEEEEeC-CCEEEEEEeCCCCcHHHHHHHHHHHhCCCc-ccEEEEECCEEcCCCCCHHHcC
Confidence            4566655 334678899999999999999999999998 6999999999998887766543

>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=95.73  E-value=0.016  Score=35.93  Aligned_cols=69  Identities=10%  Similarity=0.031  Sum_probs=54.7

Q ss_pred             CcceEEEEecc---CCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccC--------CCCCcCceeeccCC
Q psy16998         27 VEYIKLKVLSS---DSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFG--------QTHGGNSFYCVNSG   95 (98)
Q Consensus        27 ~~~I~lkV~~q---dg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~--------~~~TP~~L~~~~~~   95 (98)
                      +.-|+|+|+..   ++..+..+|.++....+|...-.+..|+.. ...|+.|-|++..        ++.|-.+...-|++
T Consensus         7 ~~~iti~i~~~~~~~~~~~~~kv~~~~TV~~LK~~i~~~~gip~-~~qrL~y~~~~~~~~~~~l~~d~~tL~~YgI~dg~   85 (97)
T d1wjna_           7 GQLLTLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKVPV-SELLLSYESSKMPGREIELENDLQPLQFYSVENGD   85 (97)
T ss_dssp             SCEEEEEEEESSCSSSCCEEEEEETTSBHHHHHHHHHTTTTCCT-TTCEEEEECTTSCSCEEECCCSSSBSGGGTCCTTC
T ss_pred             CCeEEEEEEeCCCCCCceEEEEcCCCCCHHHHHHHHHHHHCcCh-HHeEEEecCCCCCcccceecCCCcCHhhccCCCCC
Confidence            45677777753   466788999999999999999999999998 6899999988644        34576677776666


Q ss_pred             c
Q psy16998         96 T   96 (98)
Q Consensus        96 ~   96 (98)
                      +
T Consensus        86 ~   86 (97)
T d1wjna_          86 C   86 (97)
T ss_dssp             E
T ss_pred             E
Confidence            5

>d1wgda_ d.15.1.1 (A:) Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein, HERPUD1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein, HERPUD1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.61  E-value=0.014  Score=36.08  Aligned_cols=62  Identities=15%  Similarity=0.117  Sum_probs=50.2

Q ss_pred             CcceEEEEeccCC--CEEEEEEcCCCchHHHHHHHHHHhc--CCCCceeeeeeCCcccCCCCCcCce
Q psy16998         27 VEYIKLKVLSSDS--NEIHFRVKMTTPMGKLKKSYSERVE--NKPMYKAMPMGTGLPFGQTHGGNSF   89 (98)
Q Consensus        27 ~~~I~lkV~~qdg--~ev~FkIK~~T~L~KLm~aYc~r~g--l~~~~s~rFlfDG~rI~~~~TP~~L   89 (98)
                      ...|+|.|+..++  ..+.|.+.+++....|.+.-+++.+  +.+ ...|+.|.|+.+..+.|-.++
T Consensus         5 s~~i~l~Ik~~~~~~~~~~~~v~~~~TV~~LK~~I~~~~~~~~~~-~~qrLIy~Gk~L~D~~~L~d~   70 (93)
T d1wgda_           5 SSGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRP-EDQRLIYSGKLLLDHQCLRDL   70 (93)
T ss_dssp             SCCCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCCT-TTCEEEETTEECCSSSCHHHH
T ss_pred             CCcEEEEEECCCCCceeEEEEcCCCCcHHHHHHHHHHHcCCCCCh-HHEEEEECCeEccCCCCHHHh
Confidence            3456666666554  5688999999999999999999976  666 579999999999988887665

>d1wiaa_ d.15.1.1 (A:) Ubiquitin-like protein bab25500 (2010008E23Rik) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein bab25500 (2010008E23Rik)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.50  E-value=0.018  Score=35.99  Aligned_cols=66  Identities=14%  Similarity=0.093  Sum_probs=53.9

Q ss_pred             CcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCC-CCCcCceeeccCCc
Q psy16998         27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQ-THGGNSFYCVNSGT   96 (98)
Q Consensus        27 ~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~-~~TP~~L~~~~~~~   96 (98)
                      ...|+|+|+.-+|.+..+.|.++.....|.....   ..+. ...|+.|.|+-+.. ..|-.+....|+.+
T Consensus         5 ~s~m~i~vK~l~~~~~~v~v~~~~TV~~lK~~i~---~~~~-~~qrLi~~Gk~L~dd~~tL~~y~i~~g~~   71 (95)
T d1wiaa_           5 SSGINVRLKFLNDTEELAVARPEDTVGTLKSKYF---PGQE-SQMKLIYQGRLLQDPARTLSSLNITNNCV   71 (95)
T ss_dssp             CCSEEEEEEETTTEEEEEEECSSSBHHHHHHHHS---SSTT-TTCEEEETTEECCCSSCBTTTTTCCTTEE
T ss_pred             CCcEEEEEEcCCCCEEEEEECCcCcHHHHHHHHh---cCCc-ceeEEEECCEEcccCCCCHHHcCCCCCCE
Confidence            4689999999999999999999999999986543   4565 57999999999975 46877777666654

>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=94.70  E-value=0.036  Score=33.17  Aligned_cols=65  Identities=9%  Similarity=0.030  Sum_probs=50.2

Q ss_pred             eEEEEeccCCCEEEEEE-----cCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCC-CCCcCceeeccCCc
Q psy16998         30 IKLKVLSSDSNEIHFRV-----KMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQ-THGGNSFYCVNSGT   96 (98)
Q Consensus        30 I~lkV~~qdg~ev~FkI-----K~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~-~~TP~~L~~~~~~~   96 (98)
                      |+|+|... +....+.|     ..++.+..|+..-+...|+++ ...+++|.|..+.. +.|-.++...++.+
T Consensus         2 i~i~V~~~-~~~~~i~v~~~~~~~~~Tv~~LK~~I~~~tgvp~-~~QkL~~~G~~L~~d~~tL~~~gi~~g~~   72 (81)
T d1wxva1           2 LTVTVTHS-NEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQ-SFQKLIFKGKSLKEMETPLSALGIQDGCR   72 (81)
T ss_dssp             EEEEEECS-SSEEEEEECCCSSSSSCBHHHHHHHHHHHTCCCT-TTCEEEETTEEECCSSSBHHHHTCCSSEE
T ss_pred             EEEEEEEC-CeeEEEEEecCCCCCccHHHHHHHHHHHHHCcCH-HHEEeeecCeEeCcCCCChHHCCCCCCCE
Confidence            66777653 33334444     468899999999999999998 68999999999965 45778887777765

>d1v5ta_ d.15.1.1 (A:) 8430435i17rik protein {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 8430435i17rik protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.69  E-value=0.011  Score=35.98  Aligned_cols=68  Identities=10%  Similarity=-0.003  Sum_probs=54.4

Q ss_pred             CcceEEEEeccCCCEEEE-EEcCCCchHHHHHHHHHHhcCCCCceeeee---eCCcccCCCCCcCceeeccCCc
Q psy16998         27 VEYIKLKVLSSDSNEIHF-RVKMTTPMGKLKKSYSERVENKPMYKAMPM---GTGLPFGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        27 ~~~I~lkV~~qdg~ev~F-kIK~~T~L~KLm~aYc~r~gl~~~~s~rFl---fDG~rI~~~~TP~~L~~~~~~~   96 (98)
                      ...|+|.|+. .|....+ .|..+.....|....+++.|+.+ ...|++   |.|.-+..+.|-.++..-++.|
T Consensus         5 s~~~~i~Vk~-~~~~~~i~~v~~~~tV~~LK~~i~~~t~vp~-~~QkLi~~~~~Gk~L~D~~tL~~~~i~~g~~   76 (90)
T d1v5ta_           5 SSGLPIIVKW-GGQEYSVTTLSEDDTVLDLKQFLKTLTGVLP-ERQKLLGLKVKGKPAENDVKLGALKLKPNTK   76 (90)
T ss_dssp             CCSCCEEEEE-TTEEEEECSCCSSSBHHHHHHHHHHHTCCCT-TTCEEESCEETTEECCTTSBHHHHTCCTTEE
T ss_pred             CCcEEEEEEE-CCeEEEEEEeCCCCcHHHHHHHHHHHHcCCH-HHhhhhhhccCCcCCCCcCcHHHcCCCCCCE
Confidence            4567777775 4555555 59999999999999999999998 579998   6899999988888777666554

>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=94.59  E-value=0.11  Score=31.44  Aligned_cols=56  Identities=7%  Similarity=-0.063  Sum_probs=42.3

Q ss_pred             CCCCCCCCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCC
Q psy16998         20 SADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTG   77 (98)
Q Consensus        20 ~~~~~~~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG   77 (98)
                      .|........|+|+|+=.||..+.-+...+.+++.|++ |+...+... ..++++-.-
T Consensus         7 ~EP~~~~~~~~~i~iRlPdG~r~~r~F~~~dtl~~l~~-fv~~~~~~~-~~f~l~~~~   62 (96)
T d2cr5a1           7 EEPSETAEEVVTVALRCPNGRVLRRRFFKSWNSQVLLD-WMMKVGYHK-SLYRLSTSF   62 (96)
T ss_dssp             CCCCSSCSSEEEEEEECTTSCEEEEEEESSSBTHHHHH-HHHHHTCCT-TTEEEECSS
T ss_pred             CCCCCCCCCeEEEEEECCCCCEEEEEECCcccHHHHHH-HHHHhccCc-ccceeecCC
Confidence            33333455789999999999999888899999999885 666666655 567776553

>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=92.67  E-value=0.2  Score=30.27  Aligned_cols=37  Identities=19%  Similarity=0.293  Sum_probs=34.2

Q ss_pred             ceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCC
Q psy16998         29 YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENK   66 (98)
Q Consensus        29 ~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~   66 (98)
                      .|+++|.--|+ ++.|.|++.+.=+.|++.-|++.|+.
T Consensus         1 t~~v~V~~LD~-~~~~~v~~~a~G~~l~~~Vc~~l~L~   37 (84)
T d1ef1a3           1 TISVRVTTMDA-ELEFAIQPNTTGKQLFDQVVKTIGLR   37 (84)
T ss_dssp             CEEEEEEETTE-EEEEEECTTCBHHHHHHHHHHHHTCC
T ss_pred             CEEEEEEEcCC-EEEEEEcCCChHHHHHHHHHHHcCCc
Confidence            47899999997 69999999999999999999999995

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

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

Probab=88.67  E-value=0.61  Score=28.03  Aligned_cols=37  Identities=14%  Similarity=0.224  Sum_probs=33.8

Q ss_pred             ceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCC
Q psy16998         29 YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENK   66 (98)
Q Consensus        29 ~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~   66 (98)
                      .|+++|.--|+ ++.|.|.+.+.=+.|++.-|++.|+.
T Consensus         2 ~~~v~V~lLD~-~le~~v~~~a~G~~L~d~Vc~~L~L~   38 (84)
T d1h4ra3           2 TFTVRIVTMDA-EMEFNCEMKWKGKDLFDLVCRTLGLR   38 (84)
T ss_dssp             EEEEEEECSSC-EEEEEEETTCBHHHHHHHHHHHHTCC
T ss_pred             eEEEEEEEcCC-cEEEEEcCCChHHHHHHHHHHHcCCc
Confidence            47889988887 69999999999999999999999994

>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=85.84  E-value=0.72  Score=28.51  Aligned_cols=68  Identities=9%  Similarity=0.032  Sum_probs=48.2

Q ss_pred             cceEEEEeccCCC-EEEEEEcC---------CCchHHHHHHHHHHhcC---CCCceeeeeeCCcccCCCCCcCceeeccC
Q psy16998         28 EYIKLKVLSSDSN-EIHFRVKM---------TTPMGKLKKSYSERVEN---KPMYKAMPMGTGLPFGQTHGGNSFYCVNS   94 (98)
Q Consensus        28 ~~I~lkV~~qdg~-ev~FkIK~---------~T~L~KLm~aYc~r~gl---~~~~s~rFlfDG~rI~~~~TP~~L~~~~~   94 (98)
                      -||.|++.++=.. ...|++..         ++....|....+.+...   ++ ..+|+.|.|+.+..+.|-.+...-++
T Consensus         6 ~~~~~~l~~~p~~pk~~i~~p~~~~~~~~~~~~tV~~lK~~i~~~~~~~~P~p-~~~rLIy~Gk~L~D~~tL~~y~I~~g   84 (94)
T d1x1ma1           6 WHLAVKLADQPLAPKSILQLPETELGEYSLGGYSISFLKQLIAGKLQESVPDP-ELIDLIYCGRKLKDDQTLDFYGIQPG   84 (94)
T ss_dssp             CCEEEEETTCTTSCCEEECCCCCSSCSSCCCCCBHHHHHHHHHHHCTTTCCCS-SSEEEEETTEECCTTCBHHHHTCCTT
T ss_pred             ceEEEEEccCCCCCcceEECCCCccCccCCCccCHHHHHHHHHHHcccCCCCh-hheEEEECCeEECCCccHHHcCCCCC
Confidence            5677777665322 23444443         45688999999888743   34 57999999999999988888777776


Q ss_pred             Cc
Q psy16998         95 GT   96 (98)
Q Consensus        95 ~~   96 (98)
                      .|
T Consensus        85 st   86 (94)
T d1x1ma1          85 ST   86 (94)
T ss_dssp             CE
T ss_pred             CE
Confidence            65

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

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

Probab=85.29  E-value=0.92  Score=26.99  Aligned_cols=37  Identities=19%  Similarity=0.040  Sum_probs=33.5

Q ss_pred             EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCC
Q psy16998         31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKP   67 (98)
Q Consensus        31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~   67 (98)
                      ..+|.=-||+++.|.|.+.+.=+.|++.-|++.|+..
T Consensus         2 ~C~V~lLD~~~~~~~v~~~~~G~~l~~~Vc~~l~l~E   38 (81)
T d1gg3a3           2 HCKVSLLDDTVYECVVEKHAKGQDLLKRVCEHLNLLE   38 (81)
T ss_dssp             EEEEECTTSCEEEEECCTTCCHHHHHHHHHHHHTTCS
T ss_pred             EEEEEecCCCEEEEEECCCCcHHHHHHHHHHHcCCcc
Confidence            4577778999999999999999999999999999953

>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=83.91  E-value=2.1  Score=25.73  Aligned_cols=69  Identities=10%  Similarity=-0.111  Sum_probs=51.4

Q ss_pred             CcceEEEEec-cCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcc-------cCCCCCcCceeeccCCc
Q psy16998         27 VEYIKLKVLS-SDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLP-------FGQTHGGNSFYCVNSGT   96 (98)
Q Consensus        27 ~~~I~lkV~~-qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~r-------I~~~~TP~~L~~~~~~~   96 (98)
                      +.-|+|-|.. .++.....|+.++.....|...-....|+.+ ...|+.|-|..       ...+.|-.++...|+.+
T Consensus         5 ss~v~v~I~s~~~~~~~E~r~~~~~TV~~LK~kle~~tGip~-~~qrL~~~~~~~~~~~~l~~d~~~L~~y~i~dg~~   81 (95)
T d1v6ea_           5 SSGVMVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGSPA-SCMELELYGADDKFYSKLDQEDALLGSYPVDDGCR   81 (95)
T ss_dssp             CCCEEEEEEETTSSSCEEEEECTTSBHHHHHHHHHHHTCSCT-TTCBCEEECSSSCEEEECCCSSSBTTSSSCCTTCE
T ss_pred             CCcEEEEEEECCCCcEEEEEeCCCCCHHHHHHHHHHHhCcCc-hhEEEEEeCCCCceeecccCCcCCHHHCCCCCCCE
Confidence            3567777776 3555678999999999999999999999998 58999887763       44444556666555543

>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=83.55  E-value=2.9  Score=24.64  Aligned_cols=67  Identities=6%  Similarity=0.028  Sum_probs=47.1

Q ss_pred             CcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHh-cCCCCceeeeeeC-Cc-cc-CCCCCcCceeeccC
Q psy16998         27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERV-ENKPMYKAMPMGT-GL-PF-GQTHGGNSFYCVNS   94 (98)
Q Consensus        27 ~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~-gl~~~~s~rFlfD-G~-rI-~~~~TP~~L~~~~~   94 (98)
                      .+..+|+|+-.||..+..+...+.++..|++--.... +... ..+.|.-. .. .| ..+.|=.+++.+++
T Consensus        12 ~p~t~I~iRlPdG~~~~~~F~~~~tl~dv~~~v~~~~~~~~~-~~f~L~t~~Prr~l~d~~~TL~e~gL~~s   82 (89)
T d1i42a_          12 EPTTNIQIRLADGGRLVQKFNHSHRISDIRLFIVDARPAMAA-TSFVLMTTFPNKELADENQTLKEANLLNA   82 (89)
T ss_dssp             SCCEEEEEEETTTCCEEEEECSSSCGGGHHHHHHHHCTTTSS-CCEEEEETTTTEECCCCSSCSGGGTTCCS
T ss_pred             CCcEEEEEEcCCCCEEEEEECCchhHHHHHHHHHHhCccCCC-CCEEEecCCCCcccCCCcCcHHHCCCcCc
Confidence            3457888888999999999999999999998754433 4544 46777765 23 34 33446667666654

>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=82.25  E-value=3.2  Score=24.53  Aligned_cols=66  Identities=9%  Similarity=-0.023  Sum_probs=48.2

Q ss_pred             cceEEEEecc-CCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcc------cC-CCCCcCceeeccC
Q psy16998         28 EYIKLKVLSS-DSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLP------FG-QTHGGNSFYCVNS   94 (98)
Q Consensus        28 ~~I~lkV~~q-dg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~r------I~-~~~TP~~L~~~~~   94 (98)
                      +-|+|+|... .+..+.-|+-++.....|...=....|+++ ...|+.|-|..      +. .+.|=.++.+.||
T Consensus         3 ~~~~l~it~~~t~~~~E~r~~~~~TV~~LK~kle~~~Gip~-~~q~L~~~~~~~~~~~~l~dd~~~L~~ygi~dG   76 (90)
T d1t0ya_           3 EVYDLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTV-DSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDG   76 (90)
T ss_dssp             CEEEEEEEESSCCSCEEEEEETTSBHHHHHHHHHHHHCCCT-TTEEEEEECSSSSEEEECCCCSSBTTTTTCCSS
T ss_pred             cEEEEEEEECCCccEEEEecCCCCCHHHHHHHHHHHHCCCh-hheEEEEeCCCCCcccccccCCCCHHHCCCCCC
Confidence            4678888763 355578899999999999999999999998 57888776652      22 3334455555554

>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=82.07  E-value=1.6  Score=27.67  Aligned_cols=57  Identities=12%  Similarity=0.064  Sum_probs=48.4

Q ss_pred             CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCc--eeeeeeCCcccCC
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMY--KAMPMGTGLPFGQ   82 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~--s~rFlfDG~rI~~   82 (98)
                      .+..|..+|-..|...+..++..++.-+.|+.+-|+|.++..+.  -+..-++|.|+.-
T Consensus         6 s~dei~~~VY~~Dhsy~tlr~~v~~sa~eI~~~vaeKl~~~~e~L~LV~V~SsGEr~~l   64 (104)
T d1wgya_           6 SGEEIFCHVYITEHSYVSVKAKVSSIAQEILKVVAEKIQYAEEDLALVAITFSGEKHEL   64 (104)
T ss_dssp             CSSCCCEEEECSSSCEEEECCCTTCBSHHHHHHHHHHHTSCGGGEEEEEECSSCCCCBC
T ss_pred             CCCeEEEEEEecCCcEEEEEeeccCcHHHHHHHHHHHhCCCCCceEEEEEccCCcEEee
Confidence            46789999999999999999999999999999999999985432  4566788988753

>d2npta1 d.15.2.2 (A:4-108) Mitogen activated protein kinase kinase 5, Map2k5 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: CAD & PB1 domains
family: PB1 domain
domain: Mitogen activated protein kinase kinase 5, Map2k5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.66  E-value=2.7  Score=26.65  Aligned_cols=54  Identities=6%  Similarity=0.054  Sum_probs=42.2

Q ss_pred             CCcceEEEEeccCCCEEEEEEcC--CCchHHHHHHHHHHhcCCCCceeeeee---CCcccC
Q psy16998         26 NVEYIKLKVLSSDSNEIHFRVKM--TTPMGKLKKSYSERVENKPMYKAMPMG---TGLPFG   81 (98)
Q Consensus        26 ~~~~I~lkV~~qdg~ev~FkIK~--~T~L~KLm~aYc~r~gl~~~~s~rFlf---DG~rI~   81 (98)
                      +.+.+-|+++.|+|..|-+.|..  ...|.-|.+++.+..-= . ..--|-|   ||-||.
T Consensus        10 ~~q~lVIRI~~~~~~~vDw~V~~~~~l~F~dvL~~i~q~~p~-a-t~taFEYEDEdGDRIT   68 (105)
T d2npta1          10 ENQVLVIRIKIPNSGAVDWTVHSGPQLLFRDVLDVIGQVLPE-A-TTTAFEYEDEDGDRIT   68 (105)
T ss_dssp             --CCEEEEEEETTTEEEEEEECC--CCCHHHHHHHHHHHSTT-S-CCSEEEEECTTSCEEE
T ss_pred             hcCceEEEEEcCCCceeeeeecCCceeeHHHHHHHHHHhccc-c-cccceeeccccCCEeE
Confidence            56788899999999999999994  88999999999998853 2 3556766   477764

>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=80.34  E-value=3.9  Score=24.06  Aligned_cols=45  Identities=13%  Similarity=0.179  Sum_probs=36.1

Q ss_pred             CcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeee
Q psy16998         27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMG   75 (98)
Q Consensus        27 ~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlf   75 (98)
                      ...|+|||.- ++.-+.|+|-++..+..|.+.-++|.++.   .+++-|
T Consensus        10 ~~~ikVKv~~-~~D~~~~~l~~~it~~dL~~kI~~rf~~~---~~~lkY   54 (85)
T d1ip9a_          10 LKTTKIKFYY-KDDIFALMLKGDTTYKELRSKIAPRIDTD---NFKLQT   54 (85)
T ss_dssp             CCCEEEEECB-TTCCEEEEECSCCCHHHHHHHHHHHHTSS---CEEEEE
T ss_pred             CCCEEEEEEE-CCcEEEEEeCCCCCHHHHHHHHHHHhCCC---ceEEEE
Confidence            4578888854 45677999999999999999999999874   355544